Mechanisms of thermal adaptation revealed from the genomes of the Anta rctic and
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...
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ftcdlib:qt5pj4g03b 2023-05-15T13:52:31+02:00 Mechanisms of thermal adaptation revealed from the genomes of the Anta rctic and Saunders, Neil F.W. Thomas, Torsten Curmi, Paul M.G. Mattick, John S. Kuczek, Elizabeth Slade, Rob Davis, John Franzmann, Peter 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, Frank Hauser, Loren Land, Miriam Cavicchioli, Richard 2003-03-01 application/pdf http://www.escholarship.org/uc/item/5pj4g03b english eng eScholarship, University of California qt5pj4g03b http://www.escholarship.org/uc/item/5pj4g03b public Saunders, Neil F.W.; Thomas, Torsten; Curmi, Paul M.G.; Mattick, John S.; Kuczek, Elizabeth; Slade, Rob; et al.(2003). Mechanisms of thermal adaptation revealed from the genomes of the Anta rctic and . Genome Research, 13(7). Lawrence Berkeley National Laboratory: Lawrence Berkeley National Laboratory. Retrieved from: http://www.escholarship.org/uc/item/5pj4g03b Genomes of the Antarctic Archaea Methanogenium frididum and Methanococcoides burtonii article 2003 ftcdlib 2017-12-15T23:54:22Z 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 non-charged polar amino acids, particularly Gln and Thr and a lower content of hydrophobic amino acids, particularly Leu. Sequence data from nine methanogen genomes (OGT 15-98oC) was used to generate 1 111 modeled protein structures. Analysis of the models from the cold-adapted Archaea showed a strong tendency in the solvent accessible area for more Gln, Thr an 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 60oC, 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. Article in Journal/Newspaper Antarc* Antarctic University of California: eScholarship Antarctic The Antarctic |
institution |
Open Polar |
collection |
University of California: eScholarship |
op_collection_id |
ftcdlib |
language |
English |
topic |
Genomes of the Antarctic Archaea Methanogenium frididum and Methanococcoides burtonii |
spellingShingle |
Genomes of the Antarctic Archaea Methanogenium frididum and Methanococcoides burtonii Saunders, Neil F.W. Thomas, Torsten Curmi, Paul M.G. Mattick, John S. Kuczek, Elizabeth Slade, Rob Davis, John Franzmann, Peter 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, Frank Hauser, Loren Land, Miriam Cavicchioli, Richard Mechanisms of thermal adaptation revealed from the genomes of the Anta rctic and |
topic_facet |
Genomes of the Antarctic Archaea Methanogenium frididum and Methanococcoides burtonii |
description |
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 non-charged polar amino acids, particularly Gln and Thr and a lower content of hydrophobic amino acids, particularly Leu. Sequence data from nine methanogen genomes (OGT 15-98oC) was used to generate 1 111 modeled protein structures. Analysis of the models from the cold-adapted Archaea showed a strong tendency in the solvent accessible area for more Gln, Thr an 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 60oC, 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. |
format |
Article in Journal/Newspaper |
author |
Saunders, Neil F.W. Thomas, Torsten Curmi, Paul M.G. Mattick, John S. Kuczek, Elizabeth Slade, Rob Davis, John Franzmann, Peter 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, Frank Hauser, Loren Land, Miriam Cavicchioli, Richard |
author_facet |
Saunders, Neil F.W. Thomas, Torsten Curmi, Paul M.G. Mattick, John S. Kuczek, Elizabeth Slade, Rob Davis, John Franzmann, Peter 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, Frank Hauser, Loren Land, Miriam Cavicchioli, Richard |
author_sort |
Saunders, Neil F.W. |
title |
Mechanisms of thermal adaptation revealed from the genomes of the Anta rctic and |
title_short |
Mechanisms of thermal adaptation revealed from the genomes of the Anta rctic and |
title_full |
Mechanisms of thermal adaptation revealed from the genomes of the Anta rctic and |
title_fullStr |
Mechanisms of thermal adaptation revealed from the genomes of the Anta rctic and |
title_full_unstemmed |
Mechanisms of thermal adaptation revealed from the genomes of the Anta rctic and |
title_sort |
mechanisms of thermal adaptation revealed from the genomes of the anta rctic and |
publisher |
eScholarship, University of California |
publishDate |
2003 |
url |
http://www.escholarship.org/uc/item/5pj4g03b |
geographic |
Antarctic The Antarctic |
geographic_facet |
Antarctic The Antarctic |
genre |
Antarc* Antarctic |
genre_facet |
Antarc* Antarctic |
op_source |
Saunders, Neil F.W.; Thomas, Torsten; Curmi, Paul M.G.; Mattick, John S.; Kuczek, Elizabeth; Slade, Rob; et al.(2003). Mechanisms of thermal adaptation revealed from the genomes of the Anta rctic and . Genome Research, 13(7). Lawrence Berkeley National Laboratory: Lawrence Berkeley National Laboratory. Retrieved from: http://www.escholarship.org/uc/item/5pj4g03b |
op_relation |
qt5pj4g03b http://www.escholarship.org/uc/item/5pj4g03b |
op_rights |
public |
_version_ |
1766256826847854592 |