ArticleBiology direct2011
Gene gain and loss events in Rickettsia and Orientia species.
Article in Biology direct, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers.
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Who cites it
27 citing papers in PubMed, 57 citations in OpenAlex.
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- The Phylogeny of Rickettsia Using Different Evolutionary Signatures: How Tree-Like is Bacterial Evolution?Systematic biology · 2016Article
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- Mycobacteriophage-drived diversification of Mycobacterium abscessus.Biology direct · 2014Article
- The extent of genome flux and its role in the differentiation of bacterial lineages.Genome biology and evolution · 2014Article
- Predicting the minimal translation apparatus: lessons from the reductive evolution of mollicutes.PLoS genetics · 2014Article
- Global patterns of protein domain gain and loss in superkingdoms.PLoS computational biology · 2014Article
- What contemporary viruses tell us about evolution: a personal view.Archives of virology · 2013Review
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- Reassessment of the Listeria monocytogenes pan-genome reveals dynamic integration hotspots and mobile genetic elements as major components of the accessory genome.BMC genomics · 2013Article
- Comparative analysis of proteomes and functionomes provides insights into origins of cellular diversification.Archaea (Vancouver, B.C.) · 2013Article
- An automated approach for the identification of horizontal gene transfers from complete genomes reveals the rhizome of Rickettsiales.BMC evolutionary biology · 2012Article
- From environment to man: genome evolution and adaptation of human opportunistic bacterial pathogens.Genes · 2012Article
- Rhizome of life, catastrophes, sequence exchanges, gene creations, and giant viruses: how microbial genomics challenges Darwin.Frontiers in cellular and infection microbiology · 2012Review
Corrections and comments
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Authors and funding
5 authors at 4 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundGenome degradation is an ongoing process in all members of the Rickettsiales order, which makes these bacterial species an excellent model for studying reductive evolution through interspecies variation in genome size and gene content. In this study, we evaluated the degree to which gene loss shaped the content of some Rickettsiales genomes. We shed light on the role played by horizontal gene transfers in the genome evolution of Rickettsiales.
resultsOur phylogenomic tree, based on whole-genome content, presented a topology distinct from that of the whole core gene concatenated phylogenetic tree, suggesting that the gene repertoires involved have different evolutionary histories. Indeed, we present evidence for 3 possible horizontal gene transfer events from various organisms to Orientia and 6 to Rickettsia spp., while we also identified 3 possible horizontal gene transfer events from Rickettsia and Orientia to other bacteria. We found 17 putative genes in Rickettsia spp. that are probably the result of de novo gene creation; 2 of these genes appear to be functional. On the basis of these results, we were able to reconstruct the gene repertoires of "proto-Rickettsiales" and "proto-Rickettsiaceae", which correspond to the ancestors of Rickettsiales and Rickettsiaceae, respectively. Finally, we found that 2,135 genes were lost during the evolution of the Rickettsiaceae to an intracellular lifestyle.
conclusionsOur phylogenetic analysis allowed us to track the gene gain and loss events occurring in bacterial genomes during their evolution from a free-living to an intracellular lifestyle. We have shown that the primary mechanism of evolution and specialization in strictly intracellular bacteria is gene loss. Despite the intracellular habitat, we found several horizontal gene transfers between Rickettsiales species and various prokaryotic, viral and eukaryotic species. OPEN PEER REVIEW: Reviewed by Arcady Mushegian, Eugene V. Koonin and Patrick Forterre. For the full reviews please go to the Reviewers' comments section.
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