Slot: local environmental context (env_local_scale)
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.
URI: MIXS:0000013 Alias: env_local_scale
Inheritance
- mixs_env_triad_field
- env_local_scale
Applicable Classes
Name | Description | Modifies Slot |
---|---|---|
WaterInterface | water dh_interface | yes |
HostAssociatedInterface | host_associated dh_interface | yes |
BiofilmInterface | biofilm dh_interface | yes |
AirInterface | air dh_interface | yes |
SedimentInterface | sediment dh_interface | yes |
WastewaterSludgeInterface | wastewater_sludge dh_interface | yes |
HcrFluidsSwabsInterface | hcr_fluids_swabs dh_interface | yes |
HcrCoresInterface | hcr_cores dh_interface | yes |
SoilInterface | soil dh_interface | yes |
BuiltEnvInterface | built_env dh_interface | yes |
MiscEnvsInterface | misc_envs dh_interface | yes |
PlantAssociatedInterface | plant_associated dh_interface | yes |
Properties
-
Range: String
-
Required: True
Aliases
- local environmental context
Examples
Value |
---|
canopy [ENVO:00000047] |
herb and fern layer [ENVO:01000337] |
understory [ENVO:01000335] |
shrub layer [ENVO:01000336] |
Identifier and Mapping Information
Annotations
property | value |
---|---|
expected_value | Environmental entities having causal influences upon the entity at time of sampling. |
tooltip | The specific environmental entities or features near the sample or specimen that significantly influence its characteristics or composition. These entities are typically smaller in scale than the broad environmental context. Values for this field should be countable, material nouns and must be chosen from subclasses of BFO:0000040 (material entity) that appear in the Environment Ontology (ENVO). For host-associated or plant-associated samples, use terms from the UBERON or Plant Ontology to describe specific anatomical structures or plant parts. |
Schema Source
- from schema: https://example.com/nmdc_submission_schema
Mappings
Mapping Type | Mapped Value |
---|---|
self | MIXS:0000013 |
native | nmdc_sub_schema:env_local_scale |
LinkML Source
name: env_local_scale
annotations:
expected_value:
tag: expected_value
value: Environmental entities having causal influences upon the entity at time
of sampling.
tooltip:
tag: tooltip
value: The specific environmental entities or features near the sample or specimen
that significantly influence its characteristics or composition. These entities
are typically smaller in scale than the broad environmental context. Values
for this field should be countable, material nouns and must be chosen from subclasses
of BFO:0000040 (material entity) that appear in the Environment Ontology (ENVO).
For host-associated or plant-associated samples, use terms from the UBERON or
Plant Ontology to describe specific anatomical structures or plant parts.
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.'
title: local environmental context
examples:
- value: canopy [ENVO:00000047]
- value: herb and fern layer [ENVO:01000337]
- value: understory [ENVO:01000335]
- value: shrub layer [ENVO:01000336]
from_schema: https://example.com/nmdc_submission_schema
aliases:
- local environmental context
rank: 7
is_a: mixs_env_triad_field
string_serialization: '{termLabel} {[termID]}'
slot_uri: MIXS:0000013
alias: env_local_scale
domain_of:
- AirInterface
- BiofilmInterface
- BuiltEnvInterface
- HcrCoresInterface
- HcrFluidsSwabsInterface
- HostAssociatedInterface
- MiscEnvsInterface
- PlantAssociatedInterface
- SedimentInterface
- SoilInterface
- WastewaterSludgeInterface
- WaterInterface
slot_group: sample_id_section
range: string
required: true
multivalued: false