Genomic insights into the carbohydrate catabolism of Cairneyella variabilis gen. nov. sp. nov., the first reports from a genome of an ericoid mycorrhizal fungus from the southern hemisphere.
Identifieur interne : 001173 ( Main/Corpus ); précédent : 001172; suivant : 001174Genomic insights into the carbohydrate catabolism of Cairneyella variabilis gen. nov. sp. nov., the first reports from a genome of an ericoid mycorrhizal fungus from the southern hemisphere.
Auteurs : David J. Midgley ; Carly P. Rosewarne ; Paul Greenfield ; Dongmei Li ; Cassandra J. Vockler ; Catherine J. Hitchcock ; Nicole A. Sawyer ; Robyn Brett ; Jacqueline Edwards ; John I. Pitt ; Nai Tran-DinhSource :
- Mycorrhiza [ 1432-1890 ] ; 2016.
English descriptors
- KwdEn :
- Ascomycota (classification), Ascomycota (genetics), Ascomycota (isolation & purification), Ascomycota (metabolism), Australia (MeSH), Carbohydrate Metabolism (MeSH), Ericaceae (microbiology), Genome, Fungal (MeSH), Genomics (MeSH), Mycorrhizae (classification), Mycorrhizae (genetics), Mycorrhizae (isolation & purification), Mycorrhizae (metabolism), Nitrogen (metabolism), Phylogeny (MeSH).
- MESH :
- chemical , metabolism : Nitrogen.
- classification : Ascomycota, Mycorrhizae.
- genetics : Ascomycota, Mycorrhizae.
- isolation & purification : Ascomycota, Mycorrhizae.
- metabolism : Ascomycota, Mycorrhizae.
- microbiology : Ericaceae.
- Australia, Carbohydrate Metabolism, Genome, Fungal, Genomics, Phylogeny.
Abstract
This paper describes a novel species of ericoid mycorrhizal fungus from Australia, Cairneyella variabilis, Midgley and Tran-Dinh, gen. nov. sp. nov. The genome of C. variabilis was sequenced and a draft genome assembled. The draft genome of C. variabilis is 52.4 Mbp in length, and to our knowledge, this is the first study to present a genome of an ericoid mycorrhizal fungus from the southern hemisphere. Using the SignalP and dbCAN bioinformatic pipelines, a study of the catabolic potential of C. variabilis was undertaken and showed genes for an array of degradative enzymes, most of which appear to be secreted from the hyphae, to access a suite of different carbon sources. Isolates of C. variabilis have been previously shown to utilise cellulose, carboxymethyl cellulose (CMC), cellobiose, xylan, pectin, starch and tannic acid for growth, and in the current study, putative enzymes for these processes were revealed. These enzymes likely play key roles in nutrient cycling and other edaphic processes in heathland environments. ITS phylogenetic analyses showed C. variabilis to be distinct from the fungi of the "Hymenoscyphus ericae aggregate".
DOI: 10.1007/s00572-016-0683-6
PubMed: 26861481
Links to Exploration step
pubmed:26861481Le document en format XML
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Rosewarne</name><affiliation><nlm:affiliation>CSIRO, 11 Julius Avenue, North Ryde, Sydney, NSW, Australia, 2113.</nlm:affiliation></affiliation></author><author><name sortKey="Greenfield, Paul" sort="Greenfield, Paul" uniqKey="Greenfield P" first="Paul" last="Greenfield">Paul Greenfield</name><affiliation><nlm:affiliation>CSIRO, 11 Julius Avenue, North Ryde, Sydney, NSW, Australia, 2113.</nlm:affiliation></affiliation></author><author><name sortKey="Li, Dongmei" sort="Li, Dongmei" uniqKey="Li D" first="Dongmei" last="Li">Dongmei Li</name><affiliation><nlm:affiliation>Plant Health and Environment Laboratory, Ministry for Primary Industries, Manatū Ahu Matua, 231 Morrin Road, St. Johns, Auckland, 1072, New Zealand.</nlm:affiliation></affiliation></author><author><name sortKey="Vockler, Cassandra J" sort="Vockler, Cassandra J" uniqKey="Vockler C" first="Cassandra J" last="Vockler">Cassandra J. 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Midgley</name><affiliation><nlm:affiliation>CSIRO, 11 Julius Avenue, North Ryde, Sydney, NSW, Australia, 2113. david.midgley@csiro.au.</nlm:affiliation></affiliation></author><author><name sortKey="Rosewarne, Carly P" sort="Rosewarne, Carly P" uniqKey="Rosewarne C" first="Carly P" last="Rosewarne">Carly P. Rosewarne</name><affiliation><nlm:affiliation>CSIRO, 11 Julius Avenue, North Ryde, Sydney, NSW, Australia, 2113.</nlm:affiliation></affiliation></author><author><name sortKey="Greenfield, Paul" sort="Greenfield, Paul" uniqKey="Greenfield P" first="Paul" last="Greenfield">Paul Greenfield</name><affiliation><nlm:affiliation>CSIRO, 11 Julius Avenue, North Ryde, Sydney, NSW, Australia, 2113.</nlm:affiliation></affiliation></author><author><name sortKey="Li, Dongmei" sort="Li, Dongmei" uniqKey="Li D" first="Dongmei" last="Li">Dongmei Li</name><affiliation><nlm:affiliation>Plant Health and Environment Laboratory, Ministry for Primary Industries, Manatū Ahu Matua, 231 Morrin Road, St. Johns, Auckland, 1072, New Zealand.</nlm:affiliation></affiliation></author><author><name sortKey="Vockler, Cassandra J" sort="Vockler, Cassandra J" uniqKey="Vockler C" first="Cassandra J" last="Vockler">Cassandra J. Vockler</name><affiliation><nlm:affiliation>CSIRO, 11 Julius Avenue, North Ryde, Sydney, NSW, Australia, 2113.</nlm:affiliation></affiliation></author><author><name sortKey="Hitchcock, Catherine J" sort="Hitchcock, Catherine J" uniqKey="Hitchcock C" first="Catherine J" last="Hitchcock">Catherine J. Hitchcock</name><affiliation><nlm:affiliation>NSW Forensic and Analytical Science Service, Lidcombe, NSW, Australia, 2141.</nlm:affiliation></affiliation></author><author><name sortKey="Sawyer, Nicole A" sort="Sawyer, Nicole A" uniqKey="Sawyer N" first="Nicole A" last="Sawyer">Nicole A. Sawyer</name><affiliation><nlm:affiliation>Douglass Hanly Moir Pathology, Molecular Genetics, North Ryde, NSW, Australia, 2113.</nlm:affiliation></affiliation></author><author><name sortKey="Brett, Robyn" sort="Brett, Robyn" uniqKey="Brett R" first="Robyn" last="Brett">Robyn Brett</name><affiliation><nlm:affiliation>Biosciences Research, Department of Economic Development, Jobs, Transport and Resources, AgriBio, La Trobe University, 5 Ring Rd, Bundoora, VIC, Australia, 3083.</nlm:affiliation></affiliation></author><author><name sortKey="Edwards, Jacqueline" sort="Edwards, Jacqueline" uniqKey="Edwards J" first="Jacqueline" last="Edwards">Jacqueline Edwards</name><affiliation><nlm:affiliation>Biosciences Research, Department of Economic Development, Jobs, Transport and Resources, AgriBio, La Trobe University, 5 Ring Rd, Bundoora, VIC, Australia, 3083.</nlm:affiliation></affiliation></author><author><name sortKey="Pitt, John I" sort="Pitt, John I" uniqKey="Pitt J" first="John I" last="Pitt">John I. Pitt</name><affiliation><nlm:affiliation>CSIRO, 11 Julius Avenue, North Ryde, Sydney, NSW, Australia, 2113.</nlm:affiliation></affiliation></author><author><name sortKey="Tran Dinh, Nai" sort="Tran Dinh, Nai" uniqKey="Tran Dinh N" first="Nai" last="Tran-Dinh">Nai Tran-Dinh</name><affiliation><nlm:affiliation>CSIRO, 11 Julius Avenue, North Ryde, Sydney, NSW, Australia, 2113.</nlm:affiliation></affiliation></author></analytic><series><title level="j">Mycorrhiza</title><idno type="eISSN">1432-1890</idno><imprint><date when="2016" type="published">2016</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Ascomycota (classification)</term><term>Ascomycota (genetics)</term><term>Ascomycota (isolation & purification)</term><term>Ascomycota (metabolism)</term><term>Australia (MeSH)</term><term>Carbohydrate Metabolism (MeSH)</term><term>Ericaceae (microbiology)</term><term>Genome, Fungal (MeSH)</term><term>Genomics (MeSH)</term><term>Mycorrhizae (classification)</term><term>Mycorrhizae (genetics)</term><term>Mycorrhizae (isolation & purification)</term><term>Mycorrhizae (metabolism)</term><term>Nitrogen (metabolism)</term><term>Phylogeny (MeSH)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="metabolism" xml:lang="en"><term>Nitrogen</term></keywords><keywords scheme="MESH" qualifier="classification" xml:lang="en"><term>Ascomycota</term><term>Mycorrhizae</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Ascomycota</term><term>Mycorrhizae</term></keywords><keywords scheme="MESH" qualifier="isolation & purification" xml:lang="en"><term>Ascomycota</term><term>Mycorrhizae</term></keywords><keywords scheme="MESH" qualifier="metabolism" xml:lang="en"><term>Ascomycota</term><term>Mycorrhizae</term></keywords><keywords scheme="MESH" qualifier="microbiology" xml:lang="en"><term>Ericaceae</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Australia</term><term>Carbohydrate Metabolism</term><term>Genome, Fungal</term><term>Genomics</term><term>Phylogeny</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">This paper describes a novel species of ericoid mycorrhizal fungus from Australia, Cairneyella variabilis, Midgley and Tran-Dinh, gen. nov. sp. nov. The genome of C. variabilis was sequenced and a draft genome assembled. The draft genome of C. variabilis is 52.4 Mbp in length, and to our knowledge, this is the first study to present a genome of an ericoid mycorrhizal fungus from the southern hemisphere. Using the SignalP and dbCAN bioinformatic pipelines, a study of the catabolic potential of C. variabilis was undertaken and showed genes for an array of degradative enzymes, most of which appear to be secreted from the hyphae, to access a suite of different carbon sources. Isolates of C. variabilis have been previously shown to utilise cellulose, carboxymethyl cellulose (CMC), cellobiose, xylan, pectin, starch and tannic acid for growth, and in the current study, putative enzymes for these processes were revealed. These enzymes likely play key roles in nutrient cycling and other edaphic processes in heathland environments. ITS phylogenetic analyses showed C. variabilis to be distinct from the fungi of the "Hymenoscyphus ericae aggregate".</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">26861481</PMID><DateCompleted><Year>2016</Year><Month>12</Month><Day>13</Day></DateCompleted><DateRevised><Year>2018</Year><Month>11</Month><Day>13</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1432-1890</ISSN><JournalIssue CitedMedium="Internet"><Volume>26</Volume><Issue>4</Issue><PubDate><Year>2016</Year><Month>May</Month></PubDate></JournalIssue><Title>Mycorrhiza</Title><ISOAbbreviation>Mycorrhiza</ISOAbbreviation></Journal><ArticleTitle>Genomic insights into the carbohydrate catabolism of Cairneyella variabilis gen. nov. sp. nov., the first reports from a genome of an ericoid mycorrhizal fungus from the southern hemisphere.</ArticleTitle><Pagination><MedlinePgn>345-52</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1007/s00572-016-0683-6</ELocationID><Abstract><AbstractText>This paper describes a novel species of ericoid mycorrhizal fungus from Australia, Cairneyella variabilis, Midgley and Tran-Dinh, gen. nov. sp. nov. The genome of C. variabilis was sequenced and a draft genome assembled. The draft genome of C. variabilis is 52.4 Mbp in length, and to our knowledge, this is the first study to present a genome of an ericoid mycorrhizal fungus from the southern hemisphere. Using the SignalP and dbCAN bioinformatic pipelines, a study of the catabolic potential of C. variabilis was undertaken and showed genes for an array of degradative enzymes, most of which appear to be secreted from the hyphae, to access a suite of different carbon sources. Isolates of C. variabilis have been previously shown to utilise cellulose, carboxymethyl cellulose (CMC), cellobiose, xylan, pectin, starch and tannic acid for growth, and in the current study, putative enzymes for these processes were revealed. These enzymes likely play key roles in nutrient cycling and other edaphic processes in heathland environments. ITS phylogenetic analyses showed C. variabilis to be distinct from the fungi of the "Hymenoscyphus ericae aggregate".</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Midgley</LastName><ForeName>David J</ForeName><Initials>DJ</Initials><AffiliationInfo><Affiliation>CSIRO, 11 Julius Avenue, North Ryde, Sydney, NSW, Australia, 2113. david.midgley@csiro.au.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Rosewarne</LastName><ForeName>Carly P</ForeName><Initials>CP</Initials><AffiliationInfo><Affiliation>CSIRO, 11 Julius Avenue, North Ryde, Sydney, NSW, Australia, 2113.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Greenfield</LastName><ForeName>Paul</ForeName><Initials>P</Initials><AffiliationInfo><Affiliation>CSIRO, 11 Julius Avenue, North Ryde, Sydney, NSW, Australia, 2113.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Li</LastName><ForeName>Dongmei</ForeName><Initials>D</Initials><AffiliationInfo><Affiliation>Plant Health and Environment Laboratory, Ministry for Primary Industries, Manatū Ahu Matua, 231 Morrin Road, St. Johns, Auckland, 1072, New Zealand.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Vockler</LastName><ForeName>Cassandra J</ForeName><Initials>CJ</Initials><AffiliationInfo><Affiliation>CSIRO, 11 Julius Avenue, North Ryde, Sydney, NSW, Australia, 2113.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Hitchcock</LastName><ForeName>Catherine J</ForeName><Initials>CJ</Initials><AffiliationInfo><Affiliation>NSW Forensic and Analytical Science Service, Lidcombe, NSW, Australia, 2141.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Sawyer</LastName><ForeName>Nicole A</ForeName><Initials>NA</Initials><AffiliationInfo><Affiliation>Douglass Hanly Moir Pathology, Molecular Genetics, North Ryde, NSW, Australia, 2113.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Brett</LastName><ForeName>Robyn</ForeName><Initials>R</Initials><AffiliationInfo><Affiliation>Biosciences Research, Department of Economic Development, Jobs, Transport and Resources, AgriBio, La Trobe University, 5 Ring Rd, Bundoora, VIC, Australia, 3083.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Edwards</LastName><ForeName>Jacqueline</ForeName><Initials>J</Initials><AffiliationInfo><Affiliation>Biosciences Research, Department of Economic Development, Jobs, Transport and Resources, AgriBio, La Trobe University, 5 Ring Rd, Bundoora, VIC, Australia, 3083.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Pitt</LastName><ForeName>John I</ForeName><Initials>JI</Initials><AffiliationInfo><Affiliation>CSIRO, 11 Julius Avenue, North Ryde, Sydney, NSW, Australia, 2113.</Affiliation></AffiliationInfo></Author><Author 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