Combination: MimsMicrobialMatBiofilm

MIxS data that complies with the Mims checklist and the MicrobialMatBiofilm Extension

Inheritance

• Extension
  • MicrobialMatBiofilm
    • MimsMicrobialMatBiofilm [ Mims]

Terms

Name	Cardinality and Range	Description	Inheritance
samp_name	1..1 String	A local identifier or name that for the material sample used for extracting n...	MicrobialMatBiofilm, Mims
size_frac	0..1 String	Filtering pore size used in sample preparation	Mims
lib_screen	0..1 recommended String	Specific enrichment or screening methods applied before and/or after creating...	Mims
ref_db	0..1 String	List of database(s) used for ORF annotation, along with version number and re...	Mims
nucl_acid_amp	0..1 recommended String	A link to a literature reference, electronic resource or a standard operating...	Mims
lib_size	0..1 recommended Integer	Total number of clones in the library prepared for the project	Mims
mid	0..1 recommended String	Molecular barcodes, called Multiplex Identifiers (MIDs), that are used to spe...	Mims
assembly_name	0..1 recommended String	Name/version of the assembly provided by the submitter that is used in the ge...	Mims
temp	0..1 recommended String	Temperature of the sample at the time of sampling	MicrobialMatBiofilm, Mims
nucl_acid_ext	0..1 recommended String	A link to a literature reference, electronic resource or a standard operating...	Mims
samp_size	0..1 recommended String	The total amount or size (volume (ml), mass (g) or area (m2) ) of sample coll...	Mims
alt	0..1 recommended String	Heights of objects such as airplanes, space shuttles, rockets, atmospheric ba...	Mims
source_mat_id	0..* recommended String	A unique identifier assigned to a material sample (as defined by http://rs	Mims
samp_vol_we_dna_ext	0..1 String	Volume (ml) or mass (g) of total collected sample processed for DNA extractio...	MicrobialMatBiofilm, Mims
lib_reads_seqd	0..1 recommended Integer	Total number of clones sequenced from the library	Mims
rel_to_oxygen	0..1 RELTOOXYGENENUM	Is this organism an aerobe, anaerobe? Please note that aerobic and anaerobic ...	Mims
samp_collect_device	0..1 recommended String	The device used to collect an environmental sample	Mims
number_contig	0..1 recommended Integer	Total number of contigs in the cleaned/submitted assembly that makes up a giv...	Mims
lib_layout	0..1 recommended LIBLAYOUTENUM	Specify whether to expect single, paired, or other configuration of reads	Mims
assembly_qual	0..1 recommended String	The assembly quality category is based on sets of criteria outlined for each ...	Mims
ref_biomaterial	0..1 String	Primary publication if isolated before genome publication; otherwise, primary...	Mims
project_name	1..1 String	Name of the project within which the sequencing was organized	MicrobialMatBiofilm, Mims
lib_vector	0..1 recommended String	Cloning vector type(s) used in construction of libraries	Mims
adapters	0..1 recommended String	Adapters provide priming sequences for both amplification and sequencing of t...	Mims
neg_cont_type	0..1 recommended NEGCONTTYPEENUM	The substance or equipment used as a negative control in an investigation	Mims
assembly_software	0..1 recommended String	Tool(s) used for assembly, including version number and parameters	Mims
annot	0..1 recommended String	Tool used for annotation, or for cases where annotation was provided by a com...	Mims
pos_cont_type	0..1 recommended String	The substance, mixture, product, or apparatus used to verify that a process w...	Mims
feat_pred	0..1 String	Method used to predict UViGs features such as ORFs, integration site, etc	Mims
env_local_scale	1..1 String	Report the entity or entities which are in the sample or specimen s local vic...	Mims
samp_mat_process	0..1 recommended String	A brief description of any processing applied to the sample during or after r...	Mims
sim_search_meth	0..1 String	Tool used to compare ORFs with database, along with version and cutoffs used	Mims
depth	0..1 recommended String	The vertical distance below local surface	MicrobialMatBiofilm, Mims
samp_collect_method	0..1 recommended String	The method employed for collecting the sample	Mims
env_medium	1..1 String	Report the environmental material(s) immediately surrounding the sample or sp...	Mims
samp_taxon_id	1..1 String	NCBI taxon id of the sample	Mims
geo_loc_name	1..1 String	The geographical origin of the sample as defined by the country or sea name f...	Mims
collection_date	1..1 Datetime	The time of sampling, either as an instance (single point in time) or interva...	Mims
seq_meth	1..1 String	Sequencing machine used	Mims
lat_lon	1..1 String	The geographical origin of the sample as defined by latitude and longitude	Mims
elev	0..1 recommended String	Elevation of the sampling site is its height above a fixed reference point, m...	MicrobialMatBiofilm, Mims
env_broad_scale	1..1 String	Report the major environmental system the sample or specimen came from	Mims
tax_class	0..1 String	Method used for taxonomic classification, along with reference database used,...	Mims
experimental_factor	0..* recommended String	Variable aspects of an experiment design that can be used to describe an expe...	Mims
associated_resource	0..* recommended String	A related resource that is referenced, cited, or otherwise associated to the ...	Mims
sop	0..* recommended String	Standard operating procedures used in assembly and/or annotation of genomes, ...	Mims
alkalinity	0..1 String	Alkalinity, the ability of a solution to neutralize acids to the equivalence ...	MicrobialMatBiofilm
alkyl_diethers	0..1 String	Concentration of alkyl diethers	MicrobialMatBiofilm
aminopept_act	0..1 String	Measurement of aminopeptidase activity	MicrobialMatBiofilm
ammonium	0..1 String	Concentration of ammonium in the sample	MicrobialMatBiofilm
bacteria_carb_prod	0..1 String	Measurement of bacterial carbon production	MicrobialMatBiofilm
biomass	0..* String	Amount of biomass; should include the name for the part of biomass measured, ...	MicrobialMatBiofilm
bishomohopanol	0..1 String	Concentration of bishomohopanol	MicrobialMatBiofilm
bromide	0..1 String	Concentration of bromide	MicrobialMatBiofilm
calcium	0..1 String	Concentration of calcium in the sample	MicrobialMatBiofilm
carb_nitro_ratio	0..1 Float	Ratio of amount or concentrations of carbon to nitrogen	MicrobialMatBiofilm
chem_administration	0..* String	List of chemical compounds administered to the host or site where sampling oc...	MicrobialMatBiofilm
chloride	0..1 String	Concentration of chloride in the sample	MicrobialMatBiofilm
chlorophyll	0..1 String	Concentration of chlorophyll	MicrobialMatBiofilm
diether_lipids	0..* String	Concentration of diether lipids; can include multiple types of diether lipids	MicrobialMatBiofilm
diss_carb_dioxide	0..1 String	Concentration of dissolved carbon dioxide in the sample or liquid portion of ...	MicrobialMatBiofilm
diss_hydrogen	0..1 String	Concentration of dissolved hydrogen	MicrobialMatBiofilm
diss_inorg_carb	0..1 String	Dissolved inorganic carbon concentration in the sample, typically measured af...	MicrobialMatBiofilm
diss_org_carb	0..1 String	Concentration of dissolved organic carbon in the sample, liquid portion of th...	MicrobialMatBiofilm
diss_org_nitro	0..1 String	Dissolved organic nitrogen concentration measured as; total dissolved nitroge...	MicrobialMatBiofilm
diss_oxygen	0..1 String	Concentration of dissolved oxygen	MicrobialMatBiofilm
glucosidase_act	0..1 String	Measurement of glucosidase activity	MicrobialMatBiofilm
magnesium	0..1 String	Concentration of magnesium in the sample	MicrobialMatBiofilm
mean_frict_vel	0..1 String	Measurement of mean friction velocity	MicrobialMatBiofilm
mean_peak_frict_vel	0..1 String	Measurement of mean peak friction velocity	MicrobialMatBiofilm
methane	0..1 String	Methane (gas) amount or concentration at the time of sampling	MicrobialMatBiofilm
misc_param	0..* String	Any other measurement performed or parameter collected, that is not listed he...	MicrobialMatBiofilm
n_alkanes	0..* String	Concentration of n-alkanes; can include multiple n-alkanes	MicrobialMatBiofilm
nitrate	0..1 String	Concentration of nitrate in the sample	MicrobialMatBiofilm
nitrite	0..1 String	Concentration of nitrite in the sample	MicrobialMatBiofilm
nitro	0..1 String	Concentration of nitrogen (total)	MicrobialMatBiofilm
org_carb	0..1 String	Concentration of organic carbon	MicrobialMatBiofilm
org_matter	0..1 String	Concentration of organic matter	MicrobialMatBiofilm
org_nitro	0..1 String	Concentration of organic nitrogen	MicrobialMatBiofilm
organism_count	0..* String	Total cell count of any organism (or group of organisms) per gram, volume or ...	MicrobialMatBiofilm
oxy_stat_samp	0..1 OXYSTATSAMPENUM	Oxygenation status of sample	MicrobialMatBiofilm
ph	0..1 Float	Ph measurement of the sample, or liquid portion of sample, or aqueous phase o...	MicrobialMatBiofilm
part_org_carb	0..1 String	Concentration of particulate organic carbon	MicrobialMatBiofilm
perturbation	0..* String	Type of perturbation, e	MicrobialMatBiofilm
petroleum_hydrocarb	0..1 String	Concentration of petroleum hydrocarbon	MicrobialMatBiofilm
phaeopigments	0..* String	Concentration of phaeopigments; can include multiple phaeopigments	MicrobialMatBiofilm
phosphate	0..1 String	Concentration of phosphate	MicrobialMatBiofilm
phosplipid_fatt_acid	0..* String	Concentration of phospholipid fatty acids; can include multiple values	MicrobialMatBiofilm
potassium	0..1 String	Concentration of potassium in the sample	MicrobialMatBiofilm
pressure	0..1 String	Pressure to which the sample is subject to, in atmospheres	MicrobialMatBiofilm
redox_potential	0..1 String	Redox potential, measured relative to a hydrogen cell, indicating oxidation o...	MicrobialMatBiofilm
salinity	0..1 String	The total concentration of all dissolved salts in a liquid or solid sample	MicrobialMatBiofilm
samp_store_dur	0..1 String	Duration for which the sample was stored	MicrobialMatBiofilm
samp_store_loc	0..1 String	Location at which sample was stored, usually name of a specific freezer/room	MicrobialMatBiofilm
samp_store_temp	0..1 String	Temperature at which sample was stored, e	MicrobialMatBiofilm
silicate	0..1 String	Concentration of silicate	MicrobialMatBiofilm
sodium	0..1 String	Sodium concentration in the sample	MicrobialMatBiofilm
sulfate	0..1 String	Concentration of sulfate in the sample	MicrobialMatBiofilm
sulfide	0..1 String	Concentration of sulfide in the sample	MicrobialMatBiofilm
tot_carb	0..1 String	Total carbon content	MicrobialMatBiofilm
tot_nitro_content	0..1 String	Total nitrogen content of the sample	MicrobialMatBiofilm
tot_org_carb	0..1 String	Total organic carbon content	MicrobialMatBiofilm
turbidity	0..1 String	Measure of the amount of cloudiness or haziness in water caused by individual...	MicrobialMatBiofilm
water_content	0..1 String	Water content measurement	MicrobialMatBiofilm

Identifier and Mapping Information

Schema Source

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

LinkML Source

Direct

name: MimsMicrobialMatBiofilm
description: MIxS data that complies with the Mims checklist and the MicrobialMatBiofilm
  Extension
title: Mims combined with MicrobialMatBiofilm
in_subset:
- combination_classes
from_schema: https://w3id.org/mixs-6-2-rc
is_a: MicrobialMatBiofilm
mixins:
- Mims
class_uri: MIXS:0010007_0016008

Induced

name: MimsMicrobialMatBiofilm
description: MIxS data that complies with the Mims checklist and the MicrobialMatBiofilm
  Extension
title: Mims combined with MicrobialMatBiofilm
in_subset:
- combination_classes
from_schema: https://w3id.org/mixs-6-2-rc
is_a: MicrobialMatBiofilm
mixins:
- Mims
attributes:
  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
    keywords:
    - sample
    slot_uri: MIXS:0001107
    multivalued: false
    alias: samp_name
    owner: MimsMicrobialMatBiofilm
    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
  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: MimsMicrobialMatBiofilm
    domain_of:
    - Mimag
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    range: string
    required: false
    recommended: false
  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: MimsMicrobialMatBiofilm
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    range: string
    recommended: true
  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: MimsMicrobialMatBiofilm
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - Mims
    - Misag
    - Miuvig
    range: string
    required: false
    recommended: false
  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: MimsMicrobialMatBiofilm
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksC
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - 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()@:%_\+.~#?&\/=]*)$$
    structured_pattern:
      syntax: ^{PMID}|{DOI}|{URL}$
      interpolated: true
      partial_match: 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: MimsMicrobialMatBiofilm
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    range: integer
    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: MimsMicrobialMatBiofilm
    domain_of:
    - Mimag
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    range: string
    recommended: true
    pattern: ^[ACGTRKSYMWBHDVN]+$
    structured_pattern:
      syntax: ^{ambiguous_nucleotides}$
      interpolated: true
      partial_match: true
  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: MimsMicrobialMatBiofilm
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    range: string
    recommended: 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: MimsMicrobialMatBiofilm
    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: 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
  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: MimsMicrobialMatBiofilm
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksC
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - 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()@:%_\+.~#?&\/=]*)$$
    structured_pattern:
      syntax: ^{PMID}|{DOI}|{URL}$
      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: MimsMicrobialMatBiofilm
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksC
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    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
  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: MimsMicrobialMatBiofilm
    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
  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: MimsMicrobialMatBiofilm
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksC
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    - SymbiontAssociated
    range: string
    recommended: 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: MimsMicrobialMatBiofilm
    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
  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: MimsMicrobialMatBiofilm
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    range: integer
    recommended: true
  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: MimsMicrobialMatBiofilm
    domain_of:
    - MigsBa
    - Mimag
    - MimarksC
    - MimarksS
    - Mims
    - Misag
    range: REL_TO_OXYGEN_ENUM
    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: MimsMicrobialMatBiofilm
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksC
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: string
    recommended: 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: MimsMicrobialMatBiofilm
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - Mims
    - Misag
    - Miuvig
    range: integer
    recommended: 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: MimsMicrobialMatBiofilm
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    range: LIB_LAYOUT_ENUM
    recommended: 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: MimsMicrobialMatBiofilm
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    range: string
    recommended: 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: MimsMicrobialMatBiofilm
    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
  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
    keywords:
    - project
    slot_uri: MIXS:0000092
    multivalued: false
    alias: project_name
    owner: MimsMicrobialMatBiofilm
    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
  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: MimsMicrobialMatBiofilm
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    range: string
    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: MimsMicrobialMatBiofilm
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    range: string
    recommended: 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
    keywords:
    - type
    slot_uri: MIXS:0001321
    multivalued: false
    alias: neg_cont_type
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksC
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    range: NEG_CONT_TYPE_ENUM
    recommended: true
  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: MimsMicrobialMatBiofilm
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    range: string
    recommended: 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
  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: MimsMicrobialMatBiofilm
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    range: string
    recommended: 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
    keywords:
    - type
    string_serialization: '{term} or {text}'
    slot_uri: MIXS:0001322
    multivalued: false
    alias: pos_cont_type
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksC
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    range: string
    recommended: true
  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: MimsMicrobialMatBiofilm
    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
  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
    keywords:
    - context
    - environmental
    string_serialization: '{termLabel} [{termID}]'
    slot_uri: MIXS:0000013
    multivalued: false
    alias: env_local_scale
    owner: MimsMicrobialMatBiofilm
    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: MimsMicrobialMatBiofilm
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksC
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    range: string
    recommended: 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: MimsMicrobialMatBiofilm
    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
  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: MimsMicrobialMatBiofilm
    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_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: MimsMicrobialMatBiofilm
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksC
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    - FoodAnimalAndAnimalFeed
    - 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
  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
    keywords:
    - environmental
    slot_uri: MIXS:0000014
    multivalued: false
    alias: env_medium
    owner: MimsMicrobialMatBiofilm
    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
  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
    keywords:
    - dna
    - identifier
    - sample
    - taxon
    slot_uri: MIXS:0001320
    multivalued: false
    alias: samp_taxon_id
    owner: MimsMicrobialMatBiofilm
    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
  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
    keywords:
    - geographic
    - location
    slot_uri: MIXS:0000010
    multivalued: false
    alias: geo_loc_name
    owner: MimsMicrobialMatBiofilm
    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
  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
    keywords:
    - date
    slot_uri: MIXS:0000011
    multivalued: false
    alias: collection_date
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksC
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    - SymbiontAssociated
    range: datetime
    required: true
  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
    keywords:
    - method
    slot_uri: MIXS:0000050
    multivalued: false
    alias: seq_meth
    owner: MimsMicrobialMatBiofilm
    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
  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
    keywords:
    - geographic
    - location
    string_serialization: '{float} {float}'
    slot_uri: MIXS:0000009
    alias: lat_lon
    owner: MimsMicrobialMatBiofilm
    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
  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: MimsMicrobialMatBiofilm
    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
    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
  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
    keywords:
    - context
    - environmental
    slot_uri: MIXS:0000012
    multivalued: false
    alias: env_broad_scale
    owner: MimsMicrobialMatBiofilm
    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
  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: MimsMicrobialMatBiofilm
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - Mims
    - Misag
    - Miuvig
    range: string
    required: false
    recommended: false
  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: MimsMicrobialMatBiofilm
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksC
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - FoodAnimalAndAnimalFeed
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: string
    recommended: true
    pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:\d+\]$
  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
    keywords:
    - resource
    string_serialization: '{PMID}|{DOI}|{URL}'
    slot_uri: MIXS:0000091
    multivalued: true
    alias: associated_resource
    owner: MimsMicrobialMatBiofilm
    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: MimsMicrobialMatBiofilm
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksC
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    range: string
    recommended: true
  alkalinity:
    name: alkalinity
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: milliequivalent per liter, milligram per liter
    description: Alkalinity, the ability of a solution to neutralize acids to the
      equivalence point of carbonate or bicarbonate
    title: alkalinity
    examples:
    - value: 50 milligram per liter
    from_schema: https://w3id.org/mixs-6-2-rc
    keywords:
    - alkalinity
    slot_uri: MIXS:0000421
    multivalued: false
    alias: alkalinity
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - HydrocarbonResourcesCores
    - HydrocarbonResourcesFluidsSwabs
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - Sediment
    - 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
  alkyl_diethers:
    name: alkyl_diethers
    description: Concentration of alkyl diethers
    title: alkyl diethers
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000490
    multivalued: false
    alias: alkyl_diethers
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - MicrobialMatBiofilm
    - Sediment
    - 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
  aminopept_act:
    name: aminopept_act
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: mole per liter per hour
    description: Measurement of aminopeptidase activity
    title: aminopeptidase activity
    examples:
    - value: 0.269 mole per liter per hour
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000172
    multivalued: false
    alias: aminopept_act
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - MicrobialMatBiofilm
    - Sediment
    - 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
  ammonium:
    name: ammonium
    description: Concentration of ammonium in the sample
    title: ammonium
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000427
    multivalued: false
    alias: ammonium
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - HydrocarbonResourcesCores
    - HydrocarbonResourcesFluidsSwabs
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - Sediment
    - 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
  bacteria_carb_prod:
    name: bacteria_carb_prod
    description: Measurement of bacterial carbon production
    title: bacterial carbon production
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000173
    multivalued: false
    alias: bacteria_carb_prod
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - MicrobialMatBiofilm
    - Sediment
    - 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
  biomass:
    name: biomass
    annotations:
      Expected_value:
        tag: Expected_value
        value: biomass type;measurement value
      Preferred_unit:
        tag: Preferred_unit
        value: ton, kilogram, gram
    description: Amount of biomass; should include the name for the part of biomass
      measured, e.g. Microbial, total. Can include multiple measurements
    title: biomass
    examples:
    - value: total;20 gram
    from_schema: https://w3id.org/mixs-6-2-rc
    keywords:
    - biomass
    string_serialization: '{text};{float} {unit}'
    slot_uri: MIXS:0000174
    multivalued: true
    alias: biomass
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - Sediment
    - Water
    range: string
    required: false
    recommended: false
  bishomohopanol:
    name: bishomohopanol
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: microgram per liter, microgram per gram
    description: Concentration of bishomohopanol
    title: bishomohopanol
    examples:
    - value: 14 microgram per liter
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000175
    multivalued: false
    alias: bishomohopanol
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - MicrobialMatBiofilm
    - Sediment
    - 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
  bromide:
    name: bromide
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: parts per million
    description: Concentration of bromide
    title: bromide
    examples:
    - value: 0.05 parts per million
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000176
    multivalued: false
    alias: bromide
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - Sediment
    - 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
  calcium:
    name: calcium
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: milligram per liter, micromole per liter, parts per million
    description: Concentration of calcium in the sample
    title: calcium
    examples:
    - value: 0.2 micromole per liter
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000432
    multivalued: false
    alias: calcium
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - HydrocarbonResourcesCores
    - HydrocarbonResourcesFluidsSwabs
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - Sediment
    - 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
  carb_nitro_ratio:
    name: carb_nitro_ratio
    annotations:
      Expected_value:
        tag: Expected_value
        value: measurement value
    description: Ratio of amount or concentrations of carbon to nitrogen
    title: carbon/nitrogen ratio
    examples:
    - value: '0.417361111'
    from_schema: https://w3id.org/mixs-6-2-rc
    keywords:
    - carbon
    - nitrogen
    - ratio
    string_serialization: '{float}:{float}'
    slot_uri: MIXS:0000310
    alias: carb_nitro_ratio
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - MicrobialMatBiofilm
    - Sediment
    - Water
    range: float
    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: MimsMicrobialMatBiofilm
    domain_of:
    - Agriculture
    - Air
    - FoodFarmEnvironment
    - HostAssociated
    - HumanAssociated
    - HumanGut
    - HumanOral
    - HumanSkin
    - HumanVaginal
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - PlantAssociated
    - Sediment
    - SymbiontAssociated
    - WastewaterSludge
    - Water
    range: string
    required: false
    recommended: false
  chloride:
    name: chloride
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: milligram per liter, parts per million
    description: Concentration of chloride in the sample
    title: chloride
    examples:
    - value: 5000 milligram per liter
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000429
    multivalued: false
    alias: chloride
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - HydrocarbonResourcesCores
    - HydrocarbonResourcesFluidsSwabs
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - Sediment
    - 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
  chlorophyll:
    name: chlorophyll
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: milligram per cubic meter, microgram per liter
    description: Concentration of chlorophyll
    title: chlorophyll
    examples:
    - value: 5 milligram per cubic meter
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000177
    multivalued: false
    alias: chlorophyll
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - Sediment
    - 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
  diether_lipids:
    name: diether_lipids
    annotations:
      Expected_value:
        tag: Expected_value
        value: diether lipid name;measurement value
      Preferred_unit:
        tag: Preferred_unit
        value: nanogram per liter
    description: Concentration of diether lipids; can include multiple types of diether
      lipids
    title: diether lipids
    examples:
    - value: 0.2 nanogram per liter
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{text};{float} {unit}'
    slot_uri: MIXS:0000178
    multivalued: true
    alias: diether_lipids
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - Sediment
    - Water
    range: string
    required: false
    recommended: false
  diss_carb_dioxide:
    name: diss_carb_dioxide
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: micromole per liter, milligram per liter
    description: Concentration of dissolved carbon dioxide in the sample or liquid
      portion of the sample
    title: dissolved carbon dioxide
    examples:
    - value: 5 milligram per liter
    from_schema: https://w3id.org/mixs-6-2-rc
    keywords:
    - carbon
    - dissolved
    slot_uri: MIXS:0000436
    multivalued: false
    alias: diss_carb_dioxide
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - HydrocarbonResourcesCores
    - HydrocarbonResourcesFluidsSwabs
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - Sediment
    - 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
  diss_hydrogen:
    name: diss_hydrogen
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: micromole per liter
    description: Concentration of dissolved hydrogen
    title: dissolved hydrogen
    examples:
    - value: 0.3 micromole per liter
    from_schema: https://w3id.org/mixs-6-2-rc
    keywords:
    - dissolved
    slot_uri: MIXS:0000179
    multivalued: false
    alias: diss_hydrogen
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - Sediment
    - 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
  diss_inorg_carb:
    name: diss_inorg_carb
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: microgram per liter, milligram per liter, parts per million
    description: Dissolved inorganic carbon concentration in the sample, typically
      measured after filtering the sample using a 0.45 micrometer filter
    title: dissolved inorganic carbon
    examples:
    - value: 2059 micromole per kilogram
    from_schema: https://w3id.org/mixs-6-2-rc
    keywords:
    - carbon
    - dissolved
    - inorganic
    slot_uri: MIXS:0000434
    multivalued: false
    alias: diss_inorg_carb
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - HydrocarbonResourcesCores
    - HydrocarbonResourcesFluidsSwabs
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - Sediment
    - 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
  diss_org_carb:
    name: diss_org_carb
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: micromole per liter, milligram per liter
    description: Concentration of dissolved organic carbon in the sample, liquid portion
      of the sample, or aqueous phase of the fluid
    title: dissolved organic carbon
    examples:
    - value: 197 micromole per liter
    from_schema: https://w3id.org/mixs-6-2-rc
    keywords:
    - carbon
    - dissolved
    - organic
    slot_uri: MIXS:0000433
    multivalued: false
    alias: diss_org_carb
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - HydrocarbonResourcesCores
    - HydrocarbonResourcesFluidsSwabs
    - MicrobialMatBiofilm
    - Sediment
    - 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
  diss_org_nitro:
    name: diss_org_nitro
    description: Dissolved organic nitrogen concentration measured as; total dissolved
      nitrogen - NH4 - NO3 - NO2
    title: dissolved organic nitrogen
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000162
    multivalued: false
    alias: diss_org_nitro
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - Sediment
    - 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
  diss_oxygen:
    name: diss_oxygen
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: micromole per kilogram, milligram per liter
    description: Concentration of dissolved oxygen
    title: dissolved oxygen
    examples:
    - value: 175 micromole per kilogram
    from_schema: https://w3id.org/mixs-6-2-rc
    keywords:
    - dissolved
    - oxygen
    slot_uri: MIXS:0000119
    multivalued: false
    alias: diss_oxygen
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - Sediment
    - 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
  glucosidase_act:
    name: glucosidase_act
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: mol per liter per hour
    description: Measurement of glucosidase activity
    title: glucosidase activity
    examples:
    - value: 5 mol per liter per hour
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000137
    multivalued: false
    alias: glucosidase_act
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - MicrobialMatBiofilm
    - Sediment
    - 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
  magnesium:
    name: magnesium
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: mole per liter, milligram per liter, parts per million, micromole per
          kilogram
    description: Concentration of magnesium in the sample
    title: magnesium
    examples:
    - value: 52.8 micromole per kilogram
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000431
    multivalued: false
    alias: magnesium
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - HydrocarbonResourcesCores
    - HydrocarbonResourcesFluidsSwabs
    - MicrobialMatBiofilm
    - Sediment
    - 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
  mean_frict_vel:
    name: mean_frict_vel
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: meter per second
    description: Measurement of mean friction velocity
    title: mean friction velocity
    examples:
    - value: 0.5 meter per second
    from_schema: https://w3id.org/mixs-6-2-rc
    keywords:
    - mean
    - velocity
    slot_uri: MIXS:0000498
    multivalued: false
    alias: mean_frict_vel
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - MicrobialMatBiofilm
    - Sediment
    - 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
  mean_peak_frict_vel:
    name: mean_peak_frict_vel
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: meter per second
    description: Measurement of mean peak friction velocity
    title: mean peak friction velocity
    examples:
    - value: 1 meter per second
    from_schema: https://w3id.org/mixs-6-2-rc
    keywords:
    - mean
    - peak
    - velocity
    slot_uri: MIXS:0000502
    multivalued: false
    alias: mean_peak_frict_vel
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - MicrobialMatBiofilm
    - Sediment
    - 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
  methane:
    name: methane
    description: Methane (gas) amount or concentration at the time of sampling
    title: methane
    examples:
    - value: 0.15 micromole per liter
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000101
    multivalued: false
    alias: methane
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - Air
    - MicrobialMatBiofilm
    - Sediment
    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
  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
    keywords:
    - parameter
    string_serialization: '{text};{float} {unit}'
    slot_uri: MIXS:0000752
    multivalued: true
    alias: misc_param
    owner: MimsMicrobialMatBiofilm
    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
  n_alkanes:
    name: n_alkanes
    description: Concentration of n-alkanes; can include multiple n-alkanes
    title: n-alkanes
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{text};{float} {unit}'
    slot_uri: MIXS:0000503
    multivalued: true
    alias: n_alkanes
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - MicrobialMatBiofilm
    - Sediment
    - Water
    range: string
    required: false
    recommended: false
  nitrate:
    name: nitrate
    description: Concentration of nitrate in the sample
    title: nitrate
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000425
    multivalued: false
    alias: nitrate
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - HydrocarbonResourcesCores
    - HydrocarbonResourcesFluidsSwabs
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - Sediment
    - 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
  nitrite:
    name: nitrite
    description: Concentration of nitrite in the sample
    title: nitrite
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000426
    multivalued: false
    alias: nitrite
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - HydrocarbonResourcesCores
    - HydrocarbonResourcesFluidsSwabs
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - Sediment
    - 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
  nitro:
    name: nitro
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: micromole per liter
    description: Concentration of nitrogen (total)
    title: nitrogen
    examples:
    - value: 4.2 micromole per liter
    from_schema: https://w3id.org/mixs-6-2-rc
    keywords:
    - nitrogen
    slot_uri: MIXS:0000504
    multivalued: false
    alias: nitro
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - Sediment
    - 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
  org_carb:
    name: org_carb
    description: Concentration of organic carbon
    title: organic carbon
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000508
    multivalued: false
    alias: org_carb
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - Sediment
    - 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
  org_matter:
    name: org_matter
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: microgram per liter
    description: Concentration of organic matter
    title: organic matter
    examples:
    - value: 1.75 milligram per cubic meter
    from_schema: https://w3id.org/mixs-6-2-rc
    keywords:
    - organic
    slot_uri: MIXS:0000204
    multivalued: false
    alias: org_matter
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - Sediment
    - Soil
    - 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
  org_nitro:
    name: org_nitro
    description: Concentration of organic nitrogen
    title: organic nitrogen
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000205
    multivalued: false
    alias: org_nitro
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - Sediment
    - Soil
    - 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
  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: MimsMicrobialMatBiofilm
    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
    required: false
    recommended: false
  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: MimsMicrobialMatBiofilm
    domain_of:
    - Agriculture
    - Air
    - HostAssociated
    - HumanAssociated
    - HumanGut
    - HumanOral
    - HumanSkin
    - HumanVaginal
    - HydrocarbonResourcesCores
    - HydrocarbonResourcesFluidsSwabs
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - PlantAssociated
    - Sediment
    - SymbiontAssociated
    - WastewaterSludge
    - Water
    range: OXY_STAT_SAMP_ENUM
    required: false
    recommended: false
  ph:
    name: ph
    description: Ph measurement of the sample, or liquid portion of sample, or aqueous
      phase of the fluid
    title: pH
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0001001
    multivalued: false
    alias: ph
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - FoodFarmEnvironment
    - HydrocarbonResourcesCores
    - HydrocarbonResourcesFluidsSwabs
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - Sediment
    - Soil
    - WastewaterSludge
    - Water
    range: float
    required: false
    recommended: false
  part_org_carb:
    name: part_org_carb
    description: Concentration of particulate organic carbon
    title: particulate organic carbon
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000515
    multivalued: false
    alias: part_org_carb
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - MicrobialMatBiofilm
    - Sediment
    - 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
  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: MimsMicrobialMatBiofilm
    domain_of:
    - Agriculture
    - Air
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodHumanFoods
    - HostAssociated
    - HumanAssociated
    - HumanGut
    - HumanOral
    - HumanSkin
    - HumanVaginal
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - PlantAssociated
    - Sediment
    - SymbiontAssociated
    - WastewaterSludge
    - Water
    range: string
    required: false
    recommended: false
  petroleum_hydrocarb:
    name: petroleum_hydrocarb
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: micromole per liter
    description: Concentration of petroleum hydrocarbon
    title: petroleum hydrocarbon
    examples:
    - value: 0.05 micromole per liter
    from_schema: https://w3id.org/mixs-6-2-rc
    keywords:
    - hydrocarbon
    - petroleum
    slot_uri: MIXS:0000516
    multivalued: false
    alias: petroleum_hydrocarb
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - MicrobialMatBiofilm
    - Sediment
    - 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
  phaeopigments:
    name: phaeopigments
    annotations:
      Expected_value:
        tag: Expected_value
        value: phaeopigment name;measurement value
      Preferred_unit:
        tag: Preferred_unit
        value: milligram per cubic meter
    description: Concentration of phaeopigments; can include multiple phaeopigments
    title: phaeopigments
    examples:
    - value: 2.5 milligram per cubic meter
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{text};{float} {unit}'
    slot_uri: MIXS:0000180
    multivalued: true
    alias: phaeopigments
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - MicrobialMatBiofilm
    - Sediment
    - Water
    range: string
    required: false
    recommended: false
  phosphate:
    name: phosphate
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: micromole per liter
    description: Concentration of phosphate
    title: phosphate
    examples:
    - value: 0.7 micromole per liter
    from_schema: https://w3id.org/mixs-6-2-rc
    keywords:
    - phosphate
    slot_uri: MIXS:0000505
    multivalued: false
    alias: phosphate
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - Sediment
    - 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
  phosplipid_fatt_acid:
    name: phosplipid_fatt_acid
    description: Concentration of phospholipid fatty acids; can include multiple values
    title: phospholipid fatty acid
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{text};{float} {unit}'
    slot_uri: MIXS:0000181
    multivalued: true
    alias: phosplipid_fatt_acid
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - Sediment
    - Water
    range: string
    required: false
    recommended: false
  potassium:
    name: potassium
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: milligram per liter, parts per million
    description: Concentration of potassium in the sample
    title: potassium
    examples:
    - value: 463 milligram per liter
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000430
    multivalued: false
    alias: potassium
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - HydrocarbonResourcesCores
    - HydrocarbonResourcesFluidsSwabs
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - Sediment
    - 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
  pressure:
    name: pressure
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: atmosphere
    description: Pressure to which the sample is subject to, in atmospheres
    title: pressure
    examples:
    - value: 50 atmosphere
    from_schema: https://w3id.org/mixs-6-2-rc
    keywords:
    - pressure
    slot_uri: MIXS:0000412
    multivalued: false
    alias: pressure
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - HydrocarbonResourcesCores
    - HydrocarbonResourcesFluidsSwabs
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - Sediment
    - 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
  redox_potential:
    name: redox_potential
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: millivolt
    description: Redox potential, measured relative to a hydrogen cell, indicating
      oxidation or reduction potential
    title: redox potential
    examples:
    - value: 300 millivolt
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000182
    multivalued: false
    alias: redox_potential
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - MicrobialMatBiofilm
    - Sediment
    - 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
  salinity:
    name: salinity
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: practical salinity unit, percentage
    description: The total concentration of all dissolved salts in a liquid or solid
      sample. While salinity can be measured by a complete chemical analysis, this
      method is difficult and time consuming. More often, it is instead derived from
      the conductivity measurement. This is known as practical salinity. These derivations
      compare the specific conductance of the sample to a salinity standard such as
      seawater
    title: salinity
    examples:
    - value: 25 practical salinity unit
    from_schema: https://w3id.org/mixs-6-2-rc
    keywords:
    - salinity
    slot_uri: MIXS:0000183
    multivalued: false
    alias: salinity
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - Air
    - FoodFarmEnvironment
    - 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
  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: MimsMicrobialMatBiofilm
    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: ^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: MimsMicrobialMatBiofilm
    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: false
    recommended: false
  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
    keywords:
    - sample
    - storage
    - temperature
    slot_uri: MIXS:0000110
    multivalued: false
    alias: samp_store_temp
    owner: MimsMicrobialMatBiofilm
    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
  silicate:
    name: silicate
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: micromole per liter
    description: Concentration of silicate
    title: silicate
    examples:
    - value: 0.05 micromole per liter
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000184
    multivalued: false
    alias: silicate
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - Sediment
    - 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
  sodium:
    name: sodium
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: milligram per liter, parts per million
    description: Sodium concentration in the sample
    title: sodium
    examples:
    - value: 10.5 milligram per liter
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000428
    multivalued: false
    alias: sodium
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - HydrocarbonResourcesCores
    - HydrocarbonResourcesFluidsSwabs
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - Sediment
    - 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
  sulfate:
    name: sulfate
    description: Concentration of sulfate in the sample
    title: sulfate
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000423
    multivalued: false
    alias: sulfate
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - HydrocarbonResourcesCores
    - HydrocarbonResourcesFluidsSwabs
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - Sediment
    - 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
  sulfide:
    name: sulfide
    description: Concentration of sulfide in the sample
    title: sulfide
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000424
    multivalued: false
    alias: sulfide
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - HydrocarbonResourcesCores
    - HydrocarbonResourcesFluidsSwabs
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - Sediment
    - 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
  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: MimsMicrobialMatBiofilm
    domain_of:
    - Agriculture
    - MicrobialMatBiofilm
    - Sediment
    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
  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: MimsMicrobialMatBiofilm
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - MicrobialMatBiofilm
    - Sediment
    - 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
  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: MimsMicrobialMatBiofilm
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - MicrobialMatBiofilm
    - Sediment
    - 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
  turbidity:
    name: turbidity
    description: Measure of the amount of cloudiness or haziness in water caused by
      individual particles
    title: turbidity
    from_schema: https://w3id.org/mixs-6-2-rc
    slot_uri: MIXS:0000191
    multivalued: false
    alias: turbidity
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - FoodFarmEnvironment
    - MicrobialMatBiofilm
    - Sediment
    - 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
  water_content:
    name: water_content
    description: Water content measurement
    title: water content
    from_schema: https://w3id.org/mixs-6-2-rc
    string_serialization: '{float} {unit}'
    slot_uri: MIXS:0000185
    multivalued: false
    alias: water_content
    owner: MimsMicrobialMatBiofilm
    domain_of:
    - MicrobialMatBiofilm
    - Sediment
    - 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
class_uri: MIXS:0010007_0016008