Genome analysis of Desulfotomaculum gibsoniae strain GrollT a highly versatile Gram-positive sulfate-reducing bacterium
Autor(a) principal: | |
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Data de Publicação: | 2014 |
Outros Autores: | , , , , , , , , , , , , , , , , , , , |
Tipo de documento: | Artigo |
Idioma: | eng |
Título da fonte: | Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) |
Texto Completo: | http://hdl.handle.net/1822/31575 |
Resumo: | Desulfotomaculum gibsoniae is a mesophilic member of the polyphyletic spore-forming genus Desulfotomaculum within the family Peptococcaceae. This bacterium was isolated from a freshwater ditch and is of interest because it can grow with a large variety of organic substrates, in particular several aromatic compounds, short-chain and medium-chain fatty acids, which are degraded completely to carbon dioxide coupled to the reduction of sulfate. It can grow autotrophically with H2 + CO2 and sulfate and slowly acetogenically with H2 + CO2, formate or methoxylated aromatic compounds in the absence of sulfate. For growth it does not require any vitamins. Here, we describe the features of D. gibsoniae strain GrollT together with the genome sequence and annotation. The chromosome has 4,855,529 bp organized in one circular contig and is the largest genome of all sequenced Desulfotomaculum spp., so far. A total of 4666 candidate protein-encoding genes and 96 RNA genes were identified. Genes of the acetyl-CoA pathway possibly involved in heterotrophic growth, and in CO2 fixation during autotrophic growth are present. The genome contains a large set of genes for the anaerobic transformation and degradation of aromatic compounds, which are lacking in the other sequenced Desulfotomaculum genomes. |
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Genome analysis of Desulfotomaculum gibsoniae strain GrollT a highly versatile Gram-positive sulfate-reducing bacteriumSulfate-reducing bacteriumFirmicutesAnaerobic degradation of aromatic compoundsAutotrophicClostridialesComplete oxidizerPeptococcaceaeSpore-forming anaerobesSulfate reductionScience & TechnologyDesulfotomaculum gibsoniae is a mesophilic member of the polyphyletic spore-forming genus Desulfotomaculum within the family Peptococcaceae. This bacterium was isolated from a freshwater ditch and is of interest because it can grow with a large variety of organic substrates, in particular several aromatic compounds, short-chain and medium-chain fatty acids, which are degraded completely to carbon dioxide coupled to the reduction of sulfate. It can grow autotrophically with H2 + CO2 and sulfate and slowly acetogenically with H2 + CO2, formate or methoxylated aromatic compounds in the absence of sulfate. For growth it does not require any vitamins. Here, we describe the features of D. gibsoniae strain GrollT together with the genome sequence and annotation. The chromosome has 4,855,529 bp organized in one circular contig and is the largest genome of all sequenced Desulfotomaculum spp., so far. A total of 4666 candidate protein-encoding genes and 96 RNA genes were identified. Genes of the acetyl-CoA pathway possibly involved in heterotrophic growth, and in CO2 fixation during autotrophic growth are present. The genome contains a large set of genes for the anaerobic transformation and degradation of aromatic compounds, which are lacking in the other sequenced Desulfotomaculum genomes.DOE -U.S. Department of EnergyThe work conducted by the U.S. Department of Energy Joint Genome Institute was supported by the Office of Science of the U.S. Department of Energy under Contract No. DE-AC02-05CH11231, and was also supported by grants CW-TOP 700.55.343, ALW 819.02.014 of the Netherlands Science Foundation (NWO), ERC (project 323009), and BE-Basic (project F07.002.03).Genomic Standards ConsortiumUniversidade do MinhoKuever, JanVisser, MichaelLoeffler, ClaudiaBoll, MathiasWorm, PetraSousa, D. Z.Plugge, Caroline M.Schaap, Peter J.Muyzer, GerardPereira, Inês A. C.Pashina, Sofiya N.Goodwin, Lynne A.Kyrpides, Nikos C.Detter, JanineWoyke, TanjaChain, PatrickDavenport, Karen W.Rohde, ManfredSpring, StefanKlenk, Hans-PeterStams, Alfons Johannes Maria20142014-01-01T00:00:00Zinfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articleapplication/pdfhttp://hdl.handle.net/1822/31575engKuever, J.; Visser, M.; Loeffler, C.; Boll, M.; Worm, P.; Sousa, D. Z.; Plugge, C.; Schaap, P.; Muyzer, G.; Pereira, I.; Pashina, S.; Goodwin, L.; Kyrpides, N.; Detter, J.; Woyke, T.; Chain, P.; Davenport, K.; Rohde, M.; Spring, S.; Klenk, H. -P.; Stams, A. J. M., Genome analysis of Desulfotomaculum gibsoniae strain GrollT a highly versatile Gram-positive sulfate-reducing bacterium. Standards in Genomic Sciences, 9(3), 2015.1944-32771944-327710.4056/sigs.5209235http://www.standardsingenomics.orginfo:eu-repo/semantics/openAccessreponame:Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)instname:Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informaçãoinstacron:RCAAP2023-07-21T11:58:54Zoai:repositorium.sdum.uminho.pt:1822/31575Portal AgregadorONGhttps://www.rcaap.pt/oai/openaireopendoar:71602024-03-19T18:48:40.504865Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) - Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informaçãofalse |
dc.title.none.fl_str_mv |
Genome analysis of Desulfotomaculum gibsoniae strain GrollT a highly versatile Gram-positive sulfate-reducing bacterium |
title |
Genome analysis of Desulfotomaculum gibsoniae strain GrollT a highly versatile Gram-positive sulfate-reducing bacterium |
spellingShingle |
Genome analysis of Desulfotomaculum gibsoniae strain GrollT a highly versatile Gram-positive sulfate-reducing bacterium Kuever, Jan Sulfate-reducing bacterium Firmicutes Anaerobic degradation of aromatic compounds Autotrophic Clostridiales Complete oxidizer Peptococcaceae Spore-forming anaerobes Sulfate reduction Science & Technology |
title_short |
Genome analysis of Desulfotomaculum gibsoniae strain GrollT a highly versatile Gram-positive sulfate-reducing bacterium |
title_full |
Genome analysis of Desulfotomaculum gibsoniae strain GrollT a highly versatile Gram-positive sulfate-reducing bacterium |
title_fullStr |
Genome analysis of Desulfotomaculum gibsoniae strain GrollT a highly versatile Gram-positive sulfate-reducing bacterium |
title_full_unstemmed |
Genome analysis of Desulfotomaculum gibsoniae strain GrollT a highly versatile Gram-positive sulfate-reducing bacterium |
title_sort |
Genome analysis of Desulfotomaculum gibsoniae strain GrollT a highly versatile Gram-positive sulfate-reducing bacterium |
author |
Kuever, Jan |
author_facet |
Kuever, Jan Visser, Michael Loeffler, Claudia Boll, Mathias Worm, Petra Sousa, D. Z. Plugge, Caroline M. Schaap, Peter J. Muyzer, Gerard Pereira, Inês A. C. Pashina, Sofiya N. Goodwin, Lynne A. Kyrpides, Nikos C. Detter, Janine Woyke, Tanja Chain, Patrick Davenport, Karen W. Rohde, Manfred Spring, Stefan Klenk, Hans-Peter Stams, Alfons Johannes Maria |
author_role |
author |
author2 |
Visser, Michael Loeffler, Claudia Boll, Mathias Worm, Petra Sousa, D. Z. Plugge, Caroline M. Schaap, Peter J. Muyzer, Gerard Pereira, Inês A. C. Pashina, Sofiya N. Goodwin, Lynne A. Kyrpides, Nikos C. Detter, Janine Woyke, Tanja Chain, Patrick Davenport, Karen W. Rohde, Manfred Spring, Stefan Klenk, Hans-Peter Stams, Alfons Johannes Maria |
author2_role |
author author author author author author author author author author author author author author author author author author author author |
dc.contributor.none.fl_str_mv |
Universidade do Minho |
dc.contributor.author.fl_str_mv |
Kuever, Jan Visser, Michael Loeffler, Claudia Boll, Mathias Worm, Petra Sousa, D. Z. Plugge, Caroline M. Schaap, Peter J. Muyzer, Gerard Pereira, Inês A. C. Pashina, Sofiya N. Goodwin, Lynne A. Kyrpides, Nikos C. Detter, Janine Woyke, Tanja Chain, Patrick Davenport, Karen W. Rohde, Manfred Spring, Stefan Klenk, Hans-Peter Stams, Alfons Johannes Maria |
dc.subject.por.fl_str_mv |
Sulfate-reducing bacterium Firmicutes Anaerobic degradation of aromatic compounds Autotrophic Clostridiales Complete oxidizer Peptococcaceae Spore-forming anaerobes Sulfate reduction Science & Technology |
topic |
Sulfate-reducing bacterium Firmicutes Anaerobic degradation of aromatic compounds Autotrophic Clostridiales Complete oxidizer Peptococcaceae Spore-forming anaerobes Sulfate reduction Science & Technology |
description |
Desulfotomaculum gibsoniae is a mesophilic member of the polyphyletic spore-forming genus Desulfotomaculum within the family Peptococcaceae. This bacterium was isolated from a freshwater ditch and is of interest because it can grow with a large variety of organic substrates, in particular several aromatic compounds, short-chain and medium-chain fatty acids, which are degraded completely to carbon dioxide coupled to the reduction of sulfate. It can grow autotrophically with H2 + CO2 and sulfate and slowly acetogenically with H2 + CO2, formate or methoxylated aromatic compounds in the absence of sulfate. For growth it does not require any vitamins. Here, we describe the features of D. gibsoniae strain GrollT together with the genome sequence and annotation. The chromosome has 4,855,529 bp organized in one circular contig and is the largest genome of all sequenced Desulfotomaculum spp., so far. A total of 4666 candidate protein-encoding genes and 96 RNA genes were identified. Genes of the acetyl-CoA pathway possibly involved in heterotrophic growth, and in CO2 fixation during autotrophic growth are present. The genome contains a large set of genes for the anaerobic transformation and degradation of aromatic compounds, which are lacking in the other sequenced Desulfotomaculum genomes. |
publishDate |
2014 |
dc.date.none.fl_str_mv |
2014 2014-01-01T00:00:00Z |
dc.type.status.fl_str_mv |
info:eu-repo/semantics/publishedVersion |
dc.type.driver.fl_str_mv |
info:eu-repo/semantics/article |
format |
article |
status_str |
publishedVersion |
dc.identifier.uri.fl_str_mv |
http://hdl.handle.net/1822/31575 |
url |
http://hdl.handle.net/1822/31575 |
dc.language.iso.fl_str_mv |
eng |
language |
eng |
dc.relation.none.fl_str_mv |
Kuever, J.; Visser, M.; Loeffler, C.; Boll, M.; Worm, P.; Sousa, D. Z.; Plugge, C.; Schaap, P.; Muyzer, G.; Pereira, I.; Pashina, S.; Goodwin, L.; Kyrpides, N.; Detter, J.; Woyke, T.; Chain, P.; Davenport, K.; Rohde, M.; Spring, S.; Klenk, H. -P.; Stams, A. J. M., Genome analysis of Desulfotomaculum gibsoniae strain GrollT a highly versatile Gram-positive sulfate-reducing bacterium. Standards in Genomic Sciences, 9(3), 2015. 1944-3277 1944-3277 10.4056/sigs.5209235 http://www.standardsingenomics.org |
dc.rights.driver.fl_str_mv |
info:eu-repo/semantics/openAccess |
eu_rights_str_mv |
openAccess |
dc.format.none.fl_str_mv |
application/pdf |
dc.publisher.none.fl_str_mv |
Genomic Standards Consortium |
publisher.none.fl_str_mv |
Genomic Standards Consortium |
dc.source.none.fl_str_mv |
reponame:Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) instname:Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação instacron:RCAAP |
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Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação |
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RCAAP |
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RCAAP |
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Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) |
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Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) |
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Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) - Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação |
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1799132248661819392 |