The first genomic insight into Chlamydia psittaci sequence type (ST)24 from a healthy captive psittacine host in Australia demonstrates evolutionary proximity with strains from psittacine, human, and equine hosts

White, Rhys T.; Jelocnik, Martina; Klukowski, Natalie; Haque, Md. Hakimul; Sarker, Subir

doi:10.1016/j.vetmic.2023.109704

Cited by 2 publications

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“…Phylogenomic analyses have demonstrated that whilst the global C. psittaci population is genetically diverse, there are also recently emerged, globally distributed and highly clonal lineages (such as C. psittaci ST24 strains) that infect humans, parrots, and, most recently, horses. Within this highly clonal ST24 lineage, the equine, human and parrot strains differ by less than 200 single nucleotide variants (SNVs), evenly distributed around the highly conserved and syntenic chromosome ( Read et al., 2013 ; Branley et al., 2016 ; Jenkins et al., 2018 ; White et al., 2022 ; White et al., 2023 ). However, between genetically diverse C. psittaci lineages (such as ST24 and pigeon-associated clade) SNVs and differences in gene content were noted in distinct chromosomal regions, including T3SS, omp A, Inc and pmp genes ( Voigt et al., 2012 ; Wolff et al., 2015 ; Hölzer et al., 2020 ; Vorimore et al., 2021a ) ( Figure 4B ).…”

Section: Whole Genome Phylogenies Resolve Fine-detail Relationships B...mentioning

confidence: 99%

Genome organization and genomics in Chlamydia: whole genome sequencing increases understanding of chlamydial virulence, evolution, and phylogeny

Luu

Kasimov

Phillips

et al. 2023

Front. Cell. Infect. Microbiol.

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The genus Chlamydia contains important obligate intracellular bacterial pathogens to humans and animals, including C. trachomatis and C. pneumoniae. Since 1998, when the first Chlamydia genome was published, our understanding of how these microbes interact, evolved and adapted to different intracellular host environments has been transformed due to the expansion of chlamydial genomes. This review explores the current state of knowledge in Chlamydia genomics and how whole genome sequencing has revolutionised our understanding of Chlamydia virulence, evolution, and phylogeny over the past two and a half decades. This review will also highlight developments in multi-omics and other approaches that have complemented whole genome sequencing to advance knowledge of Chlamydia pathogenesis and future directions for chlamydial genomics.

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Section: Whole Genome Phylogenies Resolve Fine-detail Relationships B...mentioning

confidence: 99%

Genome organization and genomics in Chlamydia: whole genome sequencing increases understanding of chlamydial virulence, evolution, and phylogeny

Luu

Kasimov

Phillips

et al. 2023

Front. Cell. Infect. Microbiol.

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“…psittaci strains from little corellas clustered in distinct subclades (with no horses) of the clonal ST24 SL1 (emerged circa 1974 and 2012) (). Similarly, our current and previous study suggests that the captive parrot may have been infected with strains from other wild-caught parrots introduced into the local avian pet trade [51]. To extrapolate the origin and spillover direction of infections in captive and wild parrots, livestock and humans, more C.…”

Section: Discussionmentioning

confidence: 67%

“…2). Similarly, our current and previous study suggests that the captive parrot may have been infected with strains from other wild-caught parrots introduced into the local avian pet trade [51]. To extrapolate the origin and spillover direction of infections in captive and wild parrots, livestock and humans, more C. psittaci genomic data is still needed.…”

Section: Revised St24 Evolutionary Timelines Suggest Australian Parro...mentioning

confidence: 60%

Whole-genome sequencing of Chlamydia psittaci from Australasian avian hosts: A genomics approach to a pathogen that still ruffles feathers

et al. 2023

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Chlamydia psittaci is a globally distributed veterinary pathogen with zoonotic potential. Although C. psittaci infections have been reported in various hosts, isolation and culture of Chlamydia is challenging, hampering efforts to produce contemporary global C. psittaci genomes. This is particularly evident in the lack of avian C. psittaci genomes from Australia and New Zealand. In this study, we used culture-independent probe-based whole-genome sequencing to expand the global C. psittaci genome catalogue. Here, we provide new C. psittaci genomes from two pigeons, six psittacines, and novel hosts such as the Australian bustard (Ardeotis australis) and sooty shearwater (Ardenna grisea) from Australia and New Zealand. We also evaluated C. psittaci genetic diversity using multilocus sequence typing (MLST) and major outer membrane protein (ompA) genotyping on additional C. psittaci -positive samples from various captive avian hosts and field isolates from Australasia. We showed that the first C. psittaci genomes sequenced from New Zealand parrots and pigeons belong to the clonal sequence type (ST)24 and diverse ‘pigeon-type’ ST27 clade, respectively. Australian parrot-derived strains also clustered in the ST24 group, whereas the novel ST332 strain from the Australian bustard clustered in a genetically diverse clade of strains from a fulmar, parrot, and livestock. MLST and ompA genotyping revealed ST24/ompA genotype A in wild and captive parrots and a sooty shearwater, whilst ‘pigeon-types’ (ST27/35 and ompA genotypes B/E) were found in pigeons and other atypical hosts, such as captive parrots, a little blue penguin/Kororā (Eudyptula minor) and a zebra finch (Taeniopygia guttata castanotis) from Australia and New Zealand. This study provides new insights into the global phylogenomic diversity of C. psittaci and further demonstrates the multi-host generalist capacity of this pathogen.

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The first genomic insight into Chlamydia psittaci sequence type (ST)24 from a healthy captive psittacine host in Australia demonstrates evolutionary proximity with strains from psittacine, human, and equine hosts

Cited by 2 publications

References 31 publications

Genome organization and genomics in Chlamydia: whole genome sequencing increases understanding of chlamydial virulence, evolution, and phylogeny

Genome organization and genomics in Chlamydia: whole genome sequencing increases understanding of chlamydial virulence, evolution, and phylogeny

Whole-genome sequencing of Chlamydia psittaci from Australasian avian hosts: A genomics approach to a pathogen that still ruffles feathers

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