Discuss Gut microbiomes of agropastoral children from the Adadle region of Ethiopia reflect their unique dietary habits

Peptoniphilaceae

This taxon was originally recorded on the LEfSe graph as Family XI. Supplementary information 3 listed it under Order Clostridia, Class Peptostreptococcales-Tissierellales and had the genus Parvimonas and species Peptoniphilus grossensis under it. NCBI taxonomy places these under the Peptoniphilaceae family. YokoC (talk) 00:09, 28 October 2024 (UTC). Nevertheless I believe this could also be Clostridium cluster XI = Peprosterptococcales.

Vagococcaceae

This family was changed to Enterococcaceae, based on https://lpsn.dsmz.de/family/enterococcaceae

candidate division VadinBE97

This taxa was originally recorded on the LEfSe graph as vadinBE97. Supplementary information 3 listed it under the following taxonomic classification: Verrucomicrobiota, Lentisphaeria, Victivallales, vadinBE97. NCBI classifies Lentisphaeria (Taxonomy ID: 1313211) as a class which contains candidate division VadinBE97.

Genus sp. C sp1/sp2 format

This is the format with which many species are recorded on the Boxplot graphs, i.e. Streptococcus sp.C equinus/infantarius/lutetiensis. In Supplementary information 3, they are recorded with brackets i.e. Streptococcus sp. [C equinus/infantarius/lutetiensis]. In this case the associated NCBI ID in the excel sheet is 1301, which is for the genus Streptococcus. However, I believe the [C. sp/sp/sp] refers to confirming between species, so I think it is better to record this format as Genus sp. for the signatures.

These are the species I have recorded as Genus sp. Streptococcus sp. [C equinus/infantarius/lutetiensis], Actinomyces sp. [C ICM58/oral taxon 172], Streptococcus sp. [C equinus/gallolyticus/macedonicus/pasteurianus], Actinomyces sp. [C oral taxon 181/ph3], Bifidobacterium sp. [C catenulatum/kashiwanohense], Streptococcus sp. [C I-G2/I-P16], Bacteroides sp. [C dorei/vulgatus], Bacteroides sp. [C rodentium/uniformis],

Eggerthella lenta [C Clostridioides difficile], wasn't changed. ,

Experiments 11 and 12

The description on the graph specifies this is a heatmap for genera, however it seems to be for species, I did not change this as maybe using genera was used due to the amount of unassigned species (which were changed to uncultured).

Prevotella 9 copri

Prevotella copri is the homotypic synonym for Segatella copri, however I didn't change it due to the 9 after the genera.