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Species present in ITIS not showing up on backbone taxonomy #413

Open mikeroswell opened 3 years ago

mikeroswell commented 3 years ago

Not sure how this occurs. Xylocopa senior appears to be a valid species name, but doesn't show up in the GBIF backbone taxonomy. I wouldn't expect this behavior based on my current understanding of the backbone taxonomy, suspect a bug.

ManonGros commented 3 years ago

As far as I can see, this species isn't included in the version of ITIS currently published on GBIF nor in any other checklist available on GBIF: https://www.gbif.org/species/search?q=Xylocopa%20senior

The data has to be shared on GBIF before being integrated in the backbone (more information on this blogpost).

Now I am not sure why Xylocopa senior isn't in the ITIS checklist we have. Any idea @mdoering?

mdoering commented 3 years ago

I cannot see in ITIS when the record was added so it's hard to tell.

The GBIF dataset was built on the September 28, 2020 version of the ITIS mysql dump.

ITIS in COL uses a new ColDP based format and is from 28th October, their latest dump. There you can find Xylocopa senior which will make its way into the next COL release which we'll in turn use for the upcoming backbone.

mdoering commented 3 years ago

The latest unreleased version of COL already has it: https://data.catalogue.life/dataset/3/taxon/486a9847-7152-4186-83f3-66b0d1f47c0e

mikeroswell commented 3 years ago

So is the upshot that there was something weird going on where for some reason this species was not in ITIS for reasons probably not related to any kind of "bug" in any of the above referenced DBs? Thanks for looking into this!

mdoering commented 3 years ago

the main thing surely is that the current GBIF backbone is from end of 2019

ManonGros commented 2 years ago

@mdoering although Xylocopa senior has been in the CoL since November, it still isn't in the backbone for some reason. Could you take a look and see if this has to do with the backbone building?

ahahn-gbif commented 2 years ago

After the latest backbone refresh, X. senior does show in the CoL checklist, based on ITIS (https://www.gbif.org/species/search?q=Xylocopa%20senior&dataset_key=7ddf754f-d193-4cc9-b351-99906754a03b&origin=SOURCE&advanced=1), but is not part of the backbone taxonomy. Could this be due to resource ranking in backbone processing?

ahahn-gbif commented 2 years ago

@mdoering: I don't think we can do anything about this from here. I am assigning it to you, but feel free to ping us if there is anything needed in terms of communication