{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,6,6]],"date-time":"2026-06-06T05:41:39Z","timestamp":1780724499564,"version":"3.54.1"},"reference-count":52,"publisher":"American Society for Microbiology","issue":"22","license":[{"start":{"date-parts":[[2006,11,15]],"date-time":"2006-11-15T00:00:00Z","timestamp":1163548800000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/journals.asm.org\/non-commercial-tdm-license"}],"content-domain":{"domain":["journals.asm.org"],"crossmark-restriction":true},"short-container-title":["J Bacteriol"],"published-print":{"date-parts":[[2006,11,15]]},"abstract":"<jats:title>ABSTRACT<\/jats:title>\n          <jats:p>\n            We report here a comparative analysis of the genome sequence of\n            <jats:italic>Methanosarcina barkeri<\/jats:italic>\n            with those\n            <jats:italic>of Methanosarcina acetivorans<\/jats:italic>\n            and\n            <jats:italic>Methanosarcina mazei<\/jats:italic>\n            . The genome of\n            <jats:italic>M. barkeri<\/jats:italic>\n            is distinguished by having an organization that is well conserved with respect to the other\n            <jats:italic>Methanosarcina<\/jats:italic>\n            spp. in the region proximal to the origin of replication, with interspecies gene similarities as high as 95%. However, it is disordered and marked by increased transposase frequency and decreased gene synteny and gene density in the distal semigenome. Of the 3,680 open reading frames (ORFs) in\n            <jats:italic>M. barkeri<\/jats:italic>\n            , 746 had homologs with better than 80% identity to both\n            <jats:italic>M. acetivorans<\/jats:italic>\n            and\n            <jats:italic>M. mazei<\/jats:italic>\n            , while 128 nonhypothetical ORFs were unique (nonorthologous) among these species, including a complete formate dehydrogenase operon, genes required for\n            <jats:italic>N<\/jats:italic>\n            -acetylmuramic acid synthesis, a 14-gene gas vesicle cluster, and a bacterial-like P450-specific ferredoxin reductase cluster not previously observed or characterized for this genus. A cryptic 36-kbp plasmid sequence that contains an\n            <jats:italic>orc1<\/jats:italic>\n            gene flanked by a presumptive origin of replication consisting of 38 tandem repeats of a 143-nucleotide motif was detected in\n            <jats:italic>M. barkeri<\/jats:italic>\n            . Three-way comparison of these genomes reveals differing mechanisms for the accrual of changes. Elongation of the relatively large\n            <jats:italic>M. acetivorans<\/jats:italic>\n            genome is the result of uniformly distributed multiple gene scale insertions and duplications, while the\n            <jats:italic>M. barkeri<\/jats:italic>\n            genome is characterized by localized inversions associated with the loss of gene content. In contrast, the short\n            <jats:italic>M. mazei<\/jats:italic>\n            genome most closely approximates the putative ancestral organizational state of these species.\n          <\/jats:p>","DOI":"10.1128\/jb.00810-06","type":"journal-article","created":{"date-parts":[[2006,11,2]],"date-time":"2006-11-02T18:24:30Z","timestamp":1162491870000},"page":"7922-7931","update-policy":"https:\/\/doi.org\/10.1128\/asmj-crossmark-policy-page","source":"Crossref","is-referenced-by-count":163,"title":["The\n            <i>Methanosarcina barkeri<\/i>\n            Genome: Comparative Analysis with\n            <i>Methanosarcina acetivorans<\/i>\n            and\n            <i>Methanosarcina mazei<\/i>\n            Reveals Extensive Rearrangement within Methanosarcinal Genomes"],"prefix":"10.1128","volume":"188","author":[{"given":"Dennis L.","family":"Maeder","sequence":"first","affiliation":[{"name":"Center of Marine Biotechnology, University of Maryland Biotechnology Institute, Columbus Center, Suite 236, 701 E. Pratt St., Baltimore, Maryland 21202"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Iain","family":"Anderson","sequence":"additional","affiliation":[{"name":"Microbial Genomics, DOE Joint Genome Institute, 2800 Mitchell Drive, B400, Walnut Creek, California 94598"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Thomas S.","family":"Brettin","sequence":"additional","affiliation":[{"name":"DOE Joint Genome Institute, Los Alamos National Laboratory, Los Alamos, New Mexico 87545"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"David C.","family":"Bruce","sequence":"additional","affiliation":[{"name":"DOE Joint Genome Institute, Los Alamos National Laboratory, Los Alamos, New Mexico 87545"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Paul","family":"Gilna","sequence":"additional","affiliation":[{"name":"DOE Joint Genome Institute, Los Alamos National Laboratory, Los Alamos, New Mexico 87545"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Cliff S.","family":"Han","sequence":"additional","affiliation":[{"name":"DOE Joint Genome Institute, Los Alamos National Laboratory, Los Alamos, New Mexico 87545"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Alla","family":"Lapidus","sequence":"additional","affiliation":[{"name":"Microbial Genomics, DOE Joint Genome Institute, 2800 Mitchell Drive, B400, Walnut Creek, California 94598"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"William W.","family":"Metcalf","sequence":"additional","affiliation":[{"name":"University of Illinois, Department of Microbiology, B103 Chemical and Life Sciences Laboratory, 601 S. Goodwin Avenue, Urbana, Illinois 61801"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Elizabeth","family":"Saunders","sequence":"additional","affiliation":[{"name":"DOE Joint Genome Institute, Los Alamos National Laboratory, Los Alamos, New Mexico 87545"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Roxanne","family":"Tapia","sequence":"additional","affiliation":[{"name":"DOE Joint Genome Institute, Los Alamos National Laboratory, Los Alamos, New Mexico 87545"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Kevin R.","family":"Sowers","sequence":"additional","affiliation":[{"name":"Center of Marine Biotechnology, University of Maryland Biotechnology Institute, Columbus Center, Suite 236, 701 E. Pratt St., Baltimore, Maryland 21202"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"235","reference":[{"key":"e_1_3_2_2_2","first-page":"167","volume":"130","year":"1984","unstructured":"Archer, D. B., and N. R. King. 1984. 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