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UBCG2: Up-to-date bacterial core genes and pipeline for phylogenomic analysis

Cited 70 time in Web of Science Cited 74 time in Scopus
Authors

Kim, Jihyeon; Na, Seong-In; Kim, Dongwook; Chun, Jongsik

Issue Date
2021-06
Publisher
한국미생물학회
Citation
The Journal of Microbiology, Vol.59 No.6, pp.609-615
Abstract
Phylogenomic tree reconstruction has recently become a routine and critical task to elucidate the evolutionary relationships among bacterial species. The most widely used method utilizes the concatenated core genes, universally present in a single-copy throughout the bacterial domain. In our previous study, a bioinformatics pipeline termed Up-to-date Bacterial Core Genes (UBCG) was developed with a set of bacterial core genes selected from 1,429 species covering 28 phyla. In this study, we revised a new bacterial core gene set, named UBCG2, that was selected from the more extensive genome sequence set belonging to 3,508 species spanning 43 phyla. UBCG2 comprises 81 genes with nine Clusters of Orthologous Groups of proteins (COGs) functional categories. The new gene set and complete pipeline are available at .
ISSN
1225-8873
URI
https://hdl.handle.net/10371/179148
DOI
https://doi.org/10.1007/s12275-021-1231-4
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