A Nuclear DNA Perspective on Delineating Evolutionarily Significant Lineages in Polyploids: The Case of the Endangered Shortnose Sturgeon (Acipenser brevirostrum)
Identifieur interne : 000046 ( Pmc/Curation ); précédent : 000045; suivant : 000047A Nuclear DNA Perspective on Delineating Evolutionarily Significant Lineages in Polyploids: The Case of the Endangered Shortnose Sturgeon (Acipenser brevirostrum)
Auteurs : Tim L. King [États-Unis] ; Anne P. Henderson [États-Unis] ; Boyd E. Kynard [États-Unis] ; Micah C. Kieffer [États-Unis] ; Douglas L. Peterson [États-Unis] ; Aaron W. Aunins [États-Unis] ; Bonnie L. Brown [États-Unis]Source :
- PLoS ONE [ 1932-6203 ] ; 2014.
Abstract
The shortnose sturgeon,
Url:
DOI: 10.1371/journal.pone.0102784
PubMed: 25166503
PubMed Central: 4148239
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<sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">A Nuclear DNA Perspective on Delineating Evolutionarily Significant Lineages in Polyploids: The Case of the Endangered Shortnose Sturgeon (<italic>Acipenser brevirostrum</italic>
)</title>
<author><name sortKey="King, Tim L" sort="King, Tim L" uniqKey="King T" first="Tim L." last="King">Tim L. King</name>
<affiliation wicri:level="1"><nlm:aff id="aff1"><addr-line>U.S. Geological Survey (USGS), Leetown Science Center, Aquatic Ecology Branch, Kearneysville, West Virginia, United States of America</addr-line>
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<country xml:lang="fr">États-Unis</country>
<wicri:regionArea>U.S. Geological Survey (USGS), Leetown Science Center, Aquatic Ecology Branch, Kearneysville, West Virginia</wicri:regionArea>
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<author><name sortKey="Henderson, Anne P" sort="Henderson, Anne P" uniqKey="Henderson A" first="Anne P." last="Henderson">Anne P. Henderson</name>
<affiliation wicri:level="1"><nlm:aff id="aff2"><addr-line>USGS, Leetown Science Center, Fish Health Branch, Kearneysville, West Virginia, United States of America</addr-line>
</nlm:aff>
<country xml:lang="fr">États-Unis</country>
<wicri:regionArea>USGS, Leetown Science Center, Fish Health Branch, Kearneysville, West Virginia</wicri:regionArea>
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<wicri:regionArea>University of Massachusetts, Department of Environmental Conservation, Amherst, Massachusetts</wicri:regionArea>
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<author><name sortKey="Kieffer, Micah C" sort="Kieffer, Micah C" uniqKey="Kieffer M" first="Micah C." last="Kieffer">Micah C. Kieffer</name>
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<author><name sortKey="Aunins, Aaron W" sort="Aunins, Aaron W" uniqKey="Aunins A" first="Aaron W." last="Aunins">Aaron W. Aunins</name>
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<author><name sortKey="Brown, Bonnie L" sort="Brown, Bonnie L" uniqKey="Brown B" first="Bonnie L." last="Brown">Bonnie L. Brown</name>
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<series><title level="j">PLoS ONE</title>
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<front><div type="abstract" xml:lang="en"><p>The shortnose sturgeon, <italic>Acipenser brevirostrum</italic>
, oft considered a phylogenetic relic, is listed as an “endangered species threatened with extinction” in the US and “Vulnerable” on the IUCN Red List. Effective conservation of <italic>A. brevirostrum</italic>
depends on understanding its diversity and evolutionary processes, yet challenges associated with the polyploid nature of its nuclear genome have heretofore limited population genetic analysis to maternally inherited haploid characters. We developed a suite of polysomic microsatellite DNA markers and characterized a sample of 561 shortnose sturgeon collected from major extant populations along the North American Atlantic coast. The 181 alleles observed at 11 loci were scored as binary loci and the data were subjected to multivariate ordination, Bayesian clustering, hierarchical partitioning of variance, and among-population distance metric tests. The methods uncovered moderately high levels of gene diversity suggesting population structuring across and within three metapopulations (Northeast, Mid-Atlantic, and Southeast) that encompass seven demographically discrete and evolutionarily distinct lineages. The predicted groups are consistent with previously described behavioral patterns, especially dispersal and migration, supporting the interpretation that <italic>A. brevirostrum</italic>
exhibit adaptive differences based on watershed. Combined with results of prior genetic (mitochondrial DNA) and behavioral studies, the current work suggests that dispersal is an important factor in maintaining genetic diversity in <italic>A. brevirostrum</italic>
and that the basic unit for conservation management is arguably the local population.</p>
</div>
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<pmc article-type="research-article"><pmc-dir>properties open_access</pmc-dir>
<front><journal-meta><journal-id journal-id-type="nlm-ta">PLoS One</journal-id>
<journal-id journal-id-type="iso-abbrev">PLoS ONE</journal-id>
<journal-id journal-id-type="publisher-id">plos</journal-id>
<journal-id journal-id-type="pmc">plosone</journal-id>
<journal-title-group><journal-title>PLoS ONE</journal-title>
</journal-title-group>
<issn pub-type="epub">1932-6203</issn>
<publisher><publisher-name>Public Library of Science</publisher-name>
<publisher-loc>San Francisco, USA</publisher-loc>
</publisher>
</journal-meta>
<article-meta><article-id pub-id-type="pmid">25166503</article-id>
<article-id pub-id-type="pmc">4148239</article-id>
<article-id pub-id-type="publisher-id">PONE-D-14-01989</article-id>
<article-id pub-id-type="doi">10.1371/journal.pone.0102784</article-id>
<article-categories><subj-group subj-group-type="heading"><subject>Research Article</subject>
</subj-group>
<subj-group subj-group-type="Discipline-v2"><subject>Biology and Life Sciences</subject>
<subj-group><subject>Evolutionary Biology</subject>
</subj-group>
<subj-group><subject>Genetics</subject>
</subj-group>
<subj-group><subject>Population Biology</subject>
</subj-group>
</subj-group>
<subj-group subj-group-type="Discipline-v2"><subject>Ecology and Environmental Sciences</subject>
</subj-group>
</article-categories>
<title-group><article-title>A Nuclear DNA Perspective on Delineating Evolutionarily Significant Lineages in Polyploids: The Case of the Endangered Shortnose Sturgeon (<italic>Acipenser brevirostrum</italic>
)</article-title>
<alt-title alt-title-type="running-head">Shortnose Sturgeon Nuclear DNA Perspective</alt-title>
</title-group>
<contrib-group><contrib contrib-type="author"><name><surname>King</surname>
<given-names>Tim L.</given-names>
</name>
<xref ref-type="aff" rid="aff1"><sup>1</sup>
</xref>
<xref ref-type="corresp" rid="cor1"><sup>*</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Henderson</surname>
<given-names>Anne P.</given-names>
</name>
<xref ref-type="aff" rid="aff2"><sup>2</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Kynard</surname>
<given-names>Boyd E.</given-names>
</name>
<xref ref-type="aff" rid="aff3"><sup>3</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Kieffer</surname>
<given-names>Micah C.</given-names>
</name>
<xref ref-type="aff" rid="aff4"><sup>4</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Peterson</surname>
<given-names>Douglas L.</given-names>
</name>
<xref ref-type="aff" rid="aff5"><sup>5</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Aunins</surname>
<given-names>Aaron W.</given-names>
</name>
<xref ref-type="aff" rid="aff6"><sup>6</sup>
</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Brown</surname>
<given-names>Bonnie L.</given-names>
</name>
<xref ref-type="aff" rid="aff7"><sup>7</sup>
</xref>
</contrib>
</contrib-group>
<aff id="aff1"><label>1</label>
<addr-line>U.S. Geological Survey (USGS), Leetown Science Center, Aquatic Ecology Branch, Kearneysville, West Virginia, United States of America</addr-line>
</aff>
<aff id="aff2"><label>2</label>
<addr-line>USGS, Leetown Science Center, Fish Health Branch, Kearneysville, West Virginia, United States of America</addr-line>
</aff>
<aff id="aff3"><label>3</label>
<addr-line>University of Massachusetts, Department of Environmental Conservation, Amherst, Massachusetts, United States of America</addr-line>
</aff>
<aff id="aff4"><label>4</label>
<addr-line>USGS, Leetown Science Center, S. O. Conte Anadromous Fish Research Laboratory, Turners Falls, Massachusetts, United States of America</addr-line>
</aff>
<aff id="aff5"><label>5</label>
<addr-line>University of Georgia, Warnell School of Forest Resources, Athens, Georgia, United States of America</addr-line>
</aff>
<aff id="aff6"><label>6</label>
<addr-line>Cherokee Nation Technology Solutions, Leetown Science Center, Kearneysville, West Virginia, United States of America</addr-line>
</aff>
<aff id="aff7"><label>7</label>
<addr-line>Virginia Commonwealth University, Department of Biology, Richmond, Virginia, United States of America</addr-line>
</aff>
<contrib-group><contrib contrib-type="editor"><name><surname>Ketmaier</surname>
<given-names>Valerio</given-names>
</name>
<role>Editor</role>
<xref ref-type="aff" rid="edit1"></xref>
</contrib>
</contrib-group>
<aff id="edit1"><addr-line>Institute of Biochemistry and Biology, Germany</addr-line>
</aff>
<author-notes><corresp id="cor1">* E-mail: <email>tlking@usgs.gov</email>
</corresp>
<fn fn-type="conflict"><p><bold>Competing Interests: </bold>
The authors have declared that no competing interests exist.</p>
</fn>
<fn fn-type="con"><p>Conceived and designed the experiments: TLK. Performed the experiments: TLK APH. Analyzed the data: TLK AWA BLB. Contributed reagents/materials/analysis tools: BEK MCK DLP. Wrote the paper: TLK MCK AWA BLB.</p>
</fn>
</author-notes>
<pub-date pub-type="collection"><year>2014</year>
</pub-date>
<pub-date pub-type="epub"><day>28</day>
<month>8</month>
<year>2014</year>
</pub-date>
<volume>9</volume>
<issue>8</issue>
<elocation-id>e102784</elocation-id>
<history><date date-type="received"><day>15</day>
<month>2</month>
<year>2014</year>
</date>
<date date-type="accepted"><day>24</day>
<month>6</month>
<year>2014</year>
</date>
</history>
<permissions><copyright-year>2014</copyright-year>
<license><license-p>This is an open-access article, free of all copyright, and may be freely reproduced, distributed, transmitted, modified, built upon, or otherwise used by anyone for any lawful purpose. The work is made available under the Creative Commons CC0 public domain dedication.</license-p>
</license>
</permissions>
<abstract><p>The shortnose sturgeon, <italic>Acipenser brevirostrum</italic>
, oft considered a phylogenetic relic, is listed as an “endangered species threatened with extinction” in the US and “Vulnerable” on the IUCN Red List. Effective conservation of <italic>A. brevirostrum</italic>
depends on understanding its diversity and evolutionary processes, yet challenges associated with the polyploid nature of its nuclear genome have heretofore limited population genetic analysis to maternally inherited haploid characters. We developed a suite of polysomic microsatellite DNA markers and characterized a sample of 561 shortnose sturgeon collected from major extant populations along the North American Atlantic coast. The 181 alleles observed at 11 loci were scored as binary loci and the data were subjected to multivariate ordination, Bayesian clustering, hierarchical partitioning of variance, and among-population distance metric tests. The methods uncovered moderately high levels of gene diversity suggesting population structuring across and within three metapopulations (Northeast, Mid-Atlantic, and Southeast) that encompass seven demographically discrete and evolutionarily distinct lineages. The predicted groups are consistent with previously described behavioral patterns, especially dispersal and migration, supporting the interpretation that <italic>A. brevirostrum</italic>
exhibit adaptive differences based on watershed. Combined with results of prior genetic (mitochondrial DNA) and behavioral studies, the current work suggests that dispersal is an important factor in maintaining genetic diversity in <italic>A. brevirostrum</italic>
and that the basic unit for conservation management is arguably the local population.</p>
</abstract>
<funding-group><funding-statement>The National Capital Region (NCR) of the U.S. National Park Service (NPS), and the U.S. Geological Survey's (USGS) Leetown Science Center provided principal funding for this project through the National Resources Preservation Program. The Northeast Regional Office, Protected Resources Division, NOAA Fisheries, Department of Commerce also provided partial funding. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.</funding-statement>
</funding-group>
<counts><page-count count="16"></page-count>
</counts>
</article-meta>
</front>
</pmc>
</record>
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