Tropical forest biome

[tnn111]

Need a "tropical forest biome" for "tropical forest soil microbial communities". Or any suggested alternatives?

[pbuttigieg]

In the WWF scheme we've aligned to, this class would work for tropical rainforests :

http://purl.obolibrary.org/obo/ENVO_01000228

If it's a mixed or coniferous tropical forest, there are a few relates classes nearby that may work, depending on where your sample originates from.

[diatomsRcool]

I kind of feel like the communities themselves should go in PCO....

[pbuttigieg]

I kind of feel like the communities themselves should go in PCO....

Yes, there is a microbial community class there which @kaiiam will be coordinating with ENVO's "microbiomes". There's a lot of misuse and fuzziness of these terms. Some notes here: PopulationAndCommunityOntology/pco#70

In this case, however, I think we're dealing with the environment of these communities, as specified in MIxS.

[pbuttigieg]

I kind of feel like the communities themselves should go in PCO....

Yes, there is a microbial community class there which @kaiiam will be coordinating with ENVO's "microbiomes". There's a lot of misuse and fuzziness of these terms. Some notes here: PopulationAndCommunityOntology/pco#70

In this case, however, I think we're dealing with the environment of these communities, as specified in MIxS.

[diatomsRcool]

Ah! Ok.

[ddooley]

On the topic of biome description in MixS, is someone compiling notes on how to satisfy MixS environmental biosample reporting using ENVO and other ontologies? If so I'd appreciate that. A few years ago I grabbed a number of ENVO related terms to cover some MixS categories but it wasn't a thorough scan. Notes on how to describe different "slots" using ontology would be great.

[pbuttigieg]

@ddooley we put this together on our website quite some time back: http://environmentontology.org/annotation-guidelines

MIxS 5 is a little different in that you have more freedom in what to add to each slot, as long as you're 'zooming in' to the sample itself.

[cmungall]

@ddooley welcome any and all tickets pertaining to how to use ENVO for sample annotation. I made a project to organize the tickets: https://github.com/orgs/EnvironmentOntology/projects/1