Slot: broad-scale environmental context (env_broad_scale)

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

URI: MIXS:0000012

Inheritance

environment_field
- env_broad_scale

Applicable Classes

Name	Description	Modifies Slot
HostAssociatedInterface	host_associated dh_interface	yes
AirInterface	air dh_interface	yes
HcrCoresInterface	hcr_cores dh_interface	yes
SoilInterface	soil dh_interface	yes
WaterInterface	water dh_interface	yes
BiofilmInterface	biofilm dh_interface	yes
BuiltEnvInterface	built_env dh_interface	yes
WastewaterSludgeInterface	wastewater_sludge dh_interface	yes
PlantAssociatedInterface	plant_associated dh_interface	yes
MiscEnvsInterface	misc_envs dh_interface	yes
SedimentInterface	sediment dh_interface	yes
HcrFluidsSwabsInterface	hcr_fluids_swabs dh_interface	yes

Properties

Range: String

Aliases

broad-scale environmental context

Examples

Value
oceanic epipelagic zone biome [ENVO:01000033] for annotating a water sample from the photic zone in middle of the Atlantic Ocean

Identifier and Mapping Information

Annotations

property	value
expected_value	The major environment type(s) where the sample was collected. Recommend subclasses of biome [ENVO:00000428]. Multiple terms can be separated by one or more pipes.

Schema Source

from schema: https://example.com/nmdc_submission_schema

Mappings

Mapping Type	Mapped Value
self	MIXS:0000012
native	nmdc_sub_schema:env_broad_scale

LinkML Source

name: env_broad_scale
annotations:
  expected_value:
    tag: expected_value
    value: The major environment type(s) where the sample was collected. Recommend
      subclasses of biome [ENVO:00000428]. Multiple terms can be separated by one
      or more pipes.
  tooltip:
    tag: tooltip
    value: The biome or major environmental system where the sample or specimen originated.
      Choose values from subclasses of the 'biome' class [ENVO:00000428] in the Environment
      Ontology (ENVO). For host-associated or plant-associated samples, use terms
      from the UBERON or Plant Ontology to describe the broad anatomical or morphological
      context
description: 'Report the major environmental system the sample or specimen came from.
  The system(s) identified should have a coarse spatial grain, to provide the general
  environmental context of where the sampling was done (e.g. in the desert or a rainforest).
  We recommend using subclasses of EnvO’s biome class:  http://purl.obolibrary.org/obo/ENVO_00000428.
  EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS'
title: broad-scale environmental context
examples:
- value: oceanic epipelagic zone biome [ENVO:01000033] for annotating a water sample
    from the photic zone in middle of the Atlantic Ocean
from_schema: https://example.com/nmdc_submission_schema
aliases:
- broad-scale environmental context
rank: 1000
is_a: environment field
string_serialization: '{termLabel} {[termID]}'
slot_uri: MIXS:0000012
alias: env_broad_scale
domain_of:
- Biosample
- AirInterface
- BiofilmInterface
- BuiltEnvInterface
- HcrCoresInterface
- HcrFluidsSwabsInterface
- HostAssociatedInterface
- MiscEnvsInterface
- PlantAssociatedInterface
- SedimentInterface
- SoilInterface
- WastewaterSludgeInterface
- WaterInterface
range: string
multivalued: false