{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,1]],"date-time":"2026-04-01T16:13:05Z","timestamp":1775059985939,"version":"3.50.1"},"reference-count":39,"publisher":"American Society for Microbiology","issue":"5","license":[{"start":{"date-parts":[[2015,5,1]],"date-time":"2015-05-01T00:00:00Z","timestamp":1430438400000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/journals.asm.org\/non-commercial-tdm-license"}],"content-domain":{"domain":["journals.asm.org"],"crossmark-restriction":true},"short-container-title":["J Clin Microbiol"],"published-print":{"date-parts":[[2015,5]]},"abstract":"<jats:title>ABSTRACT<\/jats:title>\n          <jats:p>\n            <jats:named-content content-type=\"genus-species\">Chlamydia pecorum<\/jats:named-content>\n            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\n            <jats:named-content content-type=\"genus-species\">C. pecorum<\/jats:named-content>\n            genomes directly from clinical swab 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\n            <jats:named-content content-type=\"genus-species\">C. pecorum<\/jats:named-content>\n            strains, suggesting that all of the clinical samples analyzed contained mixed populations of genetically distinct\n            <jats:named-content content-type=\"genus-species\">C. pecorum<\/jats:named-content>\n            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\n            <jats:named-content content-type=\"genus-species\">C. pecorum<\/jats:named-content>\n            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.\n          <\/jats:p>","DOI":"10.1128\/jcm.03534-14","type":"journal-article","created":{"date-parts":[[2015,3,5]],"date-time":"2015-03-05T03:12:43Z","timestamp":1425525163000},"page":"1573-1581","update-policy":"https:\/\/doi.org\/10.1128\/asmj-crossmark-policy-page","source":"Crossref","is-referenced-by-count":42,"title":["Culture-Independent Genome Sequencing of Clinical Samples Reveals an Unexpected Heterogeneity of Infections by Chlamydia pecorum"],"prefix":"10.1128","volume":"53","author":[{"given":"Nathan L.","family":"Bachmann","sequence":"first","affiliation":[{"name":"Faculty of Science, Health, Education and Engineering, University of the Sunshine Coast, Sippy Downs, Queensland, Australia"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Mitchell J.","family":"Sullivan","sequence":"additional","affiliation":[{"name":"Faculty of Science, Health, Education and Engineering, University of the Sunshine Coast, Sippy Downs, Queensland, Australia"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Martina","family":"Jelocnik","sequence":"additional","affiliation":[{"name":"Faculty of Science, Health, Education and Engineering, University of the Sunshine Coast, Sippy Downs, Queensland, Australia"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Garry S. 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