Which fields link iNat obs to GloBi

[Charlie Hohn]

I just saw this GloBi website mentioned on Github... sorry if I am slow on the uptake but I previously missed this data partner and it looks like an amazing project. I haven't always been good about fields but it seems like this is a case where I should be using fields to help add data to this project when I see a biological interraction.  Is there a list of iNat fields that will trigger a link to this project or does it just pick up any time a species is in a field connected to another species? 

This project, if still active, sure seems like it might be worth a blog post or other documentation. What a fun way to use iNat data! Granted I usually just enter plant data but maybe this would inspire me to enter more animal data.

[Ken-ichi]

They use a bunch. Here's a list derived from their source code
(https://github.com/jhpoelen/eol-globi-data/blob/master/eol-globi-data-sources/src/main/java/org/eol/globi/data/StudyImporterForINaturalist.java#L37):

2nd associated organism with names lookup
Alimentándose
associated species alien to NZ
associated species NZ
Associated species with names lookup
Associated With
Being parasitized by
Butterfly & Moth Host Plant
Butterfly & Moth Nectar Plant
Depredando
Drinking nectar from
Eating
Especie visitada
Euphorbia pulcherrima
Feeding on
Feeding on:
Flower species
Food Source
Forms gall on
Gall Inducer
honey bee food plant
Hospedero
Host
Host animal
Host plant NZ
host species with names lookup
host to parasitic fungus
Hunting
Insect Host Plant
Insect Nectar Plant
Interacciones
Interaction: Ate fruit of
Interaction: Carcass scavenged by
Interaction: Decomposer of
Interaction: egg(s) laid on/in
Interaction: Flower visited by
Interaction: Fruit eaten by
Interaction: Herbivore of
Interaction: Herbivory by
Interaction: Infected by
Interaction: Nested in
Interaction: Nested in
Interaction: Parasite/parasitoid of
Interaction: Preyed upon
Interaction: Preyed upon by
Interaction: Visited flower of
Is Host For
Kleptoparasite Forage
Kleptoparasite Host
Mariposas que alimenta
Milkweed species
Other other species in group
Other Species in Group
Parasitando a
parasitic fungus on hoast with names lookup
Perching on
Polinizando
Pollinating
Pollinating
Predated by
Predating
second associated species
specified substrate of fungus
With the prey

If you follow the source code link you'll see how those fields map to
GloBI interactions.

-ken-ichi

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[Charlie Hohn]

Very neat, thanks! I wonder if it's worth even doing some plant species and linking to other plants they grow in association with. Maybe harder to determine which are having meaningful interactions though. In any event I should go through and add all the easy ones I have such as insects on plants. Another good cold season project. Thanks!

--

============================
Charlie Hohn
Montpelier, Vermont

[Carrie Seltzer]

Just wanted to chime in to say that iNat has enormous unrealized potential for capturing these additional interactions. Definitely a good winter project, as you mentioned, Charlie! I add them to other's observations when I know the other species involved (I usually just use the "Eating" field). You can read more about GloBI on their blog.

If anyone is running out of things to ID (ha!), you could go through your favorite taxa (or even search keywords like "eating") and add relevant interaction fields...

Carrie

[David K]

Has the list been updated?  I can't seem to find "Drinking nectar from" and "Butterfly & Moth Nectar Plant" now.  

Then there are other fields not on the list that seem to record similar information, such as "Plant-Pollinator Interaction". I don't really want to use this if its not being picked up by GloBi.

Thanks,

David

[James Bailey]

Are we allowed to correct spelling errors on fields?

[Carrie Seltzer]

David, if there's a field you'd like to use for interactions that you don't think GloBI is currently getting, you can reach out to Jorrit from GloBI and ask him to add it to what he automatically incorporates. His email is jhpo...@xs4all.nl. 

Sorry I don't know anything about field updates (or spelling corrections)!

Carrie

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[Charlie Hohn]

it would be really good to get a list of the fields that link to GloBI - maybe Jorrit can send one or better yet keep a current one on the website. I've been making an effort to support GloBI and this would help a lot

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[Lynn Watson]

One of the fields used for the Project, "Butterfly & Moth Nectar Plants" was changed from

Insect Nectar Plant ... to ... Nectar Plant

by request from another user who wanted to use the field for taxa other than insects.

The change was noted in the Project, here:

http://www.inaturalist.org/projects/butterfly-moth-nectar-plants

under map

and in the field itself here:

http://www.inaturalist.org/observation_fields/498

scroll down to the end of the page.

[David K]

Carrie, Lynn - thanks for the replies.  The nectar plant change is very helpful to know about, but it also shows why a current list of terms would be helpful.  Like Charlie, I like to contribute to GloBi  when I can, and I don't want to use fields that aren't picked up by it.  I don't necessarily want to add a field either if there is something appropriate being used.  

Thanks also for the second link Lynn, I didn't realize that you could find observations by field. 

David

[Jorrit Poelen]

Hey everyone:

Carrie- thanks for pointing out this thread. 

Since this thread started, GloBI uses an external mapping for iNaturalist observation fields here: https://github.com/globalbioticinteractions/inaturalist .

You'll find two csv files: the "taxon" observation fields that are mapped to interaction terms (https://github.com/globalbioticinteractions/inaturalist/blob/master/interaction_types.csv) and the fields that are ignored (https://github.com/globalbioticinteractions/inaturalist/blob/master/interaction_types_ignored.csv). 

The idea is that all observation fields with datatype "taxon" are included in these two files. New ones should be added editing the file and sending a pull request (github speak), by opening an issue or yelling loudly. 

If you carefully inspect the interaction_types.csv file, you'll find that the terms are usually mapped to those from the relation ontology (see https://github.com/oborel/obo-relations). This is a hierarchical dictionary of sorts that contains a controlled set of machine readable interaction terms.

Please feel free to open an issue https://github.com/globalbioticinteractions/inaturalist/issues/new or holler at me if you'd like to discuss more. Ideally we can all collaborate to help curate this list and make it better!

Hope this helps,

-jorrit

GloBI lead

[Charlie Hohn]

Looking at a glance, I notice that Interaction: Competition with isn't on the list, you may want it. Also, "Interaction: Defended territory from" is being ignored, not sure if you meant to do that.

Thanks!!!

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[Jorrit Poelen]

Interesting! I'd have to think a little about how to map "Interaction: Competition with" and "Interaction: Defended territory from" fields. Almost seems like behavioral traits, rather than physical interactions like eat, parasitize, visit. Please bug me if it's taking too long. 

[Lynn Watson]

Hmmm - I wish I had thought through the field naming better at the outset - for Butterfly & Moth Nectar Plants, the field name has changed from 

Butterfly & Moth Nectar Plant ... to

Insect Nectar Plant ... to

Nectar Plant 

The first two are listed, but have been replaced by the third which is not listed.

Is there a way to notify them of field name changes?

Lynn.

[Charlie Hohn]

Hey Jorrit, the Competition field was created upon my suggestion for a certain purpose and I'd be OK with a name change if it would help clarify. here's the situation - you have an invasive plant occurring in an otherwise intact native ecosystem. Say for example invasive buckthorn occurring with native sugar and red maple. I would want to characterize the relationship between sugar maple and red maple as 'associated species' because they are occurring together in the natural community. However it doesn't really make sense to track the buckthorn that way since it's a newcomer and may be inhibiting the survival of the sugar maple or at least seedlings... so I suggested 'competition' between sugar maple and buckthorn, for instance. I hadn't thought about it in terms of animals competing, and haven't used the field for that. Hope that helps... any ideas?

I used defended territory from once when I saw a squirrel chase away a blue jay. That seems pretty straightforward to me one way or another

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