ArticleThe ISME journal2014
Integrating metagenomic and amplicon databases to resolve the phylogenetic and ecological diversity of the Chlamydiae.
Article in The ISME journal, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 47 papers.
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Who cites it
47 citing papers in PubMed, 92 citations in OpenAlex.
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- Gene gain facilitated endosymbiotic evolution of Chlamydiae.Nature microbiology · 2023Article
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- Ecology and evolution of chlamydial symbionts of arthropods.ISME communications · 2022Article
- Taxonomy Informed Clustering, an Optimized Method for Purer and More Informative Clusters in Diversity Analysis and Microbiome Profiling.Frontiers in bioinformatics · 2022Article
- Multiple energy sources and metabolic strategies sustain microbial diversity in Antarctic desert soils.Proceedings of the National Academy of Sciences of the United States of America · 2021Article
- Presence of DNA from Chlamydia-like organisms in the nasal cavities of grey seal pups (Halichoerus grypus) and three different substrates present in a breeding colony.BMC veterinary research · 2021Article
- Gynaecological infections in paediatric and adolescent gynaecology: a review of recommendations.Postepy dermatologii i alergologii · 2021Review
- Pangenomics reveals alternative environmental lifestyles among chlamydiae.Nature communications · 2021Article
- Diversity of sediment associated Planctomycetes and its related phyla with special reference to anammox bacterial community in a high Arctic fjord.World journal of microbiology & biotechnology · 2020Article
- Complementary Metagenomic Approaches Improve Reconstruction of Microbial Diversity in a Forest Soil.mSystems · 2020Article
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Corrections and comments
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Authors and funding
6 authors at 2 institutions in 2 countries.
Funding
Abstract
In the era of metagenomics and amplicon sequencing, comprehensive analyses of available sequence data remain a challenge. Here we describe an approach exploiting metagenomic and amplicon data sets from public databases to elucidate phylogenetic diversity of defined microbial taxa. We investigated the phylum Chlamydiae whose known members are obligate intracellular bacteria that represent important pathogens of humans and animals, as well as symbionts of protists. Despite their medical relevance, our knowledge about chlamydial diversity is still scarce. Most of the nine known families are represented by only a few isolates, while previous clone library-based surveys suggested the existence of yet uncharacterized members of this phylum. Here we identified more than 22,000 high quality, non-redundant chlamydial 16S rRNA gene sequences in diverse databases, as well as 1900 putative chlamydial protein-encoding genes. Even when applying the most conservative approach, clustering of chlamydial 16S rRNA gene sequences into operational taxonomic units revealed an unexpectedly high species, genus and family-level diversity within the Chlamydiae, including 181 putative families. These in silico findings were verified experimentally in one Antarctic sample, which contained a high diversity of novel Chlamydiae. In our analysis, the Rhabdochlamydiaceae, whose known members infect arthropods, represents the most diverse and species-rich chlamydial family, followed by the protist-associated Parachlamydiaceae, and a putative new family (PCF8) with unknown host specificity. Available information on the origin of metagenomic samples indicated that marine environments contain the majority of the newly discovered chlamydial lineages, highlighting this environment as an important chlamydial reservoir.
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Registered trials
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