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INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY logo

Volume 74, Issue 2

Robust demarcation of the family and its main genera based on phylogenomic studies and taxon-specific molecular markers Open Access

Abstract

The family , which contains 15 genera including , presently lacks proper circumscription. Using 52 available genomes for species, we report comprehensive phylogenomic and comparative analyses to reliably discern their evolutionary relationships. In phylogenetic trees based on core genome proteins and 16S rRNA gene sequences, the examined species formed a strongly supported clade designated as . This clade encompassed the genera (type genus), , , , , , , and , and two misclassified species (. and ‘’). The distinctness of this clade is strongly supported by eight identified conserved signature indels (CSIs), which are specific for the species from this clade. Based on the robust evidence provided by presented studies, we are proposing the emendment of family to only the genera within the clade. We also report 67 other novel CSIs, which reliably demarcate different species clades and clarify the classification of some misclassified species. Based on the consistent evidence obtained from different presented studies, we are making the following proposals to clarify the classification of species: (i) transfer of , and as comb. nov. into the genus ; (ii) transfer of as a comb. nov. into gen. nov.; (iii) classification of ‘ as a novel species gen. nov., sp. nov. (type strain FF1; genome and 16S rRNA accession numbers GCA_000499525.1 and KC517358, respectively); (iv) transfer of two misclassified species, and , into gen. nov.; and (v) proposals for two novel families, fam. nov. and fam. nov., to accommodate remaining unclassified genera. The described CSIs specific for different families and genera provide novel and reliable means for the identification, diagnostics and biochemical studies on these bacteria.

  • Received:
  • Accepted:
  • Published Online:
Keyword(s): conserved signature indels (CSIs) , descriptions of the family Peptoclostridiaceae fam. nov. and Tepidibacteraceae fam. nov. , descriptions of the novel genera Alkalithermobacter, Faecalimicrobium and Metaclostridioides , emended descriptions of Peptostreptococcaceae and Paraclostridium , molecular markers specific for Peptostreptococcaceae genera and phylogenomic and comparative genomic analyses
Funding
This study was supported by the:
  • Natural Sciences and Engineering Research Council of Canada (Award RGPIN-2019-06397)
    • Principle Award Recipient: RadheyS. Gupta
© 2024 The Authors
  • This is an open-access article distributed under the terms of the Creative Commons Attribution NonCommercial License. This article was made open access via a Publish and Read agreement between the Microbiology Society and the corresponding author’s institution.
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2024-04-28
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Robust demarcation of the family Peptostreptococcaceae and its main genera based on phylogenomic studies and taxon-specific molecular markers
Int J Syst Evol Microbiol 74, 006247 (2024); https://doi.org/10.1099/ijsem.0.006247
/content/journal/ijsem/10.1099/ijsem.0.006247
/content/journal/ijsem/10.1099/ijsem.0.006247
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