Sequencing and comparison of the mitochondrial COI gene from isolates of Arbuscular Mycorrhizal Fungi belonging to Gigasporaceae and Glomeraceae families.
Identifieur interne : 001939 ( Main/Corpus ); précédent : 001938; suivant : 001940Sequencing and comparison of the mitochondrial COI gene from isolates of Arbuscular Mycorrhizal Fungi belonging to Gigasporaceae and Glomeraceae families.
Auteurs : Roberto Borriello ; Valeria Bianciotto ; Alberto Orgiazzi ; Erica Lumini ; Roberta BergeroSource :
- Molecular phylogenetics and evolution [ 1095-9513 ] ; 2014.
English descriptors
- KwdEn :
- Biological Evolution (MeSH), DNA Primers (MeSH), DNA, Fungal (genetics), DNA, Mitochondrial (genetics), Electron Transport Complex IV (genetics), Glomeromycota (classification), Glomeromycota (enzymology), Glomeromycota (genetics), Likelihood Functions (MeSH), Mycorrhizae (classification), Mycorrhizae (enzymology), Mycorrhizae (genetics), Phylogeny (MeSH), Polymorphism, Genetic (MeSH), Sequence Analysis, DNA (MeSH).
- MESH :
- chemical , genetics : DNA, Fungal, DNA, Mitochondrial, Electron Transport Complex IV.
- chemical : DNA Primers.
- classification : Glomeromycota, Mycorrhizae.
- enzymology : Glomeromycota, Mycorrhizae.
- genetics : Glomeromycota, Mycorrhizae.
- Biological Evolution, Likelihood Functions, Phylogeny, Polymorphism, Genetic, Sequence Analysis, DNA.
Abstract
Arbuscular Mycorrhizal Fungi (AMF) are well known for their ecological importance and their positive influence on plants. The genetics and phylogeny of this group of fungi have long been debated. Nuclear markers are the main tools used for phylogenetic analyses, but they have sometimes proved difficult to use because of their extreme variability. Therefore, the attention of researchers has been moving towards other genomic markers, in particular those from the mitochondrial DNA. In this study, 46 sequences of different AMF isolates belonging to two main clades Gigasporaceae and Glomeraceae have been obtained from the mitochondrial gene coding for the Cytochrome c Oxidase I (COI), representing the largest dataset to date of AMF COI sequences. A very low level of divergence was recorded in the COI sequences from the Gigasporaceae, which could reflect either a slow rate of evolution or a more recent evolutionary divergence of this group. On the other hand, the COI sequence divergence between Gigasporaceae and Glomeraceae was high, with synonymous divergence reaching saturated levels. This work also showed the difficulty in developing valuable mitochondrial markers able to effectively distinguish all Glomeromycota species, especially those belonging to Gigasporaceae, yet it represents a first step towards the development of a full mtDNA-based dataset which can be used for further phylogenetic investigations of this fungal phylum.
DOI: 10.1016/j.ympev.2014.02.012
PubMed: 24569015
Links to Exploration step
pubmed:24569015Le document en format XML
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Mattioli 25, Turin 10125, Italy.</nlm:affiliation></affiliation></author><author><name sortKey="Orgiazzi, Alberto" sort="Orgiazzi, Alberto" uniqKey="Orgiazzi A" first="Alberto" last="Orgiazzi">Alberto Orgiazzi</name><affiliation><nlm:affiliation>European Commission, Joint Research Centre, Institute for Environment and Sustainability, Via E. Fermi, 2749, Ispra, VA I-21027, Italy.</nlm:affiliation></affiliation></author><author><name sortKey="Lumini, Erica" sort="Lumini, Erica" uniqKey="Lumini E" first="Erica" last="Lumini">Erica Lumini</name><affiliation><nlm:affiliation>Plant Protection Institute (IPP)-Turin UOS, National Research Council (CNR), c/o Department of Life Science and Systems Biology, University of Turin, Viale P.A. Mattioli 25, Turin 10125, Italy. Electronic address: erica.lumini@ipp.cnr.it.</nlm:affiliation></affiliation></author><author><name sortKey="Bergero, Roberta" sort="Bergero, Roberta" uniqKey="Bergero R" first="Roberta" last="Bergero">Roberta Bergero</name><affiliation><nlm:affiliation>Institute of Evolutionary Biology, Ashworth Laboratories, University of Edinburgh, West Mains Road, Edinburgh EH9 3JT, United Kingdom. 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Mattioli 25, Turin 10125, Italy.</nlm:affiliation></affiliation></author><author><name sortKey="Bianciotto, Valeria" sort="Bianciotto, Valeria" uniqKey="Bianciotto V" first="Valeria" last="Bianciotto">Valeria Bianciotto</name><affiliation><nlm:affiliation>Plant Protection Institute (IPP)-Turin UOS, National Research Council (CNR), c/o Department of Life Science and Systems Biology, University of Turin, Viale P.A. Mattioli 25, Turin 10125, Italy.</nlm:affiliation></affiliation></author><author><name sortKey="Orgiazzi, Alberto" sort="Orgiazzi, Alberto" uniqKey="Orgiazzi A" first="Alberto" last="Orgiazzi">Alberto Orgiazzi</name><affiliation><nlm:affiliation>European Commission, Joint Research Centre, Institute for Environment and Sustainability, Via E. Fermi, 2749, Ispra, VA I-21027, Italy.</nlm:affiliation></affiliation></author><author><name sortKey="Lumini, Erica" sort="Lumini, Erica" uniqKey="Lumini E" first="Erica" last="Lumini">Erica Lumini</name><affiliation><nlm:affiliation>Plant Protection Institute (IPP)-Turin UOS, National Research Council (CNR), c/o Department of Life Science and Systems Biology, University of Turin, Viale P.A. Mattioli 25, Turin 10125, Italy. Electronic address: erica.lumini@ipp.cnr.it.</nlm:affiliation></affiliation></author><author><name sortKey="Bergero, Roberta" sort="Bergero, Roberta" uniqKey="Bergero R" first="Roberta" last="Bergero">Roberta Bergero</name><affiliation><nlm:affiliation>Institute of Evolutionary Biology, Ashworth Laboratories, University of Edinburgh, West Mains Road, Edinburgh EH9 3JT, United Kingdom. Electronic address: r.bergero@ed.ac.uk.</nlm:affiliation></affiliation></author></analytic><series><title level="j">Molecular phylogenetics and evolution</title><idno type="eISSN">1095-9513</idno><imprint><date when="2014" type="published">2014</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Biological Evolution (MeSH)</term><term>DNA Primers (MeSH)</term><term>DNA, Fungal (genetics)</term><term>DNA, Mitochondrial (genetics)</term><term>Electron Transport Complex IV (genetics)</term><term>Glomeromycota (classification)</term><term>Glomeromycota (enzymology)</term><term>Glomeromycota (genetics)</term><term>Likelihood Functions (MeSH)</term><term>Mycorrhizae (classification)</term><term>Mycorrhizae (enzymology)</term><term>Mycorrhizae (genetics)</term><term>Phylogeny (MeSH)</term><term>Polymorphism, Genetic (MeSH)</term><term>Sequence Analysis, DNA (MeSH)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>DNA, Fungal</term><term>DNA, Mitochondrial</term><term>Electron Transport Complex IV</term></keywords><keywords scheme="MESH" type="chemical" xml:lang="en"><term>DNA Primers</term></keywords><keywords scheme="MESH" qualifier="classification" xml:lang="en"><term>Glomeromycota</term><term>Mycorrhizae</term></keywords><keywords scheme="MESH" qualifier="enzymology" xml:lang="en"><term>Glomeromycota</term><term>Mycorrhizae</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Glomeromycota</term><term>Mycorrhizae</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Biological Evolution</term><term>Likelihood Functions</term><term>Phylogeny</term><term>Polymorphism, Genetic</term><term>Sequence Analysis, DNA</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Arbuscular Mycorrhizal Fungi (AMF) are well known for their ecological importance and their positive influence on plants. The genetics and phylogeny of this group of fungi have long been debated. Nuclear markers are the main tools used for phylogenetic analyses, but they have sometimes proved difficult to use because of their extreme variability. Therefore, the attention of researchers has been moving towards other genomic markers, in particular those from the mitochondrial DNA. In this study, 46 sequences of different AMF isolates belonging to two main clades Gigasporaceae and Glomeraceae have been obtained from the mitochondrial gene coding for the Cytochrome c Oxidase I (COI), representing the largest dataset to date of AMF COI sequences. A very low level of divergence was recorded in the COI sequences from the Gigasporaceae, which could reflect either a slow rate of evolution or a more recent evolutionary divergence of this group. On the other hand, the COI sequence divergence between Gigasporaceae and Glomeraceae was high, with synonymous divergence reaching saturated levels. This work also showed the difficulty in developing valuable mitochondrial markers able to effectively distinguish all Glomeromycota species, especially those belonging to Gigasporaceae, yet it represents a first step towards the development of a full mtDNA-based dataset which can be used for further phylogenetic investigations of this fungal phylum. </div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" IndexingMethod="Curated" Owner="NLM"><PMID Version="1">24569015</PMID><DateCompleted><Year>2014</Year><Month>06</Month><Day>05</Day></DateCompleted><DateRevised><Year>2018</Year><Month>12</Month><Day>02</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1095-9513</ISSN><JournalIssue CitedMedium="Internet"><Volume>75</Volume><PubDate><Year>2014</Year><Month>Jun</Month></PubDate></JournalIssue><Title>Molecular phylogenetics and evolution</Title><ISOAbbreviation>Mol Phylogenet Evol</ISOAbbreviation></Journal><ArticleTitle>Sequencing and comparison of the mitochondrial COI gene from isolates of Arbuscular Mycorrhizal Fungi belonging to Gigasporaceae and Glomeraceae families.</ArticleTitle><Pagination><MedlinePgn>1-10</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1016/j.ympev.2014.02.012</ELocationID><ELocationID EIdType="pii" ValidYN="Y">S1055-7903(14)00063-3</ELocationID><Abstract><AbstractText>Arbuscular Mycorrhizal Fungi (AMF) are well known for their ecological importance and their positive influence on plants. The genetics and phylogeny of this group of fungi have long been debated. Nuclear markers are the main tools used for phylogenetic analyses, but they have sometimes proved difficult to use because of their extreme variability. Therefore, the attention of researchers has been moving towards other genomic markers, in particular those from the mitochondrial DNA. In this study, 46 sequences of different AMF isolates belonging to two main clades Gigasporaceae and Glomeraceae have been obtained from the mitochondrial gene coding for the Cytochrome c Oxidase I (COI), representing the largest dataset to date of AMF COI sequences. A very low level of divergence was recorded in the COI sequences from the Gigasporaceae, which could reflect either a slow rate of evolution or a more recent evolutionary divergence of this group. On the other hand, the COI sequence divergence between Gigasporaceae and Glomeraceae was high, with synonymous divergence reaching saturated levels. This work also showed the difficulty in developing valuable mitochondrial markers able to effectively distinguish all Glomeromycota species, especially those belonging to Gigasporaceae, yet it represents a first step towards the development of a full mtDNA-based dataset which can be used for further phylogenetic investigations of this fungal phylum. </AbstractText><CopyrightInformation>Copyright © 2014 Elsevier Inc. All rights reserved.</CopyrightInformation></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Borriello</LastName><ForeName>Roberto</ForeName><Initials>R</Initials><AffiliationInfo><Affiliation>Plant Protection Institute (IPP)-Turin UOS, National Research Council (CNR), c/o Department of Life Science and Systems Biology, University of Turin, Viale P.A. Mattioli 25, Turin 10125, Italy.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Bianciotto</LastName><ForeName>Valeria</ForeName><Initials>V</Initials><AffiliationInfo><Affiliation>Plant Protection Institute (IPP)-Turin UOS, National Research Council (CNR), c/o Department of Life Science and Systems Biology, University of Turin, Viale P.A. Mattioli 25, Turin 10125, Italy.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Orgiazzi</LastName><ForeName>Alberto</ForeName><Initials>A</Initials><AffiliationInfo><Affiliation>European Commission, Joint Research Centre, Institute for Environment and Sustainability, Via E. Fermi, 2749, Ispra, VA I-21027, Italy.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Lumini</LastName><ForeName>Erica</ForeName><Initials>E</Initials><AffiliationInfo><Affiliation>Plant Protection Institute (IPP)-Turin UOS, National Research Council (CNR), c/o Department of Life Science and Systems Biology, University of Turin, Viale P.A. Mattioli 25, Turin 10125, Italy. Electronic address: erica.lumini@ipp.cnr.it.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Bergero</LastName><ForeName>Roberta</ForeName><Initials>R</Initials><AffiliationInfo><Affiliation>Institute of Evolutionary Biology, Ashworth Laboratories, University of Edinburgh, West Mains Road, Edinburgh EH9 3JT, United Kingdom. Electronic address: r.bergero@ed.ac.uk.</Affiliation></AffiliationInfo></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>22</Day></ArticleDate></Article><MedlineJournalInfo><Country>United States</Country><MedlineTA>Mol Phylogenet Evol</MedlineTA><NlmUniqueID>9304400</NlmUniqueID><ISSNLinking>1055-7903</ISSNLinking></MedlineJournalInfo><ChemicalList><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D017931">DNA Primers</NameOfSubstance></Chemical><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D004271">DNA, Fungal</NameOfSubstance></Chemical><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D004272">DNA, Mitochondrial</NameOfSubstance></Chemical><Chemical><RegistryNumber>EC 1.9.3.1</RegistryNumber><NameOfSubstance UI="D003576">Electron Transport Complex IV</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D005075" MajorTopicYN="N">Biological Evolution</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D017931" MajorTopicYN="N">DNA Primers</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D004271" MajorTopicYN="N">DNA, Fungal</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D004272" MajorTopicYN="N">DNA, Mitochondrial</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D003576" MajorTopicYN="N">Electron Transport Complex IV</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D055137" MajorTopicYN="N">Glomeromycota</DescriptorName><QualifierName UI="Q000145" MajorTopicYN="N">classification</QualifierName><QualifierName UI="Q000201" MajorTopicYN="Y">enzymology</QualifierName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D016013" MajorTopicYN="N">Likelihood Functions</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D038821" MajorTopicYN="N">Mycorrhizae</DescriptorName><QualifierName UI="Q000145" MajorTopicYN="N">classification</QualifierName><QualifierName UI="Q000201" MajorTopicYN="Y">enzymology</QualifierName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D010802" MajorTopicYN="Y">Phylogeny</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D011110" MajorTopicYN="N">Polymorphism, Genetic</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D017422" MajorTopicYN="N">Sequence Analysis, DNA</DescriptorName></MeshHeading></MeshHeadingList><KeywordList Owner="NOTNLM"><Keyword MajorTopicYN="N">COI</Keyword><Keyword MajorTopicYN="N">Divergence</Keyword><Keyword MajorTopicYN="N">Glomeromycota</Keyword><Keyword MajorTopicYN="N">Marker gene</Keyword><Keyword MajorTopicYN="N">Mitochondrial DNA</Keyword><Keyword MajorTopicYN="N">Polymorphisms</Keyword></KeywordList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="received"><Year>2013</Year><Month>07</Month><Day>26</Day></PubMedPubDate><PubMedPubDate PubStatus="revised"><Year>2014</Year><Month>02</Month><Day>12</Day></PubMedPubDate><PubMedPubDate PubStatus="accepted"><Year>2014</Year><Month>02</Month><Day>14</Day></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2014</Year><Month>2</Month><Day>27</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="pubmed"><Year>2014</Year><Month>2</Month><Day>27</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2014</Year><Month>6</Month><Day>6</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>ppublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">24569015</ArticleId><ArticleId IdType="pii">S1055-7903(14)00063-3</ArticleId><ArticleId IdType="doi">10.1016/j.ympev.2014.02.012</ArticleId></ArticleIdList></PubmedData></pubmed></record>Pour manipuler ce document sous Unix (Dilib)
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