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Comment
. 2019 Feb 22:10:206.
doi: 10.3389/fmicb.2019.00206. eCollection 2019.

Commentary: Genome-Based Taxonomic Classification of the Phylum Actinobacteria

Radhey S Gupta  1
Affiliations
Comment

Commentary: Genome-Based Taxonomic Classification of the Phylum Actinobacteria

Radhey S Gupta. Front Microbiol. .
No abstract available

Keywords: Priority of taxonomic names; division of the family Mycobacteriaceae into five genera; family Mycobacteriaceae and the order Mycobacteriales; genus Mycobacterium; order Corynebacteriales; prokaryotic taxonomy.

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Figures

Figure 1
Figure 1
(A) A summary diagram showing the five main clades within the family Mycobacteriaceae, now recognized as distinct genera, seen in different phylogenetic trees. The molecular synapomorphies consisting of conserved signature indels (CSIs) and conserved signature proteins (CSPs), which distinguish different clades are marked on the nodes. The members of these clades/genera also differ in their growth rates. (B) Partial sequence alignment of the ABC-F family ATP-binding cassette domain-containing protein showing a 2 aa insert in a conserved region that is commonly and uniquely present in different members of the order Mycobacteriales. The dashes (–) in the alignment show identity with the amino acids shown on the top line. The numbers with the genus name refer to different unique strains for which sequences were examined. The sequence information is shown for only 1–2 representative species from different genera that are part of this order and very few outgroup species. However, this CSI is not found in other Actinobacteria or other examined bacteria (see Figure S1) with the possible exception of Kroppenstedtia sanguinis (a Firmicute). This CSI as well as a number of other CSIs and CSPs for this order were described in our earlier work (Gao and Gupta, 2012) based on limited sequence information and most of them are still distinctive characteristics of this order.
See this image and copyright information in PMC

Comment on

  • Genome-Based Taxonomic Classification of the Phylum Actinobacteria.
    Nouioui I, Carro L, García-López M, Meier-Kolthoff JP, Woyke T, Kyrpides NC, Pukall R, Klenk HP, Goodfellow M, Göker M. Nouioui I, et al. Front Microbiol. 2018 Aug 22;9:2007. doi: 10.3389/fmicb.2018.02007. eCollection 2018. Front Microbiol. 2018. PMID: 30186281 Free PMC article.

References

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    1. Goodfellow M., Jones A. L. (2012). Order V. Corynebacteriales ord.nov, in Bergey's Manual of Systematic Bacteriology, Vol. 5, Actinobacteria, eds Goodfellow M., Kampfer P., Busse H. J., Trujillo M. E., Suzuki K., Ludwig W., Whitman W. (New York, NY: Springer; ), 235–243.
    1. Gupta R. S. (2016). Impact of genomics on the understanding of microbial evolution and classification: the importance of Darwin's views on classification. FEMS Microbiol. Rev. 40, 520–553. 10.1093/femsre/fuw011 - DOI - PubMed
    1. Gupta R. S. (2018). Impact of genomics on clarifying the evolutionary relationships amongst Mycobacteria: identification of molecular signatures specific for the tuberculosis-complex of bacteria with potential applications for novel diagnostics and therapeutics. High Throughput 7:E31. 10.3390/ht7040031 - DOI - PMC - PubMed
    1. Gupta R. S., Chen W. J., Adeolu M., Chai Y. (2013). Molecular signatures for the class Coriobacteriia and its different clades; Proposal for division of the class Coriobacteriia into the emended order Coriobacteriales, containing the emended family Coriobacteriaceae and Atopobiaceae fam. nov., and Eggerthellales ord. nov., containing the family Eggerthellaceae fam. nov. Int. J. Syst. Evol. Microbiol. 63, 3379–3397. 10.1099/ijs.0.048371-0 - DOI - PubMed

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