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<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Active and total microbial communities in forest soil are largely different and highly stratified during decomposition</title><author><name sortKey="Baldrian, Petr" sort="Baldrian, Petr" uniqKey="Baldrian P" first="Petr" last="Baldrian">Petr Baldrian</name><affiliation><nlm:aff id="aff1"><institution>Laboratory of Environmental Microbiology, Institute of Microbiology of the ASCR, v.v.i., Vídeňská</institution>, Praha,<country>Czech Republic</country></nlm:aff></affiliation></author><author><name sortKey="Kola K, Miroslav" sort="Kola K, Miroslav" uniqKey="Kola K M" first="Miroslav" last="Kola K">Miroslav Kola K</name><affiliation><nlm:aff id="aff1"><institution>Laboratory of Environmental Microbiology, Institute of Microbiology of the ASCR, v.v.i., Vídeňská</institution>, Praha,<country>Czech Republic</country></nlm:aff></affiliation></author><author><name sortKey="Stursova, Martina" sort="Stursova, Martina" uniqKey="Stursova M" first="Martina" last="Štursová">Martina Štursová</name><affiliation><nlm:aff id="aff1"><institution>Laboratory of Environmental Microbiology, Institute of Microbiology of the ASCR, v.v.i., Vídeňská</institution>, Praha,<country>Czech Republic</country></nlm:aff></affiliation></author><author><name sortKey="Kopeck, Jan" sort="Kopeck, Jan" uniqKey="Kopeck J" first="Jan" last="Kopeck">Jan Kopeck</name><affiliation><nlm:aff id="aff2"><institution>Crop Research Institute, Drnovská</institution>, Praha,<country>Czech Republic</country></nlm:aff></affiliation></author><author><name sortKey="Valaskova, Vendula" sort="Valaskova, Vendula" uniqKey="Valaskova V" first="Vendula" last="Valášková">Vendula Valášková</name><affiliation><nlm:aff id="aff1"><institution>Laboratory of Environmental Microbiology, Institute of Microbiology of the ASCR, v.v.i., Vídeňská</institution>, Praha,<country>Czech Republic</country></nlm:aff></affiliation></author><author><name sortKey="V Trovsk, Tomas" sort="V Trovsk, Tomas" uniqKey="V Trovsk T" first="Tomáš" last="V Trovsk">Tomáš V Trovsk</name><affiliation><nlm:aff id="aff1"><institution>Laboratory of Environmental Microbiology, Institute of Microbiology of the ASCR, v.v.i., Vídeňská</institution>, Praha,<country>Czech Republic</country></nlm:aff></affiliation></author><author><name sortKey="Zif Kova, Lucia" sort="Zif Kova, Lucia" uniqKey="Zif Kova L" first="Lucia" last="Žif Ková">Lucia Žif Ková</name><affiliation><nlm:aff id="aff1"><institution>Laboratory of Environmental Microbiology, Institute of Microbiology of the ASCR, v.v.i., Vídeňská</institution>, Praha,<country>Czech Republic</country></nlm:aff></affiliation></author><author><name sortKey="Snajdr, Jaroslav" sort="Snajdr, Jaroslav" uniqKey="Snajdr J" first="Jaroslav" last="Šnajdr">Jaroslav Šnajdr</name><affiliation><nlm:aff id="aff1"><institution>Laboratory of Environmental Microbiology, Institute of Microbiology of the ASCR, v.v.i., Vídeňská</institution>, Praha,<country>Czech Republic</country></nlm:aff></affiliation></author><author><name sortKey="Ridl, Jakub" sort="Ridl, Jakub" uniqKey="Ridl J" first="Jakub" last="Rídl">Jakub Rídl</name><affiliation><nlm:aff id="aff3"><institution>Institute of Molecular Genetics of the ASCR, v.v.i., Vídeňská</institution>, Praha,<country>Czech Republic</country></nlm:aff></affiliation></author><author><name sortKey="Vl Ek, Estmir" sort="Vl Ek, Estmir" uniqKey="Vl Ek " first=" Estmír" last="Vl Ek"> Estmír Vl Ek</name><affiliation><nlm:aff id="aff3"><institution>Institute of Molecular Genetics of the ASCR, v.v.i., Vídeňská</institution>, Praha,<country>Czech Republic</country></nlm:aff></affiliation></author><author><name sortKey="Vo Kova, Jana" sort="Vo Kova, Jana" uniqKey="Vo Kova J" first="Jana" last="Vo Ková">Jana Vo Ková</name><affiliation><nlm:aff id="aff1"><institution>Laboratory of Environmental Microbiology, Institute of Microbiology of the ASCR, v.v.i., Vídeňská</institution>, Praha,<country>Czech Republic</country></nlm:aff></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PMC</idno><idno type="pmid">21776033</idno><idno type="pmc">3260513</idno><idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3260513</idno><idno type="RBID">PMC:3260513</idno><idno type="doi">10.1038/ismej.2011.95</idno><date when="2011">2011</date><idno type="wicri:Area/Pmc/Corpus">000000</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Corpus" wicri:corpus="PMC">000000</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">Active and total microbial communities in forest soil are largely different and highly stratified during decomposition</title><author><name sortKey="Baldrian, Petr" sort="Baldrian, Petr" uniqKey="Baldrian P" first="Petr" last="Baldrian">Petr Baldrian</name><affiliation><nlm:aff id="aff1"><institution>Laboratory of Environmental Microbiology, Institute of Microbiology of the ASCR, v.v.i., Vídeňská</institution>, Praha,<country>Czech Republic</country></nlm:aff></affiliation></author><author><name sortKey="Kola K, Miroslav" sort="Kola K, Miroslav" uniqKey="Kola K M" first="Miroslav" last="Kola K">Miroslav Kola K</name><affiliation><nlm:aff id="aff1"><institution>Laboratory of Environmental Microbiology, Institute of Microbiology of the ASCR, v.v.i., Vídeňská</institution>, Praha,<country>Czech Republic</country></nlm:aff></affiliation></author><author><name sortKey="Stursova, Martina" sort="Stursova, Martina" uniqKey="Stursova M" first="Martina" last="Štursová">Martina Štursová</name><affiliation><nlm:aff id="aff1"><institution>Laboratory of Environmental Microbiology, Institute of Microbiology of the ASCR, v.v.i., Vídeňská</institution>, Praha,<country>Czech Republic</country></nlm:aff></affiliation></author><author><name sortKey="Kopeck, Jan" sort="Kopeck, Jan" uniqKey="Kopeck J" first="Jan" last="Kopeck">Jan Kopeck</name><affiliation><nlm:aff id="aff2"><institution>Crop Research Institute, Drnovská</institution>, Praha,<country>Czech Republic</country></nlm:aff></affiliation></author><author><name sortKey="Valaskova, Vendula" sort="Valaskova, Vendula" uniqKey="Valaskova V" first="Vendula" last="Valášková">Vendula Valášková</name><affiliation><nlm:aff id="aff1"><institution>Laboratory of Environmental Microbiology, Institute of Microbiology of the ASCR, v.v.i., Vídeňská</institution>, Praha,<country>Czech Republic</country></nlm:aff></affiliation></author><author><name sortKey="V Trovsk, Tomas" sort="V Trovsk, Tomas" uniqKey="V Trovsk T" first="Tomáš" last="V Trovsk">Tomáš V Trovsk</name><affiliation><nlm:aff id="aff1"><institution>Laboratory of Environmental Microbiology, Institute of Microbiology of the ASCR, v.v.i., Vídeňská</institution>, Praha,<country>Czech Republic</country></nlm:aff></affiliation></author><author><name sortKey="Zif Kova, Lucia" sort="Zif Kova, Lucia" uniqKey="Zif Kova L" first="Lucia" last="Žif Ková">Lucia Žif Ková</name><affiliation><nlm:aff id="aff1"><institution>Laboratory of Environmental Microbiology, Institute of Microbiology of the ASCR, v.v.i., Vídeňská</institution>, Praha,<country>Czech Republic</country></nlm:aff></affiliation></author><author><name sortKey="Snajdr, Jaroslav" sort="Snajdr, Jaroslav" uniqKey="Snajdr J" first="Jaroslav" last="Šnajdr">Jaroslav Šnajdr</name><affiliation><nlm:aff id="aff1"><institution>Laboratory of Environmental Microbiology, Institute of Microbiology of the ASCR, v.v.i., Vídeňská</institution>, Praha,<country>Czech Republic</country></nlm:aff></affiliation></author><author><name sortKey="Ridl, Jakub" sort="Ridl, Jakub" uniqKey="Ridl J" first="Jakub" last="Rídl">Jakub Rídl</name><affiliation><nlm:aff id="aff3"><institution>Institute of Molecular Genetics of the ASCR, v.v.i., Vídeňská</institution>, Praha,<country>Czech Republic</country></nlm:aff></affiliation></author><author><name sortKey="Vl Ek, Estmir" sort="Vl Ek, Estmir" uniqKey="Vl Ek " first=" Estmír" last="Vl Ek"> Estmír Vl Ek</name><affiliation><nlm:aff id="aff3"><institution>Institute of Molecular Genetics of the ASCR, v.v.i., Vídeňská</institution>, Praha,<country>Czech Republic</country></nlm:aff></affiliation></author><author><name sortKey="Vo Kova, Jana" sort="Vo Kova, Jana" uniqKey="Vo Kova J" first="Jana" last="Vo Ková">Jana Vo Ková</name><affiliation><nlm:aff id="aff1"><institution>Laboratory of Environmental Microbiology, Institute of Microbiology of the ASCR, v.v.i., Vídeňská</institution>, Praha,<country>Czech Republic</country></nlm:aff></affiliation></author></analytic><series><title level="j">The ISME Journal</title><idno type="ISSN">1751-7362</idno><idno type="eISSN">1751-7370</idno><imprint><date when="2011">2011</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p>Soils of coniferous forest ecosystems are important for the global carbon cycle, and the identification of active microbial decomposers is essential for understanding organic matter transformation in these ecosystems. By the independent analysis of DNA and RNA, whole communities of bacteria and fungi and its active members were compared in topsoil of a <italic>Picea abies</italic> forest during a period of organic matter decomposition. Fungi quantitatively dominate the microbial community in the litter horizon, while the organic horizon shows comparable amount of fungal and bacterial biomasses. Active microbial populations obtained by RNA analysis exhibit similar diversity as DNA-derived populations, but significantly differ in the composition of microbial taxa. Several highly active taxa, especially fungal ones, show low abundance or even absence in the DNA pool. Bacteria and especially fungi are often distinctly associated with a particular soil horizon. Fungal communities are less even than bacterial ones and show higher relative abundances of dominant species. While dominant bacterial species are distributed across the studied ecosystem, distribution of dominant fungi is often spatially restricted as they are only recovered at some locations. The sequences of <italic>cbhI</italic> gene encoding for cellobiohydrolase (exocellulase), an essential enzyme for cellulose decomposition, were compared in soil metagenome and metatranscriptome and assigned to their producers. Litter horizon exhibits higher diversity and higher proportion of expressed sequences than organic horizon. Cellulose decomposition is mediated by highly diverse fungal populations largely distinct between soil horizons. The results indicate that low-abundance species make an important contribution to decomposition processes in soils.</p></div></front></TEI><pmc article-type="research-article"><pmc-comment>The publisher of this article does not allow downloading of the full text in XML form.</pmc-comment>
<front><journal-meta><journal-id journal-id-type="nlm-ta">ISME J</journal-id><journal-title-group><journal-title>The ISME Journal</journal-title></journal-title-group><issn pub-type="ppub">1751-7362</issn><issn pub-type="epub">1751-7370</issn><publisher><publisher-name>Nature Publishing Group</publisher-name></publisher></journal-meta><article-meta><article-id pub-id-type="pmid">21776033</article-id><article-id pub-id-type="pmc">3260513</article-id><article-id pub-id-type="pii">ismej201195</article-id><article-id pub-id-type="doi">10.1038/ismej.2011.95</article-id><article-categories><subj-group subj-group-type="heading"><subject>Original Article</subject></subj-group></article-categories><title-group><article-title>Active and total microbial communities in forest soil are largely different and highly stratified during decomposition</article-title><alt-title alt-title-type="running">Topsoil fungi and bacteria active in decomposition</alt-title></title-group><contrib-group><contrib contrib-type="author"><name><surname>Baldrian</surname><given-names>Petr</given-names></name><xref ref-type="aff" rid="aff1">1</xref><xref ref-type="corresp" rid="caf1">*</xref></contrib><contrib contrib-type="author"><name><surname>Kolařík</surname><given-names>Miroslav</given-names></name><xref ref-type="aff" rid="aff1">1</xref></contrib><contrib contrib-type="author"><name><surname>Štursová</surname><given-names>Martina</given-names></name><xref ref-type="aff" rid="aff1">1</xref></contrib><contrib contrib-type="author"><name><surname>Kopecký</surname><given-names>Jan</given-names></name><xref ref-type="aff" rid="aff2">2</xref></contrib><contrib contrib-type="author"><name><surname>Valášková</surname><given-names>Vendula</given-names></name><xref ref-type="aff" rid="aff1">1</xref></contrib><contrib contrib-type="author"><name><surname>Větrovský</surname><given-names>Tomáš</given-names></name><xref ref-type="aff" rid="aff1">1</xref></contrib><contrib contrib-type="author"><name><surname>Žifčáková</surname><given-names>Lucia</given-names></name><xref ref-type="aff" rid="aff1">1</xref></contrib><contrib contrib-type="author"><name><surname>Šnajdr</surname><given-names>Jaroslav</given-names></name><xref ref-type="aff" rid="aff1">1</xref></contrib><contrib contrib-type="author"><name><surname>Rídl</surname><given-names>Jakub</given-names></name><xref ref-type="aff" rid="aff3">3</xref></contrib><contrib contrib-type="author"><name><surname>Vlček</surname><given-names>Čestmír</given-names></name><xref ref-type="aff" rid="aff3">3</xref></contrib><contrib contrib-type="author"><name><surname>Voříšková</surname><given-names>Jana</given-names></name><xref ref-type="aff" rid="aff1">1</xref></contrib><aff id="aff1"><label>1</label><institution>Laboratory of Environmental Microbiology, Institute of Microbiology of the ASCR, v.v.i., Vídeňská</institution>, Praha,<country>Czech Republic</country></aff><aff id="aff2"><label>2</label><institution>Crop Research Institute, Drnovská</institution>, Praha,<country>Czech Republic</country></aff><aff id="aff3"><label>3</label><institution>Institute of Molecular Genetics of the ASCR, v.v.i., Vídeňská</institution>, Praha,<country>Czech Republic</country></aff></contrib-group><author-notes><corresp id="caf1"><label>*</label><institution>Laboratory of Environmental Microbiology, Institute of Microbiology of the ASCR, v.v.i.</institution>, Vídeňská 1083, 14220 Praha 4, <country>Czech Republic</country>. E-mail: <email>baldrian@biomed.cas.cz</email></corresp></author-notes><pub-date pub-type="ppub"><month>02</month><year>2012</year></pub-date><pub-date pub-type="epub"><day>21</day><month>07</month><year>2011</year></pub-date><volume>6</volume><issue>2</issue><fpage>248</fpage><lpage>258</lpage><history><date date-type="received"><day>17</day><month>02</month><year>2011</year></date><date date-type="rev-recd"><day>16</day><month>06</month><year>2011</year></date><date date-type="accepted"><day>20</day><month>06</month><year>2011</year></date></history><permissions><copyright-statement>Copyright © 2012 International Society for Microbial Ecology</copyright-statement><copyright-year>2012</copyright-year><copyright-holder>International Society for Microbial Ecology</copyright-holder></permissions><abstract><p>Soils of coniferous forest ecosystems are important for the global carbon cycle, and the identification of active microbial decomposers is essential for understanding organic matter transformation in these ecosystems. By the independent analysis of DNA and RNA, whole communities of bacteria and fungi and its active members were compared in topsoil of a <italic>Picea abies</italic> forest during a period of organic matter decomposition. Fungi quantitatively dominate the microbial community in the litter horizon, while the organic horizon shows comparable amount of fungal and bacterial biomasses. Active microbial populations obtained by RNA analysis exhibit similar diversity as DNA-derived populations, but significantly differ in the composition of microbial taxa. Several highly active taxa, especially fungal ones, show low abundance or even absence in the DNA pool. Bacteria and especially fungi are often distinctly associated with a particular soil horizon. Fungal communities are less even than bacterial ones and show higher relative abundances of dominant species. While dominant bacterial species are distributed across the studied ecosystem, distribution of dominant fungi is often spatially restricted as they are only recovered at some locations. The sequences of <italic>cbhI</italic> gene encoding for cellobiohydrolase (exocellulase), an essential enzyme for cellulose decomposition, were compared in soil metagenome and metatranscriptome and assigned to their producers. Litter horizon exhibits higher diversity and higher proportion of expressed sequences than organic horizon. Cellulose decomposition is mediated by highly diverse fungal populations largely distinct between soil horizons. The results indicate that low-abundance species make an important contribution to decomposition processes in soils.</p></abstract><kwd-group><kwd>bacteria</kwd><kwd>cellulose decomposition</kwd><kwd>forest soil</kwd><kwd>fungi</kwd><kwd>RNA</kwd><kwd>transcription</kwd></kwd-group></article-meta></front></pmc></record>Pour manipuler ce document sous Unix (Dilib)
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