Genome sequence of a mesophilic hydrogenotrophic methanogen Methanocella paludicola, the first cultivated representative of the order Methanocellales.

We report complete genome sequence of a mesophilic hydrogenotrophic methanogen Methanocella paludicola, the first cultured representative of the order Methanocellales once recognized as an uncultured key archaeal group for methane emission in rice fields. The genome sequence of M. paludicola consist...

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Autores principales:	Sanae Sakai, Yoshihiro Takaki, Shigeru Shimamura, Mitsuo Sekine, Takahisa Tajima, Hiroki Kosugi, Natsuko Ichikawa, Eiji Tasumi, Aiko T Hiraki, Ai Shimizu, Yumiko Kato, Rika Nishiko, Koji Mori, Nobuyuki Fujita, Hiroyuki Imachi, Ken Takai
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2011
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/cd0af442c9ec4bd6830eaeb817b0c79e
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spelling	oai:doaj.org-article:cd0af442c9ec4bd6830eaeb817b0c79e2021-11-18T06:49:00ZGenome sequence of a mesophilic hydrogenotrophic methanogen Methanocella paludicola, the first cultivated representative of the order Methanocellales.1932-620310.1371/journal.pone.0022898https://doaj.org/article/cd0af442c9ec4bd6830eaeb817b0c79e2011-01-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/21829548/?tool=EBIhttps://doaj.org/toc/1932-6203We report complete genome sequence of a mesophilic hydrogenotrophic methanogen Methanocella paludicola, the first cultured representative of the order Methanocellales once recognized as an uncultured key archaeal group for methane emission in rice fields. The genome sequence of M. paludicola consists of a single circular chromosome of 2,957,635 bp containing 3004 protein-coding sequences (CDS). Genes for most of the functions known in the methanogenic archaea were identified, e.g. a full complement of hydrogenases and methanogenesis enzymes. The mixotrophic growth of M. paludicola was clarified by the genomic characterization and re-examined by the subsequent growth experiments. Comparative genome analysis with the previously reported genome sequence of RC-I(MRE50), which was metagenomically reconstructed, demonstrated that about 70% of M. paludicola CDSs were genetically related with RC-I(MRE50) CDSs. These CDSs included the genes involved in hydrogenotrophic methane production, incomplete TCA cycle, assimilatory sulfate reduction and so on. However, the genetic components for the carbon and nitrogen fixation and antioxidant system were different between the two Methanocellales genomes. The difference is likely associated with the physiological variability between M. paludicola and RC-I(MRE50), further suggesting the genomic and physiological diversity of the Methanocellales methanogens. Comparative genome analysis among the previously determined methanogen genomes points to the genome-wide relatedness of the Methanocellales methanogens to the orders Methanosarcinales and Methanomicrobiales methanogens in terms of the genetic repertoire. Meanwhile, the unique evolutionary history of the Methanocellales methanogens is also traced in an aspect by the comparative genome analysis among the methanogens.Sanae SakaiYoshihiro TakakiShigeru ShimamuraMitsuo SekineTakahisa TajimaHiroki KosugiNatsuko IchikawaEiji TasumiAiko T HirakiAi ShimizuYumiko KatoRika NishikoKoji MoriNobuyuki FujitaHiroyuki ImachiKen TakaiPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 6, Iss 7, p e22898 (2011)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Sanae Sakai Yoshihiro Takaki Shigeru Shimamura Mitsuo Sekine Takahisa Tajima Hiroki Kosugi Natsuko Ichikawa Eiji Tasumi Aiko T Hiraki Ai Shimizu Yumiko Kato Rika Nishiko Koji Mori Nobuyuki Fujita Hiroyuki Imachi Ken Takai Genome sequence of a mesophilic hydrogenotrophic methanogen Methanocella paludicola, the first cultivated representative of the order Methanocellales.
description	We report complete genome sequence of a mesophilic hydrogenotrophic methanogen Methanocella paludicola, the first cultured representative of the order Methanocellales once recognized as an uncultured key archaeal group for methane emission in rice fields. The genome sequence of M. paludicola consists of a single circular chromosome of 2,957,635 bp containing 3004 protein-coding sequences (CDS). Genes for most of the functions known in the methanogenic archaea were identified, e.g. a full complement of hydrogenases and methanogenesis enzymes. The mixotrophic growth of M. paludicola was clarified by the genomic characterization and re-examined by the subsequent growth experiments. Comparative genome analysis with the previously reported genome sequence of RC-I(MRE50), which was metagenomically reconstructed, demonstrated that about 70% of M. paludicola CDSs were genetically related with RC-I(MRE50) CDSs. These CDSs included the genes involved in hydrogenotrophic methane production, incomplete TCA cycle, assimilatory sulfate reduction and so on. However, the genetic components for the carbon and nitrogen fixation and antioxidant system were different between the two Methanocellales genomes. The difference is likely associated with the physiological variability between M. paludicola and RC-I(MRE50), further suggesting the genomic and physiological diversity of the Methanocellales methanogens. Comparative genome analysis among the previously determined methanogen genomes points to the genome-wide relatedness of the Methanocellales methanogens to the orders Methanosarcinales and Methanomicrobiales methanogens in terms of the genetic repertoire. Meanwhile, the unique evolutionary history of the Methanocellales methanogens is also traced in an aspect by the comparative genome analysis among the methanogens.
format	article
author	Sanae Sakai Yoshihiro Takaki Shigeru Shimamura Mitsuo Sekine Takahisa Tajima Hiroki Kosugi Natsuko Ichikawa Eiji Tasumi Aiko T Hiraki Ai Shimizu Yumiko Kato Rika Nishiko Koji Mori Nobuyuki Fujita Hiroyuki Imachi Ken Takai
author_facet	Sanae Sakai Yoshihiro Takaki Shigeru Shimamura Mitsuo Sekine Takahisa Tajima Hiroki Kosugi Natsuko Ichikawa Eiji Tasumi Aiko T Hiraki Ai Shimizu Yumiko Kato Rika Nishiko Koji Mori Nobuyuki Fujita Hiroyuki Imachi Ken Takai
author_sort	Sanae Sakai
title	Genome sequence of a mesophilic hydrogenotrophic methanogen Methanocella paludicola, the first cultivated representative of the order Methanocellales.
title_short	Genome sequence of a mesophilic hydrogenotrophic methanogen Methanocella paludicola, the first cultivated representative of the order Methanocellales.
title_full	Genome sequence of a mesophilic hydrogenotrophic methanogen Methanocella paludicola, the first cultivated representative of the order Methanocellales.
title_fullStr	Genome sequence of a mesophilic hydrogenotrophic methanogen Methanocella paludicola, the first cultivated representative of the order Methanocellales.
title_full_unstemmed	Genome sequence of a mesophilic hydrogenotrophic methanogen Methanocella paludicola, the first cultivated representative of the order Methanocellales.
title_sort	genome sequence of a mesophilic hydrogenotrophic methanogen methanocella paludicola, the first cultivated representative of the order methanocellales.
publisher	Public Library of Science (PLoS)
publishDate	2011
url	https://doaj.org/article/cd0af442c9ec4bd6830eaeb817b0c79e
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Genome sequence of a mesophilic hydrogenotrophic methanogen Methanocella paludicola, the first cultivated representative of the order Methanocellales.

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