Sample attributes

Sample type (Core Package)
Environmental package (MIxS Sample)

After selecting the relevant Sample type, click the DOWNLOAD button to download the submission template and the DEFINITION button to review the definitions and formats of attribute.

Name Description Value format
sample_name The sample name is a name that you choose for the sample. Each sample name must be unique in a submission. [A-Z][a-z][0-9](){}[]+-_.
sample_title Sample title should be short and informative. Each sample title must be unique in a submission. Examples: 1) Escherichia coli O104:H4 str. C227-11 clinical isolate 2010_333_NC-6; 2) CD8+ T cells from female TSG6-knockout BALB/c mouse; 3) Human metagenome isolated from urine of healthy female.
description A brief description for the sample.
organism The most descriptive organism name for this sample (to the species, if relevant) in the NCBI Taxonomy database. If it is not in the database, provide as much information about the organism as possible and the DDBJ staff apply a new organism name to NCBI Taxonomy.
taxonomy_id NCBI Taxonomy identifier. This is appropriate for individual organisms, some metagenomes and environmental samples. If it is not in the database, enter a tentative ID (e.g., 1). The DDBJ staff apply a new organism name to NCBI Taxonomy, and then the tentative ID is replaced by an assigned TaxID. {integer}
bioproject_id Associated BioProject accession number (PRJDB). When a sample belongs to multiple projects, choose and enter one primary BioProject number. PRJDB[0-9]+
locus_tag_prefix A locus tag prefix for an annotated genome /locus tag qualifier
strain Microbial/eukaryotic strain name
breed Breed name - chiefly used in domesticated animals or plants
cultivar Cultivar name - cultivated variety of plant
isolate Identification or description of the specific individual from which this sample was obtained
label A label for sample, or name of an individual animal (e.g., Clint)
biomaterial_provider name and address of the lab or PI, or a culture collection identifier
collection_date Time of sampling (single instance or interval, eg., 2008-01-23T19:23:10, 2008-01-23, 2008-01, 2008, 1952-10-21T11:43Z/1952-10-21T17:43Z, 1952-10-21/1953-02-15, 1952-10/1953-02, 1952/1953) {timestamp}
env_biome Descriptor of the broad ecological context of a sample. Examples include: desert, taiga or deciduous woodland. FAQ: What is the difference between biome, feature and material? EnvO (v 2013-06-14) terms can be found via the link: www.environmentontology.org/Browse-EnvO {term}
env_feature Descriptor of the local environment. Examples include: harbor, cliff, or lake. FAQ: What is the difference between biome, feature and material? EnvO (v 2013-06-14) terms can be found via the link: www.environmentontology.org/Browse-EnvO {term}
env_material Material that was displaced by the sample, or material in which a sample was embedded, prior to the sampling event. Examples include: air, soil, or water. FAQ: What is the difference between biome, feature and material? EnvO (v 2013-06-14) terms can be found via the link: www.environmentontology.org/Browse-EnvO {term}
geo_loc_name Geographical origin of the sample; use the appropriate name from this list. Use a colon to separate the country or ocean from more detailed information about the location, eg "Japan:Kanagawa, Hakone, Lake Ashi" {term}:{term}:{text}
lat_lon The geographical coordinates of the location where the sample was collected. Specify as decimal degrees latitude and longitude in format "d[d.dddd] N|S d[dd.dddd] W|E", eg, “47.94 N 28.12 W” “45.0123 S 4.1234 E” {float} {float}
project_name A concise name that describes the overall project, for example "Analysis of sequences collected from Antarctic soil" {text}
isol_growth_condt Publication reference in the form of pubmed ID, DOI or URL for isolation and growth condition specifications of the organism/material {PMID|DOI|URL}
ref_biomaterial Primary publication if isolated before genome publication; otherwise, primary genome report in the form of pubmed ID, DOI or URL {PMID|DOI|URL}
num_replicons Reports the number of replicons in a nuclear genome of eukaryotes, in the genome of a bacterium or archaea or the number of segments in a segmented virus. Always applied to the haploid chromosome count of a eukaryote {integer}
estimated_size Estimated size of genome {integer} bp
ploidy The ploidy level of the genome (e.g. allopolyploid, haploid, diploid, triploid, tetraploid). {term}
propagation This field is specific to different taxa. For phage: lytic/lysogenic/temperate/obligately lytic; for plasmid: incompatibility group; for eukaryote: asexual/sexual {term}
biotic_relationship Free-living or from host (define relationship) ['', 'free living', 'parasite', 'commensal', 'symbiont']
encoded_traits Traits like antibiotic resistance/xenobiotic degration phenotypes/converting phage genes {text}
extrachrom_elements Plasmids that have significance phenotypic consequence {integer}
health_disease_stat Health or disease status of specific host at time of collection {term}
host The natural (as opposed to laboratory) host to the organism from which the sample was obtained. Use the full taxonomic name, eg, "Homo sapiens". None
host_spec_range Taxid of the specific host if known {integer}
pathogenicity To what is the entity pathogenic {term}
rel_to_oxygen Aerobic or anaerobic ['', 'aerobe', 'anaerobe', 'facultative', 'microaerophilic', 'microanaerobe', 'obligate aerobe', 'obligate anaerobe']
samp_collect_device Method or device employed for collecting sample {text}
samp_mat_process Processing applied to the sample during or after isolation {text|term}
sample_size Amount or size of sample {float} {unit}
source_material_id unique identifier assigned to a material sample used for extracting nucleic acids, and subsequent sequencing. The identifier can refer either to the original material collected or to any derived sub-samples. {text}
subspecf_gen_lin Information about the genetic distinctness of the lineage (eg., biovar, serovar) {text}
trophic_level Feeding position in food chain (eg., chemolithotroph) ['', 'autotroph', ' carboxydotroph', ' chemoautotroph', ' chemoheterotroph', ' chemolithoautotroph', ' chemolithotroph', ' chemoorganoheterotroph', ' chemoorganotroph', ' chemosynthetic', ' chemotroph', ' copiotroph', ' diazotroph', ' facultative', ' autotroph', ' heterotroph', ' lithoautotroph', ' lithoheterotroph', ' lithotroph', ' methanotroph', ' methylotroph', ' mixotroph', ' obligate', ' chemoautolithotroph', ' oligotroph', ' organoheterotroph', ' organotroph', ' photoautotroph', ' photoheterotroph', ' photolithoautotroph', ' photolithotroph', ' photosynthetic', ' phototroph']
depth Depth is defined as the vertical distance below surface, e.g. for sediment or soil samples depth is measured from sediment or soil surface, respectively. Depth can be reported as an interval for subsurface samples. {float} m
elev The elevation of the sampling site as measured by the vertical distance from mean sea level. {float} {unit}
altitude The altitude of the sample is the vertical distance between Earth's surface above Sea Level and the sampled position in the air. {float} m
tissue_type Type of tissue the sample was taken from. None
age age at the time of sampling; relevant scale depends on species and study, e.g. could be seconds for amoebae or centuries for trees {float} {unit}
agrochem_addition addition of fertilizers, pesticides, etc. - amount and time of applications {text};{float} {unit};{timestamp}
air_temp_regm information about treatment involving an exposure to varying temperatures; should include the temperature, treatment duration, interval and total experimental duration; can include different temperature regimens {float} {unit};{period};{interval};{period}
al_sat aluminum saturation (esp. for tropical soils) {float} {unit}
al_sat_meth reference or method used in determining Al saturation {PMID|DOI|URL}
alkalinity alkalinity, the ability of a solution to neutralize acids to the equivalence point of carbonate or bicarbonate {float} {unit}
alkyl_diethers concentration of alkyl diethers {float} {unit}
aminopept_act measurement of aminopeptidase activity {float} {unit}
ammonium concentration of ammonium {float} {unit}
amniotic_fluid_color specification of the color of the amniotic fluid sample {text}
anamorph Genus and species of the asexually reproducing stage of fungi - note that anamorph and teleomorph forms of the same taxon may have used taxonomic different names. None
annual_season_precpt mean annual and seasonal precipitation (mm) {float} {unit}
annual_season_temp mean annual and seasonal temperature (oC) {float} {unit}
antibiotic_regm information about treatment involving antibiotic administration; should include the name of antibiotic, amount administered, treatment duration, interval and total experimental duration; can include multiple antibiotic regimens {text};{float} {unit};{period};{interval};{period}
atmospheric_data measurement of atmospheric data; can include multiple data {text};{float} {unit}
authority Authority for the species identification. None
bacteria_carb_prod measurement of bacterial carbon production {float} {unit}
barometric_press force per unit area exerted against a surface by the weight of air above that surface {float} {unit}
biochem_oxygen_dem a measure of the relative oxygen-depletion effect of a waste contaminant {float} {unit}
biomass amount of biomass; should include the name for the part of biomass measured, e.g. microbial, total. can include multiple measurements {text};{float} {unit}
birth_control specification of birth control medication used {text}
bishomohopanol concentration of bishomohopanol {float} {unit}
blood_blood_disord history of blood disorders; can include multiple disorders {text}
blood_press_diast resting diastolic blood pressure, measured as mm mercury {float} {unit}
blood_press_syst resting systolic blood pressure, measured as mm mercury {float} {unit}
body_habitat original body habitat where the sample was obtained from {text}
body_mass_index body mass index, calculated as weight/(height)squared {float} {unit}
body_product substance produced by the plant where the sample was obtained from {text}
bromide concentration of bromide {float} {unit}
calcium concentration of calcium {float} {unit}
carb_dioxide carbon dioxide (gas) amount or concentration at the time of sampling {float} {unit}
carb_monoxide carbon monoxide (gas) amount or concentration at the time of sampling {float} {unit}
carb_nitro_ratio ratio of amount or concentrations of carbon to nitrogen {float} {unit}
cell_line Name of the cell line. None
cell_type Type of cell of the sample or from which the sample was obtained. None
chem_administration 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) (v1.72), please see this list. {term}; {timestamp}
chem_mutagen treatment involving use of mutagens; should include the name of mutagen, amount administered, treatment duration, interval and total experimental duration; can include multiple mutagen regimens {text};{float} {unit};{period};{interval};{period}
chem_oxygen_dem a measure of the relative oxygen-depletion effect of a waste contaminant {float} {unit}
chloride concentration of chloride {float} {unit}
chlorophyll concentration of chlorophyll {float} {unit}
climate_environment treatment involving an exposure to a particular climate; can include multiple climates {text};{period};{interval};{period}
collected_by Name of persons or institute who collected the sample None
crop_rotation whether or not crop is rotated, and if yes, rotation schedule {boolean};Rn/{timestamp}/{period}
culture_collection Name of source institute and unique culture identifier. See the description for the proper format and list of allowed institutes. None
cur_land_use present state of sample site ['', 'cities', 'farmstead', 'industrial areas', 'roads/railroads', 'rock', 'sand', 'gravel', 'mudflats', 'salt flats', 'badlands', 'permanent snow or ice', 'saline seeps', 'mines/quarries', 'oil waste areas', 'small grains', 'row crops', 'vegetable crops', 'horticultural plants (e.g. tulips)', 'marshlands (grass,sedges,rushes)', 'tundra (mosses,lichens)', 'rangeland', 'pastureland (grasslands used for livestock grazing)', 'hayland', 'meadows (grasses,alfalfa,fescue,bromegrass,timothy)', 'shrub land (e.g. mesquite,sage-brush,creosote bush,shrub oak,eucalyptus)', 'successional shrub land (tree saplings,hazels,sumacs,chokecherry,shrub dogwoods,blackberries)', 'shrub crops (blueberries,nursery ornamentals,filberts)', 'vine crops (grapes)', 'conifers (e.g. pine,spruce,fir,cypress)', 'hardwoods (e.g. oak,hickory,elm,aspen)', 'intermixed hardwood and conifers', 'tropical (e.g. mangrove,palms)', 'rainforest (evergreen forest receiving >406 cm annual rainfall)', 'swamp (permanent or semi-permanent water body dominated by woody plants)', 'crop trees (nuts,fruit,christmas trees,nursery trees)']
cur_vegetation vegetation classification from one or more standard classification systems, or agricultural crop {text}
cur_vegetation_meth reference or method used in vegetation classification {PMID|DOI|URL}
current measurement of current {float} {unit}
density density of sample {float} {unit}
dermatology_disord history of dermatology disorders; can include multiple disorders {text}
dev_stage Developmental stage at the time of sampling. None
diet_last_six_month specification of major diet changes in the last six months, if yes the change should be specified {boolean};{text}
diether_lipids concentration of diether lipids; can include multiple types of diether lipids {text};{float} {unit}
disease Name of relevant disease. None
disease_stage Stage of disease at the time of sampling. None
diss_carb_dioxide concentration of dissolved carbon dioxide {float} {unit}
diss_hydrogen concentration of dissolved hydrogen {float} {unit}
diss_inorg_carb dissolved inorganic carbon concentration {float} {unit}
diss_inorg_nitro concentration of dissolved inorganic nitrogen {float} {unit}
diss_inorg_phosp concentration of dissolved inorganic phosphorus {float} {unit}
diss_org_carb concentration of dissolved organic carbon {float} {unit}
diss_org_nitro dissolved organic nitrogen concentration measured as; total dissolved nitrogen - NH4 - NO3 - NO2 {float} {unit}
diss_oxygen concentration of dissolved oxygen {float} {unit}
dominant_hand dominant hand of the subject ['', 'left', 'right', 'ambidextrous']
douche date of most recent douche {timestamp}
drainage_class drainage classification from a standard system such as the USDA system ['', 'very poorly', 'poorly', 'somewhat poorly', 'moderately well', 'well', 'excessively drained']
drug_usage any drug used by subject and the frequency of usage; can include multiple drugs used {text};{integer}/[year|month|week|day|hour]
dry_mass measurement of dry mass {float} {unit}
efficiency_percent percentage of volatile solids removed from the anaerobic digestor {float} {unit}
emulsions amount or concentration of substances such as paints, adhesives, mayonnaise, hair colorants, emulsified oils, etc.; can include multiple emulsion types {text};{float} {unit}
extreme_event unusual physical events that may have affected microbial populations {timestamp}
extreme_salinity measured salinity {float} {unit}
family_relationship relationships to other hosts in the same study; can include multiple relationships {text};{text}
fao_class soil classification from the FAO World Reference Database for Soil Resources {term}
fertilizer_regm information about treatment involving the use of fertilizers; should include the name fertilizer, amount administered, treatment duration, interval and total experimental duration; can include multiple fertilizer regimens {text};{float} {unit};{period};{interval};{period}
fire historical and/or physical evidence of fire {timestamp}
flooding historical and/or physical evidence of flooding {timestamp}
foetal_health_stat specification of foetal health status, should also include abortion {text}
fungicide_regm information about treatment involving use of fungicides; should include the name of fungicide, amount administered, treatment duration, interval and total experimental duration; can include multiple fungicide regimens {text};{float} {unit};{period};{interval};{period}
gaseous_environment use of conditions with differing gaseous environments; should include the name of gaseous compound, amount administered, treatment duration, interval and total experimental duration; can include multiple gaseous environment regimens {text};{float} {unit};{period};{interval};{period}
gaseous_substances amount or concentration of substances such as hydrogen sulfide, carbon dioxide, methane, etc.; can include multiple substances {text};{float} {unit}
gastrointest_disord history of gastrointestinal tract disorders; can include multiple disorders {text}
genotype observed genotype {text}
gestation_state specification of the gestation state {text}
glucosidase_act measurement of glucosidase activity {float} {unit}
gravidity whether or not subject is gravid, and if yes date due or date post-conception, specifying which is used {boolean};{timestamp}
gravity information about treatment involving use of gravity factor to study various types of responses in presence, absence or modified levels of gravity; can include multiple treatments {float} {unit};{period};{interval};{period}
growth_hormone_regm information about treatment involving use of growth hormones; should include the name of growth hormone, amount administered, treatment duration, interval and total experimental duration; can include multiple growth hormone regimens {text};{float} {unit};{period};{interval};{period}
growth_med information about growth media for growing the plants or tissue cultured samples ['', 'soil', 'liquid']
gynecologic_disord history of gynecological disorders; can include multiple disorders {text}
haplotype Name of the haplotype. Primarily used for identification. A combination of alleles at multiple loci on the same chromosome that are closely linked and tend to be inherited as a unit. None
health_state Health or disease status of sample at time of collection None
heavy_metals heavy metals present and concentrations of any drug used by subject and the frequency of usage; can include multiple heavy metals and concentrations {text};{float} {unit}
heavy_metals_meth reference or method used in determining heavy metals {PMID|DOI|URL}
height_or_length measurement of height or length {float} {unit}
herbicide_regm information about treatment involving use of herbicides; information about treatment involving use of growth hormones; should include the name of herbicide, amount administered, treatment duration, interval and total experimental duration; can include multiple regimens {text};{float} {unit};{period};{interval};{period}
hiv_stat HIV status of subject, if yes HAART initiation status should also be indicated as [YES or NO] {boolean};{boolean}
horizon specific layer in the land area which measures parallel to the soil surface and possesses physical characteristics which differ from the layers above and beneath ['', 'O horizon', 'A horizon', 'E horizon', 'B horizon', 'C horizon', 'R layer', 'Permafrost']
horizon_meth reference or method used in determining the horizon {PMID|DOI|URL}
host_age Age of host at the time of sampling None
host_body_site name of body site where the sample was obtained from. For Foundational Model of Anatomy Ontology (FMA) (v3.1) terms, please see this site. {term}
host_body_temp core body temperature of the host when sample was collected {float} {unit}
host_color the color of host {text}
host_common_name common name of the host, e.g. human {text}
host_description Additional information not included in other defined vocabulary fields None
host_diet type of diet depending on the sample for animals omnivore, herbivore etc., for humans high-fat, meditteranean etc.; can include multiple diet types {text}
host_disease Name of relevant disease, e.g. Salmonella gastroenteritis. For the controlled vocabulary, please see Human Disease Ontology or MeSH.
host_disease_outcome Final outcome of disease, e.g., death, chronic disease, recovery None
host_disease_stage Stage of disease at the time of sampling
host_disease_stat 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 DO (Disease Ontology), other hosts are free text
host_growth_cond literature reference giving growth conditions of the host {PMID|DOI|URL}
host_health_state Information regarding health state of the individual sampled at the time of sampling
host_height the height of subject
host_sex Gender or physical sex of the host
host_shape morphological shape of host {text}
host_subject_id a unique identifier by which each subject can be referred to, de-identified, e.g. #131 {text}
host_taxid NCBI taxon id of the host, e.g. 9606 {integer}
host_tissue_sampled Type of tissue the initial sample was taken from. Controlled vocabulary, http://bioportal.bioontology.org/ontologies/1005.
hrt whether subject had hormone replacement theraphy, and if yes start date {timestamp}
humidity amount of water vapour in the air, at the time of sampling {float} {unit}
humidity_regm information about treatment involving an exposure to varying degree of humidity; information about treatment involving use of growth hormones; should include amount of humidity administered, treatment duration, interval and total experimental duration; can include multiple regimens {float} {unit};{period};{interval};{period}
hysterectomy specification of whether hysterectomy was performed {boolean}
ihmc_ethnicity ethnicity of the subject {integer|text}
ihmc_medication_code can include multiple medication codes {integer}
indust_eff_percent percentage of industrial effluents received by wastewater treatment plant {float} {unit}
infra_specific_name taxonomic information about the host below subspecies level {text}
infra_specific_rank taxonomic rank information about the host below subspecies level, such as variety, form, rank etc. {text}
inorg_particles concentration of particles such as sand, grit, metal particles, ceramics, etc.; can include multiple particles {text};{float} {unit}
isolation_source Describes the physical, environmental and/or local geographical source of the biological sample from which the sample was derived. None
kidney_disord history of kidney disorders; can include multiple disorders {text}
lab_host Originally meaning host on which a parasite is maintained in the lab, which may not be the same as the natural host (example hamster cells used to support a parasite normally found in mouse in the wild). None
last_meal content of last meal and time since feeding; can include multiple values {text};{period}
life_stage description of life stage of host {text}
light_intensity measurement of light intensity {float} {unit}
liver_disord history of liver disorders; can include multiple disorders {text}
local_class soil classification based on local soil classification system {text}
local_class_meth reference or method used in determining the local soil classification {PMID|DOI|URL}
magnesium concentration of magnesium {float} {unit}
maternal_health_stat specification of the maternal health status {text}
mean_frict_vel measurement of mean friction velocity {float} {unit}
mean_peak_frict_vel measurement of mean peak friction velocity {float} {unit}
mechanical_damage information about any mechanical damage exerted on the plant; can include multiple damages and sites {text};{text}
medic_hist_perform whether full medical history was collected {boolean}
menarche date of most recent menstruation {timestamp}
menopause date of onset of menopause {timestamp}
methane methane (gas) amount or concentration at the time of sampling {float} {unit}
microbial_biomass the part of the organic matter in the soil that constitutes living microorganisms smaller than 5-10 micrometers. IF you keep this, you would need to have correction factors used for conversion to the final units, which should be mg C (or N)/kg soil). {float} {unit}
microbial_biomass_meth reference or method used in determining microbial biomass {PMID|DOI|URL}
mineral_nutr_regm information about treatment involving the use of mineral supplements; should include the name of mineral nutrient, amount administered, treatment duration, interval and total experimental duration; can include multiple mineral nutrient regimens {text};{float} {unit};{period};{interval};{period}
misc_param any other measurement performed or parameter collected, that is not listed here {text};{float} {unit}
n_alkanes concentration of n-alkanes; can include multiple n-alkanes {text};{float} {unit}
nitrate concentration of nitrate {float} {unit}
nitrite concentration of nitrite {float} {unit}
nitro concentration of nitrogen (total) {float} {unit}
non_mineral_nutr_regm information about treatment involving the exposure of plant to non-mineral nutrient such as oxygen, hydrogen or carbon; should include the name of non-mineral nutrient, amount administered, treatment duration, interval and total experimental duration; can include multiple non-mineral nutrient regimens {text};{float} {unit};{period};{interval};{period}
nose_mouth_teeth_throat_disord history of nose/mouth/teeth/throat disorders; can include multiple disorders {text}
nose_throat_disord history of nose-throat disorders; can include multiple disorders {text}
occupation most frequent job performed by subject {integer}
org_carb concentration of organic carbon {float} {unit}
org_matter concentration of organic matter {float} {unit}
org_nitro concentration of organic nitrogen {float} {unit}
org_particles concentration of particles such as faeces, hairs, food, vomit, paper fibers, plant material, humus, etc. {text};{float} {unit}
organism_count total count of any organism per gram or volume of sample, should include name of organism followed by count; can include multiple organism counts {text};{float} {unit}
oxy_stat_samp oxygenation status of sample ['', 'aerobic', 'anaerobic']
oxygen oxygen (gas) amount or concentration at the time of sampling {float} {unit}
part_org_carb concentration of particulate organic carbon {float} {unit}
part_org_nitro concentration of particulate organic nitrogen {float} {unit}
particle_class particles are classified, based on their size, into six general categories: clay, silt, sand, gravel, cobbles, and boulders; should include amount of particle preceded by the name of the particle type; can include multiple values {text};{float} {unit}
passage_history Number of passages and passage method None
pathotype Some bacterial specific pathotypes (example Eschericia coli - STEC, UPEC) None
pathovar Taxonomy below subspecies; a variety (in bacteria, fungi or virus) usually based on its pathogenic properties. Sometimes used as equivalent to subspecies. None
perturbation type of perturbation, e.g. chemical administration, physical disturbance, etc., coupled with time that perturbation occurred; can include multiple perturbation types {text};{interval}
pesticide_regm information about treatment involving use of insecticides; should include the name of pesticide, amount administered, treatment duration, interval and total experimental duration; can include multiple pesticide regimens {text};{float} {unit};{period};{interval};{period}
pet_farm_animal specification of presence of pets or farm animals in the environment of subject, if yes the animals should be specified; can include multiple animals present {boolean};{text}
petroleum_hydrocarb concentration of petroleum hydrocarbon {float} {unit}
ph pH measurement {float} {unit}
ph_meth reference or method used in determining pH {PMID|DOI|URL}
ph_regm information about treatment involving exposure of plants to varying levels of pH of the growth media; can include multiple regimen {float} {unit};{period};{interval};{period}
phaeopigments concentration of phaeopigments; can include multiple phaeopigments {text};{float} {unit}
phenotype Phenotype of sampled organism. For Phenotypic quality Ontology (PATO) (v1.269) terms, please see this link. {term}
phosphate concentration of phosphate {float} {unit}
phosplipid_fatt_acid concentration of phospholipid fatty acids; can include multiple values {text};{float} {unit}
photon_flux measurement of photon flux {float} {unit}
plant_body_site name of body site that the sample was obtained from. For PO (v819) terms please see this site. {term}
plant_product substance produced by the plant, where the sample was obtained from {text}
pollutants pollutant types and, amount or concentrations measured at the time of sampling; can report multiple pollutants by entering numeric values preceded by name of pollutant {text};{float} {unit}
pool_dna_extracts were multiple DNA extractions mixed? how many? {boolean};{float} {unit}
porosity porosity of deposited sediment is volume of voids divided by the total volume of sample {float} {unit}
potassium concentration of potassium {float} {unit}
pre_treatment the process of pre-treatment removes materials that can be easily collected from the raw wastewater {text}
pregnancy date due of pregnancy {timestamp}
pressure pressure to which the sample is subject, in atmospheres {float} {unit}
previous_land_use previous land use and dates {text};{timestamp}
previous_land_use_meth reference or method used in determining previous land use and dates {PMID|DOI|URL}
primary_prod measurement of primary production {float} {unit}
primary_treatment the process to produce both a generally homogeneous liquid capable of being treated biologically and a sludge that can be separately treated or processed {text}
profile_position cross-sectional position in the hillslope where sample was collected, sample area position in relation to surrounding areas ['', 'summit', 'shoulder', 'backslope', 'footslope', 'toeslope']
pulmonary_disord history of pulmonary disorders; can include multiple disorders {text}
pulse resting pulse, measured as beats per minute {float} {unit}
radiation_regm information about treatment involving exposure of plant or a plant part to a particular radiation regimen; should include the radiation type, amount or intensity administered, treatment duration, interval and total experimental duration; can include multiple radiation regimens {text};{float} {unit};{period};{interval};{period}
rainfall_regm information about treatment involving an exposure to a given amount of rainfall; can include multiple regimens {float} {unit};{period};{interval};{period}
reactor_type anaerobic digesters can be designed and engineered to operate using a number of different process configurations, as batch or continuous, mesophilic, high solid or low solid, and single stage or multistage {text}
redox_potential redox potential, measured relative to a hydrogen cell, indicating oxidation or reduction potential {float} {unit}
resp_part_matter 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 {text};{float} {unit}
salinity salinity measurement {float} {unit}
salinity_meth reference or method used in determining salinity {PMID|DOI|URL}
salt_regm information about treatment involving use of salts as supplement to liquid and soil growth media; should include the name of salt, amount administered, treatment duration, interval and total experimental duration; can include multiple salt regimens {text};{float} {unit};{period};{interval};{period}
samp_salinity salinity of sample, i.e. measure of total salt concentration {float} {unit}
samp_store_dur duration for which sample was stored {interval}
samp_store_loc location at which sample was stored, usually name of a specific freezer/room {text}
samp_store_temp temperature at which sample was stored, e.g. -80 {float} {unit}
samp_vol_we_dna_ext weight (g) of soil processed {float} g
sample_type Sample type, such as cell culture, mixed culture, tissue sample, whole organism, single cell, metagenomic assembly None
season_environment treatment involving an exposure to a particular season (e.g. winter, summer, rabi, rainy etc.) {text};{period};{interval};{period}
secondary_treatment the process for substantially degrading the biological content of the sewage {text}
sediment_type information about the sediment type based on major constituents ['', 'biogenous', 'cosmogenous', 'hydrogenous', 'lithogenous']
serotype Taxonomy below subspecies; a variety (in bacteria, fungi or virus) usually based on its antigenic properties. Same as serovar and serogroup. e.g. serotype="H1N1" in Influenza A virus CY098518. None
serovar Taxonomy below subspecies; a variety (in bacteria, fungi or virus) usually based on its antigenic properties. Same as serovar and serotype. Sometimes used as species identifier in bacteria with shaky taxonomy, e.g. Leptospira interrogans serovar Hardjo None
sewage_type type of wastewater treatment plant as municipial or industrial {text}
sex physical sex of sampled organism ['', 'male', 'female', 'pooled male and female', 'neuter', 'hermaphrodite', 'intersex', 'not determined', 'missing', 'not applicable', 'not collected']
sexual_act current sexual partner and frequency of sex {text}
sieving collection design of pooled samples and/or sieve size and amount of sample sieved {{text}|{float} {unit}};{float} {unit}
silicate concentration of silicate {float} {unit}
slope_aspect the direction a slope faces. While looking down a slope use a compass to record the direction you are facing (direction or degrees); e.g., NW or 315°. This measure provides an indication of sun and wind exposure that will influence soil temperature and evapotranspiration. {float} {unit}
slope_gradient commonly called "slope". The angle between ground surface and a horizontal line (in percent). This is the direction that overland water would flow. This measure is usually taken with a hand level meter or clinometer. {float} {unit}
sludge_retent_time the time activated sludge remains in reactor {float} {unit}
smoker specification of smoking status {boolean}
sodium sodium concentration {float} {unit}
soil_type soil series name or other lower-level classification {text}
soil_type_meth reference or method used in determining soil series name or other lower-level classification {PMID|DOI|URL}
solar_irradiance the amount of solar energy that arrives at a specific area of a surface during a specific time interval {float} {unit}
soluble_inorg_mat concentration of substances such as ammonia, road-salt, sea-salt, cyanide, hydrogen sulfide, thiocyanates, thiosulfates, etc. {text};{float} {unit}
soluble_org_mat concentration of substances such as urea, fruit sugars, soluble proteins, drugs, pharmaceuticals, etc. {text};{float} {unit}
soluble_react_phosp concentration of soluble reactive phosphorus {float} {unit}
special_diet specification of special diet; can include multiple special diets ['', 'low carb', 'reduced calorie', 'vegetarian', 'other(to be specified)']
specimen_voucher Identifier for the physical specimen. Use format: "[<institution-code>:[<collection-code>:]]<specimen_id>", eg, "UAM:Mamm:52179". Intended as a reference to the physical specimen that remains after it was analyzed. If the specimen was destroyed in the process of analysis, electronic images (e-vouchers) are an adequate substitute for a physical voucher specimen. Ideally the specimens will be deposited in a curated museum, herbarium, or frozen tissue collection, but often they will remain in a personal or laboratory collection for some time before they are deposited in a curated collection. There are three forms of specimen_voucher qualifiers. If the text of the qualifier includes one or more colons it is a 'structured voucher'. Structured vouchers include institution-codes (and optional collection-codes) taken from a controlled vocabulary maintained by the INSDC that denotes the museum or herbarium collection where the specimen resides, please visit the INSDC website. None
standing_water_regm treatment involving an exposure to standing water during a plant's life span, types can be flood water or standing water; can include multiple regimens {text};{period};{interval};{period}
store_cond explain how and for how long the soil sample was stored before DNA extraction. {text};{period}
study_complt_stat specification of study completion status, if no the reason should be specified {boolean};[adverse event|non-compliance|lost to follow up|other-specify]
subgroup Taxonomy below subspecies; sometimes used in viruses to denote subgroups taken from a single isolate. None
substrate the growth substrate of the host {text}
subtype Used as classifier in viruses (e.g. HIV type 1, Group M, Subtype A). None
sulfate concentration of sulfate {float} {unit}
sulfide concentration of sulfide {float} {unit}
suspend_part_matter concentration of suspended particulate matter {float} {unit}
suspend_solids concentration of substances including a wide variety of material, such as silt, decaying plant and animal matter, etc,; can include multiple substances {text};{float} {unit}
teleomorph Genus and species of the sexual (fruiting) form of fungi - note that anamorph and teleomorph forms of the same taxon may have used taxonomic different names. None
temp temperature of the sample at time of sampling {float} {unit}
tertiary_treatment the process providing a final treatment stage to raise the effluent quality before it is discharged to the receiving environment {text}
texture the relative proportion of different grain sizes of mineral particles in a soil, as described using a standard system; express as % sand (50 um to 2 mm), silt (2 um to 50 um), and clay (<2 um) with textural name (e.g., silty clay loam) optional. {float} {unit}
texture_meth reference or method used in determining soil texture {PMID|DOI|URL}
tidal_stage stage of tide ['', 'low', 'high']
tillage note method(s) used for tilling ['', 'drill', 'cutting disc', 'ridge till', 'strip tillage', 'zonal tillage', 'chisel', 'tined', 'mouldboard', 'disc plough']
time_last_toothbrush specification of the time since last toothbrushing {timestamp}
time_since_last_wash specification of the time since last wash {timestamp}
tiss_cult_growth_med description of plant tissue culture growth media used {PMID|DOI|URL}
tot_carb total carbon content {float} {unit}
tot_depth_water_col measurement of total depth of water column {float} {unit}
tot_diss_nitro total dissolved nitrogen concentration, reported as nitrogen, measured by: total dissolved nitrogen = NH4 + NO3NO2 + dissolved organic nitrogen {float} {unit}
tot_inorg_nitro total inorganic nitrogen content {float} {unit}
tot_mass total mass of the host at collection, the unit depends on host {float} {unit}
tot_n_meth reference or method used in determining the total N {PMID|DOI|URL}
tot_nitro total nitrogen concentration, calculated by: total nitrogen = total dissolved nitrogen + particulate nitrogen. Can also be measured without filtering, reported as nitrogen {float} {unit}
tot_org_c_meth reference or method used in determining total organic C {PMID|DOI|URL}
tot_org_carb Definition for soil: total organic C content of the soil units of g C/kg soil. Definition otherwise: total organic carbon content {float} {unit}
tot_part_carb total particulate carbon content {float} {unit}
tot_phosp total phosphorus concentration, calculated by: total phosphorus = total dissolved phosphorus + particulate phosphorus. Can also be measured without filtering, reported as phosphorus {float} {unit}
tot_phosphate total amount or concentration of phosphate {float} {unit}
travel_out_six_month specification of the countries travelled in the last six months; can include multiple travels {text}
turbidity turbidity measurement {float} {unit}
twin_sibling specification of twin sibling presence {boolean}
urine_collect_meth specification of urine collection method ['', 'clean catch', 'catheter']
urogenit_disord history of urogenital disorders, can include multiple disorders {text}
urogenit_tract_disor history of urogenitaltract disorders; can include multiple disorders {text}
ventilation_rate ventilation rate of the system in the sampled premises {float} {unit}
ventilation_type ventilation system used in the sampled premises {text}
volatile_org_comp concentration of carbon-based chemicals that easily evaporate at room temperature; can report multiple volatile organic compounds by entering numeric values preceded by name of compound {text};{float} {unit}
wastewater_type the origin of wastewater such as human waste, rainfall, storm drains, etc. {text}
water_content water content measurement {float} {unit}
water_content_soil water content (g/g or cm3/cm3) {float} [g/g|cm3/cm3]
water_content_soil_meth reference or method used in determining the water content of soil {PMID|DOI|URL}
water_temp_regm information about treatment involving an exposure to water with varying degree of temperature; can include multiple regimens {float} {unit};{period};{interval};{period}
watering_regm information about treatment involving an exposure to watering frequencies; can include multiple regimens {float} {unit};{period};{interval};{period}
weight_loss_3_month specification of weight loss in the last three months, if yes should be further specified to include amount of weight loss {boolean};{float} {unit}
wet_mass measurement of wet mass {float} {unit}
wind_direction wind direction is the direction from which a wind originates {text}
wind_speed speed of wind measured at the time of sampling {float} {unit}