Extension: food-farm environment (FoodFarmEnvironment)

A collection of terms appropriate when collecting samples and performing sequencing of samples obtained from the farm environment, including soil, manure, and food harvesting equipment.

Terms

MIXS ID	Name	Cardinality and Range	Description
MIXS:0001107	samp_name	1..1 String	A local identifier or name that for the material sample used for extracting n...
MIXS:0000092	project_name	1..1 String	Name of the project within which the sequencing was organized
MIXS:0000009	lat_lon	1..1 String	The geographical origin of the sample as defined by latitude and longitude
MIXS:0000010	geo_loc_name	1..1 String	The geographical origin of the sample as defined by the country or sea name f...
MIXS:0000011	collection_date	1..1 Datetime	The time of sampling, either as an instance (single point in time) or interva...
MIXS:0000050	seq_meth	1..1 String	Sequencing machine used
MIXS:0000001	samp_size	0..1 String	The total amount or size (volume (ml), mass (g) or area (m2) ) of sample coll...
MIXS:0000002	samp_collect_device	0..1 String	The device used to collect an environmental sample
MIXS:0000037	nucl_acid_ext	0..1 String	A link to a literature reference, electronic resource or a standard operating...
MIXS:0000100	humidity	0..1 String	Amount of water vapour in the air, at the time of sampling
MIXS:0000103	organism_count	0..* String	Total cell count of any organism (or group of organisms) per gram, volume or ...
MIXS:0001335	spikein_count	0..1 String	Total cell count of any organism (or group of organisms) per gram, volume or ...
MIXS:0000110	samp_store_temp	0..1 String	Temperature at which sample was stored, e
MIXS:0000112	solar_irradiance	0..* String	The amount of solar energy that arrives at a specific area of a surface durin...
MIXS:0000114	ventilation_rate	0..1 String	Ventilation rate of the system in the sampled premises
MIXS:0000116	samp_store_dur	0..1 String	Duration for which the sample was stored
MIXS:0000118	wind_speed	0..1 String	speed of wind measured at the time of sampling
MIXS:0000183	salinity	0..1 String	The total concentration of all dissolved salts in a liquid or solid sample
MIXS:0000111	samp_vol_we_dna_ext	0..1 String	Volume (ml) or mass (g) of total collected sample processed for DNA extractio...
MIXS:0000315	previous_land_use	0..1 String	Previous land use and dates
MIXS:0000318	crop_rotation	0..1 String	Whether or not crop is rotated, and if yes, rotation schedule
MIXS:0000334	soil_type_meth	0..1 String	Reference or method used in determining soil series name or other lower-level...
MIXS:0000337	tot_org_c_meth	0..1 String	Reference or method used in determining total organic carbon
MIXS:0000338	tot_nitro_cont_meth	0..1 String	Reference or method used in determining the total nitrogen
MIXS:0000255	host_age	0..1 String	Age of host at the time of sampling; relevant scale depends on species and st...
MIXS:0000257	host_dry_mass	0..1 String	Measurement of dry mass
MIXS:0000264	host_height	0..1 String	The height of subject
MIXS:0000256	host_length	0..1 String	The length of subject
MIXS:0000263	host_tot_mass	0..1 String	Total mass of the host at collection, the unit depends on host
MIXS:0000577	root_med_carbon	0..1 String	Source of organic carbon in the culture rooting medium; e
MIXS:0000578	root_med_macronutr	0..1 String	Measurement of the culture rooting medium macronutrients (N,P, K, Ca, Mg, S);...
MIXS:0000579	root_med_micronutr	0..1 String	Measurement of the culture rooting medium micronutrients (Fe, Mn, Zn, B, Cu, ...
MIXS:0000018	depth	1..1 String	The vertical distance below local surface
MIXS:0000643	season_temp	0..1 String	Mean seasonal temperature
MIXS:0000645	season_precpt	0..1 String	The average of all seasonal precipitation values known, or an estimated equiv...
MIXS:0000533	tot_org_carb	0..1 String	Total organic carbon content
MIXS:0000530	tot_nitro_content	0..1 String	Total nitrogen content of the sample
MIXS:0000692	conduc	0..1 String	Electrical conductivity of water
MIXS:0000191	turbidity	0..1 String	Measure of the amount of cloudiness or haziness in water caused by individual...
MIXS:0000735	size_frac_low	0..1 String	Refers to the mesh/pore size used to pre-filter/pre-sort the sample
MIXS:0000736	size_frac_up	0..1 String	Mesh or pore size of the device used to retain the sample
MIXS:0000113	temp	0..1 String	Temperature of the sample at the time of sampling
MIXS:0000756	ventilation_type	0..* String	Ventilation system used in the sampled premises
MIXS:0000757	wind_direction	0..1 String	Wind direction is the direction from which a wind originates
MIXS:0000859	genetic_mod	0..1 String	Genetic modifications of the genome of an organism, which may occur naturally...
MIXS:0000874	host_phenotype	0..1 String	Phenotype of human or other host
MIXS:0001001	ph	0..1 Float	Ph measurement of the sample, or liquid portion of sample, or aqueous phase o...
MIXS:0000247	ances_data	0..1 String	Information about either pedigree or other ancestral information description ...
MIXS:0001038	biotic_regm	1..* String	Information about treatment(s) involving use of biotic factors, such as bacte...
MIXS:0000751	chem_administration	1..* String	List of chemical compounds administered to the host or site where sampling oc...
MIXS:0001044	growth_habit	0..1 GrowthHabitEnum	Characteristic shape, appearance or growth form of a plant species
MIXS:0000031	host_disease_stat	0..1 recommended String	List of diseases with which the host has been diagnosed; can include multiple...
MIXS:0000365	host_genotype	0..1 String	Observed genotype
MIXS:0000250	host_taxid	0..1 String	NCBI taxon id of the host, e
MIXS:0001052	mechanical_damage	0..* String	Information about any mechanical damage exerted on the plant; can include mul...
MIXS:0000754	perturbation	0..* String	Type of perturbation, e
MIXS:0001061	root_cond	0..1 String	Relevant rooting conditions such as field plot size, sowing density, containe...
MIXS:0001062	root_med_ph	0..1 Float	pH measurement of the culture rooting medium; e
MIXS:0001081	tillage	0..* TillageEnum	Note method(s) used for tilling
MIXS:0001106	ph_meth	0..1 String	Reference or method used in determining pH
MIXS:0001108	growth_medium	0..1 String	A liquid or gel containing nutrients, salts, and other factors formulated to ...
MIXS:0000829	season	0..1 String	The season when sampling occurred
MIXS:0001184	food_product_type	1..1 String	A food product type is a class of food products that is differentiated by its...
MIXS:0000998	samp_type	1..1 String	The type of material from which the sample was obtained
MIXS:0001110	farm_water_source	0..1 recommended FarmWaterSourceEnum	Source of water used on the farm for irrigation of crops or watering of lives...
MIXS:0001111	plant_water_method	0..1 recommended String	Description of the equipment or method used to distribute water to crops
MIXS:0000108	air_PM_concen	0..* String	Concentration of substances that remain suspended in the air, and comprise mi...
MIXS:0001113	animal_feed_equip	0..* String	Description of the feeding equipment used for livestock
MIXS:0001114	animal_intrusion	0..* String	Identification of animals intruding on the sample or sample site including in...
MIXS:0001115	anim_water_method	0..* String	Description of the equipment or method used to distribute water to livestock
MIXS:0001116	crop_yield	0..1 String	Amount of crop produced per unit or area of land
MIXS:0001117	cult_result	0..1 CultResultEnum	Any result of a bacterial culture experiment reported as a binary assessment ...
MIXS:0001118	cult_result_org	0..* String	Taxonomic information about the cultured organism(s)
MIXS:0001119	cult_target	0..* String	The target microbial analyte in terms of investigation scope
MIXS:0001120	plant_part_maturity	0..1 String	A description of the stage of development of a plant or plant part based on m...
MIXS:0001121	adjacent_environment	0..* String	Description of the environmental system or features that are adjacent to the ...
MIXS:0001122	water_source_adjac	0..* String	Description of the environmental features that are adjacent to the farm water...
MIXS:0001123	farm_equip_shared	0..* String	List of planting, growing or harvesting equipment shared with other farms
MIXS:0001124	farm_equip_san	0..* String	Method used to sanitize growing and harvesting equipment
MIXS:0001125	farm_equip_san_freq	0..1 String	The number of times farm equipment is cleaned
MIXS:0001126	farm_equip	0..* String	List of equipment used for planting, fertilization, harvesting, irrigation, l...
MIXS:0001127	fertilizer_admin	0..1 String	Type of fertilizer or amendment added to the soil or water for the purpose of...
MIXS:0001128	fertilizer_date	0..1 Datetime	Date of administration of soil amendment or fertilizer
MIXS:0001129	animal_group_size	0..1 Integer	The number of food animals of the same species that are maintained together a...
MIXS:0001130	animal_diet	0..* String	If the isolate is from a food animal, the type of diet eaten by the food anim...
MIXS:0001131	food_contact_surf	0..* String	The specific container or coating materials in direct contact with the food
MIXS:0001132	food_contain_wrap	0..1 String	Type of container or wrapping defined by the main container material, the con...
MIXS:0001133	food_harvest_proc	0..* String	A harvesting process is a process which takes in some food material from an i...
MIXS:0001134	food_pack_medium	0..* String	The medium in which the food is packed for preservation and handling or the m...
MIXS:0001135	food_preserv_proc	0..* String	The methods contributing to the prevention or retardation of microbial, enzym...
MIXS:0001136	food_prod_char	0..* String	Descriptors of the food production system such as wild caught, free-range, or...
MIXS:prod_label_claims	prod_label_claims	0..* String	Labeling claims containing descriptors such as wild caught, free-range, organ...
MIXS:0001137	food_trav_mode	0..* String	A descriptor for the method of movement of food commodity along the food dist...
MIXS:0001138	food_trav_vehic	0..* String	A descriptor for the mobile machine which is used to transport food commoditi...
MIXS:0001139	food_source	0..1 String	Type of plant or animal from which the food product or its major ingredient i...
MIXS:0001140	food_treat_proc	0..* String	Used to specifically characterize a food product based on the treatment or pr...
MIXS:0001141	extr_weather_event	0..* ExtrWeatherEventEnum	Unusual weather events that may have affected microbial populations
MIXS:0001142	date_extr_weath	0..* Datetime	Date of unusual weather events that may have affected microbial populations
MIXS:0001318	host_subspecf_genlin	0..* String	Information about the genetic distinctness of the host organism below the sub...
MIXS:0001144	intended_consumer	0..* String	Food consumer type, human or animal, for which the food product is produced a...
MIXS:0001145	library_prep_kit	0..1 String	Packaged kits (containing adapters, indexes, enzymes, buffers etc
MIXS:0001146	air_flow_impede	0..* String	Presence of objects in the area that would influence or impede air flow throu...
MIXS:0001147	lot_number	0..* String	A distinctive alpha-numeric identification code assigned by the manufacturer ...
MIXS:0001148	season_humidity	0..1 Float	Average humidity of the region throughout the growing season
MIXS:0001149	part_plant_animal	0..* String	The anatomical part of the organism being involved in food production or cons...
MIXS:0001057	plant_growth_med	0..1 String	Specification of the media for growing the plants or tissue cultured samples,...
MIXS:0001150	plant_reprod_crop	0..* PlantReprodCropEnum	Plant reproductive part used in the field during planting to start the crop
MIXS:0001151	samp_purpose	0..1 String	The reason that the sample was collected
MIXS:0001152	repository_name	0..* String	The name of the institution where the sample or DNA extract is held or "sampl...
MIXS:0001153	samp_pooling	0..* String	Physical combination of several instances of like material, e
MIXS:0001154	samp_source_mat_cat	0..1 String	This is the scientific role or category that the subject organism or material...
MIXS:0001155	sequencing_kit	0..1 String	Pre-filled, ready-to-use reagent cartridges
MIXS:0001156	sequencing_location	0..1 String	The location the sequencing run was performed
MIXS:0001157	serovar_or_serotype	0..* String	A characterization of a cell or microorganism based on the antigenic properti...
MIXS:0001158	soil_conductivity	0..1 String	Conductivity of soil at time of sampling
MIXS:0001159	soil_cover	0..1 String	Material covering the sampled soil
MIXS:0001160	soil_pH	0..1 Float	The pH of soil at time of sampling
MIXS:0001161	rel_location	0..1 String	Location of sampled soil to other parts of the farm e
MIXS:0001162	soil_porosity	0..1 String	Porosity of soil or deposited sediment is volume of voids divided by the tota...
MIXS:0001163	soil_temp	0..1 String	Temperature of soil at the time of sampling
MIXS:0001164	soil_texture_class	0..1 SoilTextureClassEnum	One of the 12 soil texture classes use to describe soil texture based on the ...
MIXS:0000336	soil_texture_meth	0..1 String	Reference or method used in determining soil texture
MIXS:0000332	soil_type	0..1 String	Description of the soil type or classification
MIXS:0001167	spikein_org	0..* String	Taxonomic information about the spike-in organism(s)
MIXS:0001168	spikein_serovar	0..* String	Taxonomic information about the spike-in organism(s) at the serovar or seroty...
MIXS:0001169	spikein_growth_med	0..* String	A liquid or gel containing nutrients, salts, and other factors formulated to ...
MIXS:0001170	spikein_strain	0..* String	Taxonomic information about the spike-in organism(s) at the strain level
MIXS:0001171	spikein_antibiotic	0..* String	Antimicrobials used in research study to assess effects of exposure on microb...
MIXS:0001172	spikein_metal	0..* String	Heavy metals used in research study to assess effects of exposure on microbio...
MIXS:0001173	timepoint	0..1 String	Time point at which a sample or observation is made or taken from a biomateri...
MIXS:0001174	water_frequency	0..1 String	Number of water delivery events within a given period of time
MIXS:0001175	water_pH	0..1 Float	pH measurement of the sample, or liquid portion of sample, or aqueous phase o...
MIXS:0001176	water_source_shared	0..* String	Other users sharing access to the same water source
MIXS:0001177	enrichment_protocol	0..1 String	The microbiological workflow or protocol followed to test for the presence or...
MIXS:0001178	food_quality_date	0..1 String	The date recommended for the use of the product while at peak quality, this d...
MIXS:0001179	IFSAC_category	1..* String	The IFSAC food categorization scheme has five distinct levels to which foods ...
MIXS:0001180	animal_housing	0..* String	Description of the housing system of the livestock
MIXS:0001181	cult_isol_date	0..1 Datetime	The datetime marking the end of a process in which a sample yields a positive...
MIXS:0001182	food_clean_proc	0..1 FoodCleanProcEnum	The process of cleaning food to separate other environmental materials from t...
MIXS:0000752	misc_param	0..* String	Any other measurement performed or parameter collected, that is not listed he...

Aliases

• MIxS-Food (farm environment)

Annotations

• use_cases: Microbiome of farm and field crops as well as environmental samples including irrigation, soil amendments, and farm equipment.

LinkML Source

Direct

name: FoodFarmEnvironment
annotations:
  use_cases:
    tag: use_cases
    value: Microbiome of farm and field crops as well as environmental samples including
      irrigation, soil amendments, and farm equipment.
description: A collection of terms appropriate when collecting samples and performing
  sequencing of samples  obtained from the farm environment, including soil, manure,
  and food harvesting equipment.
title: food-farm environment
comments:
- This extension is intended to work alongside the other food extensions (animals
  and animal feed, food production facility, and human foods) for capturing contextual
  data across the food supply-chain environment.
from_schema: https://w3id.org/mixs
aliases:
- MIxS-Food (farm environment)
is_a: Extension
slots:
- samp_name
- project_name
- lat_lon
- geo_loc_name
- collection_date
- seq_meth
- samp_size
- samp_collect_device
- nucl_acid_ext
- humidity
- organism_count
- spikein_count
- samp_store_temp
- solar_irradiance
- ventilation_rate
- samp_store_dur
- wind_speed
- salinity
- samp_vol_we_dna_ext
- previous_land_use
- crop_rotation
- soil_type_meth
- tot_org_c_meth
- tot_nitro_cont_meth
- host_age
- host_dry_mass
- host_height
- host_length
- host_tot_mass
- root_med_carbon
- root_med_macronutr
- root_med_micronutr
- depth
- season_temp
- season_precpt
- tot_org_carb
- tot_nitro_content
- conduc
- turbidity
- size_frac_low
- size_frac_up
- temp
- ventilation_type
- wind_direction
- genetic_mod
- host_phenotype
- ph
- ances_data
- biotic_regm
- chem_administration
- growth_habit
- host_disease_stat
- host_genotype
- host_taxid
- mechanical_damage
- perturbation
- root_cond
- root_med_ph
- tillage
- ph_meth
- growth_medium
- season
- food_product_type
- samp_type
- farm_water_source
- plant_water_method
- air_PM_concen
- animal_feed_equip
- animal_intrusion
- anim_water_method
- crop_yield
- cult_result
- cult_result_org
- cult_target
- plant_part_maturity
- adjacent_environment
- water_source_adjac
- farm_equip_shared
- farm_equip_san
- farm_equip_san_freq
- farm_equip
- fertilizer_admin
- fertilizer_date
- animal_group_size
- animal_diet
- food_contact_surf
- food_contain_wrap
- food_harvest_proc
- food_pack_medium
- food_preserv_proc
- food_prod_char
- prod_label_claims
- food_trav_mode
- food_trav_vehic
- food_source
- food_treat_proc
- extr_weather_event
- date_extr_weath
- host_subspecf_genlin
- intended_consumer
- library_prep_kit
- air_flow_impede
- lot_number
- season_humidity
- part_plant_animal
- plant_growth_med
- plant_reprod_crop
- samp_purpose
- repository_name
- samp_pooling
- samp_source_mat_cat
- sequencing_kit
- sequencing_location
- serovar_or_serotype
- soil_conductivity
- soil_cover
- soil_pH
- rel_location
- soil_porosity
- soil_temp
- soil_texture_class
- soil_texture_meth
- soil_type
- spikein_org
- spikein_serovar
- spikein_growth_med
- spikein_strain
- spikein_antibiotic
- spikein_metal
- timepoint
- water_frequency
- water_pH
- water_source_shared
- enrichment_protocol
- food_quality_date
- IFSAC_category
- animal_housing
- cult_isol_date
- food_clean_proc
- misc_param
slot_usage:
  biotic_regm:
    name: biotic_regm
    domain_of:
    - FoodFarmEnvironment
    - PlantAssociated
    required: true
  chem_administration:
    name: chem_administration
    domain_of:
    - Agriculture
    - Air
    - FoodFarmEnvironment
    - HostAssociated
    - HumanAssociated
    - HumanGut
    - HumanOral
    - HumanSkin
    - HumanVaginal
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - PlantAssociated
    - Sediment
    - SymbiontAssociated
    - WastewaterSludge
    - Water
    required: true
  crop_rotation:
    name: crop_rotation
    string_serialization: '{boolean};{Rn/start_time/end_time/duration}'
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - Soil
  depth:
    name: depth
    examples:
    - value: 10 meter
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksC
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    - FoodFarmEnvironment
    - HostAssociated
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - PlantAssociated
    - Sediment
    - Soil
    - SymbiontAssociated
    - WastewaterSludge
    - Water
    required: true
  food_pack_medium:
    name: food_pack_medium
    examples:
    - value: vacuum-packed [FOODON:03480027]
    domain_of:
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
  food_product_type:
    name: food_product_type
    examples:
    - value: shrimp (peeled, deep-frozen) [FOODON:03317171]
    domain_of:
    - Agriculture
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    required: true
  food_source:
    name: food_source
    examples:
    - value: giant tiger prawn [FOODON:03412612]
    domain_of:
    - Agriculture
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
  host_age:
    name: host_age
    examples:
    - value: 10 days
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - HostAssociated
    - HumanAssociated
    - HumanGut
    - HumanOral
    - HumanSkin
    - HumanVaginal
    - PlantAssociated
    - SymbiontAssociated
  host_disease_stat:
    name: host_disease_stat
    examples:
    - value: downy mildew
    domain_of:
    - MigsBa
    - MigsEu
    - MigsVi
    - Miuvig
    - Agriculture
    - FoodFarmEnvironment
    - HostAssociated
    - HumanAssociated
    - HumanGut
    - HumanOral
    - HumanSkin
    - HumanVaginal
    - PlantAssociated
    recommended: true
  host_genotype:
    name: host_genotype
    examples:
    - value: Ts
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - HostAssociated
    - HumanAssociated
    - HumanGut
    - HumanOral
    - HumanSkin
    - HumanVaginal
    - PlantAssociated
    - SymbiontAssociated
  host_height:
    name: host_height
    examples:
    - value: 1 meter
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - HostAssociated
    - HumanAssociated
    - HumanGut
    - HumanOral
    - HumanSkin
    - HumanVaginal
    - PlantAssociated
    - SymbiontAssociated
  host_phenotype:
    name: host_phenotype
    examples:
    - value: seed pod; green [PATO:0000320]
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - HostAssociated
    - HumanAssociated
    - HumanGut
    - HumanOral
    - HumanSkin
    - HumanVaginal
    - PlantAssociated
    - SymbiontAssociated
  host_taxid:
    name: host_taxid
    examples:
    - value: '4530'
    string_serialization: '{NCBI taxid}'
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - HostAssociated
    - PlantAssociated
    - SymbiontAssociated
  host_tot_mass:
    name: host_tot_mass
    examples:
    - value: 2500 gram
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - HostAssociated
    - HumanAssociated
    - HumanGut
    - HumanOral
    - HumanSkin
    - HumanVaginal
    - PlantAssociated
    - SymbiontAssociated
  humidity:
    name: humidity
    examples:
    - value: 30% relative humidity
    domain_of:
    - Agriculture
    - Air
    - FoodFarmEnvironment
  library_prep_kit:
    name: library_prep_kit
    examples:
    - value: Illumina DNA Prep
    domain_of:
    - Agriculture
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
  organism_count:
    name: organism_count
    examples:
    - value: total prokaryotes;3.5e7 colony forming units per milliliter;qPCR
    domain_of:
    - Agriculture
    - Air
    - BuiltEnvironment
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    - HostAssociated
    - HumanAssociated
    - HumanGut
    - HumanOral
    - HumanSkin
    - HumanVaginal
    - HydrocarbonResourcesCores
    - HydrocarbonResourcesFluidsSwabs
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - PlantAssociated
    - Sediment
    - SymbiontAssociated
    - WastewaterSludge
    - Water
  plant_growth_med:
    name: plant_growth_med
    examples:
    - value: soil
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - PlantAssociated
  samp_collect_device:
    name: samp_collect_device
    examples:
    - value: swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713]
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksC
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
  soil_conductivity:
    name: soil_conductivity
    description: Conductivity of soil at time of sampling.
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
  soil_pH:
    name: soil_pH
    description: The pH of soil at time of sampling.
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
  soil_type:
    name: soil_type
    string_serialization: '{termLabel} [{termID}]'
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - Soil
  water_pH:
    name: water_pH
    description: pH measurement of the sample, or liquid portion of sample, or aqueous
      phase of the fluid.
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
  wind_direction:
    name: wind_direction
    examples:
    - value: 0 degrees; Northwest
    domain_of:
    - Air
    - FoodFarmEnvironment
  wind_speed:
    name: wind_speed
    examples:
    - value: 1.6 kilometers per hour
    domain_of:
    - Air
    - FoodFarmEnvironment
class_uri: MIXS:0016020

Induced

name: FoodFarmEnvironment
annotations:
  use_cases:
    tag: use_cases
    value: Microbiome of farm and field crops as well as environmental samples including
      irrigation, soil amendments, and farm equipment.
description: A collection of terms appropriate when collecting samples and performing
  sequencing of samples  obtained from the farm environment, including soil, manure,
  and food harvesting equipment.
title: food-farm environment
comments:
- This extension is intended to work alongside the other food extensions (animals
  and animal feed, food production facility, and human foods) for capturing contextual
  data across the food supply-chain environment.
from_schema: https://w3id.org/mixs
aliases:
- MIxS-Food (farm environment)
is_a: Extension
slot_usage:
  biotic_regm:
    name: biotic_regm
    domain_of:
    - FoodFarmEnvironment
    - PlantAssociated
    required: true
  chem_administration:
    name: chem_administration
    domain_of:
    - Agriculture
    - Air
    - FoodFarmEnvironment
    - HostAssociated
    - HumanAssociated
    - HumanGut
    - HumanOral
    - HumanSkin
    - HumanVaginal
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - PlantAssociated
    - Sediment
    - SymbiontAssociated
    - WastewaterSludge
    - Water
    required: true
  crop_rotation:
    name: crop_rotation
    string_serialization: '{boolean};{Rn/start_time/end_time/duration}'
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - Soil
  depth:
    name: depth
    examples:
    - value: 10 meter
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksC
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    - FoodFarmEnvironment
    - HostAssociated
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - PlantAssociated
    - Sediment
    - Soil
    - SymbiontAssociated
    - WastewaterSludge
    - Water
    required: true
  food_pack_medium:
    name: food_pack_medium
    examples:
    - value: vacuum-packed [FOODON:03480027]
    domain_of:
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
  food_product_type:
    name: food_product_type
    examples:
    - value: shrimp (peeled, deep-frozen) [FOODON:03317171]
    domain_of:
    - Agriculture
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    required: true
  food_source:
    name: food_source
    examples:
    - value: giant tiger prawn [FOODON:03412612]
    domain_of:
    - Agriculture
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
  host_age:
    name: host_age
    examples:
    - value: 10 days
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - HostAssociated
    - HumanAssociated
    - HumanGut
    - HumanOral
    - HumanSkin
    - HumanVaginal
    - PlantAssociated
    - SymbiontAssociated
  host_disease_stat:
    name: host_disease_stat
    examples:
    - value: downy mildew
    domain_of:
    - MigsBa
    - MigsEu
    - MigsVi
    - Miuvig
    - Agriculture
    - FoodFarmEnvironment
    - HostAssociated
    - HumanAssociated
    - HumanGut
    - HumanOral
    - HumanSkin
    - HumanVaginal
    - PlantAssociated
    recommended: true
  host_genotype:
    name: host_genotype
    examples:
    - value: Ts
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - HostAssociated
    - HumanAssociated
    - HumanGut
    - HumanOral
    - HumanSkin
    - HumanVaginal
    - PlantAssociated
    - SymbiontAssociated
  host_height:
    name: host_height
    examples:
    - value: 1 meter
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - HostAssociated
    - HumanAssociated
    - HumanGut
    - HumanOral
    - HumanSkin
    - HumanVaginal
    - PlantAssociated
    - SymbiontAssociated
  host_phenotype:
    name: host_phenotype
    examples:
    - value: seed pod; green [PATO:0000320]
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - HostAssociated
    - HumanAssociated
    - HumanGut
    - HumanOral
    - HumanSkin
    - HumanVaginal
    - PlantAssociated
    - SymbiontAssociated
  host_taxid:
    name: host_taxid
    examples:
    - value: '4530'
    string_serialization: '{NCBI taxid}'
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - HostAssociated
    - PlantAssociated
    - SymbiontAssociated
  host_tot_mass:
    name: host_tot_mass
    examples:
    - value: 2500 gram
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - HostAssociated
    - HumanAssociated
    - HumanGut
    - HumanOral
    - HumanSkin
    - HumanVaginal
    - PlantAssociated
    - SymbiontAssociated
  humidity:
    name: humidity
    examples:
    - value: 30% relative humidity
    domain_of:
    - Agriculture
    - Air
    - FoodFarmEnvironment
  library_prep_kit:
    name: library_prep_kit
    examples:
    - value: Illumina DNA Prep
    domain_of:
    - Agriculture
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
  organism_count:
    name: organism_count
    examples:
    - value: total prokaryotes;3.5e7 colony forming units per milliliter;qPCR
    domain_of:
    - Agriculture
    - Air
    - BuiltEnvironment
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    - HostAssociated
    - HumanAssociated
    - HumanGut
    - HumanOral
    - HumanSkin
    - HumanVaginal
    - HydrocarbonResourcesCores
    - HydrocarbonResourcesFluidsSwabs
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - PlantAssociated
    - Sediment
    - SymbiontAssociated
    - WastewaterSludge
    - Water
  plant_growth_med:
    name: plant_growth_med
    examples:
    - value: soil
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - PlantAssociated
  samp_collect_device:
    name: samp_collect_device
    examples:
    - value: swab, biopsy, niskin bottle, push core, drag swab [GENEPIO:0002713]
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksC
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
  soil_conductivity:
    name: soil_conductivity
    description: Conductivity of soil at time of sampling.
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
  soil_pH:
    name: soil_pH
    description: The pH of soil at time of sampling.
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
  soil_type:
    name: soil_type
    string_serialization: '{termLabel} [{termID}]'
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - Soil
  water_pH:
    name: water_pH
    description: pH measurement of the sample, or liquid portion of sample, or aqueous
      phase of the fluid.
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
  wind_direction:
    name: wind_direction
    examples:
    - value: 0 degrees; Northwest
    domain_of:
    - Air
    - FoodFarmEnvironment
  wind_speed:
    name: wind_speed
    examples:
    - value: 1.6 kilometers per hour
    domain_of:
    - Air
    - FoodFarmEnvironment
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
    keywords:
    - sample
    slot_uri: MIXS:0001107
    alias: samp_name
    owner: FoodFarmEnvironment
    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
  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
    keywords:
    - project
    slot_uri: MIXS:0000092
    alias: project_name
    owner: FoodFarmEnvironment
    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
  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
    keywords:
    - geographic
    - location
    string_serialization: '{float} {float}'
    slot_uri: MIXS:0000009
    alias: lat_lon
    owner: FoodFarmEnvironment
    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
  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
    keywords:
    - geographic
    - location
    slot_uri: MIXS:0000010
    alias: geo_loc_name
    owner: FoodFarmEnvironment
    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
    keywords:
    - date
    slot_uri: MIXS:0000011
    alias: collection_date
    owner: FoodFarmEnvironment
    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
    keywords:
    - method
    slot_uri: MIXS:0000050
    alias: seq_meth
    owner: FoodFarmEnvironment
    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
  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
    examples:
    - value: 5 liter
    in_subset:
    - nucleic acid sequence source
    from_schema: https://w3id.org/mixs
    keywords:
    - sample
    - size
    slot_uri: MIXS:0000001
    alias: samp_size
    owner: FoodFarmEnvironment
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksC
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: string
    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_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
    string_serialization: '{termLabel} [{termID}]|{text}'
    slot_uri: MIXS:0000002
    alias: samp_collect_device
    owner: FoodFarmEnvironment
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksC
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: string
  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
    examples:
    - value: https://mobio.com/media/wysiwyg/pdfs/protocols/12888.pdf
    in_subset:
    - sequencing
    from_schema: https://w3id.org/mixs
    slot_uri: MIXS:0000037
    alias: nucl_acid_ext
    owner: FoodFarmEnvironment
    domain_of:
    - MigsBa
    - MigsEu
    - MigsOrg
    - MigsPl
    - MigsVi
    - Mimag
    - MimarksC
    - MimarksS
    - Mims
    - Misag
    - Miuvig
    - Agriculture
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: string
    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
  humidity:
    name: humidity
    description: Amount of water vapour in the air, at the time of sampling
    title: humidity
    examples:
    - value: 30% relative humidity
    from_schema: https://w3id.org/mixs
    slot_uri: MIXS:0000100
    alias: humidity
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - Air
    - FoodFarmEnvironment
    range: string
    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 colony forming units per milliliter;qPCR
    from_schema: https://w3id.org/mixs
    string_serialization: '{text};{float} {unit};[ATP|MPN|qPCR|other]'
    slot_uri: MIXS:0000103
    multivalued: true
    alias: organism_count
    owner: FoodFarmEnvironment
    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
  spikein_count:
    name: spikein_count
    annotations:
      Expected_value:
        tag: Expected_value
        value: organism name;measurement value;enumeration
      Preferred_unit:
        tag: Preferred_unit
        value: colony forming units per milliliter; colony forming units per gram
          of dry weight
    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: spike-in organism count
    examples:
    - value: total prokaryotes;3.5e7 colony forming units per milliliter;qPCR
    from_schema: https://w3id.org/mixs
    keywords:
    - count
    - organism
    - spike
    string_serialization: '{text};{float} {unit};[ATP|MPN|qPCR|other]'
    slot_uri: MIXS:0001335
    alias: spikein_count
    owner: FoodFarmEnvironment
    domain_of:
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodHumanFoods
    range: string
  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
    keywords:
    - sample
    - storage
    - temperature
    slot_uri: MIXS:0000110
    alias: samp_store_temp
    owner: FoodFarmEnvironment
    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
    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
  solar_irradiance:
    name: solar_irradiance
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: kilowatts per square meter per day, ergs per square centimeter per
          second
    description: The amount of solar energy that arrives at a specific area of a surface
      during a specific time interval
    title: solar irradiance
    examples:
    - value: 1.36 kilowatts per square meter per day
    from_schema: https://w3id.org/mixs
    slot_uri: MIXS:0000112
    multivalued: true
    alias: solar_irradiance
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - Air
    - FoodFarmEnvironment
    range: string
    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
  ventilation_rate:
    name: ventilation_rate
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: cubic meter per minute, liters per second
    description: Ventilation rate of the system in the sampled premises
    title: ventilation rate
    examples:
    - value: 750 cubic meter per minute
    from_schema: https://w3id.org/mixs
    keywords:
    - rate
    slot_uri: MIXS:0000114
    alias: ventilation_rate
    owner: FoodFarmEnvironment
    domain_of:
    - Air
    - FoodFarmEnvironment
    range: string
    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
    examples:
    - value: P1Y6M
    from_schema: https://w3id.org/mixs
    keywords:
    - duration
    - period
    - sample
    - storage
    slot_uri: MIXS:0000116
    alias: samp_store_dur
    owner: FoodFarmEnvironment
    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
    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
  wind_speed:
    name: wind_speed
    description: speed of wind measured at the time of sampling
    title: wind speed
    examples:
    - value: 1.6 kilometers per hour
    from_schema: https://w3id.org/mixs
    slot_uri: MIXS:0000118
    alias: wind_speed
    owner: FoodFarmEnvironment
    domain_of:
    - Air
    - FoodFarmEnvironment
    range: string
    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
    keywords:
    - salinity
    slot_uri: MIXS:0000183
    alias: salinity
    owner: FoodFarmEnvironment
    domain_of:
    - Air
    - FoodFarmEnvironment
    - HostAssociated
    - HumanAssociated
    - HumanGut
    - HumanOral
    - HumanSkin
    - HumanVaginal
    - HydrocarbonResourcesCores
    - HydrocarbonResourcesFluidsSwabs
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - PlantAssociated
    - Sediment
    - SymbiontAssociated
    - WastewaterSludge
    - Water
    range: string
    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_vol_we_dna_ext:
    name: samp_vol_we_dna_ext
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: milliliter, gram, milligram, square centimeter
    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
    examples:
    - value: 1500 milliliter
    in_subset:
    - nucleic acid sequence source
    from_schema: https://w3id.org/mixs
    keywords:
    - dna
    - sample
    - volume
    - weight
    slot_uri: MIXS:0000111
    alias: samp_vol_we_dna_ext
    owner: FoodFarmEnvironment
    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
    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
  previous_land_use:
    name: previous_land_use
    annotations:
      Expected_value:
        tag: Expected_value
        value: land use name;date
    description: Previous land use and dates
    title: history/previous land use
    examples:
    - value: fallow; 2018-05-11:T14:30Z
    from_schema: https://w3id.org/mixs
    keywords:
    - history
    - land
    - use
    string_serialization: '{text};{timestamp}'
    slot_uri: MIXS:0000315
    alias: previous_land_use
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - Soil
    range: string
  crop_rotation:
    name: crop_rotation
    description: Whether or not crop is rotated, and if yes, rotation schedule
    title: history/crop rotation
    from_schema: https://w3id.org/mixs
    string_serialization: '{boolean};{Rn/start_time/end_time/duration}'
    slot_uri: MIXS:0000318
    alias: crop_rotation
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - Soil
    range: string
  soil_type_meth:
    name: soil_type_meth
    description: Reference or method used in determining soil series name or other
      lower-level classification
    title: soil type method
    examples:
    - value: https://www.lrh.usace.army.mil/Portals/38/docs/PR/BluestoneSFEIS/Appendix%20K-Soil%20Descriptions.pdf
    from_schema: https://w3id.org/mixs
    keywords:
    - method
    - soil
    - type
    slot_uri: MIXS:0000334
    alias: soil_type_meth
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - Soil
    range: string
    pattern: ^^PMID:\d+$|^doi:10.\d{2,9}/.*$|^https?:\/\/(?:www\.)?[-a-zA-Z0-9@:%._\+~#=]{1,256}\.[a-zA-Z0-9()]{1,6}\b(?:[-a-zA-Z0-9()@:%_\+.~#?&\/=]*)$$
    structured_pattern:
      syntax: ^{PMID}|{DOI}|{URL}$
      interpolated: true
      partial_match: true
  tot_org_c_meth:
    name: tot_org_c_meth
    description: Reference or method used in determining total organic carbon
    title: total organic carbon method
    examples:
    - value: https://www.epa.gov/sites/production/files/2015-12/documents/9060a.pdf
    from_schema: https://w3id.org/mixs
    keywords:
    - carbon
    - method
    - organic
    - total
    slot_uri: MIXS:0000337
    alias: tot_org_c_meth
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - Soil
    range: string
    pattern: ^^PMID:\d+$|^doi:10.\d{2,9}/.*$|^https?:\/\/(?:www\.)?[-a-zA-Z0-9@:%._\+~#=]{1,256}\.[a-zA-Z0-9()]{1,6}\b(?:[-a-zA-Z0-9()@:%_\+.~#?&\/=]*)$$
    structured_pattern:
      syntax: ^{PMID}|{DOI}|{URL}$
      interpolated: true
      partial_match: true
  tot_nitro_cont_meth:
    name: tot_nitro_cont_meth
    description: Reference or method used in determining the total nitrogen
    title: total nitrogen content method
    examples:
    - value: https://currentprotocols.onlinelibrary.wiley.com/doi/abs/10.1002/0471142913.fab0102s00
    from_schema: https://w3id.org/mixs
    keywords:
    - content
    - method
    - nitrogen
    - total
    slot_uri: MIXS:0000338
    alias: tot_nitro_cont_meth
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - Soil
    range: string
    pattern: ^^PMID:\d+$|^doi:10.\d{2,9}/.*$|^https?:\/\/(?:www\.)?[-a-zA-Z0-9@:%._\+~#=]{1,256}\.[a-zA-Z0-9()]{1,6}\b(?:[-a-zA-Z0-9()@:%_\+.~#?&\/=]*)$$
    structured_pattern:
      syntax: ^{PMID}|{DOI}|{URL}$
      interpolated: true
      partial_match: true
  host_age:
    name: host_age
    description: Age of host at the time of sampling; relevant scale depends on species
      and study, e.g. Could be seconds for amoebae or centuries for trees
    title: host age
    examples:
    - value: 10 days
    from_schema: https://w3id.org/mixs
    slot_uri: MIXS:0000255
    alias: host_age
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - HostAssociated
    - HumanAssociated
    - HumanGut
    - HumanOral
    - HumanSkin
    - HumanVaginal
    - PlantAssociated
    - SymbiontAssociated
    range: string
    pattern: ^[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?( *- *[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?)?
      *([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{scientific_float}( *- *{scientific_float})? *{text}$
      interpolated: true
      partial_match: true
  host_dry_mass:
    name: host_dry_mass
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: kilogram, gram
    description: Measurement of dry mass
    title: host dry mass
    examples:
    - value: 500 gram
    from_schema: https://w3id.org/mixs
    keywords:
    - dry
    - host
    - host.
    - mass
    slot_uri: MIXS:0000257
    alias: host_dry_mass
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - HostAssociated
    - PlantAssociated
    - SymbiontAssociated
    range: string
    pattern: ^[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?( *- *[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?)?
      *([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{scientific_float}( *- *{scientific_float})? *{text}$
      interpolated: true
      partial_match: true
  host_height:
    name: host_height
    description: The height of subject
    title: host height
    examples:
    - value: 1 meter
    from_schema: https://w3id.org/mixs
    slot_uri: MIXS:0000264
    alias: host_height
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - HostAssociated
    - HumanAssociated
    - HumanGut
    - HumanOral
    - HumanSkin
    - HumanVaginal
    - PlantAssociated
    - SymbiontAssociated
    range: string
    pattern: ^[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?( *- *[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?)?
      *([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{scientific_float}( *- *{scientific_float})? *{text}$
      interpolated: true
      partial_match: true
  host_length:
    name: host_length
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: centimeter, millimeter, meter
    description: The length of subject
    title: host length
    examples:
    - value: 1 meter
    from_schema: https://w3id.org/mixs
    keywords:
    - host
    - host.
    - length
    slot_uri: MIXS:0000256
    alias: host_length
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - HostAssociated
    - PlantAssociated
    - SymbiontAssociated
    range: string
    pattern: ^[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?( *- *[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?)?
      *([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{scientific_float}( *- *{scientific_float})? *{text}$
      interpolated: true
      partial_match: true
  host_tot_mass:
    name: host_tot_mass
    description: Total mass of the host at collection, the unit depends on host
    title: host total mass
    examples:
    - value: 2500 gram
    from_schema: https://w3id.org/mixs
    slot_uri: MIXS:0000263
    alias: host_tot_mass
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - HostAssociated
    - HumanAssociated
    - HumanGut
    - HumanOral
    - HumanSkin
    - HumanVaginal
    - PlantAssociated
    - SymbiontAssociated
    range: string
    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
  root_med_carbon:
    name: root_med_carbon
    annotations:
      Expected_value:
        tag: Expected_value
        value: carbon source name;measurement value
      Preferred_unit:
        tag: Preferred_unit
        value: milligram per liter
    description: Source of organic carbon in the culture rooting medium; e.g. sucrose
    title: rooting medium carbon
    examples:
    - value: sucrose
    from_schema: https://w3id.org/mixs
    keywords:
    - carbon
    string_serialization: '{text};{float} {unit}'
    slot_uri: MIXS:0000577
    alias: root_med_carbon
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - PlantAssociated
    range: string
  root_med_macronutr:
    name: root_med_macronutr
    annotations:
      Expected_value:
        tag: Expected_value
        value: macronutrient name;measurement value
      Preferred_unit:
        tag: Preferred_unit
        value: milligram per liter
    description: Measurement of the culture rooting medium macronutrients (N,P, K,
      Ca, Mg, S); e.g. KH2PO4 (170 mg/L)
    title: rooting medium macronutrients
    examples:
    - value: KH2PO4;170  milligram per liter
    from_schema: https://w3id.org/mixs
    keywords:
    - macronutrients
    string_serialization: '{text};{float} {unit}'
    slot_uri: MIXS:0000578
    alias: root_med_macronutr
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - PlantAssociated
    range: string
  root_med_micronutr:
    name: root_med_micronutr
    annotations:
      Expected_value:
        tag: Expected_value
        value: micronutrient name;measurement value
      Preferred_unit:
        tag: Preferred_unit
        value: milligram per liter
    description: Measurement of the culture rooting medium micronutrients (Fe, Mn,
      Zn, B, Cu, Mo); e.g. H3BO3 (6.2 mg/L)
    title: rooting medium micronutrients
    examples:
    - value: H3BO3;6.2  milligram per liter
    from_schema: https://w3id.org/mixs
    keywords:
    - micronutrients
    string_serialization: '{text};{float} {unit}'
    slot_uri: MIXS:0000579
    alias: root_med_micronutr
    owner: FoodFarmEnvironment
    domain_of:
    - FoodFarmEnvironment
    - PlantAssociated
    range: string
  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
    slot_uri: MIXS:0000018
    alias: depth
    owner: FoodFarmEnvironment
    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
    required: true
    pattern: ^[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?( *- *[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?)?
      *([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{scientific_float}( *- *{scientific_float})? *{text}$
      interpolated: true
      partial_match: true
  season_temp:
    name: season_temp
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: degree Celsius
    description: Mean seasonal temperature
    title: mean seasonal temperature
    examples:
    - value: 18 degree Celsius
    from_schema: https://w3id.org/mixs
    keywords:
    - mean
    - season
    - temperature
    slot_uri: MIXS:0000643
    alias: season_temp
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - Soil
    range: string
    pattern: ^[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?( *- *[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?)?
      *([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{scientific_float}( *- *{scientific_float})? *{text}$
      interpolated: true
      partial_match: true
  season_precpt:
    name: season_precpt
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: millimeter
    description: The average of all seasonal precipitation values known, or an estimated
      equivalent value derived by such methods as regional indexes or Isohyetal maps
    title: mean seasonal precipitation
    examples:
    - value: 75 millimeters
    from_schema: https://w3id.org/mixs
    keywords:
    - mean
    - season
    slot_uri: MIXS:0000645
    alias: season_precpt
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - Soil
    range: string
    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
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: gram Carbon per kilogram sample material
    description: Total organic carbon content
    title: total organic carbon
    examples:
    - value: '0.02'
    from_schema: https://w3id.org/mixs
    keywords:
    - carbon
    - organic
    - total
    slot_uri: MIXS:0000533
    alias: tot_org_carb
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - MicrobialMatBiofilm
    - Sediment
    - Soil
    range: string
    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
    examples:
    - value: 35 milligrams Nitrogen per kilogram of soil
    from_schema: https://w3id.org/mixs
    keywords:
    - content
    - nitrogen
    - total
    slot_uri: MIXS:0000530
    alias: tot_nitro_content
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - MicrobialMatBiofilm
    - Sediment
    - Soil
    range: string
    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
  conduc:
    name: conduc
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: milliSiemens per centimeter
    description: Electrical conductivity of water
    title: conductivity
    examples:
    - value: 10 milliSiemens per centimeter
    from_schema: https://w3id.org/mixs
    slot_uri: MIXS:0000692
    alias: conduc
    owner: FoodFarmEnvironment
    domain_of:
    - FoodFarmEnvironment
    - Water
    range: string
    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
    examples:
    - value: 0.3 nephelometric turbidity units
    from_schema: https://w3id.org/mixs
    slot_uri: MIXS:0000191
    alias: turbidity
    owner: FoodFarmEnvironment
    domain_of:
    - FoodFarmEnvironment
    - MicrobialMatBiofilm
    - Sediment
    - Water
    range: string
    pattern: ^[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?( *- *[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?)?
      *([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{scientific_float}( *- *{scientific_float})? *{text}$
      interpolated: true
      partial_match: true
  size_frac_low:
    name: size_frac_low
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: micrometer
    description: Refers to the mesh/pore size used to pre-filter/pre-sort the sample.
      Materials larger than the size threshold are excluded from the sample
    title: size-fraction lower threshold
    examples:
    - value: 0.2 micrometer
    from_schema: https://w3id.org/mixs
    keywords:
    - lower
    slot_uri: MIXS:0000735
    alias: size_frac_low
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - Water
    range: string
    pattern: ^[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?( *- *[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?)?
      *([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{scientific_float}( *- *{scientific_float})? *{text}$
      interpolated: true
      partial_match: true
  size_frac_up:
    name: size_frac_up
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: micrometer
    description: Mesh or pore size of the device used to retain the sample. Materials
      smaller than the size threshold are excluded from the sample
    title: size-fraction upper threshold
    examples:
    - value: 20 micrometer
    from_schema: https://w3id.org/mixs
    keywords:
    - upper
    slot_uri: MIXS:0000736
    alias: size_frac_up
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - Water
    range: string
    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
  temp:
    name: temp
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: degree Celsius
    description: Temperature of the sample at the time of sampling
    title: temperature
    examples:
    - value: 25 degree Celsius
    in_subset:
    - environment
    from_schema: https://w3id.org/mixs
    keywords:
    - temperature
    slot_uri: MIXS:0000113
    alias: temp
    owner: FoodFarmEnvironment
    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
    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
  ventilation_type:
    name: ventilation_type
    annotations:
      Expected_value:
        tag: Expected_value
        value: ventilation type name
    description: Ventilation system used in the sampled premises
    title: ventilation type
    examples:
    - value: Operable windows
    from_schema: https://w3id.org/mixs
    keywords:
    - type
    string_serialization: '{text}'
    slot_uri: MIXS:0000756
    multivalued: true
    alias: ventilation_type
    owner: FoodFarmEnvironment
    domain_of:
    - Air
    - BuiltEnvironment
    - FoodFarmEnvironment
    range: string
  wind_direction:
    name: wind_direction
    description: Wind direction is the direction from which a wind originates
    title: wind direction
    examples:
    - value: 0 degrees; Northwest
    from_schema: https://w3id.org/mixs
    slot_uri: MIXS:0000757
    alias: wind_direction
    owner: FoodFarmEnvironment
    domain_of:
    - Air
    - FoodFarmEnvironment
    range: string
  genetic_mod:
    name: genetic_mod
    annotations:
      Expected_value:
        tag: Expected_value
        value: PMID, DOI, URL or text
    description: Genetic modifications of the genome of an organism, which may occur
      naturally by spontaneous mutation, or be introduced by some experimental means,
      e.g. specification of a transgene or the gene knocked-out or details of transient
      transfection
    title: genetic modification
    examples:
    - value: aox1A transgenic
    from_schema: https://w3id.org/mixs
    string_serialization: '{PMID}|{DOI}|{URL}'
    slot_uri: MIXS:0000859
    alias: genetic_mod
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    - HostAssociated
    - PlantAssociated
    range: string
  host_phenotype:
    name: host_phenotype
    description: Phenotype of human or other host. Use terms from the phenotypic quality
      ontology (pato) or the Human Phenotype Ontology (HP)
    title: host phenotype
    examples:
    - value: seed pod; green [PATO:0000320]
    from_schema: https://w3id.org/mixs
    string_serialization: '{termLabel} [{termID}]'
    slot_uri: MIXS:0000874
    alias: host_phenotype
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - HostAssociated
    - HumanAssociated
    - HumanGut
    - HumanOral
    - HumanSkin
    - HumanVaginal
    - PlantAssociated
    - SymbiontAssociated
    range: string
  ph:
    name: ph
    description: Ph measurement of the sample, or liquid portion of sample, or aqueous
      phase of the fluid
    title: pH
    examples:
    - value: '7.2'
    from_schema: https://w3id.org/mixs
    keywords:
    - ph
    slot_uri: MIXS:0001001
    alias: ph
    owner: FoodFarmEnvironment
    domain_of:
    - FoodFarmEnvironment
    - HydrocarbonResourcesCores
    - HydrocarbonResourcesFluidsSwabs
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - Sediment
    - Soil
    - WastewaterSludge
    - Water
    range: float
  ances_data:
    name: ances_data
    description: Information about either pedigree or other ancestral information
      description (e.g. parental variety in case of mutant or selection), e.g. A/3*B
      (meaning [(A x B) x B] x B)
    title: ancestral data
    examples:
    - value: A/3*B
    from_schema: https://w3id.org/mixs
    slot_uri: MIXS:0000247
    alias: ances_data
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - HostAssociated
    - PlantAssociated
    range: string
  biotic_regm:
    name: biotic_regm
    description: Information about treatment(s) involving use of biotic factors, such
      as bacteria, viruses or fungi
    title: biotic regimen
    from_schema: https://w3id.org/mixs
    slot_uri: MIXS:0001038
    multivalued: true
    alias: biotic_regm
    owner: FoodFarmEnvironment
    domain_of:
    - FoodFarmEnvironment
    - PlantAssociated
    range: string
    required: true
  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
    string_serialization: '{termLabel} [{termID}];{timestamp}'
    slot_uri: MIXS:0000751
    multivalued: true
    alias: chem_administration
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - Air
    - FoodFarmEnvironment
    - HostAssociated
    - HumanAssociated
    - HumanGut
    - HumanOral
    - HumanSkin
    - HumanVaginal
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - PlantAssociated
    - Sediment
    - SymbiontAssociated
    - WastewaterSludge
    - Water
    range: string
    required: true
  growth_habit:
    name: growth_habit
    description: Characteristic shape, appearance or growth form of a plant species
    title: growth habit
    examples:
    - value: spreading
    from_schema: https://w3id.org/mixs
    keywords:
    - growth
    slot_uri: MIXS:0001044
    alias: growth_habit
    owner: FoodFarmEnvironment
    domain_of:
    - FoodFarmEnvironment
    - PlantAssociated
    range: GrowthHabitEnum
  host_disease_stat:
    name: host_disease_stat
    description: List of diseases with which the host has been diagnosed; can include
      multiple diagnoses. The value of the field depends on host; for humans the terms
      should be chosen from the DO (Human Disease Ontology) at https://www.disease-ontology.org,
      non-human host diseases are free text
    title: host disease status
    examples:
    - value: downy mildew
    from_schema: https://w3id.org/mixs
    string_serialization: '{termLabel} [{termID}]|{text}'
    slot_uri: MIXS:0000031
    alias: host_disease_stat
    owner: FoodFarmEnvironment
    domain_of:
    - MigsBa
    - MigsEu
    - MigsVi
    - Miuvig
    - Agriculture
    - FoodFarmEnvironment
    - HostAssociated
    - HumanAssociated
    - HumanGut
    - HumanOral
    - HumanSkin
    - HumanVaginal
    - PlantAssociated
    range: string
    recommended: true
  host_genotype:
    name: host_genotype
    description: Observed genotype
    title: host genotype
    examples:
    - value: Ts
    from_schema: https://w3id.org/mixs
    slot_uri: MIXS:0000365
    alias: host_genotype
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - HostAssociated
    - HumanAssociated
    - HumanGut
    - HumanOral
    - HumanSkin
    - HumanVaginal
    - PlantAssociated
    - SymbiontAssociated
    range: string
  host_taxid:
    name: host_taxid
    description: NCBI taxon id of the host, e.g. 9606
    title: host taxid
    examples:
    - value: '4530'
    from_schema: https://w3id.org/mixs
    string_serialization: '{NCBI taxid}'
    slot_uri: MIXS:0000250
    alias: host_taxid
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - HostAssociated
    - PlantAssociated
    - SymbiontAssociated
    range: string
  mechanical_damage:
    name: mechanical_damage
    annotations:
      Expected_value:
        tag: Expected_value
        value: damage type;body site
    description: Information about any mechanical damage exerted on the plant; can
      include multiple damages and sites
    title: mechanical damage
    examples:
    - value: pruning;bark
    from_schema: https://w3id.org/mixs
    string_serialization: '{text};{text}'
    slot_uri: MIXS:0001052
    multivalued: true
    alias: mechanical_damage
    owner: FoodFarmEnvironment
    domain_of:
    - FoodFarmEnvironment
    - PlantAssociated
    range: string
  perturbation:
    name: perturbation
    annotations:
      Expected_value:
        tag: Expected_value
        value: perturbation type name;perturbation interval and duration
    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
    examples:
    - value: antibiotic addition;R2/2018-05-11T14:30Z/2018-05-11T19:30Z/P1H30M
    from_schema: https://w3id.org/mixs
    keywords:
    - perturbation
    string_serialization: '{text};{Rn/start_time/end_time/duration}'
    slot_uri: MIXS:0000754
    multivalued: true
    alias: perturbation
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - Air
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodHumanFoods
    - HostAssociated
    - HumanAssociated
    - HumanGut
    - HumanOral
    - HumanSkin
    - HumanVaginal
    - MicrobialMatBiofilm
    - MiscellaneousNaturalOrArtificialEnvironment
    - PlantAssociated
    - Sediment
    - SymbiontAssociated
    - WastewaterSludge
    - Water
    range: string
  root_cond:
    name: root_cond
    description: Relevant rooting conditions such as field plot size, sowing density,
      container dimensions, number of plants per container
    title: rooting conditions
    examples:
    - value: http://himedialabs.com/TD/PT158.pdf
    from_schema: https://w3id.org/mixs
    keywords:
    - condition
    slot_uri: MIXS:0001061
    alias: root_cond
    owner: FoodFarmEnvironment
    domain_of:
    - FoodFarmEnvironment
    - PlantAssociated
    range: string
    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
  root_med_ph:
    name: root_med_ph
    description: pH measurement of the culture rooting medium; e.g. 5.5
    title: rooting medium pH
    examples:
    - value: '7.5'
    from_schema: https://w3id.org/mixs
    keywords:
    - ph
    slot_uri: MIXS:0001062
    alias: root_med_ph
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - PlantAssociated
    range: float
  tillage:
    name: tillage
    description: Note method(s) used for tilling
    title: history/tillage
    examples:
    - value: chisel
    from_schema: https://w3id.org/mixs
    keywords:
    - history
    slot_uri: MIXS:0001081
    multivalued: true
    alias: tillage
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - Soil
    range: TillageEnum
  ph_meth:
    name: ph_meth
    description: Reference or method used in determining pH
    title: pH method
    examples:
    - value: https://www.epa.gov/sites/production/files/2015-12/documents/9040c.pdf
    from_schema: https://w3id.org/mixs
    keywords:
    - method
    - ph
    slot_uri: MIXS:0001106
    alias: ph_meth
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - Soil
    range: string
    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
  growth_medium:
    name: growth_medium
    description: A liquid or gel containing nutrients, salts, and other factors formulated
      to support the growth of microorganisms, cells, or plants (National Cancer Institute
      Thesaurus).  The name of the medium used to grow the microorganism
    title: growth medium
    examples:
    - value: LB broth
    from_schema: https://w3id.org/mixs
    keywords:
    - growth
    slot_uri: MIXS:0001108
    alias: growth_medium
    owner: FoodFarmEnvironment
    domain_of:
    - FoodFarmEnvironment
    range: string
  season:
    name: season
    annotations:
      Expected_value:
        tag: Expected_value
        value: autumn [NCIT:C94733], spring [NCIT:C94731], summer [NCIT:C94732], winter
          [NCIT:C94730]
    description: The season when sampling occurred. Any of the four periods into which
      the year is divided by the equinoxes and solstices. This field accepts terms
      listed under season (http://purl.obolibrary.org/obo/NCIT_C94729)
    title: season
    comments:
    - autumn [NCIT:C94733] does not match ^\\S+.*\\S+ \\[[a-zA-Z]{2,}:\\d+\\]$
    - would require ^\\S+.*\\S+ \\[[a-zA-Z]{2,}:[a-zA-Z0-9]\\]$
    examples:
    - value: autumn [NCIT:C94733]
    from_schema: https://w3id.org/mixs
    keywords:
    - season
    string_serialization: '{termLabel} [{termID}]'
    slot_uri: MIXS:0000829
    alias: season
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - BuiltEnvironment
    - FoodFarmEnvironment
    range: string
    pattern: ^\S+.*\S+ \[[a-zA-Z]{2,}:[a-zA-Z0-9]+\]$
  food_product_type:
    name: food_product_type
    description: A food product type is a class of food products that is differentiated
      by its food composition (e.g., single- or multi-ingredient), processing and/or
      consumption characteristics. This does not include brand name products but it
      may include generic food dish categories. This field accepts terms under food
      product type (http://purl.obolibrary.org/obo/FOODON:03400361). For terms related
      to food product for an animal, consult food product for animal (http://purl.obolibrary.org/obo/FOODON_03309997).
      If the proper descriptor is not listed please use text to describe the food
      type. Multiple terms can be separated by one or more pipes
    title: food product type
    examples:
    - value: shrimp (peeled, deep-frozen) [FOODON:03317171]
    from_schema: https://w3id.org/mixs
    string_serialization: '{text}|{termLabel} [{termID}]'
    slot_uri: MIXS:0001184
    alias: food_product_type
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: string
    required: true
  samp_type:
    name: samp_type
    description: The type of material from which the sample was obtained. For the
      Hydrocarbon package, samples include types like core, rock trimmings, drill
      cuttings, piping section, coupon, pigging debris, solid deposit, produced fluid,
      produced water, injected water, swabs, etc. For the Food Package, samples are
      usually categorized as food, body products or tissues, or environmental material.
      This field accepts terms listed under environmental specimen (http://purl.obolibrary.org/obo/GENEPIO_0001246)
    title: sample type
    examples:
    - value: built environment sample [GENEPIO:0001248]
    from_schema: https://w3id.org/mixs
    keywords:
    - sample
    - type
    slot_uri: MIXS:0000998
    alias: samp_type
    owner: FoodFarmEnvironment
    domain_of:
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - HydrocarbonResourcesCores
    - HydrocarbonResourcesFluidsSwabs
    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
  farm_water_source:
    name: farm_water_source
    description: Source of water used on the farm for irrigation of crops or watering
      of livestock
    title: farm watering water source
    examples:
    - value: well
      description: was water well (ENVO:01000002)
    from_schema: https://w3id.org/mixs
    keywords:
    - farm
    - source
    - water
    slot_uri: MIXS:0001110
    alias: farm_water_source
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    range: FarmWaterSourceEnum
    recommended: true
  plant_water_method:
    name: plant_water_method
    description: Description of the equipment or method used to distribute water to
      crops. This field accepts termed listed under irrigation process (http://purl.obolibrary.org/obo/AGRO_00000006).
      Multiple terms can be separated by pipes
    title: plant water delivery method
    examples:
    - value: drip irrigation process [AGRO:00000056]
    from_schema: https://w3id.org/mixs
    keywords:
    - delivery
    - method
    - plant
    - water
    slot_uri: MIXS:0001111
    alias: plant_water_method
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    range: string
    recommended: true
    pattern: ^([^\s-]{1,2}|[^\s-]+.+[^\s-]+) \[[a-zA-Z]{2,}:[a-zA-Z0-9]\d+\]$
    structured_pattern:
      syntax: ^{termLabel} \[{termID}\]$
      interpolated: true
      partial_match: true
  air_PM_concen:
    name: air_PM_concen
    annotations:
      Expected_value:
        tag: Expected_value
        value: particulate matter name;measurement value
    description: Concentration of substances that remain suspended in the air, and
      comprise mixtures of organic and inorganic substances (PM10 and PM2.5); can
      report multiple PM's by entering numeric values preceded by name of PM
    title: air particulate matter concentration
    examples:
    - value: PM2.5;10 microgram per cubic meter
    from_schema: https://w3id.org/mixs
    keywords:
    - air
    - concentration
    - particle
    - particulate
    string_serialization: '{text};{float} {unit}'
    slot_uri: MIXS:0000108
    multivalued: true
    alias: air_PM_concen
    owner: FoodFarmEnvironment
    domain_of:
    - Air
    - FoodFarmEnvironment
    range: string
  animal_feed_equip:
    name: animal_feed_equip
    annotations:
      Expected_value:
        tag: Expected_value
        value: EOL:0001757
    description: Description of the feeding equipment used for livestock. This field
      accepts terms listed under feed delivery (http://opendata.inra.fr/EOL/EOL_0001757).
      Multiple terms can be separated by pipes
    title: animal feeding equipment
    examples:
    - value: self feeding [EOL:0001645]| straight feed trough [EOL:0001661]
    from_schema: https://w3id.org/mixs
    keywords:
    - animal
    - equipment
    string_serialization: '{termLabel} [{termID}]'
    slot_uri: MIXS:0001113
    multivalued: true
    alias: animal_feed_equip
    owner: FoodFarmEnvironment
    domain_of:
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    range: string
  animal_intrusion:
    name: animal_intrusion
    description: Identification of animals intruding on the sample or sample site
      including invertebrates (such as pests or pollinators) and vertebrates (such
      as wildlife or domesticated animals). This field accepts terms under organism
      (http://purl.obolibrary.org/obo/NCIT_C14250). This field also accepts identification
      numbers from NCBI under https://www.ncbi.nlm.nih.gov/taxonomy. Multiple terms
      can be separated by pipes
    title: animal intrusion near sample source
    examples:
    - value: Thripidae [NCBITaxon:45053]
    from_schema: https://w3id.org/mixs
    keywords:
    - animal
    - sample
    - source
    slot_uri: MIXS:0001114
    multivalued: true
    alias: animal_intrusion
    owner: FoodFarmEnvironment
    domain_of:
    - FoodFarmEnvironment
    range: string
    pattern: ^(([^\s-]{1,2}|[^\s-]+.+[^\s-]+) \[[a-zA-Z]{2,}:[a-zA-Z0-9]\d+\])|[1-9][0-9]*$
    structured_pattern:
      syntax: ^({termLabel} \[{termID}\])|{integer}$
      interpolated: true
      partial_match: true
  anim_water_method:
    name: anim_water_method
    description: Description of the equipment or method used to distribute water to
      livestock. This field accepts termed listed under water delivery equipment (http://opendata.inra.fr/EOL/EOL_0001653).
      Multiple terms can be separated by pipes
    title: animal water delivery method
    examples:
    - value: water trough [EOL:0001618]
    from_schema: https://w3id.org/mixs
    keywords:
    - animal
    - delivery
    - method
    - water
    slot_uri: MIXS:0001115
    multivalued: true
    alias: anim_water_method
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    range: string
    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
  crop_yield:
    name: crop_yield
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: kilogram per metre square
    description: Amount of crop produced per unit or area of land
    title: crop yield
    examples:
    - value: 570 kilogram per metre square
    from_schema: https://w3id.org/mixs
    keywords:
    - crop
    slot_uri: MIXS:0001116
    alias: crop_yield
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    range: string
    pattern: ^[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?( *- *[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?)?
      *([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{scientific_float}( *- *{scientific_float})? *{text}$
      interpolated: true
      partial_match: true
  cult_result:
    name: cult_result
    description: Any result of a bacterial culture experiment reported as a binary
      assessment such as positive/negative, active/inactive
    title: culture result
    examples:
    - value: positive
    from_schema: https://w3id.org/mixs
    keywords:
    - culture
    slot_uri: MIXS:0001117
    alias: cult_result
    owner: FoodFarmEnvironment
    domain_of:
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: CultResultEnum
  cult_result_org:
    name: cult_result_org
    description: Taxonomic information about the cultured organism(s)
    title: culture result organism
    examples:
    - value: Listeria monocytogenes [NCIT:C86502]
    from_schema: https://w3id.org/mixs
    keywords:
    - culture
    - organism
    slot_uri: MIXS:0001118
    multivalued: true
    alias: cult_result_org
    owner: FoodFarmEnvironment
    domain_of:
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: string
    pattern: ^(([^\s-]{1,2}|[^\s-]+.+[^\s-]+) \[[a-zA-Z]{2,}:[a-zA-Z0-9]\d+\])|[1-9][0-9]*$
    structured_pattern:
      syntax: ^({termLabel} \[{termID}\])|{integer}$
      interpolated: true
      partial_match: true
  cult_target:
    name: cult_target
    annotations:
      Expected_value:
        tag: Expected_value
        value: NCIT:C14250 or NCBI taxid or culture independent
    description: The target microbial analyte in terms of investigation scope. This
      field accepts terms under organism (http://purl.obolibrary.org/obo/NCIT_C14250).
      This field also accepts identification numbers from NCBI under https://www.ncbi.nlm.nih.gov/taxonomy
    title: culture target microbial analyte
    examples:
    - value: Listeria monocytogenes [NCIT:C86502]
    from_schema: https://w3id.org/mixs
    keywords:
    - culture
    - microbial
    - target
    string_serialization: '{termLabel} [{termID}]|{integer}'
    slot_uri: MIXS:0001119
    multivalued: true
    alias: cult_target
    owner: FoodFarmEnvironment
    domain_of:
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: string
  plant_part_maturity:
    name: plant_part_maturity
    annotations:
      Expected_value:
        tag: Expected_value
        value: FOODON:03530050
    description: A description of the stage of development of a plant or plant part
      based on maturity or ripeness. This field accepts terms listed under degree
      of plant maturity (http://purl.obolibrary.org/obo/FOODON_03530050)
    title: degree of plant part maturity
    examples:
    - value: ripe or mature [FOODON:03530052]
    from_schema: https://w3id.org/mixs
    keywords:
    - degree
    - plant
    string_serialization: '{term label}{term ID}'
    slot_uri: MIXS:0001120
    alias: plant_part_maturity
    owner: FoodFarmEnvironment
    domain_of:
    - FoodFarmEnvironment
    range: string
  adjacent_environment:
    name: adjacent_environment
    annotations:
      Expected_value:
        tag: Expected_value
        value: ENVO_01001110 or ENVO_00000070
    description: Description of the environmental system or features that are adjacent
      to the sampling site. This field accepts terms under ecosystem (http://purl.obolibrary.org/obo/ENVO_01001110)
      and human construction (http://purl.obolibrary.org/obo/ENVO_00000070). Multiple
      terms can be separated by pipes
    title: environment adjacent to site
    examples:
    - value: estuarine biome [ENVO:01000020]
    from_schema: https://w3id.org/mixs
    keywords:
    - adjacent
    - environment
    - site
    string_serialization: '{termLabel}{[termID]}'
    slot_uri: MIXS:0001121
    multivalued: true
    alias: adjacent_environment
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    range: string
  water_source_adjac:
    name: water_source_adjac
    annotations:
      Expected_value:
        tag: Expected_value
        value: ENVO_01001110 or ENVO_00000070
    description: Description of the environmental features that are adjacent to the
      farm water source. This field accepts terms under ecosystem (http://purl.obolibrary.org/obo/ENVO_01001110)
      and human construction (http://purl.obolibrary.org/obo/ENVO_00000070). Multiple
      terms can be separated by pipes
    title: environmental feature adjacent water source
    examples:
    - value: feedlot [ENVO:01000627]
    from_schema: https://w3id.org/mixs
    keywords:
    - adjacent
    - environmental
    - feature
    - source
    - water
    string_serialization: '{text}'
    slot_uri: MIXS:0001122
    multivalued: true
    alias: water_source_adjac
    owner: FoodFarmEnvironment
    domain_of:
    - FoodFarmEnvironment
    range: string
  farm_equip_shared:
    name: farm_equip_shared
    description: List of planting, growing or harvesting equipment shared with other
      farms. This field accepts terms listed under agricultural implement (http://purl.obolibrary.org/obo/AGRO_00000416).
      Multiple terms can be separated by pipes
    title: equipment shared with other farms
    examples:
    - value: combine harvester [AGRO:00000473]
    from_schema: https://w3id.org/mixs
    keywords:
    - equipment
    - farm
    slot_uri: MIXS:0001123
    multivalued: true
    alias: farm_equip_shared
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    range: string
    pattern: ^([^\s-]{1,2}|[^\s-]+.+[^\s-]+) \[[a-zA-Z]{2,}:[a-zA-Z0-9]\d+\]$
    structured_pattern:
      syntax: ^{termLabel} \[{termID}\]$
      interpolated: true
      partial_match: true
  farm_equip_san:
    name: farm_equip_san
    annotations:
      Expected_value:
        tag: Expected_value
        value: text or commercial name of sanitizer or class of sanitizer or active
          ingredient in sanitizer
      Preferred_unit:
        tag: Preferred_unit
        value: parts per million
    description: Method used to sanitize growing and harvesting equipment. This can
      including type and concentration of sanitizing solution.  Multiple terms can
      be separated by one or more pipes
    title: farm equipment sanitization
    examples:
    - value: hot water pressure wash, hypochlorite solution, 50 parts per million
    from_schema: https://w3id.org/mixs
    keywords:
    - equipment
    - farm
    string_serialization: '{text} {float} {unit}'
    slot_uri: MIXS:0001124
    multivalued: true
    alias: farm_equip_san
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    range: string
  farm_equip_san_freq:
    name: farm_equip_san_freq
    description: The number of times farm equipment is cleaned. Frequency of cleaning
      might be on a Daily basis, Weekly, Monthly, Quarterly or Annually
    title: farm equipment sanitization frequency
    examples:
    - value: Biweekly
    from_schema: https://w3id.org/mixs
    keywords:
    - equipment
    - farm
    - frequency
    slot_uri: MIXS:0001125
    alias: farm_equip_san_freq
    owner: FoodFarmEnvironment
    domain_of:
    - FoodFarmEnvironment
    range: string
  farm_equip:
    name: farm_equip
    description: List of equipment used for planting, fertilization, harvesting, irrigation,
      land levelling, residue management, weeding or transplanting during the growing
      season.  This field accepts terms listed under agricultural implement (http://purl.obolibrary.org/obo/AGRO_00000416).
      Multiple terms can be separated by pipes
    title: farm equipment used
    examples:
    - value: combine harvester [AGRO:00000473]
    from_schema: https://w3id.org/mixs
    keywords:
    - equipment
    - farm
    - use
    slot_uri: MIXS:0001126
    multivalued: true
    alias: farm_equip
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    range: string
    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
  fertilizer_admin:
    name: fertilizer_admin
    description: Type of fertilizer or amendment added to the soil or water for the
      purpose of improving substrate health and quality for plant growth. This field
      accepts terms listed under agronomic fertilizer (http://purl.obolibrary.org/obo/AGRO_00002062).
      Multiple terms may apply and can be separated by pipes, listing in reverse chronological
      order
    title: fertilizer administration
    examples:
    - value: fish emulsion [AGRO:00000082]
    from_schema: https://w3id.org/mixs
    keywords:
    - administration
    slot_uri: MIXS:0001127
    alias: fertilizer_admin
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    range: string
    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
  fertilizer_date:
    name: fertilizer_date
    description: Date of administration of soil amendment or fertilizer. Multiple
      terms may apply and can be separated by pipes, listing in reverse chronological
      order
    title: fertilizer administration date
    examples:
    - value: '2018-05-11T10:00:00+01:00'
    from_schema: https://w3id.org/mixs
    keywords:
    - administration
    - date
    slot_uri: MIXS:0001128
    alias: fertilizer_date
    owner: FoodFarmEnvironment
    domain_of:
    - FoodFarmEnvironment
    range: datetime
  animal_group_size:
    name: animal_group_size
    description: The number of food animals of the same species that are maintained
      together as a unit, i.e. a herd or flock
    title: food animal group size
    examples:
    - value: '80'
    from_schema: https://w3id.org/mixs
    keywords:
    - animal
    - food
    - size
    slot_uri: MIXS:0001129
    alias: animal_group_size
    owner: FoodFarmEnvironment
    domain_of:
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    range: integer
  animal_diet:
    name: animal_diet
    annotations:
      Expected_value:
        tag: Expected_value
        value: text or FOODON_03309997
    description: If the isolate is from a food animal, the type of diet eaten by the
      food animal.  Please list the main food staple and the setting, if appropriate.  For
      a list of acceptable animal feed terms or categories, please see http://www.feedipedia.org.  Multiple
      terms may apply and can be separated by pipes |Food product for animal covers
      foods intended for consumption by domesticated animals. Consult http://purl.obolibrary.org/obo/FOODON_03309997.
      If the proper descriptor is not listed please use text to describe the food
      type. Multiple terms can be separated by one or more pipes. If the proper descriptor
      is not listed please use text to describe the food product type
    title: food animal source diet
    examples:
    - value: Hay [FOODON:03301763]
    from_schema: https://w3id.org/mixs
    keywords:
    - animal
    - diet
    - food
    - source
    string_serialization: '{text}'
    slot_uri: MIXS:0001130
    multivalued: true
    alias: animal_diet
    owner: FoodFarmEnvironment
    domain_of:
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    range: string
  food_contact_surf:
    name: food_contact_surf
    annotations:
      Expected_value:
        tag: Expected_value
        value: FOODON:03500010
    description: The specific container or coating materials in direct contact with
      the food. Multiple values can be assigned.  This field accepts terms listed
      under food contact surface (http://purl.obolibrary.org/obo/FOODON_03500010)
    title: food contact surface
    examples:
    - value: cellulose acetate [FOODON:03500034]
    from_schema: https://w3id.org/mixs
    keywords:
    - food
    - surface
    string_serialization: '{text}|{termLabel} [{termID}]'
    slot_uri: MIXS:0001131
    multivalued: true
    alias: food_contact_surf
    owner: FoodFarmEnvironment
    domain_of:
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: string
  food_contain_wrap:
    name: food_contain_wrap
    annotations:
      Expected_value:
        tag: Expected_value
        value: FOODON:03490100
    description: Type of container or wrapping defined by the main container material,
      the container form, and the material of the liner lids or ends. Also type of
      container or wrapping by form; prefer description by material first, then by
      form. This field accepts terms listed under food container or wrapping (http://purl.obolibrary.org/obo/FOODON_03490100)
    title: food container or wrapping
    examples:
    - value: Plastic shrink-pack [FOODON:03490137]
    from_schema: https://w3id.org/mixs
    keywords:
    - food
    string_serialization: '{text}|{termLabel} [{termID}]'
    slot_uri: MIXS:0001132
    alias: food_contain_wrap
    owner: FoodFarmEnvironment
    domain_of:
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: string
  food_harvest_proc:
    name: food_harvest_proc
    description: A harvesting process is a process which takes in some food material
      from an individual or community of plant or animal organisms in a given context
      and time, and outputs a precursor or consumable food product. This may include
      a part of an organism or the whole, and may involve killing the organism
    title: Food harvesting process
    examples:
    - value: hand-picked
    from_schema: https://w3id.org/mixs
    keywords:
    - food
    - process
    slot_uri: MIXS:0001133
    multivalued: true
    alias: food_harvest_proc
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    range: string
  food_pack_medium:
    name: food_pack_medium
    description: The medium in which the food is packed for preservation and handling
      or the medium surrounding homemade foods, e.g., peaches cooked in sugar syrup.
      The packing medium may provide a controlled environment for the food. It may
      also serve to improve palatability and consumer appeal.  This includes edible
      packing media (e.g. fruit juice), gas other than air (e.g. carbon dioxide),
      vacuum packed, or packed with aerosol propellant. This field accepts terms under
      food packing medium (http://purl.obolibrary.org/obo/FOODON_03480020). Multiple
      terms may apply and can be separated by pipes
    title: food packing medium
    examples:
    - value: vacuum-packed [FOODON:03480027]
    from_schema: https://w3id.org/mixs
    string_serialization: '{text}|{termLabel} [{termID}]'
    slot_uri: MIXS:0001134
    multivalued: true
    alias: food_pack_medium
    owner: FoodFarmEnvironment
    domain_of:
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: string
  food_preserv_proc:
    name: food_preserv_proc
    annotations:
      Expected_value:
        tag: Expected_value
        value: FOODON:03470107
    description: The methods contributing to the prevention or retardation of microbial,
      enzymatic or oxidative spoilage and thus to the extension of shelf life. This
      field accepts terms listed under food preservation process (http://purl.obolibrary.org/obo/FOODON_03470107)
    title: food preservation process
    examples:
    - value: food slow freezing [FOODON:03470128]
    from_schema: https://w3id.org/mixs
    keywords:
    - food
    - process
    string_serialization: '{text}|{termLabel} [{termID}]'
    slot_uri: MIXS:0001135
    multivalued: true
    alias: food_preserv_proc
    owner: FoodFarmEnvironment
    domain_of:
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: string
  food_prod_char:
    name: food_prod_char
    description: Descriptors of the food production system such as wild caught, free-range,
      organic, free-range, industrial, dairy, beef
    title: food production characteristics
    examples:
    - value: wild caught
    from_schema: https://w3id.org/mixs
    keywords:
    - food
    - production
    slot_uri: MIXS:0001136
    multivalued: true
    alias: food_prod_char
    owner: FoodFarmEnvironment
    domain_of:
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    range: string
  prod_label_claims:
    name: prod_label_claims
    description: Labeling claims containing descriptors such as wild caught, free-range,
      organic, free-range, industrial, hormone-free, antibiotic free, cage free. Can
      include more than one term, separated by ";"
    title: production labeling claims
    examples:
    - value: free range
    from_schema: https://w3id.org/mixs
    keywords:
    - production
    slot_uri: MIXS:prod_label_claims
    multivalued: true
    alias: prod_label_claims
    owner: FoodFarmEnvironment
    domain_of:
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    range: string
  food_trav_mode:
    name: food_trav_mode
    description: A descriptor for the method of movement of food commodity along the
      food distribution system.  This field accepts terms listed under travel mode
      (http://purl.obolibrary.org/obo/GENEPIO_0001064). If the proper descrptor is
      not listed please use text to describe the mode of travel. Multiple terms can
      be separated by one or more pipes
    title: food shipping transportation method
    examples:
    - value: train travel [GENEPIO:0001060]
    from_schema: https://w3id.org/mixs
    keywords:
    - food
    - method
    - transport
    slot_uri: MIXS:0001137
    multivalued: true
    alias: food_trav_mode
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: string
    pattern: ^([^\s-]{1,2}|[^\s-]+.+[^\s-]+) \[[a-zA-Z]{2,}:[a-zA-Z0-9]\d+\]$
    structured_pattern:
      syntax: ^{termLabel} \[{termID}\]$
      interpolated: true
      partial_match: true
  food_trav_vehic:
    name: food_trav_vehic
    annotations:
      Expected_value:
        tag: Expected_value
        value: ENVO:01000604
    description: A descriptor for the mobile machine which is used to transport food
      commodities along the food distribution system.  This field accepts terms listed
      under vehicle (http://purl.obolibrary.org/obo/ENVO_01000604). If the proper
      descrptor is not listed please use text to describe the mode of travel. Multiple
      terms can be separated by one or more pipes
    title: food shipping transportation vehicle
    examples:
    - value: aircraft [ENVO:01001488]|car [ENVO:01000605]
    from_schema: https://w3id.org/mixs
    keywords:
    - food
    - transport
    string_serialization: '{text}|{termLabel} [{termID}]'
    slot_uri: MIXS:0001138
    multivalued: true
    alias: food_trav_vehic
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: string
  food_source:
    name: food_source
    description: Type of plant or animal from which the food product or its major
      ingredient is derived or a chemical food source [FDA CFSAN 1995]
    title: food source
    examples:
    - value: giant tiger prawn [FOODON:03412612]
    from_schema: https://w3id.org/mixs
    string_serialization: '{termLabel} [{termID}]'
    slot_uri: MIXS:0001139
    alias: food_source
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: string
  food_treat_proc:
    name: food_treat_proc
    annotations:
      Expected_value:
        tag: Expected_value
        value: FOODON:03460111
    description: Used to specifically characterize a food product based on the treatment
      or processes applied to the product or any indexed ingredient. The processes
      include adding, substituting or removing components or modifying the food or
      component, e.g., through fermentation. Multiple values can be assigned. This
      fields accepts terms listed under food treatment process (http://purl.obolibrary.org/obo/FOODON_03460111)
    title: food treatment process
    examples:
    - value: gluten removal process [FOODON:03460750]
    from_schema: https://w3id.org/mixs
    keywords:
    - food
    - process
    - treatment
    string_serialization: '{text}|{termLabel} [{termID}]'
    slot_uri: MIXS:0001140
    multivalued: true
    alias: food_treat_proc
    owner: FoodFarmEnvironment
    domain_of:
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: string
  extr_weather_event:
    name: extr_weather_event
    description: Unusual weather events that may have affected microbial populations.
      Multiple terms can be separated by pipes, listed in reverse chronological order
    title: extreme weather event
    examples:
    - value: hail
    from_schema: https://w3id.org/mixs
    keywords:
    - event
    - extreme
    - weather
    slot_uri: MIXS:0001141
    multivalued: true
    alias: extr_weather_event
    owner: FoodFarmEnvironment
    domain_of:
    - FoodFarmEnvironment
    range: ExtrWeatherEventEnum
  date_extr_weath:
    name: date_extr_weath
    description: Date of unusual weather events that may have affected microbial populations.
      Multiple terms can be separated by pipes, listed in reverse chronological order
    title: extreme weather date
    examples:
    - value: '2013-03-25T12:42:31+01:00'
    from_schema: https://w3id.org/mixs
    keywords:
    - date
    - extreme
    - weather
    slot_uri: MIXS:0001142
    multivalued: true
    alias: date_extr_weath
    owner: FoodFarmEnvironment
    domain_of:
    - FoodFarmEnvironment
    range: datetime
  host_subspecf_genlin:
    name: host_subspecf_genlin
    annotations:
      Expected_value:
        tag: Expected_value
        value: Genetic lineage below lowest rank of NCBI taxonomy, which is subspecies,
          e.g. serovar, biotype, ecotype, variety, cultivar
    description: Information about the genetic distinctness of the host organism below
      the subspecies level e.g., serovar, serotype, biotype, ecotype, variety, cultivar,
      or any relevant genetic typing schemes like Group I plasmid. Subspecies should
      not be recorded in this term, but in the NCBI taxonomy. Supply both the lineage
      name and the lineage rank separated by a colon, e.g., biovar:abc123
    title: host subspecific genetic lineage
    examples:
    - value: 'serovar:Newport, variety:glabrum, cultivar: Red Delicious'
    from_schema: https://w3id.org/mixs
    keywords:
    - host
    - host.
    - lineage
    string_serialization: '{rank name}:{text}'
    slot_uri: MIXS:0001318
    multivalued: true
    alias: host_subspecf_genlin
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - HostAssociated
    - PlantAssociated
    range: string
  intended_consumer:
    name: intended_consumer
    annotations:
      Expected_value:
        tag: Expected_value
        value: FOODON_03510136 or NCBI taxid
    description: Food consumer type, human or animal, for which the food product is
      produced and marketed. This field accepts terms listed under food consumer group
      (http://purl.obolibrary.org/obo/FOODON_03510136) or NCBI taxid
    title: intended consumer
    examples:
    - value: 9606 o rsenior as food consumer [FOODON:03510254]
    from_schema: https://w3id.org/mixs
    keywords:
    - consumer
    string_serialization: '{integer}|{termLabel} [{termID}]'
    slot_uri: MIXS:0001144
    multivalued: true
    alias: intended_consumer
    owner: FoodFarmEnvironment
    domain_of:
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: string
  library_prep_kit:
    name: library_prep_kit
    description: Packaged kits (containing adapters, indexes, enzymes, buffers etc.),
      tailored for specific sequencing workflows, which allow the simplified preparation
      of sequencing-ready libraries for small genomes, amplicons, and plasmids
    title: library preparation kit
    examples:
    - value: Illumina DNA Prep
    from_schema: https://w3id.org/mixs
    string_serialization: '{text}'
    slot_uri: MIXS:0001145
    alias: library_prep_kit
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: string
  air_flow_impede:
    name: air_flow_impede
    annotations:
      Expected_value:
        tag: Expected_value
        value: enumeration;obstruction type; distance from sampling device
    description: Presence of objects in the area that would influence or impede air
      flow through the air filter
    title: local air flow impediments
    examples:
    - value: obstructed;hay bales; 2 m
    from_schema: https://w3id.org/mixs
    keywords:
    - air
    string_serialization: '[obstructed|unobstructed]; {text}; {measurement value}'
    slot_uri: MIXS:0001146
    multivalued: true
    alias: air_flow_impede
    owner: FoodFarmEnvironment
    domain_of:
    - FoodFarmEnvironment
    range: string
  lot_number:
    name: lot_number
    annotations:
      Expected_value:
        tag: Expected_value
        value: lot number, item
    description: 'A distinctive alpha-numeric identification code assigned by the
      manufacturer or distributor to a specific quantity of manufactured material
      or product within a batch. Synonym: Batch Number.  The submitter should provide
      lot number of the item followed by the item name for which the lot number was
      provided'
    title: lot number
    examples:
    - value: 1239ABC01A, split Cornish hens
    from_schema: https://w3id.org/mixs
    keywords:
    - number
    string_serialization: '{integer}, {text}'
    slot_uri: MIXS:0001147
    multivalued: true
    alias: lot_number
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: string
  season_humidity:
    name: season_humidity
    description: Average humidity of the region throughout the growing season
    title: mean seasonal humidity
    comments:
    - percent or float?
    examples:
    - value: '0.25'
    from_schema: https://w3id.org/mixs
    keywords:
    - humidity
    - mean
    - season
    slot_uri: MIXS:0001148
    alias: season_humidity
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    range: float
    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
  part_plant_animal:
    name: part_plant_animal
    annotations:
      Expected_value:
        tag: Expected_value
        value: FOODON:03420116
    description: The anatomical part of the organism being involved in food production
      or consumption; e.g., a carrot is the root of the plant (root vegetable). This
      field accepts terms listed under part of plant or animal (http://purl.obolibrary.org/obo/FOODON_03420116)
    title: part of plant or animal
    examples:
    - value: chuck [FOODON:03530021]
    from_schema: https://w3id.org/mixs
    keywords:
    - animal
    - plant
    string_serialization: '{text}|{termLabel} [{termID}]'
    slot_uri: MIXS:0001149
    multivalued: true
    alias: part_plant_animal
    owner: FoodFarmEnvironment
    domain_of:
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: string
  plant_growth_med:
    name: plant_growth_med
    description: Specification of the media for growing the plants or tissue cultured
      samples, e.g. soil, aeroponic, hydroponic, in vitro solid culture medium, in
      vitro liquid culture medium. Recommended value is a specific value from EO:plant
      growth medium (follow this link for terms http://purl.obolibrary.org/obo/EO_0007147)
      or other controlled vocabulary
    title: plant growth medium
    examples:
    - value: soil
    from_schema: https://w3id.org/mixs
    string_serialization: '{termLabel} [{termID}] or [husk|other artificial liquid
      medium|other artificial solid medium|peat moss|perlite|pumice|sand|soil|vermiculite|water]'
    slot_uri: MIXS:0001057
    alias: plant_growth_med
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - PlantAssociated
    range: string
  plant_reprod_crop:
    name: plant_reprod_crop
    description: Plant reproductive part used in the field during planting to start
      the crop
    title: plant reproductive part
    examples:
    - value: seedling
    from_schema: https://w3id.org/mixs
    keywords:
    - plant
    slot_uri: MIXS:0001150
    multivalued: true
    alias: plant_reprod_crop
    owner: FoodFarmEnvironment
    domain_of:
    - FoodFarmEnvironment
    range: PlantReprodCropEnum
  samp_purpose:
    name: samp_purpose
    annotations:
      Expected_value:
        tag: Expected_value
        value: enumeration or {text}
    description: The reason that the sample was collected
    title: purpose of sampling
    examples:
    - value: field trial
    from_schema: https://w3id.org/mixs
    keywords:
    - purpose
    string_serialization: '[active surveillance in response to an outbreak|active
      surveillance not initiated by an outbreak|clinical trial|cluster investigation|environmental
      assessment|farm sample|field trial|for cause|industry internal investigation|market
      sample|passive surveillance|population based studies|research|research and development]
      or {text}'
    slot_uri: MIXS:0001151
    alias: samp_purpose
    owner: FoodFarmEnvironment
    domain_of:
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: string
  repository_name:
    name: repository_name
    annotations:
      Expected_value:
        tag: Expected_value
        value: Institution
    description: The name of the institution where the sample or DNA extract is held
      or "sample not available" if the sample was used in its entirety for analysis
      or otherwise not retained
    title: repository name
    examples:
    - value: FDA CFSAN Microbiology Laboratories
    from_schema: https://w3id.org/mixs
    string_serialization: '{text}'
    slot_uri: MIXS:0001152
    multivalued: true
    alias: repository_name
    owner: FoodFarmEnvironment
    domain_of:
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: string
  samp_pooling:
    name: samp_pooling
    description: Physical combination of several instances of like material, e.g.
      RNA extracted from samples or dishes of cell cultures into one big aliquot of
      cells. Please provide a short description of the samples that were pooled
    title: sample pooling
    examples:
    - value: 5uL of extracted genomic DNA from 5 leaves were pooled
    from_schema: https://w3id.org/mixs
    keywords:
    - pooling
    - sample
    slot_uri: MIXS:0001153
    multivalued: true
    alias: samp_pooling
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: string
  samp_source_mat_cat:
    name: samp_source_mat_cat
    annotations:
      Expected_value:
        tag: Expected_value
        value: GENEPIO:0001237
    description: This is the scientific role or category that the subject organism
      or material has with respect to an investigation.  This field accepts terms
      listed under specimen source material category (http://purl.obolibrary.org/obo/GENEPIO_0001237
      or http://purl.obolibrary.org/obo/OBI_0100051)
    title: sample source material category
    examples:
    - value: environmental (swab or sampling) [GENEPIO:0001732]
    from_schema: https://w3id.org/mixs
    keywords:
    - material
    - sample
    - source
    string_serialization: '{termLabel} [{termID}]'
    slot_uri: MIXS:0001154
    alias: samp_source_mat_cat
    owner: FoodFarmEnvironment
    domain_of:
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: string
  sequencing_kit:
    name: sequencing_kit
    annotations:
      Expected_value:
        tag: Expected_value
        value: name of sequencing kit used
    description: Pre-filled, ready-to-use reagent cartridges. Used to produce improved
      chemistry, cluster density and read length as well as improve quality (Q) scores.
      Reagent components are encoded to interact with the sequencing system to validate
      compatibility with user-defined applications. Indicate name of the sequencing
      kit
    title: sequencing kit
    examples:
    - value: NextSeq 500/550 High Output Kit v2.5 (75 Cycles)
    from_schema: https://w3id.org/mixs
    keywords:
    - kit
    string_serialization: '{text}'
    slot_uri: MIXS:0001155
    alias: sequencing_kit
    owner: FoodFarmEnvironment
    domain_of:
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: string
  sequencing_location:
    name: sequencing_location
    description: The location the sequencing run was performed. Indicate the name
      of the lab or core facility where samples were sequenced
    title: sequencing location
    examples:
    - value: University of Maryland Genomics Resource Center
    from_schema: https://w3id.org/mixs
    keywords:
    - location
    slot_uri: MIXS:0001156
    alias: sequencing_location
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: string
  serovar_or_serotype:
    name: serovar_or_serotype
    description: A characterization of a cell or microorganism based on the antigenic
      properties of the molecules on its surface. Indicate the name of a serovar or
      serotype of interest. This field accepts terms under organism (http://purl.obolibrary.org/obo/NCIT_C14250).
      This field also accepts identification numbers from NCBI under https://www.ncbi.nlm.nih.gov/taxonomy
    title: serovar or serotype
    examples:
    - value: Escherichia coli strain O157:H7 [NCIT:C86883]
    from_schema: https://w3id.org/mixs
    slot_uri: MIXS:0001157
    multivalued: true
    alias: serovar_or_serotype
    owner: FoodFarmEnvironment
    domain_of:
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodHumanFoods
    range: string
    pattern: ^(([^\s-]{1,2}|[^\s-]+.+[^\s-]+) \[[a-zA-Z]{2,}:[a-zA-Z0-9]\d+\])|[1-9][0-9]*$
    structured_pattern:
      syntax: ^({termLabel} \[{termID}\])|{integer}$
      interpolated: true
      partial_match: true
  soil_conductivity:
    name: soil_conductivity
    description: Conductivity of soil at time of sampling.
    title: soil conductivity
    from_schema: https://w3id.org/mixs
    slot_uri: MIXS:0001158
    alias: soil_conductivity
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    range: string
    pattern: ^[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?( *- *[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?)?
      *([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{scientific_float}( *- *{scientific_float})? *{text}$
      interpolated: true
      partial_match: true
  soil_cover:
    name: soil_cover
    annotations:
      Expected_value:
        tag: Expected_value
        value: subclass of 'environmental material', http://purl.obolibrary.org/obo/ENVO_00010483
    description: Material covering the sampled soil. This field accepts terms under
      ENVO:00010483, environmental material
    title: soil cover
    examples:
    - value: bare soil [ENVO01001616]
    from_schema: https://w3id.org/mixs
    keywords:
    - soil
    string_serialization: bare soil [ENVO:01001616]
    slot_uri: MIXS:0001159
    alias: soil_cover
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    range: string
  soil_pH:
    name: soil_pH
    description: The pH of soil at time of sampling.
    title: soil pH
    from_schema: https://w3id.org/mixs
    slot_uri: MIXS:0001160
    alias: soil_pH
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    range: float
  rel_location:
    name: rel_location
    description: Location of sampled soil to other parts of the farm e.g. under crop
      plant, near irrigation ditch, from the dirt road
    title: relative location of sample
    examples:
    - value: furrow
    from_schema: https://w3id.org/mixs
    keywords:
    - location
    - relative
    - sample
    slot_uri: MIXS:0001161
    alias: rel_location
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    range: string
  soil_porosity:
    name: soil_porosity
    annotations:
      Expected_value:
        tag: Expected_value
        value: percent porosity
      Preferred_unit:
        tag: Preferred_unit
        value: percentage
    description: Porosity of soil or deposited sediment is volume of voids divided
      by the total volume of sample
    title: soil sediment porosity
    examples:
    - value: '0.2'
    from_schema: https://w3id.org/mixs
    keywords:
    - porosity
    - sediment
    - soil
    string_serialization: '{percentage}'
    slot_uri: MIXS:0001162
    alias: soil_porosity
    owner: FoodFarmEnvironment
    domain_of:
    - FoodFarmEnvironment
    range: string
  soil_temp:
    name: soil_temp
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: degree Celsius
    description: Temperature of soil at the time of sampling
    title: soil temperature
    examples:
    - value: 25 degrees Celsius
    from_schema: https://w3id.org/mixs
    keywords:
    - soil
    - temperature
    slot_uri: MIXS:0001163
    alias: soil_temp
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    range: string
    pattern: ^[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?( *- *[-+]?[0-9]*\.?[0-9]+(?:[eE][-+]?[0-9]+)?)?
      *([^\s-]{1,2}|[^\s-]+.+[^\s-]+)$
    structured_pattern:
      syntax: ^{scientific_float}( *- *{scientific_float})? *{text}$
      interpolated: true
      partial_match: true
  soil_texture_class:
    name: soil_texture_class
    description: One of the 12 soil texture classes use to describe soil texture based
      on the relative proportion of different grain sizes  of mineral particles [sand
      (50 um to 2 mm), silt (2 um to 50 um), and clay (<2 um)] in a soil
    title: soil texture classification
    examples:
    - value: silty clay loam
    from_schema: https://w3id.org/mixs
    keywords:
    - classification
    - soil
    - texture
    slot_uri: MIXS:0001164
    alias: soil_texture_class
    owner: FoodFarmEnvironment
    domain_of:
    - FoodFarmEnvironment
    range: SoilTextureClassEnum
  soil_texture_meth:
    name: soil_texture_meth
    description: Reference or method used in determining soil texture
    title: soil texture method
    examples:
    - value: https://uwlab.soils.wisc.edu/wp-content/uploads/sites/17/2015/09/particle_size.pdf
    from_schema: https://w3id.org/mixs
    keywords:
    - method
    - soil
    - texture
    slot_uri: MIXS:0000336
    alias: soil_texture_meth
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - Soil
    range: string
    pattern: ^^PMID:\d+$|^doi:10.\d{2,9}/.*$|^https?:\/\/(?:www\.)?[-a-zA-Z0-9@:%._\+~#=]{1,256}\.[a-zA-Z0-9()]{1,6}\b(?:[-a-zA-Z0-9()@:%_\+.~#?&\/=]*)$$
    structured_pattern:
      syntax: ^{PMID}|{DOI}|{URL}$
      interpolated: true
      partial_match: true
  soil_type:
    name: soil_type
    description: Description of the soil type or classification. This field accepts
      terms under soil (http://purl.obolibrary.org/obo/ENVO_00001998).  Multiple terms
      can be separated by pipes
    title: soil type
    from_schema: https://w3id.org/mixs
    string_serialization: '{termLabel} [{termID}]'
    slot_uri: MIXS:0000332
    alias: soil_type
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    - Soil
    range: string
  spikein_org:
    name: spikein_org
    description: Taxonomic information about the spike-in organism(s). This field
      accepts terms under organism (http://purl.obolibrary.org/obo/NCIT_C14250). This
      field also accepts identification numbers from NCBI under https://www.ncbi.nlm.nih.gov/taxonomy.
      Multiple terms can be separated by pipes
    title: spike in organism
    examples:
    - value: Listeria monocytogenes [NCIT:C86502]|28901
    from_schema: https://w3id.org/mixs
    keywords:
    - organism
    - spike
    slot_uri: MIXS:0001167
    multivalued: true
    alias: spikein_org
    owner: FoodFarmEnvironment
    domain_of:
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodHumanFoods
    range: string
    pattern: ^(([^\s-]{1,2}|[^\s-]+.+[^\s-]+) \[[a-zA-Z]{2,}:[a-zA-Z0-9]\d+\])|[1-9][0-9]*$
    structured_pattern:
      syntax: ^({termLabel} \[{termID}\])|{integer}$
      interpolated: true
      partial_match: true
  spikein_serovar:
    name: spikein_serovar
    annotations:
      Expected_value:
        tag: Expected_value
        value: NCIT:C14250 or antigenic formula or serovar name
    description: Taxonomic information about the spike-in organism(s) at the serovar
      or serotype level. This field accepts terms under organism (http://purl.obolibrary.org/obo/NCIT_C14250).
      This field also accepts identification numbers from NCBI under https://www.ncbi.nlm.nih.gov/taxonomy.
      Multiple terms can be separated by pipes
    title: spike-in bacterial serovar or serotype
    examples:
    - value: Escherichia coli strain O157:H7 [NCIT:C86883]|83334
    from_schema: https://w3id.org/mixs
    keywords:
    - spike
    string_serialization: '{termLabel} [{termID}]|{integer}'
    slot_uri: MIXS:0001168
    multivalued: true
    alias: spikein_serovar
    owner: FoodFarmEnvironment
    domain_of:
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodHumanFoods
    range: string
  spikein_growth_med:
    name: spikein_growth_med
    description: A liquid or gel containing nutrients, salts, and other factors formulated
      to support the growth of microorganisms, cells, or plants (National Cancer Institute
      Thesaurus).  A growth medium is a culture medium which has the disposition to
      encourage growth of particular bacteria to the exclusion of others in the same
      growth environment.  In this case, list the culture medium used to propagate
      the spike-in bacteria during preparation of spike-in inoculum. This field accepts
      terms listed under microbiological culture medium (http://purl.obolibrary.org/obo/MICRO_0000067).
      If the proper descriptor is not listed please use text to describe the spike
      in growth media
    title: spike-in growth medium
    examples:
    - value: LB broth [MCO:0000036]
    from_schema: https://w3id.org/mixs
    keywords:
    - growth
    - spike
    slot_uri: MIXS:0001169
    multivalued: true
    alias: spikein_growth_med
    owner: FoodFarmEnvironment
    domain_of:
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodHumanFoods
    range: string
    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
  spikein_strain:
    name: spikein_strain
    annotations:
      Expected_value:
        tag: Expected_value
        value: NCIT:C14250 or NCBI taxid or text
    description: Taxonomic information about the spike-in organism(s) at the strain
      level. This field accepts terms under organism (http://purl.obolibrary.org/obo/NCIT_C14250).
      This field also accepts identification numbers from NCBI under https://www.ncbi.nlm.nih.gov/taxonomy.
      Multiple terms can be separated by pipes
    title: spike-in microbial strain
    examples:
    - value: '169963'
    from_schema: https://w3id.org/mixs
    keywords:
    - microbial
    - spike
    string_serialization: '{termLabel} [{termID}]|{integer}'
    slot_uri: MIXS:0001170
    multivalued: true
    alias: spikein_strain
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodHumanFoods
    range: string
  spikein_antibiotic:
    name: spikein_antibiotic
    annotations:
      Expected_value:
        tag: Expected_value
        value: drug name; concentration
    description: Antimicrobials used in research study to assess effects of exposure
      on microbiome of a specific site.  Please list antimicrobial, common name and/or
      class and concentration used for spike-in
    title: spike-in with antibiotics
    examples:
    - value: Tetracycline at 5 mg/ml
    from_schema: https://w3id.org/mixs
    keywords:
    - spike
    string_serialization: '{text} {integer}'
    slot_uri: MIXS:0001171
    multivalued: true
    alias: spikein_antibiotic
    owner: FoodFarmEnvironment
    domain_of:
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodHumanFoods
    range: string
  spikein_metal:
    name: spikein_metal
    annotations:
      Expected_value:
        tag: Expected_value
        value: heavy metal name or chemical symbol; concentration
    description: Heavy metals used in research study to assess effects of exposure
      on microbiome of a specific site.  Please list heavy metals and concentration
      used for spike-in
    title: spike-in with heavy metals
    examples:
    - value: Cd at 20 ppm
    from_schema: https://w3id.org/mixs
    keywords:
    - heavy
    - spike
    string_serialization: '{text} {integer}'
    slot_uri: MIXS:0001172
    multivalued: true
    alias: spikein_metal
    owner: FoodFarmEnvironment
    domain_of:
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodHumanFoods
    range: string
  timepoint:
    name: timepoint
    annotations:
      Preferred_unit:
        tag: Preferred_unit
        value: hours or days
    description: Time point at which a sample or observation is made or taken from
      a biomaterial as measured from some reference point. Indicate the timepoint
      written in ISO 8601 format
    title: timepoint
    examples:
    - value: PT24H
    from_schema: https://w3id.org/mixs
    keywords:
    - time
    slot_uri: MIXS:0001173
    alias: timepoint
    owner: FoodFarmEnvironment
    domain_of:
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: string
    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
  water_frequency:
    name: water_frequency
    annotations:
      Expected_value:
        tag: Expected_value
        value: rate
      Preferred_unit:
        tag: Preferred_unit
        value: per day, per week, per month
    description: Number of water delivery events within a given period of time
    title: water delivery frequency
    examples:
    - value: 2 per day
    from_schema: https://w3id.org/mixs
    keywords:
    - delivery
    - frequency
    - water
    string_serialization: '{float}{unit}'
    slot_uri: MIXS:0001174
    alias: water_frequency
    owner: FoodFarmEnvironment
    domain_of:
    - FoodFarmEnvironment
    range: string
  water_pH:
    name: water_pH
    description: pH measurement of the sample, or liquid portion of sample, or aqueous
      phase of the fluid.
    title: water pH
    from_schema: https://w3id.org/mixs
    slot_uri: MIXS:0001175
    alias: water_pH
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    range: float
  water_source_shared:
    name: water_source_shared
    annotations:
      Expected_value:
        tag: Expected_value
        value: enumeration
    description: Other users sharing access to the same water source. Multiple terms
      can be separated by one or more pipes
    title: water source shared
    examples:
    - value: no sharing
    from_schema: https://w3id.org/mixs
    keywords:
    - source
    - water
    string_serialization: '[multiple users, agricutural|multiple users, other|no sharing]'
    slot_uri: MIXS:0001176
    multivalued: true
    alias: water_source_shared
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodFarmEnvironment
    range: string
  enrichment_protocol:
    name: enrichment_protocol
    description: The microbiological workflow or protocol followed to test for the
      presence or enumeration of the target microbial analyte(s). Please provide a
      PubMed or DOI reference for published protocols
    title: enrichment protocol
    examples:
    - value: 'BAM Chapter 4: Enumeration of Escherichia coli and the Coliform Bacteria'
    from_schema: https://w3id.org/mixs
    keywords:
    - enrichment
    - protocol
    slot_uri: MIXS:0001177
    alias: enrichment_protocol
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: string
    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
  food_quality_date:
    name: food_quality_date
    annotations:
      Expected_value:
        tag: Expected_value
        value: enumeration, date
    description: The date recommended for the use of the product while at peak quality,
      this date is not a reflection of safety unless used on infant formula this date
      is not a reflection of safety and is typically labeled on a food product as
      "best if used by," best by," "use by," or "freeze by."
    title: food quality date
    examples:
    - value: best by 2020-05-24
    from_schema: https://w3id.org/mixs
    keywords:
    - date
    - food
    - quality
    string_serialization: '[best by|best if used by|freeze by|use by]; date'
    slot_uri: MIXS:0001178
    alias: food_quality_date
    owner: FoodFarmEnvironment
    domain_of:
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: string
  IFSAC_category:
    name: IFSAC_category
    annotations:
      Expected_value:
        tag: Expected_value
        value: IFSAC term
    description: 'The IFSAC food categorization scheme has five distinct levels to
      which foods can be assigned, depending upon the type of food. First, foods are
      assigned to one of four food groups (aquatic animals, land animals, plants,
      and other). Food groups include increasingly specific food categories; dairy,
      eggs, meat and poultry, and game are in the land animal food group, and the
      category meat and poultry is further subdivided into more specific categories
      of meat (beef, pork, other meat) and poultry (chicken, turkey, other poultry).
      Finally, foods are differentiated by differences in food processing (such as
      pasteurized fluid dairy products, unpasteurized fluid dairy products, pasteurized
      solid and semi-solid dairy products, and unpasteurized solid and semi-solid
      dairy products. An IFSAC food category chart is available from https://www.cdc.gov/foodsafety/ifsac/projects/food-categorization-scheme.html
      PMID: 28926300'
    title: Interagency Food Safety Analytics Collaboration (IFSAC) category
    examples:
    - value: Plants:Produce:Vegetables:Herbs:Dried Herbs
    from_schema: https://w3id.org/mixs
    keywords:
    - food
    string_serialization: '{text}'
    slot_uri: MIXS:0001179
    multivalued: true
    alias: IFSAC_category
    owner: FoodFarmEnvironment
    domain_of:
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: string
    required: true
  animal_housing:
    name: animal_housing
    description: Description of the housing system of the livestock. This field accepts
      terms listed under terrestrial management housing system (http://opendata.inra.fr/EOL/EOL_0001605)
    title: animal housing system
    examples:
    - value: pen rearing system [EOL:0001636]
    from_schema: https://w3id.org/mixs
    keywords:
    - animal
    slot_uri: MIXS:0001180
    multivalued: true
    alias: animal_housing
    owner: FoodFarmEnvironment
    domain_of:
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    range: string
    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
  cult_isol_date:
    name: cult_isol_date
    description: The datetime marking the end of a process in which a sample yields
      a positive result for the target microbial analyte(s) in the form of an isolated
      colony or colonies
    title: culture isolation date
    examples:
    - value: '2018-05-11T10:00:00+01:00'
    from_schema: https://w3id.org/mixs
    keywords:
    - culture
    - date
    - isolation
    slot_uri: MIXS:0001181
    alias: cult_isol_date
    owner: FoodFarmEnvironment
    domain_of:
    - Agriculture
    - FoodAnimalAndAnimalFeed
    - FoodFarmEnvironment
    - FoodFoodProductionFacility
    - FoodHumanFoods
    range: datetime
  food_clean_proc:
    name: food_clean_proc
    description: The process of cleaning food to separate other environmental materials
      from the food source. Multiple terms can be separated by pipes
    title: food cleaning process
    examples:
    - value: rinsed with water
      description: was rinsed with water|scrubbed with brush
    - value: scrubbed with brush
      description: was rinsed with water|scrubbed with brush
    from_schema: https://w3id.org/mixs
    keywords:
    - food
    - process
    slot_uri: MIXS:0001182
    alias: food_clean_proc
    owner: FoodFarmEnvironment
    domain_of:
    - FoodFarmEnvironment
    range: FoodCleanProcEnum
  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
    keywords:
    - parameter
    string_serialization: '{text};{float} {unit}'
    slot_uri: MIXS:0000752
    multivalued: true
    alias: misc_param
    owner: FoodFarmEnvironment
    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
class_uri: MIXS:0016020