Mechanisms of Thermal Adaptation Revealed From the Genomes of the Antarctic Archaea Methanogenium frigidum and Methanococcoides burtonii

Saunders, Neil F. W., Thomas, Torsten, Curmi, Paul M. G., Mattick, John S., Kuczek, Elizabeth, Slade, Rob, Davis, John, Franzmann, Peter D., Boone, David, Rusterholtz, Karl, Feldman, Robert, Gates, Chris, Bench, Shellie, Sowers, Kevin, Kadner, Kristen, Aerts, Andrea, Dehal, Paramvir, Detter, Chris, Glavina, Tijana, Lucas, Susan, Richardson, Paul, Larimer, Frank, Hauser, Loren, Land, Miriam and Cavicchioli, Ricardo (2003) Mechanisms of Thermal Adaptation Revealed From the Genomes of the Antarctic Archaea Methanogenium frigidum and Methanococcoides burtonii. Genome Research, 13 7: 1580-1588. doi:10.1101/gr.1180903

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Author Saunders, Neil F. W.
Thomas, Torsten
Curmi, Paul M. G.
Mattick, John S.
Kuczek, Elizabeth
Slade, Rob
Davis, John
Franzmann, Peter D.
Boone, David
Rusterholtz, Karl
Feldman, Robert
Gates, Chris
Bench, Shellie
Sowers, Kevin
Kadner, Kristen
Aerts, Andrea
Dehal, Paramvir
Detter, Chris
Glavina, Tijana
Lucas, Susan
Richardson, Paul
Larimer, Frank
Hauser, Loren
Land, Miriam
Cavicchioli, Ricardo
Title Mechanisms of Thermal Adaptation Revealed From the Genomes of the Antarctic Archaea Methanogenium frigidum and Methanococcoides burtonii
Formatted title
Mechanisms of Thermal Adaptation Revealed
From the Genomes of the Antarctic Archaea
Methanogenium frigidum
and Methanococcoides burtonii
Journal name Genome Research   Check publisher's open access policy
ISSN 1088-9051
1549-5469
Publication date 2003-01-01
Sub-type Article (original research)
DOI 10.1101/gr.1180903
Open Access Status File (Publisher version)
Volume 13
Issue 7
Start page 1580
End page 1588
Total pages 9
Place of publication Cold Spring Harbor, NY, United States
Publisher Cold Spring Harbor Laboratory Press
Language eng
Abstract We generated draft genome sequences for two cold-adapted Archaea, Methanogenium frigidum and Methanococcoides burtonii, to identify genotypic characteristics that distinguish them from Archaea with a higher optimal growth temperature (OGT). Comparative genomics revealed trends in amino acid and tRNA composition, and structural features of proteins. Proteins from the cold-adapted Archaea are characterized by a higher content of noncharged polar amino acids, particularly Gin and Thr and a lower content of hydrophobic amino acids, particularly Leu. Sequence data from nine methanogen genomes (OGT 15degrees-98degreesC) were used to generate IIII modeled protein structures. Analysis of the models from the cold-adapted Archaea showed a strong tendency in the solvent-accessible area for more Gin, Thr, and hydrophobic residues and fewer charged residues. A cold shock domain (CSD) protein (CspA homolog) was identified in M. frigidum, two hypothetical proteins with CSD-folds in M. burtonii, and a unique winged helix DNA-binding domain protein in M. burtonii. This suggests that these types of nucleic acid binding proteins have a critical role in cold-adapted Archaea. Structural analysis of tRNA sequences from the Archaea indicated that GC content is the major factor influencing tRNA stability in hyperthermophiles, but not in the psychrophiles, mesophiles or moderate thermophiles. Below an OGT of 60degreesC, the GC content in tRNA was largely unchanged, indicating that any requirement for flexibility of tRNA in psychrophiles is mediated by other means. This is the first time that comparisons have been performed with genome data from Archaea spanning the growth temperature extremes. from psychrophiles to hyperthermophiles
Keyword Biotechnology & Applied Microbiology
Genetics & Heredity
Rna Secondary Structures
Cold-shock Domain
Elongation-factor-2 Proteins
Thermophilic Methanogens
Sp Nov.
Posttranscriptional Modification
H-2-using Methanogen
Ace Lake
Identification
Sequence
Q-Index Code C1
Institutional Status UQ

 
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