Culture-independent genome sequencing of clinical samples reveals an unexpected heterogeneity of infections by Chlamydia pecorum

Nathan Bachmann; Mitchell J Sullivan; Martina Jelocnik; Garry S A Myers; Peter Timms; Adam Polkinghorne

doi:10.1128/JCM.03534-14

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Culture-independent genome sequencing of clinical samples reveals an unexpected heterogeneity of infections by Chlamydia pecorum

Journal article

Open access

Peer reviewed

Culture-independent genome sequencing of clinical samples reveals an unexpected heterogeneity of infections by Chlamydia pecorum

Nathan Bachmann, Mitchell J Sullivan, Martina Jelocnik, Garry S A Myers, Peter Timms and Adam Polkinghorne

Journal of Clinical Microbiology, Vol.53(5), pp.1573-1581

2015

DOI: https://doi.org/10.1128/JCM.03534-14

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Abstract

chlamydia pecorum

Chlamydia pecorum is an important global pathogen of livestock and it is also a significant threat to the long-term survival of Australia's koala populations. This study employed a culture-independent DNA capture approach to sequence C. pecorum genomes directly from clinical swabs samples collected from koalas with chlamydial disease as well as from sheep with arthritis and conjunctivitis. Investigations into single nucleotide polymorphisms within each of the swab samples revealed that a portion of the reads in each sample belonged to separate C. pecorum strains, suggesting that all of the clinical samples analyzed contained mixed populations of genetically distinct C. pecorum isolates. This observation was independent of the anatomical site sampled and the host species. Using the genomes of strains identified in each of these samples, whole genome phylogenetic analysis revealed that a clade containing a bovine and a koala isolate is distinct from other clades comprised of livestock or koala C. pecorum strains. Providing additional evidence to support exposure of koalas to Australian livestock strains, two 'minor' strains assembled from the koala swab samples clustered with livestock strains rather than koala strains. Culture-independent probe-based genome capture and sequencing of clinical samples provides the strongest evidence yet to suggest that naturally occurring chlamydial infections are comprised of multiple genetically distinct strains.

Details

Title: Culture-independent genome sequencing of clinical samples reveals an unexpected heterogeneity of infections by Chlamydia pecorum
Authors: Nathan Bachmann (Author) - University of the Sunshine Coast - Faculty of Science, Health, Education and Engineering
Mitchell J Sullivan (Author) - University of the Sunshine Coast - Faculty of Science, Health, Education and Engineering
Martina Jelocnik (Author) - University of the Sunshine Coast - Faculty of Science, Health, Education and Engineering
Garry S A Myers (Author) - University of Technology Sydney
Peter Timms (Author) - University of the Sunshine Coast - Faculty of Science, Health, Education and Engineering
Adam Polkinghorne (Author) - University of the Sunshine Coast - Faculty of Science, Health, Education and Engineering
Publication details: Journal of Clinical Microbiology, Vol.53(5), pp.1573-1581
Publisher: American Society for Microbiology
Date published: 2015
DOI: 10.1128/JCM.03534-14
ISSN: 0095-1137
Organisation Unit: University of the Sunshine Coast, Queensland; School of Science, Technology and Engineering; Centre for Bioinnovation
Language: English
Record Identifier: 99449332602621
Output Type: Journal article

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Collaboration types: Domestic collaboration
Web Of Science research areas: Microbiology

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