Genomic Insights into Methanotrophy: The Complete Genome Sequence of Methylococcus capsulatus (Bath)
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{"title"=>"Genomic insights into methanotrophy: The complete genome sequence of Methylococcus capsulatus (Bath)", "type"=>"journal", "authors"=>[{"first_name"=>"Naomi", "last_name"=>"Ward", "scopus_author_id"=>"7102178388"}, {"first_name"=>"Øivind", "last_name"=>"Larsen", "scopus_author_id"=>"13610794000"}, {"first_name"=>"James", "last_name"=>"Sakwa", "scopus_author_id"=>"57194482244"}, {"first_name"=>"Live", "last_name"=>"Bruseth", "scopus_author_id"=>"6508182833"}, {"first_name"=>"Hoda", "last_name"=>"Khouri", "scopus_author_id"=>"7003806458"}, {"first_name"=>"A. Scott", "last_name"=>"Durkin", "scopus_author_id"=>"7006137376"}, {"first_name"=>"George", "last_name"=>"Dimitrov", "scopus_author_id"=>"7005721272"}, {"first_name"=>"Lingxia", "last_name"=>"Jiang", "scopus_author_id"=>"7403475926"}, {"first_name"=>"David", "last_name"=>"Scanlan", "scopus_author_id"=>"7004195170"}, {"first_name"=>"Katherine H.", "last_name"=>"Kang", "scopus_author_id"=>"8766721100"}, {"first_name"=>"Matt", "last_name"=>"Lewis", "scopus_author_id"=>"57199385688"}, {"first_name"=>"Karen E.", "last_name"=>"Nelson", "scopus_author_id"=>"7403227781"}, {"first_name"=>"Barbara", "last_name"=>"Methé", "scopus_author_id"=>"35401400600"}, {"first_name"=>"Martin", "last_name"=>"Wu", "scopus_author_id"=>"35387294200"}, {"first_name"=>"John F.", "last_name"=>"Heidelberg", "scopus_author_id"=>"6603942913"}, {"first_name"=>"Ian T.", "last_name"=>"Paulsen", "scopus_author_id"=>"7006799662"}, {"first_name"=>"Derrick", "last_name"=>"Fouts", "scopus_author_id"=>"7004101734"}, {"first_name"=>"Jacques", "last_name"=>"Ravel", "scopus_author_id"=>"7006695370"}, {"first_name"=>"Hervé", "last_name"=>"Tettelin", "scopus_author_id"=>"6603804103"}, {"first_name"=>"Qinghu", "last_name"=>"Ren", "scopus_author_id"=>"7101800116"}, {"first_name"=>"Tim", "last_name"=>"Read", "scopus_author_id"=>"7006457924"}, {"first_name"=>"Robert T.", "last_name"=>"DeBoy", "scopus_author_id"=>"6602748288"}, {"first_name"=>"Rekha", "last_name"=>"Seshadri", "scopus_author_id"=>"7101697269"}, {"first_name"=>"Steven L.", "last_name"=>"Salzberg", "scopus_author_id"=>"7005045166"}, {"first_name"=>"Harald B.", "last_name"=>"Jensen", "scopus_author_id"=>"56936197200"}, {"first_name"=>"Nils Kåre", "last_name"=>"Birkeland", "scopus_author_id"=>"7004701984"}, {"first_name"=>"William C.", "last_name"=>"Nelson", "scopus_author_id"=>"35402868800"}, {"first_name"=>"Robert J.", "last_name"=>"Dodson", "scopus_author_id"=>"7102372213"}, {"first_name"=>"Svenn H.", "last_name"=>"Grindhaug", "scopus_author_id"=>"8766723200"}, {"first_name"=>"Ingeborg", "last_name"=>"Holt", "scopus_author_id"=>"7004330314"}, {"first_name"=>"Ingvar", "last_name"=>"Eidhammer", "scopus_author_id"=>"35503251300"}, {"first_name"=>"Inge", "last_name"=>"Jonasen", "scopus_author_id"=>"8766723500"}, {"first_name"=>"Susan", "last_name"=>"Vanaken", "scopus_author_id"=>"8766723600"}, {"first_name"=>"Terry", "last_name"=>"Utterback", "scopus_author_id"=>"6701855401"}, {"first_name"=>"Tamara V.", "last_name"=>"Feldblyum", "scopus_author_id"=>"6603603440"}, {"first_name"=>"Claire M.", "last_name"=>"Fraser", "scopus_author_id"=>"9942061300"}, {"first_name"=>"Johan R.", "last_name"=>"Lillehaug", "scopus_author_id"=>"35601260500"}, {"first_name"=>"Jonathan A.", "last_name"=>"Eisen", "scopus_author_id"=>"35247902700"}], "year"=>2004, "source"=>"PLoS Biology", "identifiers"=>{"issn"=>"15449173", "isbn"=>"1544-9173", "pmid"=>"15383840", "scopus"=>"2-s2.0-8844264574", "doi"=>"10.1371/journal.pbio.0020303", "sgr"=>"8844264574", "pui"=>"39532923"}, "id"=>"d35d9fd1-2d7c-3fa8-b318-32da3747d173", "abstract"=>"Methanotrophs are ubiquitous bacteria that can use the greenhouse gas methane as a sole carbon and energy source for growth, thus playing major roles in global carbon cycles, and in particular, substantially reducing emissions of biologically generated methane to the atmosphere. Despite their importance, and in contrast to organisms that play roles in other major parts of the carbon cycle such as photosynthesis, no genome-level studies have been published on the biology of methanotrophs. We report the first complete genome sequence to our knowledge from an obligate methanotroph, Methylococcus capsulatus (Bath), obtained by the shotgun sequencing approach. Analysis revealed a 3.3-Mb genome highly specialized for a methanotrophic lifestyle, including redundant pathways predicted to be involved in methanotrophy and duplicated genes for essential enzymes such as the methane monooxygenases. We used phylogenomic analysis, gene order information, and comparative analysis with the partially sequenced methylotroph Methylobacterium extorquens to detect genes of unknown function likely to be involved in methanotrophy and methylotrophy. Genome analysis suggests the ability of M. capsulatus to scavenge copper (including a previously unreported nonribosomal peptide synthetase) and to use copper in regulation of methanotrophy, but the exact regulatory mechanisms remain unclear. One of the most surprising outcomes of the project is evidence suggesting the existence of previously unsuspected metabolic flexibility in M. capsulatus, including an ability to grow on sugars, oxidize chemolithotrophic hydrogen and sulfur, and live under reduced oxygen tension, all of which have implications for methanotroph ecology. The availability of the complete genome of M. capsulatus (Bath) deepens our understanding of methanotroph biology and its relationship to global carbon cycles. We have gained evidence for greater metabolic flexibility than was previously known, and for genetic components that may have biotechnological potential.", "link"=>"http://www.mendeley.com/research/genomic-insights-methanotrophy-complete-genome-sequence-methylococcus-capsulatus-bath", "reader_count"=>225, "reader_count_by_academic_status"=>{"Unspecified"=>6, "Professor > Associate Professor"=>11, "Researcher"=>77, "Student > Doctoral Student"=>9, "Student > Ph. D. Student"=>43, "Student > Postgraduate"=>2, "Student > Master"=>21, "Other"=>25, "Student > Bachelor"=>20, "Lecturer"=>2, "Professor"=>8}, "reader_count_by_user_role"=>{"Unspecified"=>6, "Professor > Associate Professor"=>11, "Researcher"=>77, "Student > Doctoral Student"=>9, "Student > Ph. D. 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Figshare

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  • {"files"=>["https://ndownloader.figshare.com/files/964004"], "description"=>"<p>Genomic information was used to predict the flow of carbon from methanotrophy pathways into carbon fixation pathways, and thence into glycolysis/gluconeogenesis and the TCA cycle. Locus names are indicated next to key steps. Some intermediates are omitted.</p>", "links"=>[], "tags"=>["metabolic", "pathways"], "article_id"=>633906, "categories"=>["Genetics", "Microbiology"], "users"=>["Naomi Ward", "Øivind Larsen", "James Sakwa", "Live Bruseth", "Hoda Khouri", "A. Scott Durkin", "George Dimitrov", "Lingxia Jiang", "David Scanlan", "Katherine H Kang", "Matt Lewis", "Karen E Nelson", "Barbara Methé", "Martin Wu", "John F Heidelberg", "Ian T Paulsen", "Derrick Fouts", "Jacques Ravel", "Hervé Tettelin", "Qinghu Ren", "Tim Read", "Robert T DeBoy", "Rekha Seshadri", "Steven L Salzberg", "Harald B Jensen", "Nils Kåre Birkeland", "William C Nelson", "Robert J Dodson", "Svenn H Grindhaug", "Ingeborg Holt", "Ingvar Eidhammer", "Inge Jonasen", "Susan Vanaken", "Terry Utterback", "Tamara V Feldblyum", "Claire M Fraser", "Johan R Lillehaug", "Jonathan A Eisen"], "doi"=>["https://dx.doi.org/10.1371/journal.pbio.0020303.g002"], "stats"=>{"downloads"=>0, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Predicted_Central_Metabolic_Pathways_of_M_capsulatus_/633906", "title"=>"Predicted Central Metabolic Pathways of M. capsulatus", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-02-22 09:15:04"}

PMC Usage Stats | Further Information

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