Sequencing of seven haloarchaeal genomes reveals patterns of genomic flux

Erin A. Lynch; Morgan G.I. Langille; Aaron Darling; Elizabeth G. Wilbanks; Caitlin Haltiner; Katie S.Y. Shao; Michael O. Starr; Clotilde Teiling; Timothy T. Harkins; Robert A. Edwards; Jonathan A. Eisen; Marc T. Facciotti

doi:10.1371/journal.pone.0041389

Sequencing of seven haloarchaeal genomes reveals patterns of genomic flux

Erin A. Lynch, Morgan G.I. Langille, Aaron Darling, Elizabeth G. Wilbanks, Caitlin Haltiner, Katie S.Y. Shao, Michael O. Starr, Clotilde Teiling, Timothy T. Harkins, Robert A. Edwards, Jonathan A. Eisen, Marc T. Facciotti

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Abstract

We report the sequencing of seven genomes from two haloarchaeal genera, Haloferax and Haloarcula. Ease of cultivation and the existence of well-developed genetic and biochemical tools for several diverse haloarchaeal species make haloarchaea a model group for the study of archaeal biology. The unique physiological properties of these organisms also make them good candidates for novel enzyme discovery for biotechnological applications. Seven genomes were sequenced to ~20×coverage and assembled to an average of 50 contigs (range 5 scaffolds - 168 contigs). Comparisons of protein-coding gene compliments revealed large-scale differences in COG functional group enrichment between these genera. Analysis of genes encoding machinery for DNA metabolism reveals genera-specific expansions of the general transcription factor TATA binding protein as well as a history of extensive duplication and horizontal transfer of the proliferating cell nuclear antigen. Insights gained from this study emphasize the importance of haloarchaea for investigation of archaeal biology.

Original language	English
Article number	e41389
Journal	PLoS One
Volume	7
Issue number	7
DOIs	https://doi.org/10.1371/journal.pone.0041389
Publication status	Published - 24 Jul 2012
Externally published	Yes

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Copyright: © Lynch et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.

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title = "Sequencing of seven haloarchaeal genomes reveals patterns of genomic flux",

abstract = "We report the sequencing of seven genomes from two haloarchaeal genera, Haloferax and Haloarcula. Ease of cultivation and the existence of well-developed genetic and biochemical tools for several diverse haloarchaeal species make haloarchaea a model group for the study of archaeal biology. The unique physiological properties of these organisms also make them good candidates for novel enzyme discovery for biotechnological applications. Seven genomes were sequenced to ~20×coverage and assembled to an average of 50 contigs (range 5 scaffolds - 168 contigs). Comparisons of protein-coding gene compliments revealed large-scale differences in COG functional group enrichment between these genera. Analysis of genes encoding machinery for DNA metabolism reveals genera-specific expansions of the general transcription factor TATA binding protein as well as a history of extensive duplication and horizontal transfer of the proliferating cell nuclear antigen. Insights gained from this study emphasize the importance of haloarchaea for investigation of archaeal biology.",

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AU - Lynch, Erin A.

AU - Langille, Morgan G.I.

AU - Darling, Aaron

AU - Wilbanks, Elizabeth G.

AU - Haltiner, Caitlin

AU - Shao, Katie S.Y.

AU - Starr, Michael O.

AU - Teiling, Clotilde

AU - Harkins, Timothy T.

AU - Edwards, Robert A.

AU - Eisen, Jonathan A.

AU - Facciotti, Marc T.

N1 - Copyright: © Lynch et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.

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Sequencing of seven haloarchaeal genomes reveals patterns of genomic flux

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