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An updated phylogeny of the Alphaproteobacteria reveals that the parasitic Rickettsiales and Holosporales have independent origins

Sergio A. Muñoz-Gómez, Sebastian Hess, Gertraud Burger, B. Franz Lang, Edward Susko, Claudio H. Slamovits, View ORCID ProfileAndrew J. Roger
doi: https://doi.org/10.1101/462648
Sergio A. Muñoz-Gómez
1Department of Biochemistry and Molecular Biology; Dalhousie University; Halifax, Nova Scotia, B3H 4R2; Canada
2Centre for Comparative Genomics and Evolutionary Bioinformatics; Dalhousie University; Halifax, Nova Scotia, B3H 4R2; Canada
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Sebastian Hess
1Department of Biochemistry and Molecular Biology; Dalhousie University; Halifax, Nova Scotia, B3H 4R2; Canada
2Centre for Comparative Genomics and Evolutionary Bioinformatics; Dalhousie University; Halifax, Nova Scotia, B3H 4R2; Canada
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Gertraud Burger
3Department of Biochemistry, Robert-Cedergren Center in Bioinformatics and Genomics, Université de Montréal, Montreal, Quebec, Canada
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B. Franz Lang
3Department of Biochemistry, Robert-Cedergren Center in Bioinformatics and Genomics, Université de Montréal, Montreal, Quebec, Canada
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Edward Susko
2Centre for Comparative Genomics and Evolutionary Bioinformatics; Dalhousie University; Halifax, Nova Scotia, B3H 4R2; Canada
4Department of Mathematics and Statistics; Dalhousie University; Halifax, Nova Scotia, B3H 4R2; Canada
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Claudio H. Slamovits
1Department of Biochemistry and Molecular Biology; Dalhousie University; Halifax, Nova Scotia, B3H 4R2; Canada
2Centre for Comparative Genomics and Evolutionary Bioinformatics; Dalhousie University; Halifax, Nova Scotia, B3H 4R2; Canada
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  • For correspondence: claudio.slamovits@dal.ca aroger@dal.ca
Andrew J. Roger
1Department of Biochemistry and Molecular Biology; Dalhousie University; Halifax, Nova Scotia, B3H 4R2; Canada
2Centre for Comparative Genomics and Evolutionary Bioinformatics; Dalhousie University; Halifax, Nova Scotia, B3H 4R2; Canada
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  • ORCID record for Andrew J. Roger
  • For correspondence: claudio.slamovits@dal.ca aroger@dal.ca
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ABSTRACT

The Alphaproteobacteria is an extraordinarily diverse and ancient group of bacteria. Previous attempts to infer its deep phylogeny have been plagued with methodological artefacts. To overcome this, we analyzed a dataset of 200 single-copy and conserved genes and employed diverse strategies to reduce compositional artefacts. Such strategies include using novel dataset-specific profile mixture models and recoding schemes, and removing sites, genes and taxa that are compositionally biased. We show that the Rickettsiales and Holosporales (both groups of intracellular parasites of eukaryotes) are not sisters to each other, but instead, the Holosporales has a derived position within the Rhodospirillales. Furthermore, we find that the Rhodospirillales might be paraphyletic and that the Geminicoccaceae could be sister to all ancestrally free-living alphaproteobacteria. Our robust phylogeny will serve as a framework for future studies that aim to place mitochondria, and novel environmental diversity, within the Alphaproteobacteria.

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The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY 4.0 International license.
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Posted November 05, 2018.
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An updated phylogeny of the Alphaproteobacteria reveals that the parasitic Rickettsiales and Holosporales have independent origins
Sergio A. Muñoz-Gómez, Sebastian Hess, Gertraud Burger, B. Franz Lang, Edward Susko, Claudio H. Slamovits, Andrew J. Roger
bioRxiv 462648; doi: https://doi.org/10.1101/462648
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An updated phylogeny of the Alphaproteobacteria reveals that the parasitic Rickettsiales and Holosporales have independent origins
Sergio A. Muñoz-Gómez, Sebastian Hess, Gertraud Burger, B. Franz Lang, Edward Susko, Claudio H. Slamovits, Andrew J. Roger
bioRxiv 462648; doi: https://doi.org/10.1101/462648

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