The population genomic signature of environmental selection in the widespread insect-pollinated tree species Frangula alnus at different geographical scales
Identifieur interne : 000055 ( Pmc/Corpus ); précédent : 000054; suivant : 000056The population genomic signature of environmental selection in the widespread insect-pollinated tree species Frangula alnus at different geographical scales
Auteurs : H. De Kort ; K. Vandepitte ; J. Mergeay ; K V Mijnsbrugge ; O. HonnaySource :
- Heredity [ 0018-067X ] ; 2015.
Abstract
The evaluation of the molecular signatures of selection in species lacking an available closely related reference genome remains challenging, yet it may provide valuable fundamental insights into the capacity of populations to respond to environmental cues. We screened 25 native populations of the tree species
Url:
DOI: 10.1038/hdy.2015.41
PubMed: 25944466
PubMed Central: 4611236
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PMC:4611236Le document en format XML
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at different geographical scales</title>
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<author><name sortKey="Mergeay, J" sort="Mergeay, J" uniqKey="Mergeay J" first="J" last="Mergeay">J. Mergeay</name>
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<author><name sortKey="Mijnsbrugge, K V" sort="Mijnsbrugge, K V" uniqKey="Mijnsbrugge K" first="K V" last="Mijnsbrugge">K V Mijnsbrugge</name>
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<affiliation><nlm:aff id="aff3"><institution>Department of Nature Conservation, Agency for Nature and Forest, Koning Albert II laan 20</institution>
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<author><name sortKey="Honnay, O" sort="Honnay, O" uniqKey="Honnay O" first="O" last="Honnay">O. Honnay</name>
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<sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">The population genomic signature of environmental selection in the widespread insect-pollinated tree species <italic>Frangula alnus</italic>
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<series><title level="j">Heredity</title>
<idno type="ISSN">0018-067X</idno>
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<front><div type="abstract" xml:lang="en"><p>The evaluation of the molecular signatures of selection in species lacking an available closely related reference genome remains challenging, yet it may provide valuable fundamental insights into the capacity of populations to respond to environmental cues. We screened 25 native populations of the tree species <italic>Frangula alnus</italic>
subsp. <italic>alnus</italic>
(Rhamnaceae), covering three different geographical scales, for 183 annotated single-nucleotide polymorphisms (SNPs). Standard population genomic outlier screens were combined with individual-based and multivariate landscape genomic approaches to examine the strength of selection relative to neutral processes in shaping genomic variation, and to identify the main environmental agents driving selection. Our results demonstrate a more distinct signature of selection with increasing geographical distance, as indicated by the proportion of SNPs (i) showing exceptional patterns of genetic diversity and differentiation (outliers) and (ii) associated with climate. Both temperature and precipitation have an important role as selective agents in shaping adaptive genomic differentiation in <italic>F. alnus</italic>
subsp. <italic>alnus</italic>
, although their relative importance differed among spatial scales. At the ‘intermediate' and ‘regional' scales, where limited genetic clustering and high population diversity were observed, some indications of natural selection may suggest a major role for gene flow in safeguarding adaptability. High genetic diversity at loci under selection in particular, indicated considerable adaptive potential, which may nevertheless be compromised by the combined effects of climate change and habitat fragmentation.</p>
</div>
</front>
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<pmc article-type="research-article"><pmc-comment>The publisher of this article does not allow downloading of the full text in XML form.</pmc-comment>
<front><journal-meta><journal-id journal-id-type="nlm-ta">Heredity (Edinb)</journal-id>
<journal-id journal-id-type="iso-abbrev">Heredity (Edinb)</journal-id>
<journal-title-group><journal-title>Heredity</journal-title>
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<issn pub-type="ppub">0018-067X</issn>
<issn pub-type="epub">1365-2540</issn>
<publisher><publisher-name>Nature Publishing Group</publisher-name>
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<article-id pub-id-type="pmc">4611236</article-id>
<article-id pub-id-type="pii">hdy201541</article-id>
<article-id pub-id-type="doi">10.1038/hdy.2015.41</article-id>
<article-categories><subj-group subj-group-type="heading"><subject>Original Article</subject>
</subj-group>
</article-categories>
<title-group><article-title>The population genomic signature of environmental selection in the widespread insect-pollinated tree species <italic>Frangula alnus</italic>
at different geographical scales</article-title>
<alt-title alt-title-type="running">Population and landscape genomics in <italic>F. alnus</italic>
</alt-title>
</title-group>
<contrib-group><contrib contrib-type="author"><name><surname>De Kort</surname>
<given-names>H</given-names>
</name>
<xref ref-type="aff" rid="aff1">1</xref>
<xref ref-type="corresp" rid="caf1">*</xref>
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<contrib contrib-type="author"><name><surname>Vandepitte</surname>
<given-names>K</given-names>
</name>
<xref ref-type="aff" rid="aff1">1</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Mergeay</surname>
<given-names>J</given-names>
</name>
<xref ref-type="aff" rid="aff2">2</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Mijnsbrugge</surname>
<given-names>K V</given-names>
</name>
<xref ref-type="aff" rid="aff2">2</xref>
<xref ref-type="aff" rid="aff3">3</xref>
</contrib>
<contrib contrib-type="author"><name><surname>Honnay</surname>
<given-names>O</given-names>
</name>
<xref ref-type="aff" rid="aff1">1</xref>
</contrib>
<aff id="aff1"><label>1</label>
<institution>Biology Department, University of Leuven, Plant Conservation and Population Biology, Kasteelpark Arenberg 31</institution>
, Heverlee,<country>Belgium</country>
</aff>
<aff id="aff2"><label>2</label>
<institution>Department of Genetic Diversity, Research Institute for Nature and Forest, Gaverstraat 4</institution>
, Geraardsbergen,<country>Belgium</country>
</aff>
<aff id="aff3"><label>3</label>
<institution>Department of Nature Conservation, Agency for Nature and Forest, Koning Albert II laan 20</institution>
, Brussels,<country>Belgium</country>
</aff>
</contrib-group>
<author-notes><corresp id="caf1"><label>*</label>
<institution>Biology Department, KU Leuven, Kasteelpark Arenberg 31</institution>
, Heverlee 3000, <country>Belgium</country>
. E-mail: <email>hanne.dekort@bio.kuleuven.be</email>
</corresp>
</author-notes>
<pub-date pub-type="ppub"><month>11</month>
<year>2015</year>
</pub-date>
<pub-date pub-type="epub"><day>06</day>
<month>05</month>
<year>2015</year>
</pub-date>
<volume>115</volume>
<issue>5</issue>
<fpage>415</fpage>
<lpage>425</lpage>
<history><date date-type="received"><day>27</day>
<month>08</month>
<year>2014</year>
</date>
<date date-type="rev-recd"><day>20</day>
<month>02</month>
<year>2015</year>
</date>
<date date-type="accepted"><day>20</day>
<month>03</month>
<year>2015</year>
</date>
</history>
<permissions><copyright-statement>Copyright © 2015 The Genetics Society</copyright-statement>
<copyright-year>2015</copyright-year>
<copyright-holder>The Genetics Society</copyright-holder>
</permissions>
<abstract><p>The evaluation of the molecular signatures of selection in species lacking an available closely related reference genome remains challenging, yet it may provide valuable fundamental insights into the capacity of populations to respond to environmental cues. We screened 25 native populations of the tree species <italic>Frangula alnus</italic>
subsp. <italic>alnus</italic>
(Rhamnaceae), covering three different geographical scales, for 183 annotated single-nucleotide polymorphisms (SNPs). Standard population genomic outlier screens were combined with individual-based and multivariate landscape genomic approaches to examine the strength of selection relative to neutral processes in shaping genomic variation, and to identify the main environmental agents driving selection. Our results demonstrate a more distinct signature of selection with increasing geographical distance, as indicated by the proportion of SNPs (i) showing exceptional patterns of genetic diversity and differentiation (outliers) and (ii) associated with climate. Both temperature and precipitation have an important role as selective agents in shaping adaptive genomic differentiation in <italic>F. alnus</italic>
subsp. <italic>alnus</italic>
, although their relative importance differed among spatial scales. At the ‘intermediate' and ‘regional' scales, where limited genetic clustering and high population diversity were observed, some indications of natural selection may suggest a major role for gene flow in safeguarding adaptability. High genetic diversity at loci under selection in particular, indicated considerable adaptive potential, which may nevertheless be compromised by the combined effects of climate change and habitat fragmentation.</p>
</abstract>
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</front>
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