genus level ID only?

[maurorivasferreiro]

Hello,

I am having issues assigning guilds to a OTU table using the .py script

I have tried several different taxonomy inputs in my OTU table, for example:

Laetisaria_fuciformis
s__Laetisaria_fuciformis
Fungi;Basidiomycota;Agaricomycetes;Corticiales;Corticiaceae;Laetisaria;Laetisaria_fuciformis
f__fungi;p__Basidiomycota;c__Agaricomycetes;o__Corticiales;f__Corticiaceae;g__Laetisaria;s__Laetisaria_fuciformis

In all instances FunGuild works and outputs the _matched and _unmatched files, no problem. But in the analysis it seems to drop the species-level identification and use only the genus level or above, even in all OTUs that are identified to species level.

This is not an issue in the online database, where if I look up "Laetisaria fuciformis", I get the data on the species, not the genus. But I need to do hundreds of trophic mode and guild IDs and I hoped I could skip assigning them one by one.

Thank you very much for your help!

[ianm0001]

Hello @maurorivasferreiro,

I see that this post has been around for some time now, but I am currently trying to use FUNGuild and run into the exact same issue as you're describing. At first, I thought the problem may be that I kept the underscore in the species names, so that the input file said Fusarium_oxysporum and not Fusarium oxysporum, but after re-running it without underscores, still species-based guild information is provided for 0 of the 73000 lines, despite 70% of the input is provided on a species-level taxonomic resolution. Because of the size of my data, using the online database is not an option for me either.

So I am wondering if you managed to solve the issue?

All the best, Ida