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PMID: 16452431 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't

The genome sequence of the obligately chemolithoautotrophic, facultatively anaerobic bacterium Thiobacillus denitrificans.

Journal of bacteriology ·Vol. 188 ·No. 4 ·2006-02-00 ·Pages 1473-88

Beller HR, Chain PS, Letain TE, Chakicherla A, Larimer FW, Richardson PM, Coleman MA, Wood AP, Kelly DP

Abstract

The complete genome sequence of Thiobacillus denitrificans ATCC 25259 is the first to become available for an obligately chemolithoautotrophic, sulfur-compound-oxidizing, beta-proteobacterium. Analysis of the 2,909,809-bp genome will facilitate our molecular and biochemical understanding of the unusual metabolic repertoire of this bacterium, including its ability to couple denitrification to sulfur-compound oxidation, to catalyze anaerobic, nitrate-dependent oxidation of Fe(II) and U(IV), and to oxidize mineral electron donors. Notable genomic features include (i) genes encoding c-type cytochromes totaling 1 to 2 percent of the genome, which is a proportion greater than for almost all bacterial and archaeal species sequenced to date, (ii) genes encoding two [NiFe]hydrogenases, which is particularly significant because no information on hydrogenases has previously been reported for T. denitrificans and hydrogen oxidation appears to be critical for anaerobic U(IV) oxidation by this species, (iii) a diverse complement of more than 50 genes associated with sulfur-compound oxidation (including sox genes, dsr genes, and genes associated with the AMP-dependent oxidation of sulfite to sulfate), some of which occur in multiple (up to eight) copies, (iv) a relatively large number of genes associated with inorganic ion transport and heavy metal resistance, and (v) a paucity of genes encoding organic-compound transporters, commensurate with obligate chemolithoautotrophy. Ultimately, the genome sequence of T. denitrificans will enable elucidation of the mechanisms of aerobic and anaerobic sulfur-compound oxidation by beta-proteobacteria and will help reveal the molecular basis of this organism's role in major biogeochemical cycles (i.e., those involving sulfur, nitrogen, and carbon) and groundwater restoration.

MeSH Terms
Bacterial Proteins/genetics Cytochromes c/genetics Genome, Bacterial Hydrogenase/genetics Ion Transport/genetics Metals, Heavy/pharmacology Molecular Sequence Data Oxidation-Reduction Sulfur Compounds/metabolism Thiobacillus/drug effects,genetics,metabolism Uranium/metabolism
Chemicals
Bacterial Proteins Metals, Heavy Sulfur Compounds Uranium Cytochromes c Hydrogenase
Authors & Affiliations
9 authors, click to expand affiliations / ORCID
Beller Harry R
Lawrence Livermore National Laboratory, P.O. Box 808, L-542, Livermore, California 94551-0808, USA. beller2@llnl.gov
Chain Patrick S G
Letain Tracy E
Chakicherla Anu
Larimer Frank W
Richardson Paul M
Coleman Matthew A
Wood Ann P
Kelly Donovan P
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Article Info
Journal
Journal of bacteriology
Abbr.
J Bacteriol
ISSN
0021-9193
DOI
10.1128/JB.188.4.1473-1488.2006
Email
beller2@llnl.gov
Published
2006-02-00
Pages
1473-88
Language
English
Region
United States
NLM ID
2985120R
PMCID
PMC1367237
Subset
IM
Databases
GENBANK
CP000116
External Links
PubMed source DOI: 10.1128/JB.188.4.1473-1488.2006 PMC Full Text View journal details
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