Comparative Genomics of DNA Fragments from Six Antarctic Marine Planktonic Bacteria†
Six environmental fosmid clones from Antarctic coastal water bacterioplankton were completely sequenced. The genome fragments harbored small-subunit rRNA genes that were between 85 and 91% similar to those of their nearest cultivated relatives. The six fragments span four phyla, including the Gemmat...
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ftpubmed:oai:pubmedcentral.nih.gov:1392886 2023-05-15T14:04:15+02:00 Comparative Genomics of DNA Fragments from Six Antarctic Marine Planktonic Bacteria† Grzymski, Joseph J. Carter, Brandon J. DeLong, Edward F. Feldman, Robert A. Ghadiri, Amir Murray, Alison E. 2006-02 http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1392886 http://www.ncbi.nlm.nih.gov/pubmed/16461708 https://doi.org/10.1128/AEM.72.2.1532-1541.2006 en eng American Society for Microbiology http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1392886 http://www.ncbi.nlm.nih.gov/pubmed/16461708 http://dx.doi.org/10.1128/AEM.72.2.1532-1541.2006 Copyright © 2006, American Society for Microbiology Evolutionary and Genomic Microbiology Text 2006 ftpubmed https://doi.org/10.1128/AEM.72.2.1532-1541.2006 2013-08-30T22:16:09Z Six environmental fosmid clones from Antarctic coastal water bacterioplankton were completely sequenced. The genome fragments harbored small-subunit rRNA genes that were between 85 and 91% similar to those of their nearest cultivated relatives. The six fragments span four phyla, including the Gemmatimonadetes, Proteobacteria (α and γ), Bacteroidetes, and high-G+C gram-positive bacteria. Gene-finding and annotation analyses identified 244 total open reading frames. Amino acid comparisons of 123 and 113 Antarctic bacterial amino acid sequences to mesophilic homologs from G+C-specific and SwissProt/UniProt databases, respectively, revealed widespread adaptation to the cold. The most significant changes in these Antarctic bacterial protein sequences included a reduction in salt-bridge-forming residues such as arginine, glutamic acid, and aspartic acid, reduced proline contents, and a reduction in stabilizing hydrophobic clusters. Stretches of disordered amino acids were significantly longer in the Antarctic sequences than in the mesophilic sequences. These characteristics were not specific to any one phylum, COG role category, or G+C content and imply that underlying genotypic and biochemical adaptations to the cold are inherent to life in the permanently subzero Antarctic waters. Text Antarc* Antarctic PubMed Central (PMC) Antarctic The Antarctic Applied and Environmental Microbiology 72 2 1532 1541 |
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English |
topic |
Evolutionary and Genomic Microbiology |
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Evolutionary and Genomic Microbiology Grzymski, Joseph J. Carter, Brandon J. DeLong, Edward F. Feldman, Robert A. Ghadiri, Amir Murray, Alison E. Comparative Genomics of DNA Fragments from Six Antarctic Marine Planktonic Bacteria† |
topic_facet |
Evolutionary and Genomic Microbiology |
description |
Six environmental fosmid clones from Antarctic coastal water bacterioplankton were completely sequenced. The genome fragments harbored small-subunit rRNA genes that were between 85 and 91% similar to those of their nearest cultivated relatives. The six fragments span four phyla, including the Gemmatimonadetes, Proteobacteria (α and γ), Bacteroidetes, and high-G+C gram-positive bacteria. Gene-finding and annotation analyses identified 244 total open reading frames. Amino acid comparisons of 123 and 113 Antarctic bacterial amino acid sequences to mesophilic homologs from G+C-specific and SwissProt/UniProt databases, respectively, revealed widespread adaptation to the cold. The most significant changes in these Antarctic bacterial protein sequences included a reduction in salt-bridge-forming residues such as arginine, glutamic acid, and aspartic acid, reduced proline contents, and a reduction in stabilizing hydrophobic clusters. Stretches of disordered amino acids were significantly longer in the Antarctic sequences than in the mesophilic sequences. These characteristics were not specific to any one phylum, COG role category, or G+C content and imply that underlying genotypic and biochemical adaptations to the cold are inherent to life in the permanently subzero Antarctic waters. |
format |
Text |
author |
Grzymski, Joseph J. Carter, Brandon J. DeLong, Edward F. Feldman, Robert A. Ghadiri, Amir Murray, Alison E. |
author_facet |
Grzymski, Joseph J. Carter, Brandon J. DeLong, Edward F. Feldman, Robert A. Ghadiri, Amir Murray, Alison E. |
author_sort |
Grzymski, Joseph J. |
title |
Comparative Genomics of DNA Fragments from Six Antarctic Marine Planktonic Bacteria† |
title_short |
Comparative Genomics of DNA Fragments from Six Antarctic Marine Planktonic Bacteria† |
title_full |
Comparative Genomics of DNA Fragments from Six Antarctic Marine Planktonic Bacteria† |
title_fullStr |
Comparative Genomics of DNA Fragments from Six Antarctic Marine Planktonic Bacteria† |
title_full_unstemmed |
Comparative Genomics of DNA Fragments from Six Antarctic Marine Planktonic Bacteria† |
title_sort |
comparative genomics of dna fragments from six antarctic marine planktonic bacteria† |
publisher |
American Society for Microbiology |
publishDate |
2006 |
url |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1392886 http://www.ncbi.nlm.nih.gov/pubmed/16461708 https://doi.org/10.1128/AEM.72.2.1532-1541.2006 |
geographic |
Antarctic The Antarctic |
geographic_facet |
Antarctic The Antarctic |
genre |
Antarc* Antarctic |
genre_facet |
Antarc* Antarctic |
op_relation |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1392886 http://www.ncbi.nlm.nih.gov/pubmed/16461708 http://dx.doi.org/10.1128/AEM.72.2.1532-1541.2006 |
op_rights |
Copyright © 2006, American Society for Microbiology |
op_doi |
https://doi.org/10.1128/AEM.72.2.1532-1541.2006 |
container_title |
Applied and Environmental Microbiology |
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72 |
container_issue |
2 |
container_start_page |
1532 |
op_container_end_page |
1541 |
_version_ |
1766275273193422848 |