Class: microbial mat_biofilm

microbial mat/biofilm

URI: mixs.vocab:MicrobialMatBiofilm

Children

• MicrobialMatBiofilmME - Combinatorial checklist Metagenome or Environmental with environmental package microbial mat_biofilm
• MicrobialMatBiofilmMIGSBacteria - Combinatorial checklist Minimal Information about a Genome Sequence: cultured bacteria/archaea with environmental package microbial mat_biofilm
• MicrobialMatBiofilmMIGSEukaryote - Combinatorial checklist Minimal Information about a Genome Sequence: eukaryote with environmental package microbial mat_biofilm
• MicrobialMatBiofilmMIGSOrg - Combinatorial checklist Minimal Information about a Genome Sequence: org with environmental package microbial mat_biofilm
• MicrobialMatBiofilmMIGSPlant - Combinatorial checklist Minimal Information about a Genome Sequence: plant with environmental package microbial mat_biofilm
• MicrobialMatBiofilmMIGSVirus - Combinatorial checklist Minimal Information about a Genome Sequence: cultured bacteria/archaea with environmental package microbial mat_biofilm
• MicrobialMatBiofilmMIMAG - Combinatorial checklist Minimum Information About a Metagenome-Assembled Genome with environmental package microbial mat_biofilm
• MicrobialMatBiofilmMIMARKSSpecimen - Combinatorial checklist Minimal Information about a Marker Specimen: specimen with environmental package microbial mat_biofilm
• MicrobialMatBiofilmMIMARKSSurvey - Combinatorial checklist Minimal Information about a Marker Specimen: survey with environmental package microbial mat_biofilm
• MicrobialMatBiofilmMISAG - Combinatorial checklist Minimum Information About a Single Amplified Genome with environmental package microbial mat_biofilm
• MicrobialMatBiofilmMIUVIG - Combinatorial checklist Minimum Information About an Uncultivated Virus Genome with environmental package microbial mat_biofilm

Referenced by Package

Attributes

Own

• lat_lon _0..1
  • 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
  • Range: String
  • Example: 50.586825 6.408977 None
• microbial mat_biofilm➞depth _0..1
  • Range: QuantityValue
• alt _0..1
  • Description: Altitude is a term used to identify heights of objects such as airplanes, space shuttles, rockets, atmospheric balloons and heights of places such as atmospheric layers and clouds. It is used to measure the height of an object which is above the earth's surface. In this context, the altitude measurement is the vertical distance between the earth's surface above sea level and the sampled position in the air
  • Range: QuantityValue
  • Example: 100 meter None
• microbial mat_biofilm➞elev _0..1
  • Range: QuantityValue
• microbial mat_biofilm➞temp _0..1
  • Range: QuantityValue
• geo_loc_name _0..1
  • 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)
  • Range: String
  • Example: USA: Maryland, Bethesda None
• collection_date _0..1
  • 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
  • Range: Date
  • Example: 2018-05-11T10:00:00+01:00; 2018-05-11 None
• env_broad_scale _0..1
  • Description: Report the major environmental system the sample or specimen came from. The system(s) identified should have a coarse spatial grain, to provide the general environmental context of where the sampling was done (e.g. in the desert or a rainforest). We recommend using subclasses of EnvO’s biome class: http://purl.obolibrary.org/obo/ENVO_00000428. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS
  • Range: String
  • Example: oceanic epipelagic zone biome [ENVO:01000033] for annotating a water sample from the photic zone in middle of the Atlantic Ocean None
• env_local_scale _0..1
  • Description: Report the entity or entities which are in the sample or specimen’s local vicinity and which you believe have significant causal influences on your sample or specimen. We recommend using EnvO terms which are of smaller spatial grain than your entry for env_broad_scale. Terms, such as anatomical sites, from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON) are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS
  • Range: String
  • Example: litter layer [ENVO:01000338]; Annotating a pooled sample taken from various vegetation layers in a forest consider: canopy [ENVO:00000047]|herb and fern layer [ENVO:01000337]|litter layer [ENVO:01000338]|understory [01000335]|shrub layer [ENVO:01000336]. None
• env_medium _0..1
  • Description: Report the environmental material(s) immediately surrounding the sample or specimen at the time of sampling. We recommend using subclasses of 'environmental material' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS . Terms from other OBO ontologies are permissible as long as they reference mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities (e.g. a tree, a leaf, a table top).
  • Range: String
  • Example: soil [ENVO:00001998]; Annotating a fish swimming in the upper 100 m of the Atlantic Ocean, consider: ocean water [ENVO:00002151]. Example: Annotating a duck on a pond consider: pond water [ENVO:00002228]|air [ENVO_00002005] None
• microbial mat_biofilm➞alkalinity _0..1
  • Range: QuantityValue
• microbial mat_biofilm➞alkyl_diethers _0..1
  • Range: QuantityValue
• microbial mat_biofilm➞aminopept_act _0..1
  • Range: QuantityValue
• microbial mat_biofilm➞ammonium _0..1
  • Range: QuantityValue
• microbial mat_biofilm➞bacteria_carb_prod _0..1
  • Range: QuantityValue
• microbial mat_biofilm➞biomass _0..*
  • Range: String
• microbial mat_biofilm➞bishomohopanol _0..1
  • Range: QuantityValue
• microbial mat_biofilm➞bromide _0..1
  • Range: QuantityValue
• microbial mat_biofilm➞calcium _0..1
  • Range: QuantityValue
• microbial mat_biofilm➞carb_nitro_ratio _0..1
  • Range: QuantityValue
• microbial mat_biofilm➞chem_administration _0..*
  • Range: String
• microbial mat_biofilm➞chloride _0..1
  • Range: QuantityValue
• microbial mat_biofilm➞chlorophyll _0..1
  • Range: QuantityValue
• microbial mat_biofilm➞diether_lipids _0..*
  • Range: String
• microbial mat_biofilm➞diss_carb_dioxide _0..1
  • Range: QuantityValue
• microbial mat_biofilm➞diss_hydrogen _0..1
  • Range: QuantityValue
• microbial mat_biofilm➞diss_inorg_carb _0..1
  • Range: QuantityValue
• microbial mat_biofilm➞diss_org_carb _0..1
  • Range: QuantityValue
• microbial mat_biofilm➞diss_org_nitro _0..1
  • Range: QuantityValue
• microbial mat_biofilm➞diss_oxygen _0..1
  • Range: QuantityValue
• microbial mat_biofilm➞glucosidase_act _0..1
  • Range: QuantityValue
• microbial mat_biofilm➞magnesium _0..1
  • Range: QuantityValue
• microbial mat_biofilm➞mean_frict_vel _0..1
  • Range: QuantityValue
• microbial mat_biofilm➞mean_peak_frict_vel _0..1
  • Range: QuantityValue
• microbial mat_biofilm➞methane _0..1
  • Range: QuantityValue
• microbial mat_biofilm➞misc_param _0..*
  • Range: String
• microbial mat_biofilm➞n_alkanes _0..*
  • Range: String
• microbial mat_biofilm➞nitrate _0..1
  • Range: QuantityValue
• microbial mat_biofilm➞nitrite _0..1
  • Range: QuantityValue
• microbial mat_biofilm➞nitro _0..1
  • Range: QuantityValue
• microbial mat_biofilm➞org_carb _0..1
  • Range: QuantityValue
• microbial mat_biofilm➞org_matter _0..1
  • Range: QuantityValue
• microbial mat_biofilm➞org_nitro _0..1
  • Range: QuantityValue
• microbial mat_biofilm➞organism_count _0..*
  • Range: organism_count_enum
• microbial mat_biofilm➞oxy_stat_samp _0..1
  • Range: oxy_stat_samp_enum
• microbial mat_biofilm➞ph _0..1
  • Range: Double
• microbial mat_biofilm➞part_org_carb _0..1
  • Range: QuantityValue
• microbial mat_biofilm➞perturbation _0..*
  • Range: String
• microbial mat_biofilm➞petroleum_hydrocarb _0..1
  • Range: QuantityValue
• microbial mat_biofilm➞phaeopigments _0..*
  • Range: String
• microbial mat_biofilm➞phosphate _0..1
  • Range: QuantityValue
• microbial mat_biofilm➞phosplipid_fatt_acid _0..*
  • Range: String
• microbial mat_biofilm➞potassium _0..1
  • Range: QuantityValue
• microbial mat_biofilm➞pressure _0..1
  • Range: QuantityValue
• microbial mat_biofilm➞redox_potential _0..1
  • Range: QuantityValue
• microbial mat_biofilm➞salinity _0..1
  • Range: QuantityValue
• microbial mat_biofilm➞samp_store_dur _0..1
  • Range: String
• microbial mat_biofilm➞samp_store_loc _0..1
  • Range: String
• microbial mat_biofilm➞samp_store_temp _0..1
  • Range: QuantityValue
• microbial mat_biofilm➞silicate _0..1
  • Range: QuantityValue
• microbial mat_biofilm➞sodium _0..1
  • Range: QuantityValue
• microbial mat_biofilm➞sulfate _0..1
  • Range: QuantityValue
• microbial mat_biofilm➞sulfide _0..1
  • Range: QuantityValue
• microbial mat_biofilm➞tot_carb _0..1
  • Range: QuantityValue
• microbial mat_biofilm➞tot_nitro_content _0..1
  • Range: QuantityValue
• microbial mat_biofilm➞tot_org_carb _0..1
  • Range: QuantityValue
• microbial mat_biofilm➞turbidity _0..1
  • Range: QuantityValue
• microbial mat_biofilm➞water_content _0..1
  • Range: QuantityValue
• microbial mat_biofilm➞samp_name _1..1
  • Range: String
• microbial mat_biofilm➞project_name _1..1
  • Range: String
• microbial mat_biofilm➞samp_vol_we_dna_ext _0..1
  • Range: QuantityValue