Class: MimagAgriculture

MIxS data that complies with the Mimag checklist and the Agriculture Extension

URI: MIXS:0010011_0016018

Inheritance

• Extension
  • Agriculture
    • MimagAgriculture [ Mimag]

Slots

Name	Cardinality and Range	Description	Inheritance
assembly_software	1..1 String	Tool(s) used for assembly, including version number and parameters	Agriculture, Mimag
temp	1..1 recommended String	Temperature of the sample at the time of sampling	Agriculture, Mimag
assembly_qual	1..1 String	The assembly quality category is based on sets of criteria outlined for each ...	Agriculture, Mimag
bin_param	1..1 BINPARAMENUM	The parameters that have been applied during the extraction of genomes from m...	Mimag
collection_date	1..1 Datetime	The time of sampling, either as an instance (single point in time) or interva...	Mimag
nucl_acid_ext	1..1 recommended String	A link to a literature reference, electronic resource or a standard operating...	Agriculture, Mimag
tax_ident	1..1 TAXIDENTENUM	The phylogenetic marker(s) used to assign an organism name to the SAG or MAG	Mimag
samp_vol_we_dna_ext	0..1 String	Volume (ml) or mass (g) of total collected sample processed for DNA extractio...	Agriculture, Mimag
contam_screen_input	0..1 CONTAMSCREENINPUTENUM	The type of sequence data used as input	Mimag
compl_appr	0..1 COMPLAPPRENUM	The approach used to determine the completeness of a given genomic assembly, ...	Mimag
trna_ext_software	0..1 String	Tools used for tRNA identification	Mimag
source_mat_id	0..* recommended String	A unique identifier assigned to a material sample (as defined by http://rs	Agriculture, Mimag
tax_class	0..1 String	Method used for taxonomic classification, along with reference database used,...	Mimag
bin_software	1..1 String	Tool(s) used for the extraction of genomes from metagenomic datasets, where p...	Mimag
ref_biomaterial	0..1 String	Primary publication if isolated before genome publication; otherwise, primary...	Mimag
sim_search_meth	0..1 String	Tool used to compare ORFs with database, along with version and cutoffs used	Mimag
number_contig	0..1 Integer	Total number of contigs in the cleaned/submitted assembly that makes up a giv...	Mimag
env_broad_scale	1..1 String	Report the major environmental system the sample or specimen came from	Mimag
project_name	1..1 String	Name of the project within which the sequencing was organized	Mimag
x16s_recover_software	0..1 String	Tools used for 16S rRNA gene extraction	Mimag
contam_screen_param	0..1 String	Specific parameters used in the decontamination sofware, such as reference da...	Mimag
samp_collect_device	1..1 recommended String	The device used to collect an environmental sample	Agriculture, Mimag
lib_size	0..1 recommended Integer	Total number of clones in the library prepared for the project	Agriculture, Mimag
compl_score	1..1 String	Completeness score is typically based on either the fraction of markers found...	Mimag
samp_collect_method	0..1 recommended String	The method employed for collecting the sample	Agriculture, Mimag
lib_layout	0..1 recommended LIBLAYOUTENUM	Specify whether to expect single, paired, or other configuration of reads	Agriculture, Mimag
annot	0..1 String	Tool used for annotation, or for cases where annotation was provided by a com...	Agriculture, Mimag
seq_meth	1..1 String	Sequencing machine used	Agriculture, Mimag
depth	0..1 recommended String	The vertical distance below local surface	Agriculture, Mimag
samp_size	1..1 recommended String	The total amount or size (volume (ml), mass (g) or area (m2) ) of sample coll...	Agriculture, Mimag
pos_cont_type	0..1 recommended String	The substance, mixture, product, or apparatus used to verify that a process w...	Mimag
size_frac	0..1 String	Filtering pore size used in sample preparation	Mimag
alt	0..1 recommended String	Heights of objects such as airplanes, space shuttles, rockets, atmospheric ba...	Mimag
geo_loc_name	1..1 String	The geographical origin of the sample as defined by the country or sea name f...	Mimag
trnas	0..1 String	The total number of tRNAs identified from the SAG or MAG	Mimag
feat_pred	0..1 String	Method used to predict UViGs features such as ORFs, integration site, etc	Mimag
neg_cont_type	0..1 recommended NEGCONTTYPEENUM	The substance or equipment used as a negative control in an investigation	Mimag
env_local_scale	1..1 String	Report the entity or entities which are in the sample or specimen s local vic...	Mimag
samp_mat_process	1..1 recommended String	A brief description of any processing applied to the sample during or after r...	Agriculture, Mimag
experimental_factor	0..* recommended String	Variable aspects of an experiment design that can be used to describe an expe...	Mimag
samp_taxon_id	1..1 String	NCBI taxon id of the sample	Mimag
nucl_acid_amp	1..1 recommended String	A link to a literature reference, electronic resource or a standard operating...	Agriculture, Mimag
lib_screen	1..1 recommended String	Specific enrichment or screening methods applied before and/or after creating...	Agriculture, Mimag
contam_score	1..1 Float	The contamination score is based on the fraction of single-copy genes that ar...	Mimag
x16s_recover	0..1 Boolean	Can a 16S gene be recovered from the submitted SAG or MAG?	Mimag
samp_name	1..1 String	A local identifier or name that for the material sample used for extracting n...	Mimag
env_medium	1..1 String	Report the environmental material(s) immediately surrounding the sample or sp...	Mimag
lib_vector	1..1 recommended String	Cloning vector type(s) used in construction of libraries	Agriculture, Mimag
mag_cov_software	0..1 MAGCOVSOFTWAREENUM	Tool(s) used to determine the genome coverage if coverage is used as a binnin...	Mimag
ref_db	0..1 String	List of database(s) used for ORF annotation, along with version number and re...	Mimag
elev	0..1 recommended String	Elevation of the sampling site is its height above a fixed reference point, m...	Agriculture, Mimag
lat_lon	1..1 String	The geographical origin of the sample as defined by latitude and longitude	Mimag
compl_software	1..1 String	Tools used for completion estimate, i	Mimag
lib_reads_seqd	1..1 recommended Integer	Total number of clones sequenced from the library	Agriculture, Mimag
mid	1..1 recommended String	Molecular barcodes, called Multiplex Identifiers (MIDs), that are used to spe...	Agriculture, Mimag
decontam_software	0..1 String	Tool(s) used in contamination screening	Mimag
reassembly_bin	0..1 Boolean	Has an assembly been performed on a genome bin extracted from a metagenomic a...	Mimag
rel_to_oxygen	0..1 RELTOOXYGENENUM	Is this organism an aerobe, anaerobe? Please note that aerobic and anaerobic ...	Mimag
assembly_name	1..1 recommended String	Name/version of the assembly provided by the submitter that is used in the ge...	Agriculture, Mimag
adapters	1..1 recommended String	Adapters provide priming sequences for both amplification and sequencing of t...	Agriculture, Mimag
associated_resource	0..* recommended String	A related resource that is referenced, cited, or otherwise associated to the ...	Agriculture, Mimag
sop	0..* recommended String	Standard operating procedures used in assembly and/or annotation of genomes, ...	Agriculture, Mimag
plant_growth_med	0..1 String	Specification of the media for growing the plants or tissue cultured samples,...	Agriculture
photosynt_activ	0..1 recommended String	Measurement of photosythetic activity (i	Agriculture
photosynt_activ_meth	0..* recommended String	Reference or method used in measurement of photosythetic activity	Agriculture
enrichment_protocol	0..1 recommended String	The microbiological workflow or protocol followed to test for the presence or...	Agriculture
library_prep_kit	0..1 String	Packaged kits (containing adapters, indexes, enzymes, buffers etc	Agriculture
sequencing_location	0..1 String	The location the sequencing run was performed	Agriculture
soil_temp	0..1 String	Temperature of soil at the time of sampling	Agriculture
soil_pH	0..1 Float	pH of some soil	Agriculture
soil_conductivity	0..1 String	Conductivity of some soil	Agriculture
rel_location	0..1 recommended String	Location of sampled soil to other parts of the farm e	Agriculture
soil_cover	0..1 recommended String	Material covering the sampled soil	Agriculture
porosity	0..1 String	Porosity of deposited sediment is volume of voids divided by the total volume...	Agriculture
soil_texture	0..1 String	The relative proportion of different grain sizes of mineral particles in a so...	Agriculture
soil_texture_meth	0..1 String	Reference or method used in determining soil texture	Agriculture
host_symbiont	0..* String	The taxonomic name of the organism(s) found living in mutualistic, commensali...	Agriculture
host_disease_stat	0..1 recommended String	List of diseases with which the host has been diagnosed; can include multiple...	Agriculture
pres_animal_insect	0..1 String	The type and number of animals or insects present in the sampling space	Agriculture
plant_water_method	0..1 recommended String	Description of the equipment or method used to distribute water to crops	Agriculture
anim_water_method	0..* String	Description of the equipment or method used to distribute water to livestock	Agriculture
farm_water_source	0..1 recommended FARMWATERSOURCEENUM	Source of water used on the farm for irrigation of crops or watering of lives...	Agriculture
water_source_shared	0..* String	Other users sharing access to the same water source	Agriculture
water_pH	0..1 Float	The pH measurement of the sample, or liquid portion of sample, or aqueous pha...	Agriculture
season	0..1 String	The season when sampling occurred	Agriculture
solar_irradiance	0..* String	The amount of solar energy that arrives at a specific area of a surface durin...	Agriculture
crop_yield	0..1 String	Amount of crop produced per unit or area of land	Agriculture
season_humidity	0..1 Float	Average humidity of the region throughout the growing season	Agriculture
humidity	0..1 recommended String	Amount of water vapour in the air, at the time of sampling	Agriculture
adjacent_environment	0..* String	Description of the environmental system or features that are adjacent to the ...	Agriculture
chem_administration	1..* String	List of chemical compounds administered to the host or site where sampling oc...	Agriculture
food_prod	0..* String	Descriptors of the food production system or of the agricultural environment ...	Agriculture
lot_number	0..* String	A distinctive alpha-numeric identification code assigned by the manufacturer ...	Agriculture
fertilizer_admin	0..1 String	Type of fertilizer or amendment added to the soil or water for the purpose of...	Agriculture
samp_store_temp	0..1 String	Temperature at which sample was stored, e	Agriculture
food_trav_mode	0..* String	A descriptor for the method of movement of food commodity along the food dist...	Agriculture
food_trav_vehic	0..* String	A descriptor for the mobile machine which is used to transport food commoditi...	Agriculture
farm_equip_san	0..* String	Method used to sanitize growing and harvesting equipment	Agriculture
farm_equip	0..* String	List of equipment used for planting, fertilization, harvesting, irrigation, l...	Agriculture
farm_equip_shared	0..* String	List of planting, growing or harvesting equipment shared with other farms	Agriculture
food_harvest_proc	0..* String	A harvesting process is a process which takes in some food material from an i...	Agriculture
plant_struc	0..1 recommended String	Name of plant structure the sample was obtained from; for Plant Ontology (PO)...	Agriculture
host_dry_mass	0..1 String	Measurement of dry mass	Agriculture
ances_data	0..1 String	Information about either pedigree or other ancestral information description ...	Agriculture
genetic_mod	0..1 String	Genetic modifications of the genome of an organism, which may occur naturally...	Agriculture
food_product_type	0..1 String	A food product type is a class of food products that is differentiated by its...	Agriculture
food_source	1..1 String	Type of plant or animal from which the food product or its major ingredient i...	Agriculture
spikein_strain	0..* String	Taxonomic information about the spike-in organism(s) at the strain level	Agriculture
organism_count	0..* recommended String	Total cell count of any organism (or group of organisms) per gram, volume or ...	Agriculture
size_frac_low	0..1 String	Refers to the mesh/pore size used to pre-filter/pre-sort the sample	Agriculture
size_frac_up	0..1 String	Mesh or pore size of the device used to retain the sample	Agriculture
cult_isol_date	0..1 Datetime	The datetime marking the end of a process in which a sample yields a positive...	Agriculture
samp_pooling	0..* recommended String	Physical combination of several instances of like material, e	Agriculture
root_med_macronutr	0..1 String	Measurement of the culture rooting medium macronutrients (N,P, K, Ca, Mg, S);...	Agriculture
root_med_carbon	0..1 String	Source of organic carbon in the culture rooting medium; e	Agriculture
root_med_ph	0..1 Float	pH measurement of the culture rooting medium; e	Agriculture
specific_host	1..1 String	Report the host's taxonomic name and/or NCBI taxonomy ID	Agriculture
pathogenicity	1..1 String	To what is the entity pathogenic	Agriculture
biotic_relationship	0..1 recommended BIOTICRELATIONSHIPENUM	Description of relationship(s) between the subject organism and other organis...	Agriculture
water_temp_regm	0..* recommended String	Information about treatment involving an exposure to water with varying degre...	Agriculture
watering_regm	0..* recommended String	Information about treatment involving an exposure to watering frequencies, tr...	Agriculture
standing_water_regm	0..* recommended String	Treatment involving an exposure to standing water during a plant's life span,...	Agriculture
gaseous_environment	0..* recommended String	Use of conditions with differing gaseous environments; should include the nam...	Agriculture
fungicide_regm	0..* recommended String	Information about treatment involving use of fungicides; should include the n...	Agriculture
climate_environment	0..* recommended String	Treatment involving an exposure to a particular climate; treatment regimen in...	Agriculture
herbicide_regm	0..* recommended String	Information about treatment involving use of herbicides; information about tr...	Agriculture
non_min_nutr_regm	0..* recommended String	Information about treatment involving the exposure of plant to non-mineral nu...	Agriculture
pesticide_regm	0..* recommended String	Information about treatment involving use of insecticides; should include the...	Agriculture
ph_regm	0..* recommended String	Information about treatment involving exposure of plants to varying levels of...	Agriculture
salt_regm	0..* recommended String	Information about treatment involving use of salts as supplement to liquid an...	Agriculture
season_environment	0..* recommended String	Treatment involving an exposure to a particular season (e	Agriculture
perturbation	0..* recommended String	Type of perturbation, e	Agriculture
isol_growth_condt	0..1 String	Publication reference in the form of pubmed ID (pmid), digital object identif...	Agriculture
samp_store_dur	1..1 String	Duration for which the sample was stored	Agriculture
samp_store_loc	1..1 String	Location at which sample was stored, usually name of a specific freezer/room	Agriculture
host_age	1..1 String	Age of host at the time of sampling; relevant scale depends on species and st...	Agriculture
host_common_name	1..1 String	Common name of the host	Agriculture
host_genotype	1..1 String	Observed genotype	Agriculture
host_height	1..1 String	The height of subject	Agriculture
host_subspecf_genlin	0..* String	Information about the genetic distinctness of the host organism below the sub...	Agriculture
host_length	1..1 String	The length of subject	Agriculture
host_life_stage	1..1 String	Description of life stage of host	Agriculture
host_phenotype	1..1 String	Phenotype of human or other host	Agriculture
host_taxid	1..1 String	NCBI taxon id of the host, e	Agriculture
host_tot_mass	1..1 String	Total mass of the host at collection, the unit depends on host	Agriculture
host_spec_range	1..* String	The range and diversity of host species that an organism is capable of infect...	Agriculture
trophic_level	0..1 recommended TROPHICLEVELENUM	Trophic levels are the feeding position in a food chain	Agriculture
plant_product	0..1 recommended String	Substance produced by the plant, where the sample was obtained from	Agriculture
oxy_stat_samp	0..1 recommended OXYSTATSAMPENUM	Oxygenation status of sample	Agriculture
pcr_primers	1..1 String	PCR primers that were used to amplify the sequence of the targeted gene, locu...	Agriculture
target_gene	1..1 String	Targeted gene or locus name for marker gene studies	Agriculture
target_subfragment	1..1 String	Name of subfragment of a gene or locus	Agriculture
pcr_cond	1..1 String	Description of reaction conditions and components of PCR in the form of 'init...	Agriculture
seq_quality_check	0..1 SEQQUALITYCHECKENUM	Indicate if the sequence has been called by automatic systems (none) or under...	Agriculture
chimera_check	1..1 String	Tool(s) used for chimera checking, including version number and parameters, t...	Agriculture
fao_class	0..1 recommended FAOCLASSENUM	Soil classification from the FAO World Reference Database for Soil Resources	Agriculture
local_class	0..1 recommended String	Soil classification based on local soil classification system	Agriculture
local_class_meth	0..1 recommended String	Reference or method used in determining the local soil classification	Agriculture
soil_type	1..1 String	Description of the soil type or classification	Agriculture
soil_type_meth	1..1 String	Reference or method used in determining soil series name or other lower-level...	Agriculture
soil_horizon	0..1 recommended SOILHORIZONENUM	Specific layer in the land area which measures parallel to the soil surface a...	Agriculture
horizon_meth	0..1 recommended String	Reference or method used in determining the horizon	Agriculture
link_class_info	0..1 String	Link to digitized soil maps or other soil classification information	Agriculture
previous_land_use	0..1 recommended String	Previous land use and dates	Agriculture
prev_land_use_meth	0..1 recommended String	Reference or method used in determining previous land use and dates	Agriculture
crop_rotation	0..1 recommended String	Whether or not crop is rotated, and if yes, rotation schedule	Agriculture
agrochem_addition	0..* String	Addition of fertilizers, pesticides, etc	Agriculture
tillage	0..* recommended TILLAGEENUM	Note method(s) used for tilling	Agriculture
fire	0..1 recommended Datetime	Historical and/or physical evidence of fire	Agriculture
flooding	0..1 recommended Datetime	Historical and/or physical evidence of flooding	Agriculture
extreme_event	0..1 recommended Datetime	Unusual physical events that may have affected microbial populations	Agriculture
link_climate_info	0..1 String	Link to climate resource	Agriculture
annual_temp	0..1 String	Mean annual temperature	Agriculture
season_temp	0..1 String	Mean seasonal temperature	Agriculture
annual_precpt	0..1 String	The average of all annual precipitation values known, or an estimated equival...	Agriculture
season_precpt	0..1 String	The average of all seasonal precipitation values known, or an estimated equiv...	Agriculture
cur_land_use	0..1 String	Present state of sample site	Agriculture
slope_gradient	0..1 recommended String	Commonly called 'slope'	Agriculture
slope_aspect	0..1 recommended String	The direction a slope faces	Agriculture
profile_position	0..1 recommended PROFILEPOSITIONENUM	Cross-sectional position in the hillslope where sample was collected	Agriculture
drainage_class	0..1 recommended DRAINAGECLASSENUM	Drainage classification from a standard system such as the USDA system	Agriculture
store_cond	1..1 String	Explain how and for how long the soil sample was stored before DNA extraction...	Agriculture
ph_meth	0..1 recommended String	Reference or method used in determining pH	Agriculture
cur_vegetation	0..1 recommended String	Vegetation classification from one or more standard classification systems, o...	Agriculture
cur_vegetation_meth	0..1 recommended String	Reference or method used in vegetation classification	Agriculture
tot_org_carb	0..1 recommended String	Total organic carbon content	Agriculture
tot_org_c_meth	0..1 recommended String	Reference or method used in determining total organic carbon	Agriculture
tot_nitro_content	0..1 recommended String	Total nitrogen content of the sample	Agriculture
tot_nitro_cont_meth	0..1 recommended String	Reference or method used in determining the total nitrogen	Agriculture
microbial_biomass	1..1 String	The part of the organic matter in the soil that constitutes living microorgan...	Agriculture
micro_biomass_meth	1..1 String	Reference or method used in determining microbial biomass	Agriculture
heavy_metals_meth	0..1 recommended String	Reference or method used in determining heavy metals	Agriculture
tot_carb	0..1 recommended String	Total carbon content	Agriculture
tot_phosphate	0..1 recommended String	Total amount or concentration of phosphate	Agriculture
sieving	1..1 String	Collection design of pooled samples and/or sieve size and amount of sample si...	Agriculture
pool_dna_extracts	1..1 String	Indicate whether multiple DNA extractions were mixed	Agriculture
misc_param	0..* String	Any other measurement performed or parameter collected, that is not listed he...	Agriculture

Usages

used by	used in	type	used
MixsCompliantData	mimag_agriculture_data	range	MimagAgriculture

Identifier and Mapping Information

Schema Source

• from schema: https://w3id.org/mixs-6-2-rc

Mappings

Mapping Type	Mapped Value
self	MIXS:0010011_0016018
native	mixs_6_2_rc:MimagAgriculture

LinkML Source

Direct

name: MimagAgriculture
description: MIxS data that complies with the Mimag checklist and the Agriculture
  Extension
title: Mimag combined with Agriculture
in_subset:
- combination_classes
from_schema: https://w3id.org/mixs-6-2-rc
is_a: Agriculture
mixins:
- Mimag
class_uri: MIXS:0010011_0016018

Induced

name: MimagAgriculture
description: MIxS data that complies with the Mimag checklist and the Agriculture
  Extension
title: Mimag combined with Agriculture
in_subset:
- combination_classes
from_schema: https://w3id.org/mixs-6-2-rc
is_a: Agriculture
mixins:
- Mimag
attributes:
  assembly_software:
    name: assembly_software
    description: Tool(s) used for assembly, including version number and parameters
    title: assembly software
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000058
    multivalued: false
    alias: assembly_software
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    range: string
    required: true
    pattern: ^([^\s-]{1,2}|[^\s-]+.+[^\s-]+);([^\s-]{1,2}|[^\s-]+.+[^\s-]+);([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{software};{version};{parameters}$
      interpolated: true
      partial_match: true
  temp:
    name: temp
    description: Temperature of the sample at the time of sampling
    title: temperature
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000113
    multivalued: false
    alias: temp
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksC
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    - Air
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodHumanFoods
    - HostAssociated
    - HumanAssociated
    - HumanGut
    - HumanOral
    - HumanSkin
    - HumanVaginal
    - HydrocarbonResourcesCores
    - HydrocarbonResourcesFluidsSwabs
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - PlantAssociated
    - Sediment
    - Soil
    - SymbiontAssociated
    - WastewaterSludge
    - Water
    range: string
    required: true
    recommended: true
    pattern: ^[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?( *- *[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?)?
      *([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{scientific_float}( *- *{scientific_float})? *{text}$
      interpolated: true
      partial_match: true
  assembly_qual:
    name: assembly_qual
    description: 'The assembly quality category is based on sets of criteria outlined
      for each assembly quality category. For MISAG/MIMAG; Finished: Single, validated,
      contiguous sequence per replicon without gaps or ambiguities with a consensus
      error rate equivalent to Q50 or better. High Quality Draft:Multiple fragments
      where gaps span repetitive regions. Presence of the 23S, 16S and 5S rRNA genes
      and at least 18 tRNAs. Medium Quality Draft:Many fragments with little to no
      review of assembly other than reporting of standard assembly statistics. Low
      Quality Draft:Many fragments with little to no review of assembly other than
      reporting of standard assembly statistics. Assembly statistics include, but
      are not limited to total assembly size, number of contigs, contig N50/L50, and
      maximum contig length. For MIUVIG; Finished: Single, validated, contiguous sequence
      per replicon without gaps or ambiguities, with extensive manual review and editing
      to annotate putative gene functions and transcriptional units. High-quality
      draft genome: One or multiple fragments, totaling   90% of the expected genome
      or replicon sequence or predicted complete. Genome fragment(s): One or multiple
      fragments, totalling < 90% of the expected genome or replicon sequence, or for
      which no genome size could be estimated'
    title: assembly quality
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '[Finished genome|High-quality draft genome|Medium-quality
      draft genome|Low-quality draft genome|Genome fragment(s)]'
    slot_uri: MIXS:0000056
    multivalued: false
    alias: assembly_qual
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    range: string
    required: true
  bin_param:
    name: bin_param
    description: The parameters that have been applied during the extraction of genomes
      from metagenomic datasets
    title: binning parameters
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000077
    alias: bin_param
    owner: MimagAgriculture
    domain_of:
    - Mimag
    - Miuvig
    range: BIN_PARAM_ENUM
    required: true
  collection_date:
    name: collection_date
    description: 'The time of sampling, either as an instance (single point in time)
      or interval. In case no exact time is available, the date/time can be right
      truncated i.e. all of these are valid times: 2008-01-23T19:23:10+00:00; 2008-01-23T19:23:10;
      2008-01-23; 2008-01; 2008; Except: 2008-01; 2008 all are ISO8601 compliant'
    title: collection date
    examples:
    - value: '2013-03-25T12:42:31+01:00'
    in_subset:
    - environment
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000011
    multivalued: false
    alias: collection_date
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksC
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    - SymbiontAssociated
    range: datetime
    required: true
  nucl_acid_ext:
    name: nucl_acid_ext
    description: A link to a literature reference, electronic resource or a standard
      operating procedure (SOP), that describes the material separation to recover
      the nucleic acid fraction from a sample
    title: nucleic acid extraction
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000037
    multivalued: false
    alias: nucl_acid_ext
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksC
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: string
    required: true
    recommended: true
    pattern: ^^PMID:\d+$|^doi:10.\d{2,9}/.*$|^https?:\/\/(?:www\.)?[-a-zA-Z0-9@:%._\+~#=]{1,256}\.[a-zA-Z0-9()]{1,6}\b(?:[-a-zA-Z0-9()@:%_\+.~#?&\/=]*)$$
    structured_pattern:
      syntax: ^{PMID}|{DOI}|{URL}$
      interpolated: true
      partial_match: true
  tax_ident:
    name: tax_ident
    description: The phylogenetic marker(s) used to assign an organism name to the
      SAG or MAG
    title: taxonomic identity marker
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000053
    alias: tax_ident
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - Misag
    - Miuvig
    range: TAX_IDENT_ENUM
    required: true
  samp_vol_we_dna_ext:
    name: samp_vol_we_dna_ext
    description: 'Volume (ml) or mass (g) of total collected sample processed for
      DNA extraction. Note: total sample collected should be entered under the term
      Sample Size (MIXS:0000001)'
    title: sample volume or weight for DNA extraction
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000111
    multivalued: false
    alias: samp_vol_we_dna_ext
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksC
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    - Air
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    - HostAssociated
    - HumanAssociated
    - HumanGut
    - HumanOral
    - HumanSkin
    - HumanVaginal
    - HydrocarbonResourcesCores
    - HydrocarbonResourcesFluidsSwabs
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - PlantAssociated
    - Sediment
    - Soil
    - SymbiontAssociated
    - WastewaterSludge
    - Water
    range: string
    required: false
    recommended: false
    pattern: ^[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?( *- *[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?)?
      *([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{scientific_float}( *- *{scientific_float})? *{text}$
      interpolated: true
      partial_match: true
  contam_screen_input:
    name: contam_screen_input
    description: The type of sequence data used as input
    title: contamination screening input
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000005
    multivalued: false
    alias: contam_screen_input
    owner: MimagAgriculture
    domain_of:
    - Mimag
    - Misag
    range: CONTAM_SCREEN_INPUT_ENUM
    required: false
    recommended: false
  compl_appr:
    name: compl_appr
    description: The approach used to determine the completeness of a given genomic
      assembly, which would typically make use of a set of conserved marker genes
      or a closely related reference genome. For UViG completeness, include reference
      genome or group used, and contig feature suggesting a complete genome
    title: completeness approach
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000071
    alias: compl_appr
    owner: MimagAgriculture
    domain_of:
    - Mimag
    - Misag
    - Miuvig
    range: COMPL_APPR_ENUM
    required: false
    recommended: false
  trna_ext_software:
    name: trna_ext_software
    description: Tools used for tRNA identification
    title: tRNA extraction software
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000068
    multivalued: false
    alias: trna_ext_software
    owner: MimagAgriculture
    domain_of:
    - Mimag
    - Misag
    - Miuvig
    range: string
    required: false
    recommended: false
    pattern: ^([^\s-]{1,2}|[^\s-]+.+[^\s-]+);([^\s-]{1,2}|[^\s-]+.+[^\s-]+);([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{software};{version};{parameters}$
      interpolated: true
      partial_match: true
  source_mat_id:
    name: source_mat_id
    description: A unique identifier assigned to a material sample (as defined by
      http://rs.tdwg.org/dwc/terms/materialSampleID, and as opposed to a particular
      digital record of a material sample) used for extracting nucleic acids, and
      subsequent sequencing. The identifier can refer either to the original material
      collected or to any derived sub-samples. The INSDC qualifiers /specimen_voucher,
      /bio_material, or /culture_collection may or may not share the same value as
      the source_mat_id field. For instance, the /specimen_voucher qualifier and source_mat_id
      may both contain 'UAM:Herps:14' , referring to both the specimen voucher and
      sampled tissue with the same identifier. However, the /culture_collection qualifier
      may refer to a value from an initial culture (e.g. ATCC:11775) while source_mat_id
      would refer to an identifier from some derived culture from which the nucleic
      acids were extracted (e.g. xatc123 or ark:/2154/R2)
    title: source material identifiers
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{text}'
    slot_uri: MIXS:0000026
    multivalued: true
    alias: source_mat_id
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksC
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    - SymbiontAssociated
    range: string
    required: false
    recommended: true
  tax_class:
    name: tax_class
    description: Method used for taxonomic classification, along with reference database
      used, classification rank, and thresholds used to classify new genomes
    title: taxonomic classification
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000064
    multivalued: false
    alias: tax_class
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - Mims
    - Misag
    - Miuvig
    range: string
    required: false
    recommended: false
  bin_software:
    name: bin_software
    description: Tool(s) used for the extraction of genomes from metagenomic datasets,
      where possible include a product ID (PID) of the tool(s) used
    title: binning software
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{software};{version}{PID}'
    slot_uri: MIXS:0000078
    multivalued: false
    alias: bin_software
    owner: MimagAgriculture
    domain_of:
    - Mimag
    - Miuvig
    range: string
    required: true
  ref_biomaterial:
    name: ref_biomaterial
    description: Primary publication if isolated before genome publication; otherwise,
      primary genome report
    title: reference for biomaterial
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000025
    multivalued: false
    alias: ref_biomaterial
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - Mims
    - Misag
    - Miuvig
    range: string
    required: false
    recommended: false
    pattern: ^^PMID:\d+$|^doi:10.\d{2,9}/.*$|^https?:\/\/(?:www\.)?[-a-zA-Z0-9@:%._\+~#=]{1,256}\.[a-zA-Z0-9()]{1,6}\b(?:[-a-zA-Z0-9()@:%_\+.~#?&\/=]*)$$
    structured_pattern:
      syntax: ^{PMID}|{DOI}|{URL}$
      interpolated: true
      partial_match: true
  sim_search_meth:
    name: sim_search_meth
    description: Tool used to compare ORFs with database, along with version and cutoffs
      used
    title: similarity search method
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000063
    multivalued: false
    alias: sim_search_meth
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - Mims
    - Misag
    - Miuvig
    range: string
    required: false
    recommended: false
    pattern: ^([^\s-]{1,2}|[^\s-]+.+[^\s-]+);([^\s-]{1,2}|[^\s-]+.+[^\s-]+);([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{software};{version};{parameters}$
      interpolated: true
      partial_match: true
  number_contig:
    name: number_contig
    description: Total number of contigs in the cleaned/submitted assembly that makes
      up a given genome, SAG, MAG, or UViG
    title: number of contigs
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000060
    multivalued: false
    alias: number_contig
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - Mims
    - Misag
    - Miuvig
    range: integer
    required: false
    recommended: false
  env_broad_scale:
    name: env_broad_scale
    description: 'Report the major environmental system the sample or specimen came
      from. The system(s) identified should have a coarse spatial grain, to provide
      the general environmental context of where the sampling was done (e.g. in the
      desert or a rainforest). We recommend using subclasses of EnvO s biome class:  http://purl.obolibrary.org/obo/ENVO_00000428.
      EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS'
    title: broad-scale environmental context
    examples:
    - value: rangeland biome [ENVO:01000247]
    in_subset:
    - environment
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000012
    multivalued: false
    alias: env_broad_scale
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksC
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    range: string
    required: true
    pattern: ^([^\s-]{1,2}|[^\s-]+.+[^\s-]+) \[[a-zA-Z]{2,}:[a-zA-Z0-9]\d+\]$
    structured_pattern:
      syntax: ^{termLabel} \[{termID}\]$
      interpolated: true
      partial_match: true
  project_name:
    name: project_name
    description: Name of the project within which the sequencing was organized
    title: project name
    examples:
    - value: Forest soil metagenome
    in_subset:
    - investigation
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000092
    multivalued: false
    alias: project_name
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksC
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - Air
    - BuiltEnvironment
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    - HostAssociated
    - HumanAssociated
    - HumanGut
    - HumanOral
    - HumanSkin
    - HumanVaginal
    - HydrocarbonResourcesCores
    - HydrocarbonResourcesFluidsSwabs
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - PlantAssociated
    - Sediment
    - Soil
    - SymbiontAssociated
    - WastewaterSludge
    - Water
    range: string
    required: true
  x16s_recover_software:
    name: x16s_recover_software
    description: Tools used for 16S rRNA gene extraction
    title: 16S recovery software
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000066
    multivalued: false
    alias: x16s_recover_software
    owner: MimagAgriculture
    domain_of:
    - Mimag
    - Misag
    range: string
    required: false
    recommended: false
    pattern: ^([^\s-]{1,2}|[^\s-]+.+[^\s-]+);([^\s-]{1,2}|[^\s-]+.+[^\s-]+);([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{software};{version};{parameters}$
      interpolated: true
      partial_match: true
  contam_screen_param:
    name: contam_screen_param
    description: Specific parameters used in the decontamination sofware, such as
      reference database, coverage, and kmers. Combinations of these parameters may
      also be used, i.e. kmer and coverage, or reference database and kmer
    title: contamination screening parameters
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '[ref db|kmer|coverage|combination];{text|integer}'
    slot_uri: MIXS:0000073
    multivalued: false
    alias: contam_screen_param
    owner: MimagAgriculture
    domain_of:
    - Mimag
    - Misag
    range: string
    required: false
    recommended: false
  samp_collect_device:
    name: samp_collect_device
    description: The device used to collect an environmental sample. This field accepts
      terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO).
      This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094)
    title: sample collection device
    examples:
    - value: swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713]
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{termLabel} [{termID}]|{text}'
    slot_uri: MIXS:0000002
    multivalued: false
    alias: samp_collect_device
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksC
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: string
    required: true
    recommended: true
  lib_size:
    name: lib_size
    description: Total number of clones in the library prepared for the project
    title: library size
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000039
    multivalued: false
    alias: lib_size
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    range: integer
    required: false
    recommended: true
  compl_score:
    name: compl_score
    description: 'Completeness score is typically based on either the fraction of
      markers found as compared to a database or the percent of a genome found as
      compared to a closely related reference genome. High Quality Draft: >90%, Medium
      Quality Draft: >50%, and Low Quality Draft: < 50% should have the indicated
      completeness scores'
    title: completeness score
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '[high|med|low];{percentage}'
    slot_uri: MIXS:0000069
    multivalued: false
    alias: compl_score
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - Misag
    - Miuvig
    range: string
    required: true
  samp_collect_method:
    name: samp_collect_method
    description: The method employed for collecting the sample
    title: sample collection method
    examples:
    - value: swabbing
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0001225
    multivalued: false
    alias: samp_collect_method
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksC
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    - FoodAnimalAndAnimalFeed
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: string
    required: false
    recommended: true
    pattern: ^^PMID:\d+$|^doi:10.\d{2,9}/.*$|^https?:\/\/(?:www\.)?[-a-zA-Z0-9@:%._\+~#=]{1,256}\.[a-zA-Z0-9()]{1,6}\b(?:[-a-zA-Z0-9()@:%_\+.~#?&\/=]*)$|([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{PMID}|{DOI}|{URL}|{text}$
      interpolated: true
      partial_match: true
  lib_layout:
    name: lib_layout
    description: Specify whether to expect single, paired, or other configuration
      of reads
    title: library layout
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000041
    multivalued: false
    alias: lib_layout
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    range: LIB_LAYOUT_ENUM
    recommended: true
  annot:
    name: annot
    description: Tool used for annotation, or for cases where annotation was provided
      by a community jamboree or model organism database rather than by a specific
      submitter
    title: annotation
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{text}'
    slot_uri: MIXS:0000059
    multivalued: false
    alias: annot
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    range: string
    required: false
    recommended: false
  seq_meth:
    name: seq_meth
    description: Sequencing machine used. Where possible the term should be taken
      from the OBI list of DNA sequencers (http://purl.obolibrary.org/obo/OBI_0400103)
    title: sequencing method
    examples:
    - value: 454 Genome Sequencer FLX [OBI:0000702]
    in_subset:
    - sequencing
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000050
    multivalued: false
    alias: seq_meth
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksC
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: string
    required: true
    pattern: ^([^\s-]{1,2}|[^\s-]+.+[^\s-]+)|(([^\s-]{1,2}|[^\s-]+.+[^\s-]+) \[[a-zA-Z]{2,}:[a-zA-Z0-9]\d+\])$
    structured_pattern:
      syntax: ^{text}|({termLabel} \[{termID}\])$
      interpolated: true
      partial_match: true
  depth:
    name: depth
    description: The vertical distance below local surface. For sediment or soil samples
      depth is measured from sediment or soil surface, respectively. Depth can be
      reported as an interval for subsurface samples
    title: depth
    examples:
    - value: 10 meter
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000018
    multivalued: false
    alias: depth
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksC
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    - FoodFarmEnvironment
    - HostAssociated
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - PlantAssociated
    - Sediment
    - Soil
    - SymbiontAssociated
    - WastewaterSludge
    - Water
    range: string
    recommended: true
    pattern: ^[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?( *- *[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?)?
      *([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{scientific_float}( *- *{scientific_float})? *{text}$
      interpolated: true
      partial_match: true
  samp_size:
    name: samp_size
    description: The total amount or size (volume (ml), mass (g) or area (m2) ) of
      sample collected
    title: amount or size of sample collected
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000001
    multivalued: false
    alias: samp_size
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksC
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: string
    required: true
    recommended: true
    pattern: ^[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?( *- *[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?)?
      *([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{scientific_float}( *- *{scientific_float})? *{text}$
      interpolated: true
      partial_match: true
  pos_cont_type:
    name: pos_cont_type
    description: The substance, mixture, product, or apparatus used to verify that
      a process which is part of an investigation delivers a true positive
    title: positive control type
    in_subset:
    - investigation
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{term} or {text}'
    slot_uri: MIXS:0001322
    multivalued: false
    alias: pos_cont_type
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksC
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    range: string
    recommended: true
  size_frac:
    name: size_frac
    description: Filtering pore size used in sample preparation
    title: size fraction selected
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{float}-{float} {unit}'
    slot_uri: MIXS:0000017
    multivalued: false
    alias: size_frac
    owner: MimagAgriculture
    domain_of:
    - Mimag
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    range: string
    required: false
    recommended: false
  alt:
    name: alt
    description: Heights of objects such as airplanes, space shuttles, rockets, atmospheric
      balloons and heights of places such as atmospheric layers and clouds. It is
      used to measure the height of an object which is above the earth's surface.
      In this context, the altitude measurement is the vertical distance between the
      earth's surface above sea level and the sampled position in the air
    title: altitude
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000094
    multivalued: false
    alias: alt
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksC
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - Air
    - HostAssociated
    - MiscellaneousNaturalOrArtificialEnvironment
    - SymbiontAssociated
    range: string
    recommended: true
    pattern: ^[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?( *- *[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?)?
      *([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{scientific_float}( *- *{scientific_float})? *{text}$
      interpolated: true
      partial_match: true
  geo_loc_name:
    name: geo_loc_name
    description: The geographical origin of the sample as defined by the country or
      sea name followed by specific region name. Country or sea names should be chosen
      from the INSDC country list (http://insdc.org/country.html), or the GAZ ontology
      (http://purl.bioontology.org/ontology/GAZ)
    title: geographic location (country and/or sea,region)
    examples:
    - value: 'USA: Maryland, Bethesda'
    in_subset:
    - environment
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000010
    multivalued: false
    alias: geo_loc_name
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksC
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    - SymbiontAssociated
    range: string
    required: true
    pattern: '^([^\s-]{1,2}|[^\s-]+.+[^\s-]+): ([^\s-]{1,2}|[^\s-]+.+[^\s-]+), ([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$'
    structured_pattern:
      syntax: '^{text}: {text}, {text}$'
      interpolated: true
      partial_match: true
  trnas:
    name: trnas
    description: The total number of tRNAs identified from the SAG or MAG
    title: number of standard tRNAs extracted
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{integer}'
    slot_uri: MIXS:0000067
    multivalued: false
    alias: trnas
    owner: MimagAgriculture
    domain_of:
    - Mimag
    - Misag
    - Miuvig
    range: string
    required: false
    recommended: false
  feat_pred:
    name: feat_pred
    description: Method used to predict UViGs features such as ORFs, integration site,
      etc
    title: feature prediction
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000061
    multivalued: false
    alias: feat_pred
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - Mims
    - Misag
    - Miuvig
    range: string
    required: false
    recommended: false
    pattern: ^([^\s-]{1,2}|[^\s-]+.+[^\s-]+);([^\s-]{1,2}|[^\s-]+.+[^\s-]+);([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{software};{version};{parameters}$
      interpolated: true
      partial_match: true
  neg_cont_type:
    name: neg_cont_type
    annotations:
      Expected_value:
        tag: Expected_value
        value: enumeration or text
    description: The substance or equipment used as a negative control in an investigation
    title: negative control type
    in_subset:
    - investigation
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0001321
    multivalued: false
    alias: neg_cont_type
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksC
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    range: NEG_CONT_TYPE_ENUM
    recommended: true
  env_local_scale:
    name: env_local_scale
    annotations:
      Expected_value:
        tag: Expected_value
        value: Environmental entities having causal influences upon the entity at
          time of sampling
    description: 'Report the entity or entities which are in the sample or specimen
      s local vicinity and which you believe have significant causal influences on
      your sample or specimen. We recommend using EnvO terms which are of smaller
      spatial grain than your entry for env_broad_scale. Terms, such as anatomical
      sites, from other OBO Library ontologies which interoperate with EnvO (e.g.
      UBERON) are accepted in this field. EnvO documentation about how to use the
      field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS'
    title: local environmental context
    examples:
    - value: hillside [ENVO:01000333]
    in_subset:
    - environment
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{termLabel} [{termID}]'
    slot_uri: MIXS:0000013
    multivalued: false
    alias: env_local_scale
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksC
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    range: string
    required: true
  samp_mat_process:
    name: samp_mat_process
    description: A brief description of any processing applied to the sample during
      or after retrieving the sample from environment, or a link to the relevant protocol(s)
      performed
    title: sample material processing
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000016
    multivalued: false
    alias: samp_mat_process
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksC
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    range: string
    required: true
    recommended: true
  experimental_factor:
    name: experimental_factor
    description: Variable aspects of an experiment design that can be used to describe
      an experiment, or set of experiments, in an increasingly detailed manner. This
      field accepts ontology terms from Experimental Factor Ontology (EFO) and/or
      Ontology for Biomedical Investigations (OBI)
    title: experimental factor
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{termLabel} [{termID}]|{text}'
    slot_uri: MIXS:0000008
    multivalued: true
    alias: experimental_factor
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksC
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - FoodAnimalAndAnimalFeed
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: string
    recommended: true
    pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$
  samp_taxon_id:
    name: samp_taxon_id
    description: NCBI taxon id of the sample.  Maybe be a single taxon or mixed taxa
      sample. Use 'synthetic metagenome  for mock community/positive controls, or
      'blank sample' for negative controls
    title: taxonomy ID of DNA sample
    examples:
    - value: Gut Metagenome [NCBITaxon:749906]
    in_subset:
    - investigation
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0001320
    multivalued: false
    alias: samp_taxon_id
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksC
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    range: string
    required: true
    pattern: ^([^\s-]{1,2}|[^\s-]+.+[^\s-]+) \[NCBITaxon:\d+\]$
    structured_pattern:
      syntax: ^{text} \[{NCBItaxon_id}\]$
      interpolated: true
      partial_match: true
  nucl_acid_amp:
    name: nucl_acid_amp
    description: A link to a literature reference, electronic resource or a standard
      operating procedure (SOP), that describes the enzymatic amplification (PCR,
      TMA, NASBA) of specific nucleic acids
    title: nucleic acid amplification
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000038
    multivalued: false
    alias: nucl_acid_amp
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksC
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    range: string
    required: true
    recommended: true
    pattern: ^^PMID:\d+$|^doi:10.\d{2,9}/.*$|^https?:\/\/(?:www\.)?[-a-zA-Z0-9@:%._\+~#=]{1,256}\.[a-zA-Z0-9()]{1,6}\b(?:[-a-zA-Z0-9()@:%_\+.~#?&\/=]*)$$
    structured_pattern:
      syntax: ^{PMID}|{DOI}|{URL}$
      interpolated: true
      partial_match: true
  lib_screen:
    name: lib_screen
    description: Specific enrichment or screening methods applied before and/or after
      creating libraries
    title: library screening strategy
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{text}'
    slot_uri: MIXS:0000043
    multivalued: false
    alias: lib_screen
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    range: string
    required: true
    recommended: true
  contam_score:
    name: contam_score
    description: 'The contamination score is based on the fraction of single-copy
      genes that are observed more than once in a query genome. The following scores
      are acceptable for; High Quality Draft: < 5%, Medium Quality Draft: < 10%, Low
      Quality Draft: < 10%. Contamination must be below 5% for a SAG or MAG to be
      deposited into any of the public databases'
    title: contamination score
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000072
    multivalued: false
    alias: contam_score
    owner: MimagAgriculture
    domain_of:
    - Mimag
    - Misag
    range: float
    required: true
  x16s_recover:
    name: x16s_recover
    description: Can a 16S gene be recovered from the submitted SAG or MAG?
    title: 16S recovered
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000065
    multivalued: false
    alias: x16s_recover
    owner: MimagAgriculture
    domain_of:
    - Mimag
    - Misag
    range: boolean
    required: false
    recommended: false
  samp_name:
    name: samp_name
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: ''
    description: A local identifier or name that for the material sample used for
      extracting nucleic acids, and subsequent sequencing. It can refer either to
      the original material collected or to any derived sub-samples. It can have any
      format, but we suggest that you make it concise, unique and consistent within
      your lab, and as informative as possible. INSDC requires every sample name from
      a single Submitter to be unique. Use of a globally unique identifier for the
      field source_mat_id is recommended in addition to sample_name
    title: sample name
    examples:
    - value: ISDsoil1
    in_subset:
    - investigation
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0001107
    multivalued: false
    alias: samp_name
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksC
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - Air
    - BuiltEnvironment
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    - HostAssociated
    - HumanAssociated
    - HumanGut
    - HumanOral
    - HumanSkin
    - HumanVaginal
    - HydrocarbonResourcesCores
    - HydrocarbonResourcesFluidsSwabs
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - PlantAssociated
    - Sediment
    - Soil
    - SymbiontAssociated
    - WastewaterSludge
    - Water
    range: string
    required: true
  env_medium:
    name: env_medium
    description: 'Report the environmental material(s) immediately surrounding the
      sample or specimen at the time of sampling. We recommend using subclasses of
      ''environmental material'' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO
      documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS
      . Terms from other OBO ontologies are permissible as long as they reference
      mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities
      (e.g. a tree, a leaf, a table top)'
    title: environmental medium
    examples:
    - value: bluegrass field soil [ENVO:00005789]
    in_subset:
    - environment
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000014
    multivalued: false
    alias: env_medium
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksC
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    range: string
    required: true
    pattern: ^([^\s-]{1,2}|[^\s-]+.+[^\s-]+) \[[a-zA-Z]{2,}:[a-zA-Z0-9]\d+\]$
    structured_pattern:
      syntax: ^{termLabel} \[{termID}\]$
      interpolated: true
      partial_match: true
  lib_vector:
    name: lib_vector
    description: Cloning vector type(s) used in construction of libraries
    title: library vector
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{text}'
    slot_uri: MIXS:0000042
    multivalued: false
    alias: lib_vector
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    range: string
    required: true
    recommended: true
  mag_cov_software:
    name: mag_cov_software
    description: Tool(s) used to determine the genome coverage if coverage is used
      as a binning parameter in the extraction of genomes from metagenomic datasets
    title: MAG coverage software
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000080
    multivalued: false
    alias: mag_cov_software
    owner: MimagAgriculture
    domain_of:
    - Mimag
    - Miuvig
    range: MAG_COV_SOFTWARE_ENUM
    required: false
    recommended: false
  ref_db:
    name: ref_db
    description: List of database(s) used for ORF annotation, along with version number
      and reference to website or publication
    title: reference database(s)
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{database};{version};{reference}'
    slot_uri: MIXS:0000062
    multivalued: false
    alias: ref_db
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - Mims
    - Misag
    - Miuvig
    range: string
    required: false
    recommended: false
  elev:
    name: elev
    description: Elevation of the sampling site is its height above a fixed reference
      point, most commonly the mean sea level. Elevation is mainly used when referring
      to points on the earth's surface, while altitude is used for points above the
      surface, such as an aircraft in flight or a spacecraft in orbit
    title: elevation
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000093
    multivalued: false
    alias: elev
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksC
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    - Air
    - HostAssociated
    - HydrocarbonResourcesCores
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - PlantAssociated
    - Sediment
    - Soil
    - SymbiontAssociated
    - Water
    range: string
    required: false
    recommended: true
    pattern: ^[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?( *- *[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?)?
      *([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{scientific_float}( *- *{scientific_float})? *{text}$
      interpolated: true
      partial_match: true
  lat_lon:
    name: lat_lon
    annotations:
      Expected_value:
        tag: Expected_value
        value: decimal degrees,  limit to 8 decimal points
    description: The geographical origin of the sample as defined by latitude and
      longitude. The values should be reported in decimal degrees and in WGS84 system
    title: geographic location (latitude and longitude)
    examples:
    - value: 50.586825 6.408977
    in_subset:
    - environment
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{float} {float}'
    slot_uri: MIXS:0000009
    alias: lat_lon
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksC
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    - SymbiontAssociated
    range: string
    required: true
    pattern: ^(-?((?:[0-8]?[0-9](?:\.\d{0,8})?)|90)) -?[0-9]+(?:\.[0-9]{0,8})?$|^-?(1[0-7]{1,2})$
    structured_pattern:
      syntax: ^{lat} {lon}$
      interpolated: true
      partial_match: true
  compl_software:
    name: compl_software
    description: Tools used for completion estimate, i.e. checkm, anvi'o, busco
    title: completeness software
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{software};{version}'
    slot_uri: MIXS:0000070
    multivalued: false
    alias: compl_software
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - Misag
    - Miuvig
    range: string
    required: true
  lib_reads_seqd:
    name: lib_reads_seqd
    description: Total number of clones sequenced from the library
    title: library reads sequenced
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000040
    multivalued: false
    alias: lib_reads_seqd
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    range: integer
    required: true
    recommended: true
  mid:
    name: mid
    description: Molecular barcodes, called Multiplex Identifiers (MIDs), that are
      used to specifically tag unique samples in a sequencing run. Sequence should
      be reported in uppercase letters
    title: multiplex identifiers
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000047
    multivalued: false
    alias: mid
    owner: MimagAgriculture
    domain_of:
    - Mimag
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    range: string
    required: true
    recommended: true
    pattern: ^[ACGTRKSYMWBHDVN]+$
    structured_pattern:
      syntax: ^{ambiguous_nucleotides}$
      interpolated: true
      partial_match: true
  decontam_software:
    name: decontam_software
    description: Tool(s) used in contamination screening
    title: decontamination software
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '[checkm/refinem|anvi''o|prodege|bbtools:decontaminate.sh|acdc|combination]'
    slot_uri: MIXS:0000074
    multivalued: false
    alias: decontam_software
    owner: MimagAgriculture
    domain_of:
    - Mimag
    - Misag
    range: string
    required: false
    recommended: false
  reassembly_bin:
    name: reassembly_bin
    description: Has an assembly been performed on a genome bin extracted from a metagenomic
      assembly?
    title: reassembly post binning
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000079
    multivalued: false
    alias: reassembly_bin
    owner: MimagAgriculture
    domain_of:
    - Mimag
    - Miuvig
    range: boolean
    required: false
    recommended: false
  rel_to_oxygen:
    name: rel_to_oxygen
    description: Is this organism an aerobe, anaerobe? Please note that aerobic and
      anaerobic are valid descriptors for microbial environments
    title: relationship to oxygen
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000015
    multivalued: false
    alias: rel_to_oxygen
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - Mimag
    - MimarksC
    - MimarksS
    - Mims
    - Misag
    range: REL_TO_OXYGEN_ENUM
    required: false
    recommended: false
  assembly_name:
    name: assembly_name
    description: Name/version of the assembly provided by the submitter that is used
      in the genome browsers and in the community
    title: assembly name
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{text} {text}'
    slot_uri: MIXS:0000057
    multivalued: false
    alias: assembly_name
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    range: string
    required: true
    recommended: true
  adapters:
    name: adapters
    description: Adapters provide priming sequences for both amplification and sequencing
      of the sample-library fragments. Both adapters should be reported; in uppercase
      letters
    title: adapters
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{dna};{dna}'
    slot_uri: MIXS:0000048
    multivalued: false
    alias: adapters
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    range: string
    required: true
    recommended: true
  associated_resource:
    name: associated_resource
    annotations:
      Expected_value:
        tag: Expected_value
        value: reference to resource
    description: A related resource that is referenced, cited, or otherwise associated
      to the sequence
    title: relevant electronic resources
    examples:
    - value: http://www.earthmicrobiome.org/
    in_subset:
    - sequencing
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{PMID}|{DOI}|{URL}'
    slot_uri: MIXS:0000091
    multivalued: true
    alias: associated_resource
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksC
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    range: string
    recommended: true
  sop:
    name: sop
    description: Standard operating procedures used in assembly and/or annotation
      of genomes, metagenomes or environmental sequences
    title: relevant standard operating procedures
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{PMID}|{DOI}|{URL}'
    slot_uri: MIXS:0000090
    multivalued: true
    alias: sop
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksC
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    range: string
    required: false
    recommended: true
  plant_growth_med:
    name: plant_growth_med
    description: Specification of the media for growing the plants or tissue cultured
      samples, e.g. soil, aeroponic, hydroponic, in vitro solid culture medium, in
      vitro liquid culture medium. Recommended value is a specific value from EO:plant
      growth medium (follow this link for terms http://purl.obolibrary.org/obo/EO_0007147)
      or other controlled vocabulary
    title: plant growth medium
    examples:
    - value: hydroponic plant culture media [EO:0007067]
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{termLabel} [{termID}] or [husk|other artificial liquid
      medium|other artificial solid medium|peat moss|perlite|pumice|sand|soil|vermiculite|water]'
    slot_uri: MIXS:0001057
    multivalued: false
    alias: plant_growth_med
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - PlantAssociated
    range: string
    required: false
    recommended: false
  photosynt_activ:
    name: photosynt_activ
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: mol m-2 s-1
    description: Measurement of photosythetic activity (i.e. leaf gas exchange / chlorophyll
      fluorescence emissions / reflectance / transpiration) Please also include the
      term method term detailing the method of activity measurement
    title: photosynthetic activity
    examples:
    - value: 0.1 mol CO2 m-2 s-1
      description: added a magnitude to the example from the XLSX file, " mol CO2
        m-2 s-1"
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0001296
    alias: photosynt_activ
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    range: string
    recommended: true
    pattern: ^[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?( *- *[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?)?
      *([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{scientific_float}( *- *{scientific_float})? *{text}$
      interpolated: true
      partial_match: true
  photosynt_activ_meth:
    name: photosynt_activ_meth
    description: Reference or method used in measurement of photosythetic activity
    title: photosynthetic activity method
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0001336
    multivalued: true
    alias: photosynt_activ_meth
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    range: string
    recommended: true
    pattern: ^^PMID:\d+$|^doi:10.\d{2,9}/.*$|^https?:\/\/(?:www\.)?[-a-zA-Z0-9@:%._\+~#=]{1,256}\.[a-zA-Z0-9()]{1,6}\b(?:[-a-zA-Z0-9()@:%_\+.~#?&\/=]*)$|([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{PMID}|{DOI}|{URL}|{text}$
      interpolated: true
      partial_match: true
  enrichment_protocol:
    name: enrichment_protocol
    description: The microbiological workflow or protocol followed to test for the
      presence or enumeration of the target microbial analyte(s). Please provide a
      PubMed or DOI reference for published protocols
    title: enrichment protocol
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0001177
    multivalued: false
    alias: enrichment_protocol
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: string
    recommended: true
    pattern: ^^PMID:\d+$|^doi:10.\d{2,9}/.*$|^https?:\/\/(?:www\.)?[-a-zA-Z0-9@:%._\+~#=]{1,256}\.[a-zA-Z0-9()]{1,6}\b(?:[-a-zA-Z0-9()@:%_\+.~#?&\/=]*)$|([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{PMID}|{DOI}|{URL}|{text}$
      interpolated: true
      partial_match: true
  library_prep_kit:
    name: library_prep_kit
    description: Packaged kits (containing adapters, indexes, enzymes, buffers etc.),
      tailored for specific sequencing workflows, which allow the simplified preparation
      of sequencing-ready libraries for small genomes, amplicons, and plasmids
    title: library preparation kit
    examples:
    - value: llumina DNA Prep, (M) Tagmentation
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{text}'
    slot_uri: MIXS:0001145
    multivalued: false
    alias: library_prep_kit
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: string
    required: false
    recommended: false
  sequencing_location:
    name: sequencing_location
    description: The location the sequencing run was performed. Indicate the name
      of the lab or core facility where samples were sequenced
    title: sequencing location
    examples:
    - value: University of Maryland Genomics Resource Center
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0001156
    multivalued: false
    alias: sequencing_location
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: string
    required: false
    recommended: false
  soil_temp:
    name: soil_temp
    description: Temperature of soil at the time of sampling
    title: soil temperature
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0001163
    multivalued: false
    alias: soil_temp
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    range: string
    required: false
    recommended: false
    pattern: ^[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?( *- *[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?)?
      *([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{scientific_float}( *- *{scientific_float})? *{text}$
      interpolated: true
      partial_match: true
  soil_pH:
    name: soil_pH
    description: pH of some soil.
    title: soil pH
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0001160
    alias: soil_pH
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    range: float
    required: false
    recommended: false
  soil_conductivity:
    name: soil_conductivity
    description: Conductivity of some soil.
    title: soil conductivity
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0001158
    multivalued: false
    alias: soil_conductivity
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    range: string
    required: false
    recommended: false
    pattern: ^[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?( *- *[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?)?
      *([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{scientific_float}( *- *{scientific_float})? *{text}$
      interpolated: true
      partial_match: true
  rel_location:
    name: rel_location
    description: Location of sampled soil to other parts of the farm e.g. under crop
      plant, near irrigation ditch, from the dirt road
    title: relative location of sample
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0001161
    multivalued: false
    alias: rel_location
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    range: string
    recommended: true
  soil_cover:
    name: soil_cover
    description: Material covering the sampled soil. This field accepts terms under
      ENVO:00010483, environmental material
    title: soil cover
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: bare soil [ENVO:01001616]
    slot_uri: MIXS:0001159
    multivalued: false
    alias: soil_cover
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    range: string
    recommended: true
  porosity:
    name: porosity
    annotations:
      Expected_value:
        tag: Expected_value
        value: measurement value or range
      Preferred_unit:
        tag: Preferred_unit
        value: percentage
    description: Porosity of deposited sediment is volume of voids divided by the
      total volume of sample
    title: porosity
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{float} - {float} {unit}'
    slot_uri: MIXS:0000211
    multivalued: false
    alias: porosity
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - HydrocarbonResourcesCores
    - Sediment
    range: string
    required: false
    recommended: false
  soil_texture:
    name: soil_texture
    description: The relative proportion of different grain sizes of mineral particles
      in a soil, as described using a standard system; express as % sand (50 um to
      2 mm), silt (2 um to 50 um), and clay (<2 um) with textural name (e.g., silty
      clay loam) optional
    title: soil texture
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000335
    multivalued: false
    alias: soil_texture
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - Soil
    range: string
    required: false
    recommended: false
    pattern: ^[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?( *- *[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?)?
      *([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{scientific_float}( *- *{scientific_float})? *{text}$
      interpolated: true
      partial_match: true
  soil_texture_meth:
    name: soil_texture_meth
    description: Reference or method used in determining soil texture
    title: soil texture method
    examples:
    - value: https://uwlab.soils.wisc.edu/wp-content/uploads/sites/17/2015/09/particle_size.pdf
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000336
    multivalued: false
    alias: soil_texture_meth
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - Soil
    range: string
    required: false
    recommended: false
    pattern: ^^PMID:\d+$|^doi:10.\d{2,9}/.*$|^https?:\/\/(?:www\.)?[-a-zA-Z0-9@:%._\+~#=]{1,256}\.[a-zA-Z0-9()]{1,6}\b(?:[-a-zA-Z0-9()@:%_\+.~#?&\/=]*)$$
    structured_pattern:
      syntax: ^{PMID}|{DOI}|{URL}$
      interpolated: true
      partial_match: true
  host_symbiont:
    name: host_symbiont
    description: The taxonomic name of the organism(s) found living in mutualistic,
      commensalistic, or parasitic symbiosis with the specific host. The sampled symbiont
      can have its own symbionts. For example, parasites may have hyperparasites (=parasites
      of the parasite)
    title: observed host symbionts
    examples:
    - value: Paragordius varius
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{text}'
    slot_uri: MIXS:0001298
    multivalued: true
    alias: host_symbiont
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - HostAssociated
    - HumanAssociated
    - HumanGut
    - HumanOral
    - HumanSkin
    - HumanVaginal
    - PlantAssociated
    - SymbiontAssociated
    range: string
    required: false
    recommended: false
  host_disease_stat:
    name: host_disease_stat
    description: List of diseases with which the host has been diagnosed; can include
      multiple diagnoses. The value of the field depends on host; for humans the terms
      should be chosen from the DO (Human Disease Ontology) at https://www.disease-ontology.org,
      non-human host diseases are free text
    title: host disease status
    examples:
    - value: downy mildew
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{termLabel} [{termID}]|{text}'
    slot_uri: MIXS:0000031
    multivalued: false
    alias: host_disease_stat
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsVi
    - Miuvig
    - Agriculture
    - FoodFarmEnvironment
    - HostAssociated
    - HumanAssociated
    - HumanGut
    - HumanOral
    - HumanSkin
    - HumanVaginal
    - PlantAssociated
    range: string
    recommended: true
  pres_animal_insect:
    name: pres_animal_insect
    annotations:
      Expected_value:
        tag: Expected_value
        value: enumeration;count
    description: The type and number of animals or insects present in the sampling
      space
    title: presence of pets, animals, or insects
    examples:
    - value: cat;5
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '[cat|dog|rodent|snake|other];{integer}'
    slot_uri: MIXS:0000819
    multivalued: false
    alias: pres_animal_insect
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - BuiltEnvironment
    range: string
    required: false
    recommended: false
  plant_water_method:
    name: plant_water_method
    description: Description of the equipment or method used to distribute water to
      crops. This field accepts termed listed under irrigation process (http://purl.obolibrary.org/obo/AGRO_00000006).
      Multiple terms can be separated by pipes
    title: plant water delivery method
    examples:
    - value: drip irrigation process [AGRO:00000056]
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0001111
    multivalued: false
    alias: plant_water_method
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    range: string
    recommended: true
    pattern: ^([^\s-]{1,2}|[^\s-]+.+[^\s-]+) \[[a-zA-Z]{2,}:[a-zA-Z0-9]\d+\]$
    structured_pattern:
      syntax: ^{termLabel} \[{termID}\]$
      interpolated: true
      partial_match: true
  anim_water_method:
    name: anim_water_method
    description: Description of the equipment or method used to distribute water to
      livestock. This field accepts termed listed under water delivery equipment (http://opendata.inra.fr/EOL/EOL_0001653).
      Multiple terms can be separated by pipes
    title: animal water delivery method
    examples:
    - value: water trough [EOL:0001618]
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0001115
    multivalued: true
    alias: anim_water_method
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    range: string
    required: false
    recommended: false
    pattern: ^([^\s-]{1,2}|[^\s-]+.+[^\s-]+) \[[a-zA-Z]{2,}:[a-zA-Z0-9]\d+\]$
    structured_pattern:
      syntax: ^{termLabel} \[{termID}\]$
      interpolated: true
      partial_match: true
  farm_water_source:
    name: farm_water_source
    description: Source of water used on the farm for irrigation of crops or watering
      of livestock
    title: farm watering water source
    examples:
    - value: well
      description: was water well (ENVO:01000002)
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0001110
    alias: farm_water_source
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    range: FARM_WATER_SOURCE_ENUM
    recommended: true
  water_source_shared:
    name: water_source_shared
    annotations:
      Expected_value:
        tag: Expected_value
        value: enumeration
    description: Other users sharing access to the same water source. Multiple terms
      can be separated by one or more pipes
    title: water source shared
    examples:
    - value: no sharing
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '[multiple users, agricutural|multiple users, other|no sharing]'
    slot_uri: MIXS:0001176
    multivalued: true
    alias: water_source_shared
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    range: string
    required: false
    recommended: false
  water_pH:
    name: water_pH
    description: The pH measurement of the sample, or liquid portion of sample, or
      aqueous phase of the fluid.
    title: water pH
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0001175
    multivalued: false
    alias: water_pH
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    range: float
    required: false
    recommended: false
  season:
    name: season
    annotations:
      Expected_value:
        tag: Expected_value
        value: autumn [NCIT:C94733], spring [NCIT:C94731], summer [NCIT:C94732], winter
          [NCIT:C94730]
    description: The season when sampling occurred. Any of the four periods into which
      the year is divided by the equinoxes and solstices. This field accepts terms
      listed under season (http://purl.obolibrary.org/obo/NCIT_C94729)
    title: season
    comments:
    - autumn [NCIT:C94733] does not match ^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$
    - would require ^\\S+.*\\S+ \\[[a-zA-Z]{2,}:[a-zA-Z0-9]\\]$
    examples:
    - value: autumn [NCIT:C94733]
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{termLabel} [{termID}]'
    slot_uri: MIXS:0000829
    alias: season
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - BuiltEnvironment
    - FoodFarmEnvironment
    range: string
    required: false
    recommended: false
    pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:[a-zA-Z0-9]+\]$
  solar_irradiance:
    name: solar_irradiance
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: kilowatts per square meter per day, ergs per square centimeter per
          second
    description: The amount of solar energy that arrives at a specific area of a surface
      during a specific time interval
    title: solar irradiance
    examples:
    - value: 1.36 kilowatts per square meter per day
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000112
    multivalued: true
    alias: solar_irradiance
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - Air
    - FoodFarmEnvironment
    range: string
    required: false
    recommended: false
    pattern: ^[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?( *- *[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?)?
      *([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{scientific_float}( *- *{scientific_float})? *{text}$
      interpolated: true
      partial_match: true
  crop_yield:
    name: crop_yield
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: kilogram per metre square
    description: Amount of crop produced per unit or area of land
    title: crop yield
    examples:
    - value: 570 kilogram per metre square
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0001116
    multivalued: false
    alias: crop_yield
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    range: string
    required: false
    recommended: false
    pattern: ^[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?( *- *[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?)?
      *([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{scientific_float}( *- *{scientific_float})? *{text}$
      interpolated: true
      partial_match: true
  season_humidity:
    name: season_humidity
    description: Average humidity of the region throughout the growing season
    title: mean seasonal humidity
    comments:
    - percent or float?
    examples:
    - value: '0.25'
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0001148
    alias: season_humidity
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    range: float
    required: false
    recommended: false
    pattern: ^[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?( *- *[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?)?
      *([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{scientific_float}( *- *{scientific_float})? *{text}$
      interpolated: true
      partial_match: true
  humidity:
    name: humidity
    description: Amount of water vapour in the air, at the time of sampling
    title: humidity
    examples:
    - value: 30% relative humidity
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000100
    multivalued: false
    alias: humidity
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - Air
    - FoodFarmEnvironment
    range: string
    recommended: true
    pattern: ^[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?( *- *[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?)?
      *([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{scientific_float}( *- *{scientific_float})? *{text}$
      interpolated: true
      partial_match: true
  adjacent_environment:
    name: adjacent_environment
    annotations:
      Expected_value:
        tag: Expected_value
        value: ENVO_01001110 or ENVO_00000070
    description: Description of the environmental system or features that are adjacent
      to the sampling site. This field accepts terms under ecosystem (http://purl.obolibrary.org/obo/ENVO_01001110)
      and human construction (http://purl.obolibrary.org/obo/ENVO_00000070). Multiple
      terms can be separated by pipes
    title: environment adjacent to site
    examples:
    - value: estuarine biome [ENVO:01000020]
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{termLabel}{[termID]}'
    slot_uri: MIXS:0001121
    multivalued: true
    alias: adjacent_environment
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    range: string
    required: false
    recommended: false
  chem_administration:
    name: chem_administration
    description: List of chemical compounds administered to the host or site where
      sampling occurred, and when (e.g. Antibiotics, n fertilizer, air filter); can
      include multiple compounds. For chemical entities of biological interest ontology
      (chebi) (v 163), http://purl.bioontology.org/ontology/chebi
    title: chemical administration
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{termLabel} [{termID}];{timestamp}'
    slot_uri: MIXS:0000751
    multivalued: true
    alias: chem_administration
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - Air
    - FoodFarmEnvironment
    - HostAssociated
    - HumanAssociated
    - HumanGut
    - HumanOral
    - HumanSkin
    - HumanVaginal
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - PlantAssociated
    - Sediment
    - SymbiontAssociated
    - WastewaterSludge
    - Water
    range: string
    required: true
  food_prod:
    name: food_prod
    description: Descriptors of the food production system or of the agricultural
      environment and growing conditions related to the farm production system, such
      as wild caught, organic, free-range, industrial, dairy, beef,  domestic or cultivated
      food production. This field accepts terms listed under food production (http://purl.obolibrary.org/obo/FOODON_03530206).
      Multiple terms may apply and can be separated by pipes
    title: food production system characteristics
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0001211
    multivalued: true
    alias: food_prod
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodAnimalAndAnimalFeed
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: string
    required: false
    recommended: false
    pattern: ^([^\s-]{1,2}|[^\s-]+.+[^\s-]+) \[[a-zA-Z]{2,}:[a-zA-Z0-9]\d+\]$
    structured_pattern:
      syntax: ^{termLabel} \[{termID}\]$
      interpolated: true
      partial_match: true
  lot_number:
    name: lot_number
    annotations:
      Expected_value:
        tag: Expected_value
        value: lot number, item
    description: 'A distinctive alpha-numeric identification code assigned by the
      manufacturer or distributor to a specific quantity of manufactured material
      or product within a batch. Synonym: Batch Number.  The submitter should provide
      lot number of the item followed by the item name for which the lot number was
      provided'
    title: lot number
    examples:
    - value: 1239ABC01A, split Cornish hens
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{integer}, {text}'
    slot_uri: MIXS:0001147
    multivalued: true
    alias: lot_number
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: string
    required: false
    recommended: false
  fertilizer_admin:
    name: fertilizer_admin
    description: Type of fertilizer or amendment added to the soil or water for the
      purpose of improving substrate health and quality for plant growth. This field
      accepts terms listed under agronomic fertilizer (http://purl.obolibrary.org/obo/AGRO_00002062).
      Multiple terms may apply and can be separated by pipes, listing in reverse chronological
      order
    title: fertilizer administration
    examples:
    - value: fish emulsion [AGRO:00000082]
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0001127
    multivalued: false
    alias: fertilizer_admin
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    range: string
    required: false
    recommended: false
    pattern: ^([^\s-]{1,2}|[^\s-]+.+[^\s-]+) \[[a-zA-Z]{2,}:[a-zA-Z0-9]\d+\]$
    structured_pattern:
      syntax: ^{termLabel} \[{termID}\]$
      interpolated: true
      partial_match: true
  samp_store_temp:
    name: samp_store_temp
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: degree Celsius
    description: Temperature at which sample was stored, e.g. -80 degree Celsius
    title: sample storage temperature
    examples:
    - value: -80 degree Celsius
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000110
    multivalued: false
    alias: samp_store_temp
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - Air
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    - HostAssociated
    - HumanAssociated
    - HumanGut
    - HumanOral
    - HumanSkin
    - HumanVaginal
    - HydrocarbonResourcesCores
    - HydrocarbonResourcesFluidsSwabs
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - PlantAssociated
    - Sediment
    - SymbiontAssociated
    - WastewaterSludge
    - Water
    range: string
    required: false
    recommended: false
    pattern: ^[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?( *- *[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?)?
      *([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{scientific_float}( *- *{scientific_float})? *{text}$
      interpolated: true
      partial_match: true
  food_trav_mode:
    name: food_trav_mode
    description: A descriptor for the method of movement of food commodity along the
      food distribution system.  This field accepts terms listed under travel mode
      (http://purl.obolibrary.org/obo/GENEPIO_0001064). If the proper descrptor is
      not listed please use text to describe the mode of travel. Multiple terms can
      be separated by one or more pipes
    title: food shipping transportation method
    examples:
    - value: train travel [GENEPIO:0001060]
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0001137
    multivalued: true
    alias: food_trav_mode
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: string
    required: false
    recommended: false
    pattern: ^([^\s-]{1,2}|[^\s-]+.+[^\s-]+) \[[a-zA-Z]{2,}:[a-zA-Z0-9]\d+\]$
    structured_pattern:
      syntax: ^{termLabel} \[{termID}\]$
      interpolated: true
      partial_match: true
  food_trav_vehic:
    name: food_trav_vehic
    annotations:
      Expected_value:
        tag: Expected_value
        value: ENVO:01000604
    description: A descriptor for the mobile machine which is used to transport food
      commodities along the food distribution system.  This field accepts terms listed
      under vehicle (http://purl.obolibrary.org/obo/ENVO_01000604). If the proper
      descrptor is not listed please use text to describe the mode of travel. Multiple
      terms can be separated by one or more pipes
    title: food shipping transportation vehicle
    examples:
    - value: aircraft [ENVO:01001488]|car [ENVO:01000605]
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{text}|{termLabel} [{termID}]'
    slot_uri: MIXS:0001138
    multivalued: true
    alias: food_trav_vehic
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: string
    required: false
    recommended: false
  farm_equip_san:
    name: farm_equip_san
    annotations:
      Expected_value:
        tag: Expected_value
        value: text or commercial name of sanitizer or class of sanitizer or active
          ingredient in sanitizer
      Preferred_unit:
        tag: Preferred_unit
        value: parts per million
    description: Method used to sanitize growing and harvesting equipment. This can
      including type and concentration of sanitizing solution.  Multiple terms can
      be separated by one or more pipes
    title: farm equipment sanitization
    examples:
    - value: hot water pressure wash, hypochlorite solution, 50 parts per million
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{text} {float} {unit}'
    slot_uri: MIXS:0001124
    multivalued: true
    alias: farm_equip_san
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    range: string
    required: false
    recommended: false
  farm_equip:
    name: farm_equip
    description: List of equipment used for planting, fertilization, harvesting, irrigation,
      land levelling, residue management, weeding or transplanting during the growing
      season.  This field accepts terms listed under agricultural implement (http://purl.obolibrary.org/obo/AGRO_00000416).
      Multiple terms can be separated by pipes
    title: farm equipment used
    examples:
    - value: combine harvester [AGRO:00000473]
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0001126
    multivalued: true
    alias: farm_equip
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    range: string
    required: false
    recommended: false
    pattern: ^([^\s-]{1,2}|[^\s-]+.+[^\s-]+) \[[a-zA-Z]{2,}:[a-zA-Z0-9]\d+\]$
    structured_pattern:
      syntax: ^{termLabel} \[{termID}\]$
      interpolated: true
      partial_match: true
  farm_equip_shared:
    name: farm_equip_shared
    description: List of planting, growing or harvesting equipment shared with other
      farms. This field accepts terms listed under agricultural implement (http://purl.obolibrary.org/obo/AGRO_00000416).
      Multiple terms can be separated by pipes
    title: equipment shared with other farms
    examples:
    - value: combine harvester [AGRO:00000473]
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0001123
    multivalued: true
    alias: farm_equip_shared
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    range: string
    required: false
    recommended: false
    pattern: ^([^\s-]{1,2}|[^\s-]+.+[^\s-]+) \[[a-zA-Z]{2,}:[a-zA-Z0-9]\d+\]$
    structured_pattern:
      syntax: ^{termLabel} \[{termID}\]$
      interpolated: true
      partial_match: true
  food_harvest_proc:
    name: food_harvest_proc
    description: A harvesting process is a process which takes in some food material
      from an individual or community of plant or animal organisms in a given context
      and time, and outputs a precursor or consumable food product. This may include
      a part of an organism or the whole, and may involve killing the organism
    title: Food harvesting process
    examples:
    - value: hand-picked
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0001133
    multivalued: true
    alias: food_harvest_proc
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    range: string
    required: false
    recommended: false
  plant_struc:
    name: plant_struc
    description: Name of plant structure the sample was obtained from; for Plant Ontology
      (PO) (v releases/2017-12-14) terms, see http://purl.bioontology.org/ontology/PO,
      e.g. petiole epidermis (PO_0000051). If an individual flower is sampled, the
      sex of it can be recorded here
    title: plant structure
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0001060
    multivalued: false
    alias: plant_struc
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - PlantAssociated
    range: string
    recommended: true
    pattern: ^([^\s-]{1,2}|[^\s-]+.+[^\s-]+) \[[a-zA-Z]{2,}:[a-zA-Z0-9]\d+\]$
    structured_pattern:
      syntax: ^{termLabel} \[{termID}\]$
      interpolated: true
      partial_match: true
  host_dry_mass:
    name: host_dry_mass
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: kilogram, gram
    description: Measurement of dry mass
    title: host dry mass
    examples:
    - value: 500 gram
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000257
    multivalued: false
    alias: host_dry_mass
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - HostAssociated
    - PlantAssociated
    - SymbiontAssociated
    range: string
    required: false
    recommended: false
    pattern: ^[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?( *- *[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?)?
      *([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{scientific_float}( *- *{scientific_float})? *{text}$
      interpolated: true
      partial_match: true
  ances_data:
    name: ances_data
    description: Information about either pedigree or other ancestral information
      description (e.g. parental variety in case of mutant or selection), e.g. A/3*B
      (meaning [(A x B) x B] x B)
    title: ancestral data
    examples:
    - value: A/3*B
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000247
    multivalued: false
    alias: ances_data
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - HostAssociated
    - PlantAssociated
    range: string
    required: false
    recommended: false
  genetic_mod:
    name: genetic_mod
    annotations:
      Expected_value:
        tag: Expected_value
        value: PMID, DOI, URL or text
    description: Genetic modifications of the genome of an organism, which may occur
      naturally by spontaneous mutation, or be introduced by some experimental means,
      e.g. specification of a transgene or the gene knocked-out or details of transient
      transfection
    title: genetic modification
    examples:
    - value: aox1A transgenic
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{PMID}|{DOI}|{URL}'
    slot_uri: MIXS:0000859
    multivalued: false
    alias: genetic_mod
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    - HostAssociated
    - PlantAssociated
    range: string
    required: false
    recommended: false
  food_product_type:
    name: food_product_type
    description: A food product type is a class of food products that is differentiated
      by its food composition (e.g., single- or multi-ingredient), processing and/or
      consumption characteristics. This does not include brand name products but it
      may include generic food dish categories. This field accepts terms under food
      product type (http://purl.obolibrary.org/obo/FOODON:03400361). For terms related
      to food product for an animal, consult food product for animal (http://purl.obolibrary.org/obo/FOODON_03309997).
      If the proper descriptor is not listed please use text to describe the food
      type. Multiple terms can be separated by one or more pipes
    title: food product type
    examples:
    - value: delicatessen salad; FOODON:03316276
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{text}|{termLabel} [{termID}]'
    slot_uri: MIXS:0001184
    multivalued: false
    alias: food_product_type
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: string
    required: false
    recommended: false
  food_source:
    name: food_source
    description: Type of plant or animal from which the food product or its major
      ingredient is derived or a chemical food source [FDA CFSAN 1995]
    title: food source
    examples:
    - value: red swamp crayfish; FOODON:03412231
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{termLabel} [{termID}]'
    slot_uri: MIXS:0001139
    multivalued: false
    alias: food_source
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: string
    required: true
  spikein_strain:
    name: spikein_strain
    annotations:
      Expected_value:
        tag: Expected_value
        value: NCIT:C14250 or NCBI taxid or text
    description: Taxonomic information about the spike-in organism(s) at the strain
      level. This field accepts terms under organism (http://purl.obolibrary.org/obo/NCIT_C14250).
      This field also accepts identification numbers from NCBI under https://www.ncbi.nlm.nih.gov/taxonomy.
      Multiple terms can be separated by pipes
    title: spike-in microbial strain
    examples:
    - value: '169963'
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{termLabel} [{termID}]|{integer}'
    slot_uri: MIXS:0001170
    multivalued: true
    alias: spikein_strain
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodHumanFoods
    range: string
    required: false
    recommended: false
  organism_count:
    name: organism_count
    description: 'Total cell count of any organism (or group of organisms) per gram,
      volume or area of sample, should include name of organism followed by count.
      The method that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) Should
      also be provided. (example: total prokaryotes; 3.5e7 cells per ml; qpcr)'
    title: organism count
    examples:
    - value: total prokaryotes;3.5e7 cells per milliliter;qPCR
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{text};{float} {unit};[ATP|MPN|qPCR|other]'
    slot_uri: MIXS:0000103
    multivalued: true
    alias: organism_count
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - Air
    - BuiltEnvironment
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    - HostAssociated
    - HumanAssociated
    - HumanGut
    - HumanOral
    - HumanSkin
    - HumanVaginal
    - HydrocarbonResourcesCores
    - HydrocarbonResourcesFluidsSwabs
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - PlantAssociated
    - Sediment
    - SymbiontAssociated
    - WastewaterSludge
    - Water
    range: string
    recommended: true
  size_frac_low:
    name: size_frac_low
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: micrometer
    description: Refers to the mesh/pore size used to pre-filter/pre-sort the sample.
      Materials larger than the size threshold are excluded from the sample
    title: size-fraction lower threshold
    examples:
    - value: 0.2 micrometer
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000735
    multivalued: false
    alias: size_frac_low
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - Water
    range: string
    required: false
    recommended: false
    pattern: ^[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?( *- *[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?)?
      *([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{scientific_float}( *- *{scientific_float})? *{text}$
      interpolated: true
      partial_match: true
  size_frac_up:
    name: size_frac_up
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: micrometer
    description: Mesh or pore size of the device used to retain the sample. Materials
      smaller than the size threshold are excluded from the sample
    title: size-fraction upper threshold
    examples:
    - value: 20 micrometer
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000736
    multivalued: false
    alias: size_frac_up
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - Water
    range: string
    required: false
    recommended: false
    pattern: ^[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?( *- *[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?)?
      *([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{scientific_float}( *- *{scientific_float})? *{text}$
      interpolated: true
      partial_match: true
  cult_isol_date:
    name: cult_isol_date
    description: The datetime marking the end of a process in which a sample yields
      a positive result for the target microbial analyte(s) in the form of an isolated
      colony or colonies
    title: culture isolation date
    examples:
    - value: '2018-05-11T10:00:00+01:00'
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0001181
    multivalued: false
    alias: cult_isol_date
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: datetime
    required: false
    recommended: false
  samp_pooling:
    name: samp_pooling
    description: Physical combination of several instances of like material, e.g.
      RNA extracted from samples or dishes of cell cultures into one big aliquot of
      cells. Please provide a short description of the samples that were pooled
    title: sample pooling
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0001153
    multivalued: true
    alias: samp_pooling
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: string
    recommended: true
  root_med_macronutr:
    name: root_med_macronutr
    annotations:
      Expected_value:
        tag: Expected_value
        value: macronutrient name;measurement value
      Preferred_unit:
        tag: Preferred_unit
        value: milligram per liter
    description: Measurement of the culture rooting medium macronutrients (N,P, K,
      Ca, Mg, S); e.g. KH2PO4 (170 mg/L)
    title: rooting medium macronutrients
    examples:
    - value: KH2PO4;170  milligram per liter
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{text};{float} {unit}'
    slot_uri: MIXS:0000578
    multivalued: false
    alias: root_med_macronutr
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - PlantAssociated
    range: string
    required: false
    recommended: false
  root_med_carbon:
    name: root_med_carbon
    annotations:
      Expected_value:
        tag: Expected_value
        value: carbon source name;measurement value
      Preferred_unit:
        tag: Preferred_unit
        value: milligram per liter
    description: Source of organic carbon in the culture rooting medium; e.g. sucrose
    title: rooting medium carbon
    examples:
    - value: sucrose
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{text};{float} {unit}'
    slot_uri: MIXS:0000577
    multivalued: false
    alias: root_med_carbon
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - PlantAssociated
    range: string
    required: false
    recommended: false
  root_med_ph:
    name: root_med_ph
    description: pH measurement of the culture rooting medium; e.g. 5.5
    title: rooting medium pH
    examples:
    - value: '7.5'
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0001062
    multivalued: false
    alias: root_med_ph
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - PlantAssociated
    range: float
    required: false
    recommended: false
  specific_host:
    name: specific_host
    description: Report the host's taxonomic name and/or NCBI taxonomy ID
    title: host scientific name
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{text}|{NCBI taxid}'
    slot_uri: MIXS:0000029
    multivalued: false
    alias: specific_host
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsPl
    - MigsVi
    - Miuvig
    - Agriculture
    range: string
    required: true
  pathogenicity:
    name: pathogenicity
    description: To what is the entity pathogenic
    title: known pathogenicity
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{text}'
    slot_uri: MIXS:0000027
    multivalued: false
    alias: pathogenicity
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsVi
    - Miuvig
    - Agriculture
    range: string
    required: true
  biotic_relationship:
    name: biotic_relationship
    description: Description of relationship(s) between the subject organism and other
      organism(s) it is associated with. E.g., parasite on species X; mutualist with
      species Y. The target organism is the subject of the relationship, and the other
      organism(s) is the object
    title: observed biotic relationship
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000028
    multivalued: false
    alias: biotic_relationship
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsVi
    - MimarksC
    - Miuvig
    - Agriculture
    range: BIOTIC_RELATIONSHIP_ENUM
    recommended: true
  water_temp_regm:
    name: water_temp_regm
    description: Information about treatment involving an exposure to water with varying
      degree of temperature, treatment regimen including how many times the treatment
      was repeated, how long each treatment lasted, and the start and end time of
      the entire treatment; can include multiple regimens
    title: water temperature regimen
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{float} {unit};{period};{interval};{period}'
    slot_uri: MIXS:0000590
    multivalued: true
    alias: water_temp_regm
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - PlantAssociated
    range: string
    recommended: true
  watering_regm:
    name: watering_regm
    description: Information about treatment involving an exposure to watering frequencies,
      treatment regimen including how many times the treatment was repeated, how long
      each treatment lasted, and the start and end time of the entire treatment; can
      include multiple regimens
    title: watering regimen
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{float} {unit};{period};{interval};{period}'
    slot_uri: MIXS:0000591
    multivalued: true
    alias: watering_regm
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - PlantAssociated
    range: string
    recommended: true
  standing_water_regm:
    name: standing_water_regm
    description: Treatment involving an exposure to standing water during a plant's
      life span, types can be flood water or standing water, treatment regimen including
      how many times the treatment was repeated, how long each treatment lasted, and
      the start and end time of the entire treatment; can include multiple regimens
    title: standing water regimen
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{text};{period};{interval};{period}'
    slot_uri: MIXS:0001069
    multivalued: true
    alias: standing_water_regm
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - PlantAssociated
    range: string
    recommended: true
  gaseous_environment:
    name: gaseous_environment
    description: Use of conditions with differing gaseous environments; should include
      the name of gaseous compound, amount administered, treatment duration, interval
      and total experimental duration; can include multiple gaseous environment regimens
    title: gaseous environment
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{text};{float} {unit};{period};{interval};{period}'
    slot_uri: MIXS:0000558
    multivalued: true
    alias: gaseous_environment
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - PlantAssociated
    range: string
    recommended: true
  fungicide_regm:
    name: fungicide_regm
    description: Information about treatment involving use of fungicides; should include
      the name of fungicide, amount administered, treatment regimen including how
      many times the treatment was repeated, how long each treatment lasted, and the
      start and end time of the entire treatment; can include multiple fungicide regimens
    title: fungicide regimen
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{text};{float} {unit};{period};{interval};{period}'
    slot_uri: MIXS:0000557
    multivalued: true
    alias: fungicide_regm
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - PlantAssociated
    range: string
    recommended: true
  climate_environment:
    name: climate_environment
    description: Treatment involving an exposure to a particular climate; treatment
      regimen including how many times the treatment was repeated, how long each treatment
      lasted, and the start and end time of the entire treatment; can include multiple
      climates
    title: climate environment
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{text};{period};{interval};{period}'
    slot_uri: MIXS:0001040
    multivalued: true
    alias: climate_environment
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - PlantAssociated
    range: string
    recommended: true
  herbicide_regm:
    name: herbicide_regm
    description: Information about treatment involving use of herbicides; information
      about treatment involving use of growth hormones; should include the name of
      herbicide, amount administered, treatment regimen including how many times the
      treatment was repeated, how long each treatment lasted, and the start and end
      time of the entire treatment; can include multiple regimens
    title: herbicide regimen
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{text};{float} {unit};{period};{interval};{period}'
    slot_uri: MIXS:0000561
    multivalued: true
    alias: herbicide_regm
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - PlantAssociated
    range: string
    recommended: true
  non_min_nutr_regm:
    name: non_min_nutr_regm
    description: Information about treatment involving the exposure of plant to non-mineral
      nutrient such as oxygen, hydrogen or carbon; should include the name of non-mineral
      nutrient, amount administered, treatment regimen including how many times the
      treatment was repeated, how long each treatment lasted, and the start and end
      time of the entire treatment; can include multiple non-mineral nutrient regimens
    title: non-mineral nutrient regimen
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{text};{float} {unit};{period};{interval};{period}'
    slot_uri: MIXS:0000571
    multivalued: true
    alias: non_min_nutr_regm
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - PlantAssociated
    range: string
    recommended: true
  pesticide_regm:
    name: pesticide_regm
    description: Information about treatment involving use of insecticides; should
      include the name of pesticide, amount administered, treatment regimen including
      how many times the treatment was repeated, how long each treatment lasted, and
      the start and end time of the entire treatment; can include multiple pesticide
      regimens
    title: pesticide regimen
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{text};{float} {unit};{period};{interval};{period}'
    slot_uri: MIXS:0000573
    multivalued: true
    alias: pesticide_regm
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - PlantAssociated
    range: string
    recommended: true
  ph_regm:
    name: ph_regm
    description: Information about treatment involving exposure of plants to varying
      levels of ph of the growth media, treatment regimen including how many times
      the treatment was repeated, how long each treatment lasted, and the start and
      end time of the entire treatment; can include multiple regimen
    title: pH regimen
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{float};{period};{interval};{period}'
    slot_uri: MIXS:0001056
    multivalued: true
    alias: ph_regm
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - PlantAssociated
    range: string
    recommended: true
  salt_regm:
    name: salt_regm
    description: Information about treatment involving use of salts as supplement
      to liquid and soil growth media; should include the name of salt, amount administered,
      treatment regimen including how many times the treatment was repeated, how long
      each treatment lasted, and the start and end time of the entire treatment; can
      include multiple salt regimens
    title: salt regimen
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{text};{float} {unit};{period};{interval};{period}'
    slot_uri: MIXS:0000582
    multivalued: true
    alias: salt_regm
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - PlantAssociated
    range: string
    recommended: true
  season_environment:
    name: season_environment
    description: Treatment involving an exposure to a particular season (e.g. Winter,
      summer, rabi, rainy etc.), treatment regimen including how many times the treatment
      was repeated, how long each treatment lasted, and the start and end time of
      the entire treatment
    title: seasonal environment
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{text};{period};{interval};{period}'
    slot_uri: MIXS:0001068
    multivalued: true
    alias: season_environment
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - PlantAssociated
    range: string
    recommended: true
  perturbation:
    name: perturbation
    description: Type of perturbation, e.g. chemical administration, physical disturbance,
      etc., coupled with perturbation regimen including how many times the perturbation
      was repeated, how long each perturbation lasted, and the start and end time
      of the entire perturbation period; can include multiple perturbation types
    title: perturbation
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{text};{Rn/start_time/end_time/duration}'
    slot_uri: MIXS:0000754
    multivalued: true
    alias: perturbation
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - Air
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodHumanFoods
    - HostAssociated
    - HumanAssociated
    - HumanGut
    - HumanOral
    - HumanSkin
    - HumanVaginal
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - PlantAssociated
    - Sediment
    - SymbiontAssociated
    - WastewaterSludge
    - Water
    range: string
    recommended: true
  isol_growth_condt:
    name: isol_growth_condt
    description: Publication reference in the form of pubmed ID (pmid), digital object
      identifier (doi) or url for isolation and growth condition specifications of
      the organism/material
    title: isolation and growth condition
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000003
    multivalued: false
    alias: isol_growth_condt
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - MimarksC
    - Agriculture
    range: string
    required: false
    recommended: false
    pattern: ^^PMID:\d+$|^doi:10.\d{2,9}/.*$|^https?:\/\/(?:www\.)?[-a-zA-Z0-9@:%._\+~#=]{1,256}\.[a-zA-Z0-9()]{1,6}\b(?:[-a-zA-Z0-9()@:%_\+.~#?&\/=]*)$$
    structured_pattern:
      syntax: ^{PMID}|{DOI}|{URL}$
      interpolated: true
      partial_match: true
  samp_store_dur:
    name: samp_store_dur
    description: Duration for which the sample was stored. Indicate the duration for
      which the sample was stored written in ISO 8601 format
    title: sample storage duration
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000116
    multivalued: false
    alias: samp_store_dur
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - Air
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    - HostAssociated
    - HumanAssociated
    - HumanGut
    - HumanOral
    - HumanSkin
    - HumanVaginal
    - HydrocarbonResourcesCores
    - HydrocarbonResourcesFluidsSwabs
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - PlantAssociated
    - Sediment
    - SymbiontAssociated
    - WastewaterSludge
    - Water
    range: string
    required: true
    pattern: ^P(?:(?:\d+D|\d+M(?:\d+D)?|\d+Y(?:\d+M(?:\d+D)?)?)(?:T(?:\d+H(?:\d+M(?:\d+S)?)?|\d+M(?:\d+S)?|\d+S))?|T(?:\d+H(?:\d+M(?:\d+S)?)?|\d+M(?:\d+S)?|\d+S)|\d+W)$
    structured_pattern:
      syntax: ^{duration}$
      interpolated: true
      partial_match: true
  samp_store_loc:
    name: samp_store_loc
    description: Location at which sample was stored, usually name of a specific freezer/room
    title: sample storage location
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{text}'
    slot_uri: MIXS:0000755
    multivalued: false
    alias: samp_store_loc
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - Air
    - FoodAnimalAndAnimalFeed
    - FoodFoodProductionFacility
    - FoodHumanFoods
    - HostAssociated
    - HumanAssociated
    - HumanGut
    - HumanOral
    - HumanSkin
    - HumanVaginal
    - HydrocarbonResourcesCores
    - HydrocarbonResourcesFluidsSwabs
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - PlantAssociated
    - Sediment
    - SymbiontAssociated
    - WastewaterSludge
    - Water
    range: string
    required: true
  host_age:
    name: host_age
    description: Age of host at the time of sampling; relevant scale depends on species
      and study, e.g. Could be seconds for amoebae or centuries for trees
    title: host age
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000255
    multivalued: false
    alias: host_age
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - HostAssociated
    - HumanAssociated
    - HumanGut
    - HumanOral
    - HumanSkin
    - HumanVaginal
    - PlantAssociated
    - SymbiontAssociated
    range: string
    required: true
    pattern: ^[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?( *- *[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?)?
      *([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{scientific_float}( *- *{scientific_float})? *{text}$
      interpolated: true
      partial_match: true
  host_common_name:
    name: host_common_name
    description: Common name of the host
    title: host common name
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000248
    multivalued: false
    alias: host_common_name
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - HostAssociated
    - PlantAssociated
    - SymbiontAssociated
    range: string
    required: true
  host_genotype:
    name: host_genotype
    description: Observed genotype
    title: host genotype
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000365
    multivalued: false
    alias: host_genotype
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - HostAssociated
    - HumanAssociated
    - HumanGut
    - HumanOral
    - HumanSkin
    - HumanVaginal
    - PlantAssociated
    - SymbiontAssociated
    range: string
    required: true
  host_height:
    name: host_height
    description: The height of subject
    title: host height
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000264
    multivalued: false
    alias: host_height
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - HostAssociated
    - HumanAssociated
    - HumanGut
    - HumanOral
    - HumanSkin
    - HumanVaginal
    - PlantAssociated
    - SymbiontAssociated
    range: string
    required: true
    pattern: ^[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?( *- *[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?)?
      *([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{scientific_float}( *- *{scientific_float})? *{text}$
      interpolated: true
      partial_match: true
  host_subspecf_genlin:
    name: host_subspecf_genlin
    annotations:
      Expected_value:
        tag: Expected_value
        value: Genetic lineage below lowest rank of NCBI taxonomy, which is subspecies,
          e.g. serovar, biotype, ecotype, variety, cultivar
    description: Information about the genetic distinctness of the host organism below
      the subspecies level e.g., serovar, serotype, biotype, ecotype, variety, cultivar,
      or any relevant genetic typing schemes like Group I plasmid. Subspecies should
      not be recorded in this term, but in the NCBI taxonomy. Supply both the lineage
      name and the lineage rank separated by a colon, e.g., biovar:abc123
    title: host subspecific genetic lineage
    examples:
    - value: 'serovar:Newport, variety:glabrum, cultivar: Red Delicious'
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{rank name}:{text}'
    slot_uri: MIXS:0001318
    multivalued: true
    alias: host_subspecf_genlin
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - HostAssociated
    - PlantAssociated
    range: string
    required: false
    recommended: false
  host_length:
    name: host_length
    description: The length of subject
    title: host length
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000256
    multivalued: false
    alias: host_length
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - HostAssociated
    - PlantAssociated
    - SymbiontAssociated
    range: string
    required: true
    pattern: ^[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?( *- *[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?)?
      *([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{scientific_float}( *- *{scientific_float})? *{text}$
      interpolated: true
      partial_match: true
  host_life_stage:
    name: host_life_stage
    description: Description of life stage of host
    title: host life stage
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{text}'
    slot_uri: MIXS:0000251
    multivalued: false
    alias: host_life_stage
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - HostAssociated
    - PlantAssociated
    - SymbiontAssociated
    range: string
    required: true
  host_phenotype:
    name: host_phenotype
    description: Phenotype of human or other host. Use terms from the phenotypic quality
      ontology (pato) or the Human Phenotype Ontology (HP)
    title: host phenotype
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{termLabel} [{termID}]'
    slot_uri: MIXS:0000874
    multivalued: false
    alias: host_phenotype
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - HostAssociated
    - HumanAssociated
    - HumanGut
    - HumanOral
    - HumanSkin
    - HumanVaginal
    - PlantAssociated
    - SymbiontAssociated
    range: string
    required: true
  host_taxid:
    name: host_taxid
    description: NCBI taxon id of the host, e.g. 9606
    title: host taxid
    examples:
    - value: '9606'
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{integer}'
    slot_uri: MIXS:0000250
    multivalued: false
    alias: host_taxid
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - HostAssociated
    - PlantAssociated
    - SymbiontAssociated
    range: string
    required: true
  host_tot_mass:
    name: host_tot_mass
    description: Total mass of the host at collection, the unit depends on host
    title: host total mass
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000263
    multivalued: false
    alias: host_tot_mass
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - HostAssociated
    - HumanAssociated
    - HumanGut
    - HumanOral
    - HumanSkin
    - HumanVaginal
    - PlantAssociated
    - SymbiontAssociated
    range: string
    required: true
    pattern: ^[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?( *- *[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?)?
      *([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{scientific_float}( *- *{scientific_float})? *{text}$
      interpolated: true
      partial_match: true
  host_spec_range:
    name: host_spec_range
    description: The range and diversity of host species that an organism is capable
      of infecting, defined by NCBI taxonomy identifier
    title: host specificity or range
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{integer}'
    slot_uri: MIXS:0000030
    multivalued: true
    alias: host_spec_range
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MigsPl
    - MigsVi
    - Miuvig
    - Agriculture
    range: string
    required: true
  trophic_level:
    name: trophic_level
    description: Trophic levels are the feeding position in a food chain. Microbes
      can be a range of producers (e.g. chemolithotroph)
    title: trophic level
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000032
    multivalued: false
    alias: trophic_level
    owner: MimagAgriculture
    domain_of:
    - MigsBa
    - MigsEu
    - MimarksC
    - Agriculture
    range: TROPHIC_LEVEL_ENUM
    recommended: true
  plant_product:
    name: plant_product
    description: Substance produced by the plant, where the sample was obtained from
    title: plant product
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{text}'
    slot_uri: MIXS:0001058
    multivalued: false
    alias: plant_product
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - PlantAssociated
    range: string
    recommended: true
  oxy_stat_samp:
    name: oxy_stat_samp
    description: Oxygenation status of sample
    title: oxygenation status of sample
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000753
    multivalued: false
    alias: oxy_stat_samp
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - Air
    - HostAssociated
    - HumanAssociated
    - HumanGut
    - HumanOral
    - HumanSkin
    - HumanVaginal
    - HydrocarbonResourcesCores
    - HydrocarbonResourcesFluidsSwabs
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - PlantAssociated
    - Sediment
    - SymbiontAssociated
    - WastewaterSludge
    - Water
    range: OXY_STAT_SAMP_ENUM
    recommended: true
  pcr_primers:
    name: pcr_primers
    description: PCR primers that were used to amplify the sequence of the targeted
      gene, locus or subfragment. This field should contain all the primers used for
      a single PCR reaction if multiple forward or reverse primers are present in
      a single PCR reaction. The primer sequence should be reported in uppercase letters
    title: pcr primers
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: FWD:{dna};REV:{dna}
    slot_uri: MIXS:0000046
    multivalued: false
    alias: pcr_primers
    owner: MimagAgriculture
    domain_of:
    - MimarksC
    - MimarksS
    - Agriculture
    range: string
    required: true
  target_gene:
    name: target_gene
    description: Targeted gene or locus name for marker gene studies
    title: target gene
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000044
    multivalued: false
    alias: target_gene
    owner: MimagAgriculture
    domain_of:
    - MimarksC
    - MimarksS
    - Agriculture
    range: string
    required: true
  target_subfragment:
    name: target_subfragment
    description: Name of subfragment of a gene or locus. Important to e.g. identify
      special regions on marker genes like V6 on 16S rRNA
    title: target subfragment
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000045
    multivalued: false
    alias: target_subfragment
    owner: MimagAgriculture
    domain_of:
    - MimarksC
    - MimarksS
    - Agriculture
    range: string
    required: true
  pcr_cond:
    name: pcr_cond
    description: Description of reaction conditions and components of PCR in the form
      of 'initial denaturation:94degC_1.5min; annealing=...'
    title: pcr conditions
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: initial denaturation:degrees_minutes;annealing:degrees_minutes;elongation:degrees_minutes;final
      elongation:degrees_minutes;total cycles
    slot_uri: MIXS:0000049
    multivalued: false
    alias: pcr_cond
    owner: MimagAgriculture
    domain_of:
    - MimarksC
    - MimarksS
    - Agriculture
    range: string
    required: true
  seq_quality_check:
    name: seq_quality_check
    description: Indicate if the sequence has been called by automatic systems (none)
      or undergone a manual editing procedure (e.g. by inspecting the raw data or
      chromatograms). Applied only for sequences that are not submitted to SRA,ENA
      or DRA
    title: sequence quality check
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000051
    multivalued: false
    alias: seq_quality_check
    owner: MimagAgriculture
    domain_of:
    - MimarksC
    - MimarksS
    - Agriculture
    range: SEQ_QUALITY_CHECK_ENUM
    required: false
    recommended: false
  chimera_check:
    name: chimera_check
    description: Tool(s) used for chimera checking, including version number and parameters,
      to discover and remove chimeric sequences. A chimeric sequence is comprised
      of two or more phylogenetically distinct parent sequences
    title: chimera check software
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000052
    multivalued: false
    alias: chimera_check
    owner: MimagAgriculture
    domain_of:
    - MimarksC
    - MimarksS
    - Agriculture
    range: string
    required: true
    pattern: ^([^\s-]{1,2}|[^\s-]+.+[^\s-]+);([^\s-]{1,2}|[^\s-]+.+[^\s-]+);([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{software};{version};{parameters}$
      interpolated: true
      partial_match: true
  fao_class:
    name: fao_class
    description: Soil classification from the FAO World Reference Database for Soil
      Resources. The list can be found at http://www.fao.org/nr/land/sols/soil/wrb-soil-maps/reference-groups
    title: soil_taxonomic/FAO classification
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0001083
    multivalued: false
    alias: fao_class
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - Soil
    range: FAO_CLASS_ENUM
    recommended: true
  local_class:
    name: local_class
    description: Soil classification based on local soil classification system
    title: soil_taxonomic/local classification
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{text}'
    slot_uri: MIXS:0000330
    multivalued: false
    alias: local_class
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - Soil
    range: string
    recommended: true
  local_class_meth:
    name: local_class_meth
    description: Reference or method used in determining the local soil classification
    title: soil_taxonomic/local classification method
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000331
    multivalued: false
    alias: local_class_meth
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - Soil
    range: string
    recommended: true
    pattern: ^^PMID:\d+$|^doi:10.\d{2,9}/.*$|^https?:\/\/(?:www\.)?[-a-zA-Z0-9@:%._\+~#=]{1,256}\.[a-zA-Z0-9()]{1,6}\b(?:[-a-zA-Z0-9()@:%_\+.~#?&\/=]*)$$
    structured_pattern:
      syntax: ^{PMID}|{DOI}|{URL}$
      interpolated: true
      partial_match: true
  soil_type:
    name: soil_type
    description: Description of the soil type or classification. This field accepts
      terms under soil (http://purl.obolibrary.org/obo/ENVO_00001998).  Multiple terms
      can be separated by pipes
    title: soil type
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{text}'
    slot_uri: MIXS:0000332
    multivalued: false
    alias: soil_type
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - Soil
    range: string
    required: true
  soil_type_meth:
    name: soil_type_meth
    description: Reference or method used in determining soil series name or other
      lower-level classification
    title: soil type method
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000334
    multivalued: false
    alias: soil_type_meth
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - Soil
    range: string
    required: true
    pattern: ^^PMID:\d+$|^doi:10.\d{2,9}/.*$|^https?:\/\/(?:www\.)?[-a-zA-Z0-9@:%._\+~#=]{1,256}\.[a-zA-Z0-9()]{1,6}\b(?:[-a-zA-Z0-9()@:%_\+.~#?&\/=]*)$$
    structured_pattern:
      syntax: ^{PMID}|{DOI}|{URL}$
      interpolated: true
      partial_match: true
  soil_horizon:
    name: soil_horizon
    description: Specific layer in the land area which measures parallel to the soil
      surface and possesses physical characteristics which differ from the layers
      above and beneath
    title: soil horizon
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0001082
    multivalued: false
    alias: soil_horizon
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - Soil
    range: SOIL_HORIZON_ENUM
    recommended: true
  horizon_meth:
    name: horizon_meth
    description: Reference or method used in determining the horizon
    title: horizon method
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000321
    multivalued: false
    alias: horizon_meth
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - Soil
    range: string
    recommended: true
    pattern: ^^PMID:\d+$|^doi:10.\d{2,9}/.*$|^https?:\/\/(?:www\.)?[-a-zA-Z0-9@:%._\+~#=]{1,256}\.[a-zA-Z0-9()]{1,6}\b(?:[-a-zA-Z0-9()@:%_\+.~#?&\/=]*)$$
    structured_pattern:
      syntax: ^{PMID}|{DOI}|{URL}$
      interpolated: true
      partial_match: true
  link_class_info:
    name: link_class_info
    annotations:
      Expected_value:
        tag: Expected_value
        value: PMID,DOI or url
    description: Link to digitized soil maps or other soil classification information
    title: link to classification information
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{termLabel} [{termID}]'
    slot_uri: MIXS:0000329
    multivalued: false
    alias: link_class_info
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - Soil
    range: string
    required: false
    recommended: false
  previous_land_use:
    name: previous_land_use
    description: Previous land use and dates
    title: history/previous land use
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{text};{timestamp}'
    slot_uri: MIXS:0000315
    multivalued: false
    alias: previous_land_use
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - Soil
    range: string
    recommended: true
  prev_land_use_meth:
    name: prev_land_use_meth
    description: Reference or method used in determining previous land use and dates
    title: history/previous land use method
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000316
    multivalued: false
    alias: prev_land_use_meth
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - Soil
    range: string
    recommended: true
    pattern: ^^PMID:\d+$|^doi:10.\d{2,9}/.*$|^https?:\/\/(?:www\.)?[-a-zA-Z0-9@:%._\+~#=]{1,256}\.[a-zA-Z0-9()]{1,6}\b(?:[-a-zA-Z0-9()@:%_\+.~#?&\/=]*)$$
    structured_pattern:
      syntax: ^{PMID}|{DOI}|{URL}$
      interpolated: true
      partial_match: true
  crop_rotation:
    name: crop_rotation
    description: Whether or not crop is rotated, and if yes, rotation schedule
    title: history/crop rotation
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{boolean};Rn/{timestamp}/{period}'
    slot_uri: MIXS:0000318
    multivalued: false
    alias: crop_rotation
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - Soil
    range: string
    recommended: true
  agrochem_addition:
    name: agrochem_addition
    annotations:
      Expected_value:
        tag: Expected_value
        value: agrochemical name;agrochemical amount;timestamp
      Preferred_unit:
        tag: Preferred_unit
        value: gram, mole per liter, milligram per liter
    description: Addition of fertilizers, pesticides, etc. - amount and time of applications
    title: history/agrochemical additions
    examples:
    - value: roundup;5 milligram per liter;2018-06-21
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{text};{float} {unit};{timestamp}'
    slot_uri: MIXS:0000639
    multivalued: true
    alias: agrochem_addition
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - Soil
    range: string
    required: false
    recommended: false
  tillage:
    name: tillage
    description: Note method(s) used for tilling
    title: history/tillage
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0001081
    multivalued: true
    alias: tillage
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - Soil
    range: TILLAGE_ENUM
    recommended: true
  fire:
    name: fire
    description: Historical and/or physical evidence of fire
    title: history/fire
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0001086
    multivalued: false
    alias: fire
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - Soil
    range: datetime
    recommended: true
  flooding:
    name: flooding
    description: Historical and/or physical evidence of flooding
    title: history/flooding
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000319
    multivalued: false
    alias: flooding
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - Soil
    range: datetime
    recommended: true
  extreme_event:
    name: extreme_event
    description: Unusual physical events that may have affected microbial populations
    title: history/extreme events
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000320
    multivalued: false
    alias: extreme_event
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - Soil
    range: datetime
    recommended: true
  link_climate_info:
    name: link_climate_info
    description: Link to climate resource
    title: link to climate information
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000328
    multivalued: false
    alias: link_climate_info
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - Soil
    range: string
    required: false
    recommended: false
    pattern: ^^PMID:\d+$|^doi:10.\d{2,9}/.*$|^https?:\/\/(?:www\.)?[-a-zA-Z0-9@:%._\+~#=]{1,256}\.[a-zA-Z0-9()]{1,6}\b(?:[-a-zA-Z0-9()@:%_\+.~#?&\/=]*)$$
    structured_pattern:
      syntax: ^{PMID}|{DOI}|{URL}$
      interpolated: true
      partial_match: true
  annual_temp:
    name: annual_temp
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: degree Celsius
    description: Mean annual temperature
    title: mean annual temperature
    examples:
    - value: 12.5 degree Celsius
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000642
    multivalued: false
    alias: annual_temp
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - Soil
    range: string
    required: false
    recommended: false
    pattern: ^[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?( *- *[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?)?
      *([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{scientific_float}( *- *{scientific_float})? *{text}$
      interpolated: true
      partial_match: true
  season_temp:
    name: season_temp
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: degree Celsius
    description: Mean seasonal temperature
    title: mean seasonal temperature
    examples:
    - value: 18 degree Celsius
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000643
    multivalued: false
    alias: season_temp
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - Soil
    range: string
    required: false
    recommended: false
    pattern: ^[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?( *- *[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?)?
      *([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{scientific_float}( *- *{scientific_float})? *{text}$
      interpolated: true
      partial_match: true
  annual_precpt:
    name: annual_precpt
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: millimeter
    description: The average of all annual precipitation values known, or an estimated
      equivalent value derived by such methods as regional indexes or Isohyetal maps
    title: mean annual precipitation
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000644
    multivalued: false
    alias: annual_precpt
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - Soil
    range: string
    required: false
    recommended: false
    pattern: ^[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?( *- *[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?)?
      *([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{scientific_float}( *- *{scientific_float})? *{text}$
      interpolated: true
      partial_match: true
  season_precpt:
    name: season_precpt
    description: The average of all seasonal precipitation values known, or an estimated
      equivalent value derived by such methods as regional indexes or Isohyetal maps
    title: mean seasonal precipitation
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000645
    multivalued: false
    alias: season_precpt
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - Soil
    range: string
    required: false
    recommended: false
    pattern: ^[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?( *- *[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?)?
      *([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{scientific_float}( *- *{scientific_float})? *{text}$
      interpolated: true
      partial_match: true
  cur_land_use:
    name: cur_land_use
    annotations:
      Expected_value:
        tag: Expected_value
        value: enumeration
    description: Present state of sample site
    title: current land use
    examples:
    - value: conifers
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '[cities|farmstead|industrial areas|roads/railroads|rock|sand|gravel|mudflats|salt
      flats|badlands|permanent snow or ice|saline seeps|mines/quarries|oil waste areas|small
      grains|row crops|vegetable crops|horticultural plants (e.g. tulips)|marshlands
      (grass,sedges,rushes)|tundra (mosses,lichens)|rangeland|pastureland (grasslands
      used for livestock grazing)|hayland|meadows (grasses,alfalfa,fescue,bromegrass,timothy)|shrub
      land (e.g. mesquite,sage-brush,creosote bush,shrub oak,eucalyptus)|successional
      shrub land (tree saplings,hazels,sumacs,chokecherry,shrub dogwoods,blackberries)|shrub
      crops (blueberries,nursery ornamentals,filberts)|vine crops (grapes)|conifers
      (e.g. pine,spruce,fir,cypress)|hardwoods (e.g. oak,hickory,elm,aspen)|intermixed
      hardwood and conifers|tropical (e.g. mangrove,palms)|rainforest (evergreen forest
      receiving >406 cm annual rainfall)|swamp (permanent or semi-permanent water
      body dominated by woody plants)|crop trees (nuts,fruit,christmas trees,nursery
      trees)]'
    slot_uri: MIXS:0001080
    multivalued: false
    alias: cur_land_use
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - Soil
    range: string
    required: false
    recommended: false
  slope_gradient:
    name: slope_gradient
    description: Commonly called 'slope'. The angle between ground surface and a horizontal
      line (in percent). This is the direction that overland water would flow. This
      measure is usually taken with a hand level meter or clinometer
    title: slope gradient
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000646
    multivalued: false
    alias: slope_gradient
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - Soil
    range: string
    recommended: true
    pattern: ^[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?( *- *[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?)?
      *([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{scientific_float}( *- *{scientific_float})? *{text}$
      interpolated: true
      partial_match: true
  slope_aspect:
    name: slope_aspect
    description: The direction a slope faces. While looking down a slope use a compass
      to record the direction you are facing (direction or degrees); e.g., nw or 315
      degrees. This measure provides an indication of sun and wind exposure that will
      influence soil temperature and evapotranspiration
    title: slope aspect
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000647
    multivalued: false
    alias: slope_aspect
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - Soil
    range: string
    recommended: true
    pattern: ^[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?( *- *[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?)?
      *([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{scientific_float}( *- *{scientific_float})? *{text}$
      interpolated: true
      partial_match: true
  profile_position:
    name: profile_position
    description: Cross-sectional position in the hillslope where sample was collected.sample
      area position in relation to surrounding areas
    title: profile position
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0001084
    multivalued: false
    alias: profile_position
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - Soil
    range: PROFILE_POSITION_ENUM
    recommended: true
  drainage_class:
    name: drainage_class
    description: Drainage classification from a standard system such as the USDA system
    title: drainage classification
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0001085
    multivalued: false
    alias: drainage_class
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - Soil
    range: DRAINAGE_CLASS_ENUM
    recommended: true
  store_cond:
    name: store_cond
    description: Explain how and for how long the soil sample was stored before DNA
      extraction (fresh/frozen/other)
    title: storage conditions
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{text};{period}'
    slot_uri: MIXS:0000327
    multivalued: false
    alias: store_cond
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - Soil
    range: string
    required: true
  ph_meth:
    name: ph_meth
    description: Reference or method used in determining pH
    title: pH method
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0001106
    multivalued: false
    alias: ph_meth
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - Soil
    range: string
    recommended: true
    pattern: ^^PMID:\d+$|^doi:10.\d{2,9}/.*$|^https?:\/\/(?:www\.)?[-a-zA-Z0-9@:%._\+~#=]{1,256}\.[a-zA-Z0-9()]{1,6}\b(?:[-a-zA-Z0-9()@:%_\+.~#?&\/=]*)$$
    structured_pattern:
      syntax: ^{PMID}|{DOI}|{URL}$
      interpolated: true
      partial_match: true
  cur_vegetation:
    name: cur_vegetation
    description: Vegetation classification from one or more standard classification
      systems, or agricultural crop
    title: current vegetation
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{text}'
    slot_uri: MIXS:0000312
    multivalued: false
    alias: cur_vegetation
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - Soil
    range: string
    recommended: true
  cur_vegetation_meth:
    name: cur_vegetation_meth
    description: Reference or method used in vegetation classification
    title: current vegetation method
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000314
    multivalued: false
    alias: cur_vegetation_meth
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - Soil
    range: string
    recommended: true
    pattern: ^^PMID:\d+$|^doi:10.\d{2,9}/.*$|^https?:\/\/(?:www\.)?[-a-zA-Z0-9@:%._\+~#=]{1,256}\.[a-zA-Z0-9()]{1,6}\b(?:[-a-zA-Z0-9()@:%_\+.~#?&\/=]*)$$
    structured_pattern:
      syntax: ^{PMID}|{DOI}|{URL}$
      interpolated: true
      partial_match: true
  tot_org_carb:
    name: tot_org_carb
    description: Total organic carbon content
    title: total organic carbon
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000533
    multivalued: false
    alias: tot_org_carb
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - MicrobialMatBiofilm
    - Sediment
    - Soil
    range: string
    recommended: true
    pattern: ^[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?( *- *[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?)?
      *([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{scientific_float}( *- *{scientific_float})? *{text}$
      interpolated: true
      partial_match: true
  tot_org_c_meth:
    name: tot_org_c_meth
    description: Reference or method used in determining total organic carbon
    title: total organic carbon method
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000337
    multivalued: false
    alias: tot_org_c_meth
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - Soil
    range: string
    recommended: true
    pattern: ^^PMID:\d+$|^doi:10.\d{2,9}/.*$|^https?:\/\/(?:www\.)?[-a-zA-Z0-9@:%._\+~#=]{1,256}\.[a-zA-Z0-9()]{1,6}\b(?:[-a-zA-Z0-9()@:%_\+.~#?&\/=]*)$$
    structured_pattern:
      syntax: ^{PMID}|{DOI}|{URL}$
      interpolated: true
      partial_match: true
  tot_nitro_content:
    name: tot_nitro_content
    description: Total nitrogen content of the sample
    title: total nitrogen content
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000530
    multivalued: false
    alias: tot_nitro_content
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - MicrobialMatBiofilm
    - Sediment
    - Soil
    range: string
    recommended: true
    pattern: ^[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?( *- *[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?)?
      *([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{scientific_float}( *- *{scientific_float})? *{text}$
      interpolated: true
      partial_match: true
  tot_nitro_cont_meth:
    name: tot_nitro_cont_meth
    description: Reference or method used in determining the total nitrogen
    title: total nitrogen content method
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000338
    multivalued: false
    alias: tot_nitro_cont_meth
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - Soil
    range: string
    recommended: true
    pattern: ^^PMID:\d+$|^doi:10.\d{2,9}/.*$|^https?:\/\/(?:www\.)?[-a-zA-Z0-9@:%._\+~#=]{1,256}\.[a-zA-Z0-9()]{1,6}\b(?:[-a-zA-Z0-9()@:%_\+.~#?&\/=]*)$$
    structured_pattern:
      syntax: ^{PMID}|{DOI}|{URL}$
      interpolated: true
      partial_match: true
  microbial_biomass:
    name: microbial_biomass
    description: The part of the organic matter in the soil that constitutes living
      microorganisms smaller than 5-10 micrometer. If you keep this, you would need
      to have correction factors used for conversion to the final units
    title: microbial biomass
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000650
    multivalued: false
    alias: microbial_biomass
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - Soil
    range: string
    required: true
    pattern: ^[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?( *- *[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?)?
      *([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{scientific_float}( *- *{scientific_float})? *{text}$
      interpolated: true
      partial_match: true
  micro_biomass_meth:
    name: micro_biomass_meth
    description: Reference or method used in determining microbial biomass
    title: microbial biomass method
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000339
    alias: micro_biomass_meth
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - Soil
    range: string
    required: true
    pattern: ^^PMID:\d+$|^doi:10.\d{2,9}/.*$|^https?:\/\/(?:www\.)?[-a-zA-Z0-9@:%._\+~#=]{1,256}\.[a-zA-Z0-9()]{1,6}\b(?:[-a-zA-Z0-9()@:%_\+.~#?&\/=]*)$$
    structured_pattern:
      syntax: ^{PMID}|{DOI}|{URL}$
      interpolated: true
      partial_match: true
  heavy_metals_meth:
    name: heavy_metals_meth
    description: Reference or method used in determining heavy metals
    title: extreme_unusual_properties/heavy metals method
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{PMID|DOI|URL}'
    slot_uri: MIXS:0000343
    multivalued: false
    alias: heavy_metals_meth
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - Soil
    range: string
    recommended: true
    pattern: ^^PMID:\d+$|^doi:10.\d{2,9}/.*$|^https?:\/\/(?:www\.)?[-a-zA-Z0-9@:%._\+~#=]{1,256}\.[a-zA-Z0-9()]{1,6}\b(?:[-a-zA-Z0-9()@:%_\+.~#?&\/=]*)$$
    structured_pattern:
      syntax: ^{PMID}|{DOI}|{URL}$
      interpolated: true
      partial_match: true
  tot_carb:
    name: tot_carb
    description: Total carbon content
    title: total carbon
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000525
    multivalued: false
    alias: tot_carb
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - MicrobialMatBiofilm
    - Sediment
    range: string
    recommended: true
    pattern: ^[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?( *- *[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?)?
      *([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{scientific_float}( *- *{scientific_float})? *{text}$
      interpolated: true
      partial_match: true
  tot_phosphate:
    name: tot_phosphate
    description: Total amount or concentration of phosphate
    title: total phosphate
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000689
    multivalued: false
    alias: tot_phosphate
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - WastewaterSludge
    range: string
    recommended: true
    pattern: ^[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?( *- *[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?)?
      *([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{scientific_float}( *- *{scientific_float})? *{text}$
      interpolated: true
      partial_match: true
  sieving:
    name: sieving
    description: Collection design of pooled samples and/or sieve size and amount
      of sample sieved
    title: sieving
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{text};{float} {unit}'
    slot_uri: MIXS:0000322
    multivalued: false
    alias: sieving
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - Soil
    range: string
    required: true
  pool_dna_extracts:
    name: pool_dna_extracts
    description: Indicate whether multiple DNA extractions were mixed. If the answer
      yes, the number of extracts that were pooled should be given
    title: pooling of DNA extracts (if done)
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{boolean};{float} {unit}'
    slot_uri: MIXS:0000325
    multivalued: false
    alias: pool_dna_extracts
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - FoodAnimalAndAnimalFeed
    - FoodFoodProductionFacility
    - FoodHumanFoods
    - Soil
    range: string
    required: true
  misc_param:
    name: misc_param
    annotations:
      Expected_value:
        tag: Expected_value
        value: parameter name;measurement value
    description: Any other measurement performed or parameter collected, that is not
      listed here
    title: miscellaneous parameter
    examples:
    - value: Bicarbonate ion concentration;2075 micromole per kilogram
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{text};{float} {unit}'
    slot_uri: MIXS:0000752
    multivalued: true
    alias: misc_param
    owner: MimagAgriculture
    domain_of:
    - Agriculture
    - Air
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    - HostAssociated
    - HumanAssociated
    - HumanGut
    - HumanOral
    - HumanSkin
    - HumanVaginal
    - HydrocarbonResourcesCores
    - HydrocarbonResourcesFluidsSwabs
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - PlantAssociated
    - Sediment
    - Soil
    - SymbiontAssociated
    - WastewaterSludge
    - Water
    range: string
    required: false
    recommended: false
class_uri: MIXS:0010011_0016018