Evidence map›Paper›PMID 36526963›Full record

ArticleBMC genomics2022

Genomic diversity and comprehensive taxonomical classification of 61 Bacillus subtilis group member infecting bacteriophages, and the identification of ortholog taxonomic signature genes.

Haftom Baraki Abraha, Jae-Won Lee, Gayeong Kim, Mokhammad Khoiron Ferdiansyah, Rathnayaka Mudiyanselage Ramesha, Kwang-Pyo Kim

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Article in BMC genomics, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

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2citing papers in PubMed
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1 · What the graph read from it

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3 · Its place in the literature

Who cites it

2 citing papers in PubMed.

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4 · The record

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5 · Who and what money

Authors and funding

6 authors.

Haftom Baraki AbrahaDepartment of Food Science and Technology, Jeonbuk National University, Jeonju, 54896, South Korea.
Jae-Won LeeDepartment of Agricultural Convergence Technology, Jeonbuk National University, Jeonju, 54896, South Korea.
Gayeong KimDepartment of Food Science and Technology, Jeonbuk National University, Jeonju, 54896, South Korea.
Mokhammad Khoiron FerdiansyahDepartment of Food Science and Technology, Jeonbuk National University, Jeonju, 54896, South Korea.
Rathnayaka Mudiyanselage RameshaDepartment of Agricultural Convergence Technology, Jeonbuk National University, Jeonju, 54896, South Korea.
Kwang-Pyo KimDepartment of Food Science and Technology, Jeonbuk National University, Jeonju, 54896, South Korea. kpkim@jbnu.ac.kr.

Funding

National Research Foundation of Korea 2021R1A2C2008022
6 · The paper itself

Abstract

backgroundDespite the applications of Bacillus subtilis group species in various sectors, limited information is available regarding their phages. Here, 61 B. subtilis group species-infecting phages (BSPs) were studied for their taxonomic classification considering the genome-size, genomic diversity, and the host, followed by the identification of orthologs taxonomic signature genes.

resultsBSPs have widely ranging genome sizes that can be bunched into groups to demonstrate correlations to family and subfamily classifications. Comparative analysis re-confirmed the existing, BSPs-containing 14 genera and 21 species and displayed inter-genera similarities within existing subfamilies. Importantly, it also revealed the need for the creation of new taxonomic classifications, including 28 species, nine genera, and two subfamilies (New subfamily1 and New subfamily2) to accommodate inter-genera relatedness. Following pangenome analysis, no ortholog shared by all BSPs was identified, while orthologs, namely, the tail fibers/spike proteins and poly-gamma-glutamate hydrolase, that are shared by more than two-thirds of the BSPs were identified. More importantly, major capsid protein (MCP) type I, MCP type II, MCP type III and peptidoglycan binding proteins that are distinctive orthologs for Herelleviridae, Salasmaviridae, New subfamily1, and New subfamily2, respectively, were identified and analyzed which could serve as signatures to distinguish BSP members of the respective taxon.

conclusionsIn this study, we show the genomic diversity and propose a comprehensive classification of 61 BSPs, including the proposition for the creation of two new subfamilies, followed by the identification of orthologs taxonomic signature genes, potentially contributing to phage taxonomy.

Indexed as

BacillusBacteriophagesBacillus subtilisGenome, ViralGenomicsPhylogenyBacillus phagesBacteriophagesB. subtilis groupIntergenomic similaritiesOrthologsPhylogeneticsSignature genesTaxonomic classification

Identifiers

PMID36526963
PMCPMC9756591

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