Genome sequence of Thermofilum pendens reveals an exceptional loss of biosynthetic pathways without genome reduction

被引：45

作者：

Anderson, Iain ^{[1
]}

Rodriguez, Jason ^{[2
,3
]}

Susanti, Dwi ^{[2
,5
]}

Porat, Iris ^{[6
]}

Reich, Claudia ^{[7
]}

Ulrich, Luke E. ^{[8
]}

Elkins, James G. ^{[9
]}

Mavromatis, Kostas ^{[1
]}

Lykidis, Athanasios ^{[1
]}

Kim, Edwin ^{[1
]}

Thompson, Linda S. ^{[1
,10
]}

Nolan, Matt ^{[1
]}

Land, Miriam ^{[9
]}

Copeland, Alex ^{[1
]}

Lapidus, Alla ^{[1
]}

Lucas, Susan ^{[1
]}

Detter, Chris ^{[1
,10
]}

Zhulin, Igor B. ^{[8
]}

Olsen, Gary J. ^{[7
]}

Whitman, William ^{[6
]}

Mukhopadhyay, Biswarup ^{[2
,3
,4
,5
]}

Bristow, James ^{[1
]}

Kyrpides, Nikos ^{[1
]}

机构：

[1] Joint Genome Inst, Walnut Creek, CA 94598 USA

[2] Virginia Polytech Inst & State Univ, Virginia Bioinformat Inst, Blacksburg, VA 24061 USA

[3] Virginia Polytech Inst & State Univ, Dept Biochem, Blacksburg, VA 24061 USA

[4] Virginia Polytech Inst & State Univ, Dept Biol Sci & Genet, Blacksburg, VA 24061 USA

[5] Virginia Polytech Inst & State Univ, Bioinformat & Computat Biol Grad Program, Blacksburg, VA 24061 USA

[6] Univ Georgia, Dept Microbiol, Athens, GA 30602 USA

[7] Univ Illinois, Dept Microbiol, Urbana, IL 61801 USA

[8] Univ Tennessee, Oak Ridge Natl Lab, Joint Inst Computat Sci, Oak Ridge, TN 37831 USA

[9] Oak Ridge Natl Lab, Biosci Div, Oak Ridge, TN 37831 USA

[10] Los Alamos Natl Lab, Biosci Div, Los Alamos, NM 87545 USA

来源：

JOURNAL OF BACTERIOLOGY | 2008年 / 190卷 / 08期

关键词：

D O I：

10.1128/JB.01949-07

中图分类号：

Q93 [微生物学];

学科分类号：

071005 ; 100705 ;

摘要：

We report the complete genome of Thermofilum pendens, a deeply branching, hyperthermophilic member of the order Thermoproteales in the archaeal kingdom Crenarchaeota. T. pendens is a sulfur-dependent, anaerobic heterotroph isolated from a solfatara in Iceland. It is an extracellular commensal, requiring an extract of Thermoproteus tenax for growth, and the genome sequence reveals that biosynthetic pathways for purines, most amino acids, and most cofactors are absent. In fact, T. pendens has fewer biosynthetic enzymes than obligate intracellular parasites, although it does not display other features that are common among obligate parasites and thus does not appear to be in the process of becoming a parasite. It appears that T. pendens has adapted to life in an environment rich in nutrients. T. pendens was known previously to utilize peptides as an energy source, but the genome revealed a substantial ability to grow on carbohydrates. T. pendens is the first crenarchaeote and only the second archaeon found to have a transporter of the phosphotransferase system. In addition to fermentation, T. pendens may obtain energy from sulfur reduction with hydrogen and formate as electron donors. It may also be capable of sulfur-independent growth on formate with formate hydrogen lyase. Additional novel features are the presence of a monomethylamine:corrinoid methyltransferase, the first time that this enzyme has been found outside the Methanosarcinales, and the presence of a presenilin-related protein. The predicted highly expressed proteins do not include proteins encoded by housekeeping genes and instead include ABC transporters for carbohydrates and peptides and clustered regularly interspaced short palindromic repeat-associated proteins.

引用

页码：2957 / 2965

页数：9

共 63 条

[1] Key role for sulfur in peptide metabolism and in regulation of three hydrogenases in the hyperthermophilic archaeon Pyrococcus furiosus [J].