Update for sgb to GTDB Translation File - r220

Microbial community profiling MetaPhlAn
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Hi bioBakery team,

The current sgb to GTDB translation file is based on GTDB r207. Earlier this year, a new version, r220, was released with significant changes—for example, the reclassification of Firmicutes to Bacillota and such.

Is there any plan to update the translation file to these changes? I would greatly appreciate it if you could consider doing so.

Best regards,
Sammie

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Dear bioBakery team,

I have a same question.

Some of the species of my interest is Firmicutes in r207, but it becomes Bacillota after r214.

Could you kindly let me know if you have any plans to update the MetaPhlAn4 SGB2GTDB profile to the GTDB r220 version or how to build a new SGB2GTDB profile manually?

I am referring to the mpa_vJun23_CHOCOPhlAnSGB_202403_SGB2GTDB.tsv in MetaPhlAn v4.1.1.

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Dear @sammie and @Kirby
Sure, this can be done. I will recompute the r220 version in the next days and let you know when it is online.

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Hi, here is the updated Jun23 to GTDB (r220) file. mpa_vJun23_CHOCOPhlAnSGB_202403_SGB2GTDB_r220.tsv (4.6 MB)

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Dear @Claudia_Mengoni

Sorry about the late check.

Thanks so much for your kind work! :blush:

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Hello! Any chance there has been another update for this with mpa_vJan25_CHOCOPhlAnSGB_202503 and GTDB r226? I’m running a benchmarking analysis and I was using the conversion script, but I realized in my downstream analysis that the results are from gtdb r220 while the rest of the methods and my simulated sequences are using r226. Is there an updated version somewhere that I’m missing or instructions on how to create my own SGB2GTDB profile? I appreciate any help you can give me!

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Hello @Claudia_Mengoni ! I am writing here under the same thread, would love to have the GTDB r226 version please.