Differences in biomass degradation between newly isolated environmental strains of Clostridium thermocellum and heterogeneity in the size of the cellulosomal scaffoldin
Cellulolytic bacterial strains with high activity were isolated from cellulose degrading enrichment cultures derived from thermophilic biogas plants and environmental samples. The 16S rRNA gene sequences of the strains revealed >99.8% sequence identity and affiliation with the species Clostridium...
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| Veröffentlicht in: | Systematic and applied microbiology 2015-09, Vol.38 (6), p.424-432 |
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| creator | Koeck, D.E. Koellmeier, T. Zverlov, V.V. Liebl, W. Schwarz, W.H. |
| description | Cellulolytic bacterial strains with high activity were isolated from cellulose degrading enrichment cultures derived from thermophilic biogas plants and environmental samples. The 16S rRNA gene sequences of the strains revealed >99.8% sequence identity and affiliation with the species Clostridium thermocellum. The strains differed in their ability to degrade crystalline cellulose, especially at an elevated temperature of up to 67°C and at relatively low pH values (pH 6.5). To evaluate the influence of amino acid sequences on the discrepancies in cellulose degradation efficacy, the gene for the major cellulosomal component CelR was sequenced for all strains. The sequences were found to be almost identical (>99%). In contrast, the cellulosomal scaffoldin gene cipA showed more differences in the amino acid sequence and contained 8 or 9 cohesin modules, which indicated a different size of the cellulosome depending on the isolate. Based on MALDI-TOF MS analysis the relative abundance of important cellulosomal enzyme classes was determined. The strains with better biomass degradation properties (BC1 and NB2) had a significantly higher fraction of xylanases. |
| doi_str_mv | 10.1016/j.syapm.2015.06.005 |
| format | Article |
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The 16S rRNA gene sequences of the strains revealed >99.8% sequence identity and affiliation with the species Clostridium thermocellum. The strains differed in their ability to degrade crystalline cellulose, especially at an elevated temperature of up to 67°C and at relatively low pH values (pH 6.5). To evaluate the influence of amino acid sequences on the discrepancies in cellulose degradation efficacy, the gene for the major cellulosomal component CelR was sequenced for all strains. The sequences were found to be almost identical (>99%). In contrast, the cellulosomal scaffoldin gene cipA showed more differences in the amino acid sequence and contained 8 or 9 cohesin modules, which indicated a different size of the cellulosome depending on the isolate. Based on MALDI-TOF MS analysis the relative abundance of important cellulosomal enzyme classes was determined. The strains with better biomass degradation properties (BC1 and NB2) had a significantly higher fraction of xylanases.</description><identifier>ISSN: 0723-2020</identifier><identifier>EISSN: 1618-0984</identifier><identifier>DOI: 10.1016/j.syapm.2015.06.005</identifier><identifier>PMID: 26227216</identifier><language>eng</language><publisher>Germany: Elsevier GmbH</publisher><subject>Bacterial Proteins - genetics ; Biogas plant ; Bioreactors - microbiology ; Biotransformation ; Carrier Proteins - genetics ; Cellulose - metabolism ; Cellulosome ; Cellulosomes - chemistry ; Cellulosomes - enzymology ; Cellulosomes - genetics ; Cellulosomes - metabolism ; Clostridium thermocellum ; Clostridium thermocellum - enzymology ; Clostridium thermocellum - genetics ; Clostridium thermocellum - isolation & purification ; Clostridium thermocellum - metabolism ; DNA, Bacterial - chemistry ; DNA, Bacterial - genetics ; DNA, Ribosomal - chemistry ; DNA, Ribosomal - genetics ; Environmental Microbiology ; Genetic Variation ; Hydrogen-Ion Concentration ; Isolation ; Molecular Sequence Data ; Repressor Proteins - genetics ; RNA, Ribosomal, 16S - genetics ; Scaffoldin ; Sequence Analysis, DNA ; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization ; Temperature</subject><ispartof>Systematic and applied microbiology, 2015-09, Vol.38 (6), p.424-432</ispartof><rights>2015 Elsevier GmbH</rights><rights>Copyright © 2015 Elsevier GmbH. All rights reserved.</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c528t-3eba6a897769586530a56697e775b199261d681a3124b840f839e1ad6026d7123</citedby><cites>FETCH-LOGICAL-c528t-3eba6a897769586530a56697e775b199261d681a3124b840f839e1ad6026d7123</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktohtml>$$Uhttps://www.sciencedirect.com/science/article/pii/S0723202015000934$$EHTML$$P50$$Gelsevier$$H</linktohtml><link.rule.ids>314,776,780,3537,27901,27902,65306</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/26227216$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Koeck, D.E.</creatorcontrib><creatorcontrib>Koellmeier, T.</creatorcontrib><creatorcontrib>Zverlov, V.V.</creatorcontrib><creatorcontrib>Liebl, W.</creatorcontrib><creatorcontrib>Schwarz, W.H.</creatorcontrib><title>Differences in biomass degradation between newly isolated environmental strains of Clostridium thermocellum and heterogeneity in the size of the cellulosomal scaffoldin</title><title>Systematic and applied microbiology</title><addtitle>Syst Appl Microbiol</addtitle><description>Cellulolytic bacterial strains with high activity were isolated from cellulose degrading enrichment cultures derived from thermophilic biogas plants and environmental samples. The 16S rRNA gene sequences of the strains revealed >99.8% sequence identity and affiliation with the species Clostridium thermocellum. The strains differed in their ability to degrade crystalline cellulose, especially at an elevated temperature of up to 67°C and at relatively low pH values (pH 6.5). To evaluate the influence of amino acid sequences on the discrepancies in cellulose degradation efficacy, the gene for the major cellulosomal component CelR was sequenced for all strains. The sequences were found to be almost identical (>99%). In contrast, the cellulosomal scaffoldin gene cipA showed more differences in the amino acid sequence and contained 8 or 9 cohesin modules, which indicated a different size of the cellulosome depending on the isolate. Based on MALDI-TOF MS analysis the relative abundance of important cellulosomal enzyme classes was determined. The strains with better biomass degradation properties (BC1 and NB2) had a significantly higher fraction of xylanases.</description><subject>Bacterial Proteins - genetics</subject><subject>Biogas plant</subject><subject>Bioreactors - microbiology</subject><subject>Biotransformation</subject><subject>Carrier Proteins - genetics</subject><subject>Cellulose - metabolism</subject><subject>Cellulosome</subject><subject>Cellulosomes - chemistry</subject><subject>Cellulosomes - enzymology</subject><subject>Cellulosomes - genetics</subject><subject>Cellulosomes - metabolism</subject><subject>Clostridium thermocellum</subject><subject>Clostridium thermocellum - enzymology</subject><subject>Clostridium thermocellum - genetics</subject><subject>Clostridium thermocellum - isolation & purification</subject><subject>Clostridium thermocellum - metabolism</subject><subject>DNA, Bacterial - chemistry</subject><subject>DNA, Bacterial - genetics</subject><subject>DNA, Ribosomal - chemistry</subject><subject>DNA, Ribosomal - genetics</subject><subject>Environmental Microbiology</subject><subject>Genetic Variation</subject><subject>Hydrogen-Ion Concentration</subject><subject>Isolation</subject><subject>Molecular Sequence Data</subject><subject>Repressor Proteins - genetics</subject><subject>RNA, Ribosomal, 16S - genetics</subject><subject>Scaffoldin</subject><subject>Sequence Analysis, DNA</subject><subject>Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization</subject><subject>Temperature</subject><issn>0723-2020</issn><issn>1618-0984</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2015</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNqNkc9u1DAQxi0EokvLEyAhH7kkeOzYSQ4c0PJXqsSFni0nnrReJfZie1stT8Rj1ukWjhUne0a_b77RfIS8AVYDA_V-V6ej2S81ZyBrpmrG5DOyAQVdxfqueU42rOWi4oyzM_IqpR1j0PQKXpIzrjhvOagN-fPJTRNG9CMm6jwdXFhMStTidTTWZBdKD_Mdoqce7-YjdSnMJqOl6G9dDH5Bn81MU47G-UTDRLdzKJWz7rDQfINxCSPOcymMt_QGM8ZwjR5dPq6OhaDJ_cZVuf4f2DKh7FGmjmaawmydvyAvJjMnfP34npOrL59_br9Vlz--ft9-vKxGybtcCRyMMl3ftqqXnZKCGalU32LbygH6niuwqgMjgDdD17CpEz2CsYpxZVvg4py8O83dx_DrgCnrxaV1J-MxHJKGVkI5qRD9f6DAJZdMNAUVJ3SMIaWIk95Ht5h41MD0mqbe6Yc09ZqmZkqXNIvq7aPBYVjQ_tP8ja8AH04AlovcOow6jW7N0rqIY9Y2uCcN7gGyHLTZ</recordid><startdate>201509</startdate><enddate>201509</enddate><creator>Koeck, D.E.</creator><creator>Koellmeier, T.</creator><creator>Zverlov, V.V.</creator><creator>Liebl, W.</creator><creator>Schwarz, W.H.</creator><general>Elsevier GmbH</general><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7X8</scope><scope>7QL</scope><scope>C1K</scope></search><sort><creationdate>201509</creationdate><title>Differences in biomass degradation between newly isolated environmental strains of Clostridium thermocellum and heterogeneity in the size of the cellulosomal scaffoldin</title><author>Koeck, D.E. ; Koellmeier, T. ; Zverlov, V.V. ; Liebl, W. ; Schwarz, W.H.</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c528t-3eba6a897769586530a56697e775b199261d681a3124b840f839e1ad6026d7123</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2015</creationdate><topic>Bacterial Proteins - genetics</topic><topic>Biogas plant</topic><topic>Bioreactors - microbiology</topic><topic>Biotransformation</topic><topic>Carrier Proteins - genetics</topic><topic>Cellulose - metabolism</topic><topic>Cellulosome</topic><topic>Cellulosomes - chemistry</topic><topic>Cellulosomes - enzymology</topic><topic>Cellulosomes - genetics</topic><topic>Cellulosomes - metabolism</topic><topic>Clostridium thermocellum</topic><topic>Clostridium thermocellum - enzymology</topic><topic>Clostridium thermocellum - genetics</topic><topic>Clostridium thermocellum - isolation & purification</topic><topic>Clostridium thermocellum - metabolism</topic><topic>DNA, Bacterial - chemistry</topic><topic>DNA, Bacterial - genetics</topic><topic>DNA, Ribosomal - chemistry</topic><topic>DNA, Ribosomal - genetics</topic><topic>Environmental Microbiology</topic><topic>Genetic Variation</topic><topic>Hydrogen-Ion Concentration</topic><topic>Isolation</topic><topic>Molecular Sequence Data</topic><topic>Repressor Proteins - genetics</topic><topic>RNA, Ribosomal, 16S - genetics</topic><topic>Scaffoldin</topic><topic>Sequence Analysis, DNA</topic><topic>Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization</topic><topic>Temperature</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Koeck, D.E.</creatorcontrib><creatorcontrib>Koellmeier, T.</creatorcontrib><creatorcontrib>Zverlov, V.V.</creatorcontrib><creatorcontrib>Liebl, W.</creatorcontrib><creatorcontrib>Schwarz, W.H.</creatorcontrib><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>MEDLINE - Academic</collection><collection>Bacteriology Abstracts (Microbiology B)</collection><collection>Environmental Sciences and Pollution Management</collection><jtitle>Systematic and applied microbiology</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Koeck, D.E.</au><au>Koellmeier, T.</au><au>Zverlov, V.V.</au><au>Liebl, W.</au><au>Schwarz, W.H.</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Differences in biomass degradation between newly isolated environmental strains of Clostridium thermocellum and heterogeneity in the size of the cellulosomal scaffoldin</atitle><jtitle>Systematic and applied microbiology</jtitle><addtitle>Syst Appl Microbiol</addtitle><date>2015-09</date><risdate>2015</risdate><volume>38</volume><issue>6</issue><spage>424</spage><epage>432</epage><pages>424-432</pages><issn>0723-2020</issn><eissn>1618-0984</eissn><abstract>Cellulolytic bacterial strains with high activity were isolated from cellulose degrading enrichment cultures derived from thermophilic biogas plants and environmental samples. The 16S rRNA gene sequences of the strains revealed >99.8% sequence identity and affiliation with the species Clostridium thermocellum. The strains differed in their ability to degrade crystalline cellulose, especially at an elevated temperature of up to 67°C and at relatively low pH values (pH 6.5). To evaluate the influence of amino acid sequences on the discrepancies in cellulose degradation efficacy, the gene for the major cellulosomal component CelR was sequenced for all strains. The sequences were found to be almost identical (>99%). In contrast, the cellulosomal scaffoldin gene cipA showed more differences in the amino acid sequence and contained 8 or 9 cohesin modules, which indicated a different size of the cellulosome depending on the isolate. Based on MALDI-TOF MS analysis the relative abundance of important cellulosomal enzyme classes was determined. The strains with better biomass degradation properties (BC1 and NB2) had a significantly higher fraction of xylanases.</abstract><cop>Germany</cop><pub>Elsevier GmbH</pub><pmid>26227216</pmid><doi>10.1016/j.syapm.2015.06.005</doi><tpages>9</tpages></addata></record> |
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| subjects | Bacterial Proteins - genetics Biogas plant Bioreactors - microbiology Biotransformation Carrier Proteins - genetics Cellulose - metabolism Cellulosome Cellulosomes - chemistry Cellulosomes - enzymology Cellulosomes - genetics Cellulosomes - metabolism Clostridium thermocellum Clostridium thermocellum - enzymology Clostridium thermocellum - genetics Clostridium thermocellum - isolation & purification Clostridium thermocellum - metabolism DNA, Bacterial - chemistry DNA, Bacterial - genetics DNA, Ribosomal - chemistry DNA, Ribosomal - genetics Environmental Microbiology Genetic Variation Hydrogen-Ion Concentration Isolation Molecular Sequence Data Repressor Proteins - genetics RNA, Ribosomal, 16S - genetics Scaffoldin Sequence Analysis, DNA Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization Temperature |
| title | Differences in biomass degradation between newly isolated environmental strains of Clostridium thermocellum and heterogeneity in the size of the cellulosomal scaffoldin |
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