Members of the uncultured bacterial candidate division WWE1 are implicated in anaerobic digestion of cellulose.
Identifieur interne : 000592 ( Main/Corpus ); précédent : 000591; suivant : 000593Members of the uncultured bacterial candidate division WWE1 are implicated in anaerobic digestion of cellulose.
Auteurs : Rim Driss Limam ; Rakia Chouari ; Laurent Mazéas ; Ting-Di Wu ; Tianlun Li ; Julien Grossin-Debattista ; Jean-Luc Guerquin-Kern ; Mouldi Saidi ; Ahmed Landoulsi ; Abdelghani Sghir ; Théodore BouchezSource :
- MicrobiologyOpen [ 2045-8827 ] ; 2014.
English descriptors
- KwdEn :
- MESH :
- chemical , metabolism : Carbon Isotopes, Cellulose.
- genetics : Bacteria.
- isolation & purification : Bacteria.
- metabolism : Bacteria.
- chemical , microbiology : Waste Water.
- Anaerobiosis, Biota, In Situ Hybridization, Fluorescence, Isotope Labeling.
Abstract
Clones of the WWE1 (Waste Water of Evry 1) candidate division were retrieved during the exploration of the bacterial diversity of an anaerobic mesophilic (35 ± 0.5°C) digester. In order to investigate the metabolic function of WWE1 members, a 16S rRNA gene -based stable isotope probing (SIP) method was used. Eighty-seven percent of 16S r rRNA gene sequences affiliated to WWE1 candidate division were retrieved in a clone library obtained after polymerase chain reaction (PCR) amplification of enriched DNA fraction from anaerobic municipal solid waste samples incubated with (13) C-cellulose, at the end of the incubation (day 63) using a Pla46F-1390R primer pair. The design of a specific WWE1 probe associated with the fluorescence in situ hybridization (FISH) technique corroborated the abundant representation of WWE1 members in our (13) C-cellulose incubations. Secondary ion mass spectrometry-in situ hybridization (SIMSISH) using an iodine-labeled oligonucleotide probe combined with high-resolution nanometer-scale SIMS (NanoSIMS) observation confirmed the isotopic enrichment of members of WWE1 candidate division. The (13) C apparent isotopic composition of hybridized WWE1 cells reached the value of about 40% early during the cellulose degradation process, suggesting that these bacteria play a role either in an extracellular cellulose hydrolysis process and/or in the uptake fermentation products.
DOI: 10.1002/mbo3.144
PubMed: 24497501
PubMed Central: PMC3996565
Links to Exploration step
pubmed:24497501Le document en format XML
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CEA/Genoscope CNS 2, rue Gaston Crémieux, Evry, 91000, France; University of Evry-Val d'Essonne, Evry, 91057, France; UR04CNSTN01 "Medical and Agricultural Applications of Nuclear Techniques", CNSTN, Sidi Thabet, Ariana, 2020, Tunisia; Faculté des Sciences de Bizerte, Laboratoire de Biochimie et Biologie Moléculaire, 03/UR/0902, Bizerte, Tunisia.</nlm:affiliation></affiliation></author><author><name sortKey="Chouari, Rakia" sort="Chouari, Rakia" uniqKey="Chouari R" first="Rakia" last="Chouari">Rakia Chouari</name></author><author><name sortKey="Mazeas, Laurent" sort="Mazeas, Laurent" uniqKey="Mazeas L" first="Laurent" last="Mazéas">Laurent Mazéas</name></author><author><name sortKey="Wu, Ting Di" sort="Wu, Ting Di" uniqKey="Wu T" first="Ting-Di" last="Wu">Ting-Di Wu</name></author><author><name sortKey="Li, Tianlun" sort="Li, Tianlun" uniqKey="Li T" first="Tianlun" last="Li">Tianlun Li</name></author><author><name sortKey="Grossin Debattista, Julien" sort="Grossin Debattista, Julien" uniqKey="Grossin Debattista J" first="Julien" last="Grossin-Debattista">Julien Grossin-Debattista</name></author><author><name sortKey="Guerquin Kern, Jean Luc" sort="Guerquin Kern, Jean Luc" uniqKey="Guerquin Kern J" first="Jean-Luc" last="Guerquin-Kern">Jean-Luc Guerquin-Kern</name></author><author><name sortKey="Saidi, Mouldi" sort="Saidi, Mouldi" uniqKey="Saidi M" first="Mouldi" last="Saidi">Mouldi Saidi</name></author><author><name sortKey="Landoulsi, Ahmed" sort="Landoulsi, Ahmed" uniqKey="Landoulsi A" first="Ahmed" last="Landoulsi">Ahmed Landoulsi</name></author><author><name sortKey="Sghir, Abdelghani" sort="Sghir, Abdelghani" uniqKey="Sghir A" first="Abdelghani" last="Sghir">Abdelghani Sghir</name></author><author><name sortKey="Bouchez, Theodore" sort="Bouchez, Theodore" uniqKey="Bouchez T" first="Théodore" last="Bouchez">Théodore Bouchez</name></author></analytic><series><title level="j">MicrobiologyOpen</title><idno type="eISSN">2045-8827</idno><imprint><date when="2014" type="published">2014</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Anaerobiosis (MeSH)</term><term>Bacteria (genetics)</term><term>Bacteria (isolation & purification)</term><term>Bacteria (metabolism)</term><term>Biota (MeSH)</term><term>Carbon Isotopes (metabolism)</term><term>Cellulose (metabolism)</term><term>In Situ Hybridization, Fluorescence (MeSH)</term><term>Isotope Labeling (MeSH)</term><term>Waste Water (microbiology)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="metabolism" xml:lang="en"><term>Carbon Isotopes</term><term>Cellulose</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Bacteria</term></keywords><keywords scheme="MESH" qualifier="isolation & purification" xml:lang="en"><term>Bacteria</term></keywords><keywords scheme="MESH" qualifier="metabolism" xml:lang="en"><term>Bacteria</term></keywords><keywords scheme="MESH" type="chemical" qualifier="microbiology" xml:lang="en"><term>Waste Water</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Anaerobiosis</term><term>Biota</term><term>In Situ Hybridization, Fluorescence</term><term>Isotope Labeling</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Clones of the WWE1 (Waste Water of Evry 1) candidate division were retrieved during the exploration of the bacterial diversity of an anaerobic mesophilic (35 ± 0.5°C) digester. In order to investigate the metabolic function of WWE1 members, a 16S rRNA gene -based stable isotope probing (SIP) method was used. Eighty-seven percent of 16S r rRNA gene sequences affiliated to WWE1 candidate division were retrieved in a clone library obtained after polymerase chain reaction (PCR) amplification of enriched DNA fraction from anaerobic municipal solid waste samples incubated with (13) C-cellulose, at the end of the incubation (day 63) using a Pla46F-1390R primer pair. The design of a specific WWE1 probe associated with the fluorescence in situ hybridization (FISH) technique corroborated the abundant representation of WWE1 members in our (13) C-cellulose incubations. Secondary ion mass spectrometry-in situ hybridization (SIMSISH) using an iodine-labeled oligonucleotide probe combined with high-resolution nanometer-scale SIMS (NanoSIMS) observation confirmed the isotopic enrichment of members of WWE1 candidate division. The (13) C apparent isotopic composition of hybridized WWE1 cells reached the value of about 40% early during the cellulose degradation process, suggesting that these bacteria play a role either in an extracellular cellulose hydrolysis process and/or in the uptake fermentation products.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">24497501</PMID><DateCompleted><Year>2014</Year><Month>11</Month><Day>24</Day></DateCompleted><DateRevised><Year>2018</Year><Month>11</Month><Day>13</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">2045-8827</ISSN><JournalIssue CitedMedium="Internet"><Volume>3</Volume><Issue>2</Issue><PubDate><Year>2014</Year><Month>Apr</Month></PubDate></JournalIssue><Title>MicrobiologyOpen</Title><ISOAbbreviation>Microbiologyopen</ISOAbbreviation></Journal><ArticleTitle>Members of the uncultured bacterial candidate division WWE1 are implicated in anaerobic digestion of cellulose.</ArticleTitle><Pagination><MedlinePgn>157-67</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1002/mbo3.144</ELocationID><Abstract><AbstractText>Clones of the WWE1 (Waste Water of Evry 1) candidate division were retrieved during the exploration of the bacterial diversity of an anaerobic mesophilic (35 ± 0.5°C) digester. In order to investigate the metabolic function of WWE1 members, a 16S rRNA gene -based stable isotope probing (SIP) method was used. Eighty-seven percent of 16S r rRNA gene sequences affiliated to WWE1 candidate division were retrieved in a clone library obtained after polymerase chain reaction (PCR) amplification of enriched DNA fraction from anaerobic municipal solid waste samples incubated with (13) C-cellulose, at the end of the incubation (day 63) using a Pla46F-1390R primer pair. The design of a specific WWE1 probe associated with the fluorescence in situ hybridization (FISH) technique corroborated the abundant representation of WWE1 members in our (13) C-cellulose incubations. Secondary ion mass spectrometry-in situ hybridization (SIMSISH) using an iodine-labeled oligonucleotide probe combined with high-resolution nanometer-scale SIMS (NanoSIMS) observation confirmed the isotopic enrichment of members of WWE1 candidate division. The (13) C apparent isotopic composition of hybridized WWE1 cells reached the value of about 40% early during the cellulose degradation process, suggesting that these bacteria play a role either in an extracellular cellulose hydrolysis process and/or in the uptake fermentation products.</AbstractText><CopyrightInformation>© 2013 The Authors. MicrobiologyOpen published by John Wiley & Sons Ltd.</CopyrightInformation></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Limam</LastName><ForeName>Rim Driss</ForeName><Initials>RD</Initials><AffiliationInfo><Affiliation>Irstea, UR HBAN, 1 rue Pierre-Gilles de Gennes CS 10030, F-92761, Antony Cedex, France; CEA/Genoscope CNS 2, rue Gaston Crémieux, Evry, 91000, France; University of Evry-Val d'Essonne, Evry, 91057, France; UR04CNSTN01 "Medical and Agricultural Applications of Nuclear Techniques", CNSTN, Sidi Thabet, Ariana, 2020, Tunisia; Faculté des Sciences de Bizerte, Laboratoire de Biochimie et Biologie Moléculaire, 03/UR/0902, Bizerte, Tunisia.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Chouari</LastName><ForeName>Rakia</ForeName><Initials>R</Initials></Author><Author ValidYN="Y"><LastName>Mazéas</LastName><ForeName>Laurent</ForeName><Initials>L</Initials></Author><Author ValidYN="Y"><LastName>Wu</LastName><ForeName>Ting-Di</ForeName><Initials>TD</Initials></Author><Author ValidYN="Y"><LastName>Li</LastName><ForeName>Tianlun</ForeName><Initials>T</Initials></Author><Author ValidYN="Y"><LastName>Grossin-Debattista</LastName><ForeName>Julien</ForeName><Initials>J</Initials></Author><Author ValidYN="Y"><LastName>Guerquin-Kern</LastName><ForeName>Jean-Luc</ForeName><Initials>JL</Initials></Author><Author ValidYN="Y"><LastName>Saidi</LastName><ForeName>Mouldi</ForeName><Initials>M</Initials></Author><Author ValidYN="Y"><LastName>Landoulsi</LastName><ForeName>Ahmed</ForeName><Initials>A</Initials></Author><Author ValidYN="Y"><LastName>Sghir</LastName><ForeName>Abdelghani</ForeName><Initials>A</Initials></Author><Author ValidYN="Y"><LastName>Bouchez</LastName><ForeName>Théodore</ForeName><Initials>T</Initials></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType><PublicationType UI="D013485">Research Support, Non-U.S. Gov't</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2014</Year><Month>02</Month><Day>05</Day></ArticleDate></Article><MedlineJournalInfo><Country>England</Country><MedlineTA>Microbiologyopen</MedlineTA><NlmUniqueID>101588314</NlmUniqueID><ISSNLinking>2045-8827</ISSNLinking></MedlineJournalInfo><ChemicalList><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D002247">Carbon Isotopes</NameOfSubstance></Chemical><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D062065">Waste Water</NameOfSubstance></Chemical><Chemical><RegistryNumber>9004-34-6</RegistryNumber><NameOfSubstance UI="D002482">Cellulose</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D000693" MajorTopicYN="N">Anaerobiosis</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D001419" MajorTopicYN="N">Bacteria</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName><QualifierName UI="Q000302" MajorTopicYN="Y">isolation & purification</QualifierName><QualifierName UI="Q000378" MajorTopicYN="Y">metabolism</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D058448" MajorTopicYN="N">Biota</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D002247" MajorTopicYN="N">Carbon Isotopes</DescriptorName><QualifierName UI="Q000378" MajorTopicYN="N">metabolism</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D002482" MajorTopicYN="N">Cellulose</DescriptorName><QualifierName UI="Q000378" MajorTopicYN="Y">metabolism</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D017404" MajorTopicYN="N">In Situ Hybridization, Fluorescence</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D007553" MajorTopicYN="N">Isotope Labeling</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D062065" MajorTopicYN="N">Waste Water</DescriptorName><QualifierName UI="Q000382" MajorTopicYN="Y">microbiology</QualifierName></MeshHeading></MeshHeadingList><KeywordList Owner="NOTNLM"><Keyword MajorTopicYN="N">Cellulose anaerobic digestion</Keyword><Keyword MajorTopicYN="N">FISH</Keyword><Keyword MajorTopicYN="N">SIMSISH</Keyword><Keyword MajorTopicYN="N">SIP</Keyword><Keyword MajorTopicYN="N">WWE1 candidate division</Keyword></KeywordList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="received"><Year>2013</Year><Month>05</Month><Day>31</Day></PubMedPubDate><PubMedPubDate PubStatus="revised"><Year>2013</Year><Month>10</Month><Day>21</Day></PubMedPubDate><PubMedPubDate PubStatus="accepted"><Year>2013</Year><Month>10</Month><Day>28</Day></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2014</Year><Month>2</Month><Day>6</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate 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