{"id":20702,"date":"2025-01-10T13:11:05","date_gmt":"2025-01-10T12:11:05","guid":{"rendered":"https:\/\/sano.science\/?post_type=research&#038;p=20702"},"modified":"2025-02-03T15:35:48","modified_gmt":"2025-02-03T14:35:48","slug":"targeted-isolation-of-methanobrevibacter-strains-from-fecal-samples-expands-the-cultivated-human-archaeome","status":"publish","type":"research","link":"https:\/\/sano.science\/research\/targeted-isolation-of-methanobrevibacter-strains-from-fecal-samples-expands-the-cultivated-human-archaeome\/","title":{"rendered":"Targeted isolation of Methanobrevibacter strains from fecal samples expands the cultivated human archaeome"},"content":{"rendered":"\n<div style=\"height:40px\" aria-hidden=\"true\" class=\"wp-block-spacer eplus-wrapper\"><\/div>\n\n\n\n<h2 class=\"wp-block-heading eplus-wrapper\" id=\"h-stefanie-duller-simone-vrbancic-lukasz-szydlowski-alexander-mahnert-marcus-blohs-michael-predl-christina-kumpitsch-verena-zrim-christoph-hogenauer-tomasz-kosciolek-ruth-a-schmitz-anna-eberhard-melanie-dragovan-laura-schmidberger-tamara-zurabischvili-viktoria-weinberger-adrian-mathias-moser-dagmar-kolb-dominique-pernitsch-rokhsareh-mohammadzadeh-torben-kuhnast-thomas-rattei-christine-moissl-eichinger\">Stefanie Duller,\u00a0Simone Vrbancic,\u00a0 \u0141ukasz Szyd\u0142owski,\u00a0 Alexander Mahnert,\u00a0 Marcus Blohs,\u00a0 Michael Predl,\u00a0Christina Kumpitsch,\u00a0 Verena Zrim,\u00a0Christoph H\u00f6genauer,\u00a0Tomasz Kosciolek,\u00a0 Ruth A. Schmitz,\u00a0Anna Eberhard,\u00a0Melanie Dragovan,\u00a0Laura Schmidberger,\u00a0Tamara Zurabischvili, Viktoria Weinberger,\u00a0Adrian Mathias Moser,\u00a0Dagmar Kolb,\u00a0Dominique Pernitsch,\u00a0Rokhsareh Mohammadzadeh,\u00a0 Torben K\u00fchnast, Thomas Rattei,Christine Moissl-Eichinger\u00a0<\/h2>\n\n\n\n<div style=\"height:40px\" aria-hidden=\"true\" class=\"wp-block-spacer eplus-wrapper\"><\/div>\n\n\n\n<p class=\" eplus-wrapper\">Archaea play a crucial role in the human microbiome, yet their study in the gastrointestinal tract (GIT) remains limited due to a lack of cultured strains. This study introduces a method for enriching and isolating methanogenic archaea from human fecal samples using methane breath testing, in silico metabolic modeling, media optimization, FACS, dilution series, and Nanopore sequencing. The approach also involves analyzing co-cultured bacteria, comparative genomics, functional analysis, and protein structure-based function prediction. Stable archaeal cultures were established from 14 of 16 fecal samples, yielding nine previously uncultivated strains, eight of which were absent from a recent archaeome genome catalog. Genomic comparisons of <em>Methanobrevibacter smithii<\/em> and <em>Candidatus Methanobrevibacter intestini<\/em> revealed traits potentially linked to gastrointestinal diseases. This work expands available archaeal strains for GIT research and provides new insights into the adaptability of <em>Candidatus Methanobrevibacter intestini<\/em> in the human microbiome.<\/p>\n\n\n\n<div style=\"height:40px\" aria-hidden=\"true\" class=\"wp-block-spacer eplus-wrapper\"><\/div>\n\n\n\n<p class=\" eplus-wrapper\"><strong>DOI<\/strong>: 10.1038\/s41467-024-52037-7<\/p>\n\n\n\n<p class=\" eplus-wrapper\"><strong>Keywords<\/strong>: ArchaeaGastrointestinal tract (GIT)Human microbiomeMethanogenic archaeaMethane breath testingFACSNanopore sequencing<em>Methanobrevibacter smithii<\/em><em>Candidatus Methanobrevibacter intestini<\/em>Comparative genomicsFunctional analysisMicrobiome adaptability<\/p>\n\n\n\n<div style=\"height:40px\" aria-hidden=\"true\" class=\"wp-block-spacer eplus-wrapper\"><\/div>\n\n\n\n\t\n    \n        \n\t\t\t<a href=\"https:\/\/www.nature.com\/articles\/s41467-024-52037-7\" target=\"_self\"  class=\"button primary \">\n\n\t\t\t\t<span>\n\t\t\t\t\tREAD HERE\n\t\t\t\t<\/span>\n\n\t\t\t<\/a>\n\n        \n    \n","protected":false},"excerpt":{"rendered":"<p>Journal paper in: www.nature.com, 2024<\/p>\n","protected":false},"featured_media":0,"template":"","research_type":[8],"research_team":[113],"class_list":["post-20702","research","type-research","status-publish","hentry","research_type-publications","research_team-structural-and-functional-genomics"],"yoast_head":"<!-- This site is optimized with the Yoast SEO Premium plugin v27.4 (Yoast SEO v27.4) - 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Schmitz,\u00a0Anna Eberhard,\u00a0Melanie Dragovan,\u00a0Laura Schmidberger,\u00a0Tamara Zurabischvili, Viktoria Weinberger,\u00a0Adrian Mathias Moser,\u00a0Dagmar Kolb,\u00a0Dominique Pernitsch,\u00a0Rokhsareh Mohammadzadeh,\u00a0 Torben K\u00fchnast, Thomas Rattei,Christine Moissl-Eichinger\u00a0<\/h2>\n","innerContent":["\n<h2 class=\"wp-block-heading eplus-wrapper\" id=\"h-stefanie-duller-simone-vrbancic-lukasz-szydlowski-alexander-mahnert-marcus-blohs-michael-predl-christina-kumpitsch-verena-zrim-christoph-hogenauer-tomasz-kosciolek-ruth-a-schmitz-anna-eberhard-melanie-dragovan-laura-schmidberger-tamara-zurabischvili-viktoria-weinberger-adrian-mathias-moser-dagmar-kolb-dominique-pernitsch-rokhsareh-mohammadzadeh-torben-kuhnast-thomas-rattei-christine-moissl-eichinger\">Stefanie Duller,\u00a0Simone Vrbancic,\u00a0 \u0141ukasz Szyd\u0142owski,\u00a0 Alexander Mahnert,\u00a0 Marcus Blohs,\u00a0 Michael Predl,\u00a0Christina Kumpitsch,\u00a0 Verena Zrim,\u00a0Christoph H\u00f6genauer,\u00a0Tomasz Kosciolek,\u00a0 Ruth A. Schmitz,\u00a0Anna Eberhard,\u00a0Melanie Dragovan,\u00a0Laura Schmidberger,\u00a0Tamara Zurabischvili, Viktoria Weinberger,\u00a0Adrian Mathias Moser,\u00a0Dagmar Kolb,\u00a0Dominique Pernitsch,\u00a0Rokhsareh Mohammadzadeh,\u00a0 Torben K\u00fchnast, Thomas Rattei,Christine Moissl-Eichinger\u00a0<\/h2>\n"]},{"blockName":"core\/spacer","attrs":{"height":"40px","epAnimationGeneratedClass":"edplus_anim-sMidxN","epGeneratedClass":"eplus-wrapper"},"innerBlocks":[],"innerHTML":"\n<div style=\"height:40px\" aria-hidden=\"true\" class=\"wp-block-spacer eplus-wrapper\"><\/div>\n","innerContent":["\n<div style=\"height:40px\" aria-hidden=\"true\" class=\"wp-block-spacer eplus-wrapper\"><\/div>\n"]},{"blockName":"core\/paragraph","attrs":{"epAnimationGeneratedClass":"edplus_anim-YKq6IE","epGeneratedClass":"eplus-wrapper"},"innerBlocks":[],"innerHTML":"\n<p class=\" eplus-wrapper\">Archaea play a crucial role in the human microbiome, yet their study in the gastrointestinal tract (GIT) remains limited due to a lack of cultured strains. This study introduces a method for enriching and isolating methanogenic archaea from human fecal samples using methane breath testing, in silico metabolic modeling, media optimization, FACS, dilution series, and Nanopore sequencing. The approach also involves analyzing co-cultured bacteria, comparative genomics, functional analysis, and protein structure-based function prediction. Stable archaeal cultures were established from 14 of 16 fecal samples, yielding nine previously uncultivated strains, eight of which were absent from a recent archaeome genome catalog. Genomic comparisons of <em>Methanobrevibacter smithii<\/em> and <em>Candidatus Methanobrevibacter intestini<\/em> revealed traits potentially linked to gastrointestinal diseases. This work expands available archaeal strains for GIT research and provides new insights into the adaptability of <em>Candidatus Methanobrevibacter intestini<\/em> in the human microbiome.<\/p>\n","innerContent":["\n<p class=\" eplus-wrapper\">Archaea play a crucial role in the human microbiome, yet their study in the gastrointestinal tract (GIT) remains limited due to a lack of cultured strains. This study introduces a method for enriching and isolating methanogenic archaea from human fecal samples using methane breath testing, in silico metabolic modeling, media optimization, FACS, dilution series, and Nanopore sequencing. The approach also involves analyzing co-cultured bacteria, comparative genomics, functional analysis, and protein structure-based function prediction. Stable archaeal cultures were established from 14 of 16 fecal samples, yielding nine previously uncultivated strains, eight of which were absent from a recent archaeome genome catalog. Genomic comparisons of <em>Methanobrevibacter smithii<\/em> and <em>Candidatus Methanobrevibacter intestini<\/em> revealed traits potentially linked to gastrointestinal diseases. This work expands available archaeal strains for GIT research and provides new insights into the adaptability of <em>Candidatus Methanobrevibacter intestini<\/em> in the human microbiome.<\/p>\n"]},{"blockName":"core\/spacer","attrs":{"height":"40px","epAnimationGeneratedClass":"edplus_anim-sMidxN","epGeneratedClass":"eplus-wrapper"},"innerBlocks":[],"innerHTML":"\n<div style=\"height:40px\" aria-hidden=\"true\" class=\"wp-block-spacer eplus-wrapper\"><\/div>\n","innerContent":["\n<div style=\"height:40px\" aria-hidden=\"true\" class=\"wp-block-spacer eplus-wrapper\"><\/div>\n"]},{"blockName":"core\/paragraph","attrs":{"epAnimationGeneratedClass":"edplus_anim-TTVH8d","epGeneratedClass":"eplus-wrapper"},"innerBlocks":[],"innerHTML":"\n<p class=\" eplus-wrapper\"><strong>DOI<\/strong>: 10.1038\/s41467-024-52037-7<\/p>\n","innerContent":["\n<p class=\" eplus-wrapper\"><strong>DOI<\/strong>: 10.1038\/s41467-024-52037-7<\/p>\n"]},{"blockName":"core\/paragraph","attrs":{"epAnimationGeneratedClass":"edplus_anim-UXPFFS","epGeneratedClass":"eplus-wrapper"},"innerBlocks":[],"innerHTML":"\n<p class=\" eplus-wrapper\"><strong>Keywords<\/strong>: ArchaeaGastrointestinal tract (GIT)Human microbiomeMethanogenic archaeaMethane breath testingFACSNanopore sequencing<em>Methanobrevibacter smithii<\/em><em>Candidatus Methanobrevibacter intestini<\/em>Comparative genomicsFunctional analysisMicrobiome adaptability<\/p>\n","innerContent":["\n<p class=\" eplus-wrapper\"><strong>Keywords<\/strong>: ArchaeaGastrointestinal tract (GIT)Human microbiomeMethanogenic archaeaMethane breath testingFACSNanopore sequencing<em>Methanobrevibacter smithii<\/em><em>Candidatus Methanobrevibacter intestini<\/em>Comparative genomicsFunctional analysisMicrobiome adaptability<\/p>\n"]},{"blockName":"core\/spacer","attrs":{"height":"40px","epAnimationGeneratedClass":"edplus_anim-sMidxN","epGeneratedClass":"eplus-wrapper"},"innerBlocks":[],"innerHTML":"\n<div style=\"height:40px\" aria-hidden=\"true\" class=\"wp-block-spacer eplus-wrapper\"><\/div>\n","innerContent":["\n<div style=\"height:40px\" aria-hidden=\"true\" class=\"wp-block-spacer eplus-wrapper\"><\/div>\n"]},{"blockName":"acf\/button","attrs":{"title":"READ HERE","button_type":"link","url":"https:\/\/www.nature.com\/articles\/s41467-024-52037-7","button_style":"primary","target":"_self","button_extra_classes":""},"innerBlocks":[],"innerHTML":"","innerContent":[]}],"meta_data":{"is_automatically_other_posts":true,"number_of_posts":"3","is_automatically_check_also_posts":true},"_links":{"self":[{"href":"https:\/\/sano.science\/index.php\/wp-json\/wp\/v2\/research\/20702","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/sano.science\/index.php\/wp-json\/wp\/v2\/research"}],"about":[{"href":"https:\/\/sano.science\/index.php\/wp-json\/wp\/v2\/types\/research"}],"version-history":[{"count":10,"href":"https:\/\/sano.science\/index.php\/wp-json\/wp\/v2\/research\/20702\/revisions"}],"predecessor-version":[{"id":21103,"href":"https:\/\/sano.science\/index.php\/wp-json\/wp\/v2\/research\/20702\/revisions\/21103"}],"wp:attachment":[{"href":"https:\/\/sano.science\/index.php\/wp-json\/wp\/v2\/media?parent=20702"}],"wp:term":[{"taxonomy":"research_type","embeddable":true,"href":"https:\/\/sano.science\/index.php\/wp-json\/wp\/v2\/research_type?post=20702"},{"taxonomy":"research_team","embeddable":true,"href":"https:\/\/sano.science\/index.php\/wp-json\/wp\/v2\/research_team?post=20702"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}