Show simple item record Lynch, Erin A. Langille, Morgan G. I. Darling, Aaron Wilbanks, Elizabeth G. Haltiner, Caitlin Shao, Katie S. Y. Starr, Michael O. Teiling, Clotilde Harkins, Timothy T. Edwards, Robert A. Eisen, Jonathan A. Facciotti, Marc T. 2012-08-30T20:21:01Z 2012-08-30T20:21:01Z 2012-7-24
dc.identifier doi:10.5061/dryad.89v53
dc.identifier.citation Lynch EA, Langille MGI, Darling A, Wilbanks EG, Haltiner C, Shao KSY, Starr MO, Teiling C, Harkins TT, Edwards RA, Eisen JA, Facciotti MT (2012) Sequencing of seven haloarchaeal genomes reveals patterns of genomic flux. PLoS ONE 7(7): e41389.
dc.description 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.
dc.relation.haspart doi:10.5061/dryad.89v53/1
dc.relation.haspart doi:10.5061/dryad.89v53/2
dc.relation.isreferencedby doi:10.1371/journal.pone.0041389
dc.relation.isreferencedby PMID:22848480
dc.subject evolution
dc.subject genomics
dc.subject archaea
dc.subject microbes
dc.subject phylogenomics
dc.title Data from: Sequencing of seven haloarchaeal genomes reveals patterns of genomic flux
dc.type Article *
dwc.ScientificName Haloferax
dwc.ScientificName Haloarcula
dc.contributor.correspondingAuthor Lynch, Erin A.
prism.publicationName PLOS ONE
dryad.dansTransferDate 2018-04-12T22:48:32.839+0000
dryad.dansArchiveDate 2018-04-15T23:29:20.665+0000

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Title RAST_Annotations
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Description RAST-generated annotations for all genomes included in the analyses in this manuscript.
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Title Raw_sequence_reads
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Description Fragment libraries were constructed for eight species of the family Halobacteriacea, three from the genus Haloarcula (Har. californiae, Har. sinaiiensis, Har. vallismortis) and five from the genus Haloferax (Hfx. denitrificans, Hfx. mediterranei, Hfx. mucosum, Hfx. sulfurifontis, and Hfx. volcanii), and sequenced on a single GS FLX Titanium run following standard protocols (454 Life Sciences - Hfx. volcanii was included as a sequencing control, as its genome had been completed previously [19]. Additionally, for Har. sinaiiensis and Hfx. mediterranei, 8 Kb pair-end libraries were constructed and the terminal 100 bp of each end was sequenced, according to standard protocols. The paired-end information and any trimming information are specified using annotation strings on the description line of the reads. Reads were assembled using the Genome Sequencer De Novo assembler (454 Life Sciences -
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