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Title:Genomic insights into the Mycobacterium kansasii complex : an update
Authors:ID Jagielski, Tomasz (Author)
ID Borówka, Paulina (Author)
ID Bakuła, Zofia (Author)
ID Lach, Jakub (Author)
ID Marciniak, Błażej (Author)
ID Brzostek, Anna (Author)
ID Dziadek, Jarosław (Author)
ID Dziurzyński, Mikołaj (Author)
ID Pennings, Lian (Author)
ID Ingen, Jakobus van (Author)
ID Žolnir-Dovč, Marija, Klinika Golnik (Author)
ID Strapagiel, Dominik (Author)
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URL URL - Source URL, visit https://www.frontiersin.org/articles/10.3389/fmicb.2019.02918/full
 
Language:English
Typology:1.01 - Original Scientific Article
Organization:Logo UKPBAG - University Clinic of Respiratory and Allergic Diseases Golnik
Abstract:Only very recently, has it been proposed that the hitherto existing Mycobacteriumkansasii subtypes (I–VI) should be elevated, each, to a species rank. Consequently, the former M. kansasii subtypes have been denominated as Mycobacterium kansasii (former type I), Mycobacterium persicum (II), Mycobacterium pseudokansasii (III), Mycobacterium innocens (V), and Mycobacterium attenuatum (VI). The present work extends the recently published findings by using a three-pronged computational strategy, based on the alignment fraction-average nucleotide identity, genome-to-genome distance, and core-genome phylogeny, yet essentially independent and much larger sample, and thus delivers a more refined and complete picture of the M. kansasii complex. Furthermore, five canonical taxonomic markers were used, i.e., 16S rRNA, hsp65, rpoB, and tuf genes, as well as the 16S-23S rRNA intergenic spacer region (ITS). The three major methods produced highly concordant results, corroborating the view that each M. kansasii subtype does represent a distinct species. This work not only consolidates the position of five of the currently erected species, but also provides a description of the sixth one, i.e., Mycobacterium ostraviense sp. nov. to replace the former subtype IV. By showing a close genetic relatedness, amonophyletic origin, and overlapping phenotypes, our findings support the recognition of the M. kansasii complex (MKC), accommodating all M. kansasii-derived species and Mycobacterium gastri. None of the most commonly used taxonomic markers was shown to accurately distinguish all the MKC species. Likewise, no species-specific phenotypic characteristics were found allowing for species differentiation within the complex, except the non-photochromogenicity of M. gastri. To distinguish, most reliably, between the MKC species, and between M. kansasii and M. persicum in particular, whole-genome-based approaches should be applied. In the absence of clear differences in the distribution of the virulence-associated region of difference 1 genes among the M. kansasii-derived species, the pathogenic potential of each of these species can only be speculatively assessed based on their prevalence among the clinically relevant population. Large-scale molecular epidemiological studies are needed to provide a better understanding of the clinical significance and pathobiology of the MKC species. The results of the in vitro drug susceptibility profiling emphasize the priority of rifampicin administration in the treatment of MKC-induced infections, while undermining the use of ethambutol, due to a high resistance to this drug.
Keywords:Mycobacteriumkansasii complex, Mycobacteriumostraviense sp. nov., non-tuberculous mycobacteria (NTM), whole genome sequencing, taxonomy
Publication status:Published
Publication version:Version of Record
Place of publishing:Švica
Publisher:Frontiers Media SA
Year of publishing:2020
Number of pages:str. 1-27
Numbering:Vol. 10
PID:20.500.12556/DiRROS-12303 New window
UDC:579
ISSN on article:1664-302X
DOI:10.3389/fmicb.2019.02918 New window
COBISS.SI-ID:2048616049 New window
Copyright:2020 Jagielski, Borówka, Bakuła, Lach, Marciniak, Brzostek, Dziadek, Dziurzy´nski, Pennings, van Ingen, Žolnir-Dovč and Strapagiel.
Note:Nasl. z nasl. zaslona; Soavtorica iz Slovenije: Manca Žolnir-Dovč; Opis vira z dne 17. 1. 2020; Št. prispevka: 2918;
Publication date in DiRROS:31.07.2020
Views:1843
Downloads:1317
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Record is a part of a journal

Title:Frontiers in microbiology
Shortened title:Front. microbiol.
Publisher:Frontiers Research Foundation
ISSN:1664-302X
COBISS.SI-ID:4146296 New window

Licences

License:CC BY 4.0, Creative Commons Attribution 4.0 International
Link:http://creativecommons.org/licenses/by/4.0/
Description:This is the standard Creative Commons license that gives others maximum freedom to do what they want with the work as long as they credit the author.
Licensing start date:04.12.2019

Secondary language

Language:Undetermined
Keywords:kompleks Mycobacterium kansasii, Mycobacterium ostraviense sp. nov., netuberkulozne mikobakterije, sekvenciranje genoma, taksonomija


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