Molecular phylogenetic biodiversity assessment of arctic and boreal ectomycorrhizal Lactarius Pers. (Russulales; Basidiomycota) in Alaska, based on soil and sporocarp DNA.
Identifieur interne : 002984 ( Main/Corpus ); précédent : 002983; suivant : 002985Molecular phylogenetic biodiversity assessment of arctic and boreal ectomycorrhizal Lactarius Pers. (Russulales; Basidiomycota) in Alaska, based on soil and sporocarp DNA.
Auteurs : J Zsef Geml ; Gary A. Laursen ; Ina Timling ; Jack M. Mcfarland ; Michael G. Booth ; Niall Lennon ; Chad Nusbaum ; D Lee TaylorSource :
- Molecular ecology [ 1365-294X ] ; 2009.
English descriptors
- KwdEn :
- MESH :
- chemical , analysis : Soil.
- chemical , genetics : DNA, Fungal, DNA, Ribosomal Spacer.
- classification : Basidiomycota, Mycorrhizae.
- genetics : Basidiomycota, Mycorrhizae.
- microbiology : Trees.
- Alaska, Biodiversity, Phylogeny, Sequence Analysis, DNA.
Abstract
Despite the critical roles fungi play in the functioning of ecosystems, especially as symbionts of plants and recyclers of organic matter, their biodiversity is poorly known in high-latitude regions. In this paper, we discuss the molecular diversity of one of the most diverse and abundant groups of ectomycorrhizal fungi: the genus Lactarius Pers. We analysed internal transcribed spacer rDNA sequences from both curated sporocarp collections and soil polymerase chain reaction clone libraries sampled in the arctic tundra and boreal forests of Alaska. Our genetic diversity assessment, based on various phylogenetic methods and operational taxonomic unit (OTU) delimitations, suggests that the genus Lactarius is diverse in Alaska, with at least 43 putative phylogroups, and 24 and 38 distinct OTUs based on 95% and 97% internal transcribed spacer sequence similarity, respectively. Some OTUs were identified to known species, while others were novel, previously unsequenced groups. Non-asymptotic species accumulation curves, the disparity between observed and estimated richness, and the high number of singleton OTUs indicated that many Lactarius species remain to be found and identified in Alaska. Many Lactarius taxa show strong habitat preference to one of the three major vegetation types in the sampled regions (arctic tundra, black spruce forests, and mixed birch-aspen-white spruce forests), as supported by statistical tests of UniFrac distances and principal coordinates analyses (PCoA). Together, our data robustly demonstrate great diversity and nonrandom ecological partitioning in an important boreal ectomycorrhizal genus within a relatively small geographical region. The observed diversity of Lactarius was much higher in either type of boreal forest than in the arctic tundra, supporting the widely recognized pattern of decreasing species richness with increasing latitude.
DOI: 10.1111/j.1365-294X.2009.04192.x
PubMed: 19389163
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<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Molecular phylogenetic biodiversity assessment of arctic and boreal ectomycorrhizal Lactarius Pers. (Russulales; Basidiomycota) in Alaska, based on soil and sporocarp DNA.</title><author><name sortKey="Geml, J Zsef" sort="Geml, J Zsef" uniqKey="Geml J" first="J Zsef" last="Geml">J Zsef Geml</name><affiliation><nlm:affiliation>Institute of Arctic Biology, University of Alaska Fairbanks, Fairbanks, AK 99775-7000, USA. jgeml@iab.alaska.edu</nlm:affiliation></affiliation></author><author><name sortKey="Laursen, Gary A" sort="Laursen, Gary A" uniqKey="Laursen G" first="Gary A" last="Laursen">Gary A. Laursen</name></author><author><name sortKey="Timling, Ina" sort="Timling, Ina" uniqKey="Timling I" first="Ina" last="Timling">Ina Timling</name></author><author><name sortKey="Mcfarland, Jack M" sort="Mcfarland, Jack M" uniqKey="Mcfarland J" first="Jack M" last="Mcfarland">Jack M. Mcfarland</name></author><author><name sortKey="Booth, Michael G" sort="Booth, Michael G" uniqKey="Booth M" first="Michael G" last="Booth">Michael G. Booth</name></author><author><name sortKey="Lennon, Niall" sort="Lennon, Niall" uniqKey="Lennon N" first="Niall" last="Lennon">Niall Lennon</name></author><author><name sortKey="Nusbaum, Chad" sort="Nusbaum, Chad" uniqKey="Nusbaum C" first="Chad" last="Nusbaum">Chad Nusbaum</name></author><author><name sortKey="Taylor, D Lee" sort="Taylor, D Lee" uniqKey="Taylor D" first="D Lee" last="Taylor">D Lee Taylor</name></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="2009">2009</date><idno type="RBID">pubmed:19389163</idno><idno type="pmid">19389163</idno><idno type="doi">10.1111/j.1365-294X.2009.04192.x</idno><idno type="wicri:Area/Main/Corpus">002984</idno><idno type="wicri:explorRef" wicri:stream="Main" wicri:step="Corpus" wicri:corpus="PubMed">002984</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en">Molecular phylogenetic biodiversity assessment of arctic and boreal ectomycorrhizal Lactarius Pers. (Russulales; Basidiomycota) in Alaska, based on soil and sporocarp DNA.</title><author><name sortKey="Geml, J Zsef" sort="Geml, J Zsef" uniqKey="Geml J" first="J Zsef" last="Geml">J Zsef Geml</name><affiliation><nlm:affiliation>Institute of Arctic Biology, University of Alaska Fairbanks, Fairbanks, AK 99775-7000, USA. jgeml@iab.alaska.edu</nlm:affiliation></affiliation></author><author><name sortKey="Laursen, Gary A" sort="Laursen, Gary A" uniqKey="Laursen G" first="Gary A" last="Laursen">Gary A. Laursen</name></author><author><name sortKey="Timling, Ina" sort="Timling, Ina" uniqKey="Timling I" first="Ina" last="Timling">Ina Timling</name></author><author><name sortKey="Mcfarland, Jack M" sort="Mcfarland, Jack M" uniqKey="Mcfarland J" first="Jack M" last="Mcfarland">Jack M. Mcfarland</name></author><author><name sortKey="Booth, Michael G" sort="Booth, Michael G" uniqKey="Booth M" first="Michael G" last="Booth">Michael G. Booth</name></author><author><name sortKey="Lennon, Niall" sort="Lennon, Niall" uniqKey="Lennon N" first="Niall" last="Lennon">Niall Lennon</name></author><author><name sortKey="Nusbaum, Chad" sort="Nusbaum, Chad" uniqKey="Nusbaum C" first="Chad" last="Nusbaum">Chad Nusbaum</name></author><author><name sortKey="Taylor, D Lee" sort="Taylor, D Lee" uniqKey="Taylor D" first="D Lee" last="Taylor">D Lee Taylor</name></author></analytic><series><title level="j">Molecular ecology</title><idno type="eISSN">1365-294X</idno><imprint><date when="2009" type="published">2009</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Alaska (MeSH)</term><term>Basidiomycota (classification)</term><term>Basidiomycota (genetics)</term><term>Biodiversity (MeSH)</term><term>DNA, Fungal (genetics)</term><term>DNA, Ribosomal Spacer (genetics)</term><term>Mycorrhizae (classification)</term><term>Mycorrhizae (genetics)</term><term>Phylogeny (MeSH)</term><term>Sequence Analysis, DNA (MeSH)</term><term>Soil (analysis)</term><term>Trees (microbiology)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="analysis" xml:lang="en"><term>Soil</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>DNA, Fungal</term><term>DNA, Ribosomal Spacer</term></keywords><keywords scheme="MESH" qualifier="classification" xml:lang="en"><term>Basidiomycota</term><term>Mycorrhizae</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Basidiomycota</term><term>Mycorrhizae</term></keywords><keywords scheme="MESH" qualifier="microbiology" xml:lang="en"><term>Trees</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Alaska</term><term>Biodiversity</term><term>Phylogeny</term><term>Sequence Analysis, DNA</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Despite the critical roles fungi play in the functioning of ecosystems, especially as symbionts of plants and recyclers of organic matter, their biodiversity is poorly known in high-latitude regions. In this paper, we discuss the molecular diversity of one of the most diverse and abundant groups of ectomycorrhizal fungi: the genus Lactarius Pers. We analysed internal transcribed spacer rDNA sequences from both curated sporocarp collections and soil polymerase chain reaction clone libraries sampled in the arctic tundra and boreal forests of Alaska. Our genetic diversity assessment, based on various phylogenetic methods and operational taxonomic unit (OTU) delimitations, suggests that the genus Lactarius is diverse in Alaska, with at least 43 putative phylogroups, and 24 and 38 distinct OTUs based on 95% and 97% internal transcribed spacer sequence similarity, respectively. Some OTUs were identified to known species, while others were novel, previously unsequenced groups. Non-asymptotic species accumulation curves, the disparity between observed and estimated richness, and the high number of singleton OTUs indicated that many Lactarius species remain to be found and identified in Alaska. Many Lactarius taxa show strong habitat preference to one of the three major vegetation types in the sampled regions (arctic tundra, black spruce forests, and mixed birch-aspen-white spruce forests), as supported by statistical tests of UniFrac distances and principal coordinates analyses (PCoA). Together, our data robustly demonstrate great diversity and nonrandom ecological partitioning in an important boreal ectomycorrhizal genus within a relatively small geographical region. The observed diversity of Lactarius was much higher in either type of boreal forest than in the arctic tundra, supporting the widely recognized pattern of decreasing species richness with increasing latitude.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">19389163</PMID><DateCompleted><Year>2009</Year><Month>09</Month><Day>16</Day></DateCompleted><DateRevised><Year>2017</Year><Month>11</Month><Day>16</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1365-294X</ISSN><JournalIssue CitedMedium="Internet"><Volume>18</Volume><Issue>10</Issue><PubDate><Year>2009</Year><Month>May</Month></PubDate></JournalIssue><Title>Molecular ecology</Title><ISOAbbreviation>Mol Ecol</ISOAbbreviation></Journal><ArticleTitle>Molecular phylogenetic biodiversity assessment of arctic and boreal ectomycorrhizal Lactarius Pers. (Russulales; Basidiomycota) in Alaska, based on soil and sporocarp DNA.</ArticleTitle><Pagination><MedlinePgn>2213-27</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1111/j.1365-294X.2009.04192.x</ELocationID><Abstract><AbstractText>Despite the critical roles fungi play in the functioning of ecosystems, especially as symbionts of plants and recyclers of organic matter, their biodiversity is poorly known in high-latitude regions. In this paper, we discuss the molecular diversity of one of the most diverse and abundant groups of ectomycorrhizal fungi: the genus Lactarius Pers. We analysed internal transcribed spacer rDNA sequences from both curated sporocarp collections and soil polymerase chain reaction clone libraries sampled in the arctic tundra and boreal forests of Alaska. Our genetic diversity assessment, based on various phylogenetic methods and operational taxonomic unit (OTU) delimitations, suggests that the genus Lactarius is diverse in Alaska, with at least 43 putative phylogroups, and 24 and 38 distinct OTUs based on 95% and 97% internal transcribed spacer sequence similarity, respectively. Some OTUs were identified to known species, while others were novel, previously unsequenced groups. Non-asymptotic species accumulation curves, the disparity between observed and estimated richness, and the high number of singleton OTUs indicated that many Lactarius species remain to be found and identified in Alaska. Many Lactarius taxa show strong habitat preference to one of the three major vegetation types in the sampled regions (arctic tundra, black spruce forests, and mixed birch-aspen-white spruce forests), as supported by statistical tests of UniFrac distances and principal coordinates analyses (PCoA). Together, our data robustly demonstrate great diversity and nonrandom ecological partitioning in an important boreal ectomycorrhizal genus within a relatively small geographical region. The observed diversity of Lactarius was much higher in either type of boreal forest than in the arctic tundra, supporting the widely recognized pattern of decreasing species richness with increasing latitude.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Geml</LastName><ForeName>József</ForeName><Initials>J</Initials><AffiliationInfo><Affiliation>Institute of Arctic Biology, University of Alaska Fairbanks, Fairbanks, AK 99775-7000, USA. jgeml@iab.alaska.edu</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Laursen</LastName><ForeName>Gary A</ForeName><Initials>GA</Initials></Author><Author ValidYN="Y"><LastName>Timling</LastName><ForeName>Ina</ForeName><Initials>I</Initials></Author><Author ValidYN="Y"><LastName>McFarland</LastName><ForeName>Jack M</ForeName><Initials>JM</Initials></Author><Author ValidYN="Y"><LastName>Booth</LastName><ForeName>Michael G</ForeName><Initials>MG</Initials></Author><Author ValidYN="Y"><LastName>Lennon</LastName><ForeName>Niall</ForeName><Initials>N</Initials></Author><Author ValidYN="Y"><LastName>Nusbaum</LastName><ForeName>Chad</ForeName><Initials>C</Initials></Author><Author ValidYN="Y"><LastName>Taylor</LastName><ForeName>D Lee</ForeName><Initials>DL</Initials></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType><PublicationType UI="D013485">Research Support, Non-U.S. Gov't</PublicationType><PublicationType UI="D013486">Research Support, U.S. Gov't, Non-P.H.S.</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2009</Year><Month>04</Month><Day>23</Day></ArticleDate></Article><MedlineJournalInfo><Country>England</Country><MedlineTA>Mol Ecol</MedlineTA><NlmUniqueID>9214478</NlmUniqueID><ISSNLinking>0962-1083</ISSNLinking></MedlineJournalInfo><ChemicalList><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D004271">DNA, Fungal</NameOfSubstance></Chemical><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D021903">DNA, Ribosomal Spacer</NameOfSubstance></Chemical><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D012987">Soil</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D000413" MajorTopicYN="N">Alaska</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D001487" MajorTopicYN="N">Basidiomycota</DescriptorName><QualifierName UI="Q000145" MajorTopicYN="N">classification</QualifierName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D044822" MajorTopicYN="Y">Biodiversity</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D004271" MajorTopicYN="N">DNA, Fungal</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D021903" MajorTopicYN="N">DNA, Ribosomal Spacer</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D038821" MajorTopicYN="N">Mycorrhizae</DescriptorName><QualifierName UI="Q000145" MajorTopicYN="N">classification</QualifierName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D010802" MajorTopicYN="Y">Phylogeny</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D017422" MajorTopicYN="N">Sequence Analysis, DNA</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D012987" MajorTopicYN="N">Soil</DescriptorName><QualifierName UI="Q000032" MajorTopicYN="N">analysis</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D014197" MajorTopicYN="N">Trees</DescriptorName><QualifierName UI="Q000382" MajorTopicYN="N">microbiology</QualifierName></MeshHeading></MeshHeadingList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="entrez"><Year>2009</Year><Month>4</Month><Day>25</Day><Hour>9</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="pubmed"><Year>2009</Year><Month>4</Month><Day>25</Day><Hour>9</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2009</Year><Month>9</Month><Day>17</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>ppublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">19389163</ArticleId><ArticleId IdType="pii">MEC4192</ArticleId><ArticleId IdType="doi">10.1111/j.1365-294X.2009.04192.x</ArticleId></ArticleIdList></PubmedData></pubmed></record>Pour manipuler ce document sous Unix (Dilib)
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