Whole Genome Sequencing and Comparative Genome Analyses of Chlamydia abortus Strains of Avian Origin Suggests That Chlamydia abortus Species Should Be Expanded to Include Avian and Mammalian Subgroups

A variety of Chlamydia species belonging to the Chlamydiaceae family have been reported in birds. Until recently, C. psittaci was considered to be the most common avian species, although found in both birds and mammals, while C. abort...

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Autores principales:	Kinga Zaręba-Marchewka, Monika Szymańska-Czerwińska, Morag Livingstone, David Longbottom, Krzysztof Niemczuk
Formato:	article
Lenguaje:	EN
Publicado:	MDPI AG 2021
Materias:	<i>Chlamydia</i> avian <i>C. abortus</i> WGS Illumina Nanopore Medicine R
Acceso en línea:	https://doaj.org/article/1dfa653d30df412c8c0375c245036eaf
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spelling	oai:doaj.org-article:1dfa653d30df412c8c0375c245036eaf2021-11-25T18:37:59ZWhole Genome Sequencing and Comparative Genome Analyses of <i>Chlamydia abortus</i> Strains of Avian Origin Suggests That <i>Chlamydia abortus</i> Species Should Be Expanded to Include Avian and Mammalian Subgroups10.3390/pathogens101114052076-0817https://doaj.org/article/1dfa653d30df412c8c0375c245036eaf2021-10-01T00:00:00Zhttps://www.mdpi.com/2076-0817/10/11/1405https://doaj.org/toc/2076-0817A variety of <i>Chlamydia</i> species belonging to the <i>Chlamydiaceae</i> family have been reported in birds. Until recently, <i>C. psittaci</i> was considered to be the most common avian species, although found in both birds and mammals, while <i>C. abortus</i> has only been found in mammals. Recently, a new group of avian <i>C. abortus</i> strains with worldwide distribution in various wild bird families has been described. In this study, whole genome sequencing (WGS) of three of these strains (15-70d24, 15-49d3 and 15-58d44, representing genotypes G1, G2 and 1V, respectively) that were isolated from wild birds were analysed. Genome assemblies based on both short-read Illumina and long-read Nanopore data indicate that these avian <i>C. abortus</i> strains show features characteristic of both <i>C. abortus</i> and <i>C. psittaci</i> species, although phylogenetic analyses demonstrate a closer relationship with classical <i>C. abortus</i> strains. Currently, species classification established by the ICSP Subcommittee on the taxonomy of Chlamydiae, determines that these avian <i>C. abortus</i> strains 15-70d24, 15-49d3 and 15-58d44 should be classified as <i>C. abortus</i>. However, the authors of this study conclude that the current taxonomic definition of <i>C. abortus</i> is outdated and should be amended to include two subgroups, mammalian and avian, the latter of which would include all isolates so far referred to as atypical <i>C. psittaci</i> or <i>C. psittaci</i>/<i>C. abortus</i> intermediates.Kinga Zaręba-MarchewkaMonika Szymańska-CzerwińskaMorag LivingstoneDavid LongbottomKrzysztof NiemczukMDPI AGarticle<i>Chlamydia</i>avian <i>C. abortus</i>WGSIlluminaNanoporeMedicineRENPathogens, Vol 10, Iss 1405, p 1405 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	<i>Chlamydia</i> avian <i>C. abortus</i> WGS Illumina Nanopore Medicine R
spellingShingle	<i>Chlamydia</i> avian <i>C. abortus</i> WGS Illumina Nanopore Medicine R Kinga Zaręba-Marchewka Monika Szymańska-Czerwińska Morag Livingstone David Longbottom Krzysztof Niemczuk Whole Genome Sequencing and Comparative Genome Analyses of <i>Chlamydia abortus</i> Strains of Avian Origin Suggests That <i>Chlamydia abortus</i> Species Should Be Expanded to Include Avian and Mammalian Subgroups
description	A variety of <i>Chlamydia</i> species belonging to the <i>Chlamydiaceae</i> family have been reported in birds. Until recently, <i>C. psittaci</i> was considered to be the most common avian species, although found in both birds and mammals, while <i>C. abortus</i> has only been found in mammals. Recently, a new group of avian <i>C. abortus</i> strains with worldwide distribution in various wild bird families has been described. In this study, whole genome sequencing (WGS) of three of these strains (15-70d24, 15-49d3 and 15-58d44, representing genotypes G1, G2 and 1V, respectively) that were isolated from wild birds were analysed. Genome assemblies based on both short-read Illumina and long-read Nanopore data indicate that these avian <i>C. abortus</i> strains show features characteristic of both <i>C. abortus</i> and <i>C. psittaci</i> species, although phylogenetic analyses demonstrate a closer relationship with classical <i>C. abortus</i> strains. Currently, species classification established by the ICSP Subcommittee on the taxonomy of Chlamydiae, determines that these avian <i>C. abortus</i> strains 15-70d24, 15-49d3 and 15-58d44 should be classified as <i>C. abortus</i>. However, the authors of this study conclude that the current taxonomic definition of <i>C. abortus</i> is outdated and should be amended to include two subgroups, mammalian and avian, the latter of which would include all isolates so far referred to as atypical <i>C. psittaci</i> or <i>C. psittaci</i>/<i>C. abortus</i> intermediates.
format	article
author	Kinga Zaręba-Marchewka Monika Szymańska-Czerwińska Morag Livingstone David Longbottom Krzysztof Niemczuk
author_facet	Kinga Zaręba-Marchewka Monika Szymańska-Czerwińska Morag Livingstone David Longbottom Krzysztof Niemczuk
author_sort	Kinga Zaręba-Marchewka
title	Whole Genome Sequencing and Comparative Genome Analyses of <i>Chlamydia abortus</i> Strains of Avian Origin Suggests That <i>Chlamydia abortus</i> Species Should Be Expanded to Include Avian and Mammalian Subgroups
title_short	Whole Genome Sequencing and Comparative Genome Analyses of <i>Chlamydia abortus</i> Strains of Avian Origin Suggests That <i>Chlamydia abortus</i> Species Should Be Expanded to Include Avian and Mammalian Subgroups
title_full	Whole Genome Sequencing and Comparative Genome Analyses of <i>Chlamydia abortus</i> Strains of Avian Origin Suggests That <i>Chlamydia abortus</i> Species Should Be Expanded to Include Avian and Mammalian Subgroups
title_fullStr	Whole Genome Sequencing and Comparative Genome Analyses of <i>Chlamydia abortus</i> Strains of Avian Origin Suggests That <i>Chlamydia abortus</i> Species Should Be Expanded to Include Avian and Mammalian Subgroups
title_full_unstemmed	Whole Genome Sequencing and Comparative Genome Analyses of <i>Chlamydia abortus</i> Strains of Avian Origin Suggests That <i>Chlamydia abortus</i> Species Should Be Expanded to Include Avian and Mammalian Subgroups
title_sort	whole genome sequencing and comparative genome analyses of <i>chlamydia abortus</i> strains of avian origin suggests that <i>chlamydia abortus</i> species should be expanded to include avian and mammalian subgroups
publisher	MDPI AG
publishDate	2021
url	https://doaj.org/article/1dfa653d30df412c8c0375c245036eaf
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Whole Genome Sequencing and Comparative Genome Analyses of <i>Chlamydia abortus</i> Strains of Avian Origin Suggests That <i>Chlamydia abortus</i> Species Should Be Expanded to Include Avian and Mammalian Subgroups

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