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
Applicable Classes
Name |
Description |
Modifies Slot |
Biosample |
Biological source material which can be characterized by an experiment |
yes |
Properties
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 |
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
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://w3id.org/nmdc/nmdc
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
range: ControlledIdentifiedTermValue
multivalued: false