The Complete Genome Sequence of Haloferax volcanii DS2, a Model Archaeon

Abstract

Background Haloferax volcanii is an easily culturable moderate halophile that grows on simple defined media, is readily transformable, and has a relatively stable genome. This, in combination with its biochemical and genetic tractability, has made Hfx. volcanii a key model organism, not only for the study of halophilicity, but also for archaeal biology in general.Methodology/Principal FindingsWe report here the sequencing and analysis of the genome of Hfx. volcanii DS2, the type strain of this species. The genome contains a main 2.848 Mb chromosome, three smaller chromosomes pHV1, 3, 4 (85, 438, 636 kb, respectively) and the pHV2 plasmid (6.4 kb).Conclusions/SignificanceThe completed genome sequence, presented here, provides an invaluable tool for further in vivo and in vitro studies of Hfx. volcanii.

Activity and Transcriptional Regulation of Bacterial Protein-Like Glycerol-3-Phosphate Dehydrogenase of the Haloarchaea in Haloferax volcanii

“…Chromosomal glpA1 (HVO_1538) and pHV4-based glpA2 (HVO_A0269), encoding homologs of G3PDH subunit A, were deleted from the genome of H. volcanii H26 (⌬pyrE2) by using the markerless pyrE2-based pop-in/pop-out method (1, 6) and DS2 genome sequence information (16). Details on the single and double knockouts of glpA1 and glpA2 are outlined in Tables S1 and S2 in the supplemental material. G3PDH activity assays.…”

Carbohydrate Metabolism in Archaea: Current Insights into Unusual Enzymes and Pathways and Their Regulation

“…28). Glycerol 3-phosphate, the product of the glycerol kinase reaction, was demonstrated to act as a strong inducer of transcription from the glpA1 promoter; however, GlpR was shown not to be required for the regulation of the glycerol metabolic gene cluster (548,556). In addition, a second incomplete PTS gene cluster, missing only the EI gene (HVO_2101 to HVO_2104), was identified downstream of the gene encoding triosephosphate isomerase in Hfx.…”

“…volcanii (optimal NaCl concentration of 1.7 to 2.5 M) and the extreme halophile Har. marismortui (optimal NaCl concentration 3.4 to 3.9 M) were originally isolated from the Dead Sea (545-547), and their genome sequences have been deciphered (548,549). For Hfx.…”

Complete Genome Sequence of the Metabolically Versatile Halophilic Archaeon Haloferax mediterranei, a Poly(3-Hydroxybutyrate- co -3-Hydroxyvalerate) Producer

“…These reads (16-fold coverage of the genome) were then assembled into 35 main contigs (1 to 324 kb) with a GS De Novo assembler. The sequencing data were processed by PHRED-PHRAP-CONSED (7) software to assemble the whole genome sequence, using the genome sequence of Haloferax volcanii DS2 as a reference (10). To predict genes, GLIMMER v3.02 (4) and ZCURVE v1.0 (8) were used.…”