Genome Sequence of Thermofilum pendens Reveals an Exceptional Loss of Biosynthetic Pathways without Genome Reduction▿ †
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, requi...
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Online Access: | http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2293246 http://www.ncbi.nlm.nih.gov/pubmed/18263724 https://doi.org/10.1128/JB.01949-07 |
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ftpubmed:oai:pubmedcentral.nih.gov:2293246 2023-05-15T16:51:31+02:00 Genome Sequence of Thermofilum pendens Reveals an Exceptional Loss of Biosynthetic Pathways without Genome Reduction▿ † Anderson, Iain Rodriguez, Jason Susanti, Dwi Porat, Iris Reich, Claudia Ulrich, Luke E. Elkins, James G. Mavromatis, Kostas Lykidis, Athanasios Kim, Edwin Thompson, Linda S. Nolan, Matt Land, Miriam Copeland, Alex Lapidus, Alla Lucas, Susan Detter, Chris Zhulin, Igor B. Olsen, Gary J. Whitman, William Mukhopadhyay, Biswarup Bristow, James Kyrpides, Nikos 2008-04 http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2293246 http://www.ncbi.nlm.nih.gov/pubmed/18263724 https://doi.org/10.1128/JB.01949-07 en eng American Society for Microbiology (ASM) http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2293246 http://www.ncbi.nlm.nih.gov/pubmed/18263724 http://dx.doi.org/10.1128/JB.01949-07 Copyright © 2008, American Society for Microbiology Genomics and Proteomics Text 2008 ftpubmed https://doi.org/10.1128/JB.01949-07 2013-09-01T17:50:06Z 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. Text Iceland PubMed Central (PMC) Journal of Bacteriology 190 8 2957 2965 |
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PubMed Central (PMC) |
op_collection_id |
ftpubmed |
language |
English |
topic |
Genomics and Proteomics |
spellingShingle |
Genomics and Proteomics Anderson, Iain Rodriguez, Jason Susanti, Dwi Porat, Iris Reich, Claudia Ulrich, Luke E. Elkins, James G. Mavromatis, Kostas Lykidis, Athanasios Kim, Edwin Thompson, Linda S. Nolan, Matt Land, Miriam Copeland, Alex Lapidus, Alla Lucas, Susan Detter, Chris Zhulin, Igor B. Olsen, Gary J. Whitman, William Mukhopadhyay, Biswarup Bristow, James Kyrpides, Nikos Genome Sequence of Thermofilum pendens Reveals an Exceptional Loss of Biosynthetic Pathways without Genome Reduction▿ † |
topic_facet |
Genomics and Proteomics |
description |
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. |
format |
Text |
author |
Anderson, Iain Rodriguez, Jason Susanti, Dwi Porat, Iris Reich, Claudia Ulrich, Luke E. Elkins, James G. Mavromatis, Kostas Lykidis, Athanasios Kim, Edwin Thompson, Linda S. Nolan, Matt Land, Miriam Copeland, Alex Lapidus, Alla Lucas, Susan Detter, Chris Zhulin, Igor B. Olsen, Gary J. Whitman, William Mukhopadhyay, Biswarup Bristow, James Kyrpides, Nikos |
author_facet |
Anderson, Iain Rodriguez, Jason Susanti, Dwi Porat, Iris Reich, Claudia Ulrich, Luke E. Elkins, James G. Mavromatis, Kostas Lykidis, Athanasios Kim, Edwin Thompson, Linda S. Nolan, Matt Land, Miriam Copeland, Alex Lapidus, Alla Lucas, Susan Detter, Chris Zhulin, Igor B. Olsen, Gary J. Whitman, William Mukhopadhyay, Biswarup Bristow, James Kyrpides, Nikos |
author_sort |
Anderson, Iain |
title |
Genome Sequence of Thermofilum pendens Reveals an Exceptional Loss of Biosynthetic Pathways without Genome Reduction▿ † |
title_short |
Genome Sequence of Thermofilum pendens Reveals an Exceptional Loss of Biosynthetic Pathways without Genome Reduction▿ † |
title_full |
Genome Sequence of Thermofilum pendens Reveals an Exceptional Loss of Biosynthetic Pathways without Genome Reduction▿ † |
title_fullStr |
Genome Sequence of Thermofilum pendens Reveals an Exceptional Loss of Biosynthetic Pathways without Genome Reduction▿ † |
title_full_unstemmed |
Genome Sequence of Thermofilum pendens Reveals an Exceptional Loss of Biosynthetic Pathways without Genome Reduction▿ † |
title_sort |
genome sequence of thermofilum pendens reveals an exceptional loss of biosynthetic pathways without genome reduction▿ † |
publisher |
American Society for Microbiology (ASM) |
publishDate |
2008 |
url |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2293246 http://www.ncbi.nlm.nih.gov/pubmed/18263724 https://doi.org/10.1128/JB.01949-07 |
genre |
Iceland |
genre_facet |
Iceland |
op_relation |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2293246 http://www.ncbi.nlm.nih.gov/pubmed/18263724 http://dx.doi.org/10.1128/JB.01949-07 |
op_rights |
Copyright © 2008, American Society for Microbiology |
op_doi |
https://doi.org/10.1128/JB.01949-07 |
container_title |
Journal of Bacteriology |
container_volume |
190 |
container_issue |
8 |
container_start_page |
2957 |
op_container_end_page |
2965 |
_version_ |
1766041632924237824 |