Genotyping-by-sequencing for Populus population genomics: an assessment of genome sampling patterns and filtering approaches.
Identifieur interne : 002198 ( Main/Exploration ); précédent : 002197; suivant : 002199Genotyping-by-sequencing for Populus population genomics: an assessment of genome sampling patterns and filtering approaches.
Auteurs : Martin P. Schilling [États-Unis] ; Paul G. Wolf [États-Unis] ; Aaron M. Duffy [États-Unis] ; Hardeep S. Rai [États-Unis] ; Carol A. Rowe [États-Unis] ; Bryce A. Richardson [États-Unis] ; Karen E. Mock [États-Unis]Source :
- PloS one [ 1932-6203 ] ; 2014.
Descripteurs français
- KwdFr :
- MESH :
- génétique : Populus.
- Génome végétal, Génotype.
English descriptors
- KwdEn :
- MESH :
- genetics : Populus.
- Genome, Plant, Genotype.
Abstract
Continuing advances in nucleotide sequencing technology are inspiring a suite of genomic approaches in studies of natural populations. Researchers are faced with data management and analytical scales that are increasing by orders of magnitude. With such dramatic advances comes a need to understand biases and error rates, which can be propagated and magnified in large-scale data acquisition and processing. Here we assess genomic sampling biases and the effects of various population-level data filtering strategies in a genotyping-by-sequencing (GBS) protocol. We focus on data from two species of Populus, because this genus has a relatively small genome and is emerging as a target for population genomic studies. We estimate the proportions and patterns of genomic sampling by examining the Populus trichocarpa genome (Nisqually-1), and demonstrate a pronounced bias towards coding regions when using the methylation-sensitive ApeKI restriction enzyme in this species. Using population-level data from a closely related species (P. tremuloides), we also investigate various approaches for filtering GBS data to retain high-depth, informative SNPs that can be used for population genetic analyses. We find a data filter that includes the designation of ambiguous alleles resulted in metrics of population structure and Hardy-Weinberg equilibrium that were most consistent with previous studies of the same populations based on other genetic markers. Analyses of the filtered data (27,910 SNPs) also resulted in patterns of heterozygosity and population structure similar to a previous study using microsatellites. Our application demonstrates that technically and analytically simple approaches can readily be developed for population genomics of natural populations.
DOI: 10.1371/journal.pone.0095292
PubMed: 24748384
PubMed Central: PMC3991623
Affiliations:
Links toward previous steps (curation, corpus...)
Le document en format XML
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Rai</name><affiliation wicri:level="2"><nlm:affiliation>Department of Wildland Resources, Utah State University, Logan, Utah, United States of America.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Wildland Resources, Utah State University, Logan, Utah</wicri:regionArea><placeName><region type="state">Utah</region></placeName></affiliation></author><author><name sortKey="Rowe, Carol A" sort="Rowe, Carol A" uniqKey="Rowe C" first="Carol A" last="Rowe">Carol A. Rowe</name><affiliation wicri:level="2"><nlm:affiliation>Department of Wildland Resources, Utah State University, Logan, Utah, United States of America.</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Wildland Resources, Utah State University, Logan, Utah</wicri:regionArea><placeName><region type="state">Utah</region></placeName></affiliation></author><author><name sortKey="Richardson, Bryce A" sort="Richardson, Bryce A" uniqKey="Richardson B" first="Bryce A" last="Richardson">Bryce A. 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Researchers are faced with data management and analytical scales that are increasing by orders of magnitude. With such dramatic advances comes a need to understand biases and error rates, which can be propagated and magnified in large-scale data acquisition and processing. Here we assess genomic sampling biases and the effects of various population-level data filtering strategies in a genotyping-by-sequencing (GBS) protocol. We focus on data from two species of Populus, because this genus has a relatively small genome and is emerging as a target for population genomic studies. We estimate the proportions and patterns of genomic sampling by examining the Populus trichocarpa genome (Nisqually-1), and demonstrate a pronounced bias towards coding regions when using the methylation-sensitive ApeKI restriction enzyme in this species. Using population-level data from a closely related species (P. tremuloides), we also investigate various approaches for filtering GBS data to retain high-depth, informative SNPs that can be used for population genetic analyses. We find a data filter that includes the designation of ambiguous alleles resulted in metrics of population structure and Hardy-Weinberg equilibrium that were most consistent with previous studies of the same populations based on other genetic markers. Analyses of the filtered data (27,910 SNPs) also resulted in patterns of heterozygosity and population structure similar to a previous study using microsatellites. Our application demonstrates that technically and analytically simple approaches can readily be developed for population genomics of natural populations. </div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">24748384</PMID><DateCompleted><Year>2015</Year><Month>01</Month><Day>15</Day></DateCompleted><DateRevised><Year>2018</Year><Month>11</Month><Day>13</Day></DateRevised><Article PubModel="Electronic-eCollection"><Journal><ISSN IssnType="Electronic">1932-6203</ISSN><JournalIssue CitedMedium="Internet"><Volume>9</Volume><Issue>4</Issue><PubDate><Year>2014</Year></PubDate></JournalIssue><Title>PloS one</Title><ISOAbbreviation>PLoS One</ISOAbbreviation></Journal><ArticleTitle>Genotyping-by-sequencing for Populus population genomics: an assessment of genome sampling patterns and filtering approaches.</ArticleTitle><Pagination><MedlinePgn>e95292</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1371/journal.pone.0095292</ELocationID><Abstract><AbstractText>Continuing advances in nucleotide sequencing technology are inspiring a suite of genomic approaches in studies of natural populations. Researchers are faced with data management and analytical scales that are increasing by orders of magnitude. With such dramatic advances comes a need to understand biases and error rates, which can be propagated and magnified in large-scale data acquisition and processing. Here we assess genomic sampling biases and the effects of various population-level data filtering strategies in a genotyping-by-sequencing (GBS) protocol. We focus on data from two species of Populus, because this genus has a relatively small genome and is emerging as a target for population genomic studies. We estimate the proportions and patterns of genomic sampling by examining the Populus trichocarpa genome (Nisqually-1), and demonstrate a pronounced bias towards coding regions when using the methylation-sensitive ApeKI restriction enzyme in this species. Using population-level data from a closely related species (P. tremuloides), we also investigate various approaches for filtering GBS data to retain high-depth, informative SNPs that can be used for population genetic analyses. We find a data filter that includes the designation of ambiguous alleles resulted in metrics of population structure and Hardy-Weinberg equilibrium that were most consistent with previous studies of the same populations based on other genetic markers. Analyses of the filtered data (27,910 SNPs) also resulted in patterns of heterozygosity and population structure similar to a previous study using microsatellites. Our application demonstrates that technically and analytically simple approaches can readily be developed for population genomics of natural populations. </AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Schilling</LastName><ForeName>Martin P</ForeName><Initials>MP</Initials><AffiliationInfo><Affiliation>Department of Biology, Utah State University, Logan, Utah, United States of America; Ecology Center, Utah State University, Logan, Utah, United States of America.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Wolf</LastName><ForeName>Paul G</ForeName><Initials>PG</Initials><AffiliationInfo><Affiliation>Department of Biology, Utah State University, Logan, Utah, United States of America; Ecology Center, Utah State University, Logan, Utah, United States of America.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Duffy</LastName><ForeName>Aaron M</ForeName><Initials>AM</Initials><AffiliationInfo><Affiliation>Department of Biology, Utah State University, Logan, Utah, United States of America.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Rai</LastName><ForeName>Hardeep S</ForeName><Initials>HS</Initials><AffiliationInfo><Affiliation>Department of Wildland Resources, Utah State University, Logan, Utah, United States of America.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Rowe</LastName><ForeName>Carol A</ForeName><Initials>CA</Initials><AffiliationInfo><Affiliation>Department of Wildland Resources, Utah State University, Logan, Utah, United States of America.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Richardson</LastName><ForeName>Bryce A</ForeName><Initials>BA</Initials><AffiliationInfo><Affiliation>Rocky Mountain Research Station, USDA Forest Service, Provo, Utah, United States of America.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Mock</LastName><ForeName>Karen E</ForeName><Initials>KE</Initials><AffiliationInfo><Affiliation>Department of Wildland Resources, Utah State University, Logan, Utah, United States of America; Ecology Center, Utah State University, Logan, Utah, United States of America.</Affiliation></AffiliationInfo></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType><PublicationType UI="D013486">Research Support, U.S. Gov't, Non-P.H.S.</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2014</Year><Month>04</Month><Day>18</Day></ArticleDate></Article><MedlineJournalInfo><Country>United States</Country><MedlineTA>PLoS One</MedlineTA><NlmUniqueID>101285081</NlmUniqueID><ISSNLinking>1932-6203</ISSNLinking></MedlineJournalInfo><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D018745" MajorTopicYN="N">Genome, 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IdType="pubmed">23110526</ArticleId></ArticleIdList></Reference><Reference><Citation>PLoS Genet. 2013;9(1):e1003215</Citation><ArticleIdList><ArticleId IdType="pubmed">23349638</ArticleId></ArticleIdList></Reference><Reference><Citation>Bioinformatics. 2008 Jun 1;24(11):1403-5</Citation><ArticleIdList><ArticleId IdType="pubmed">18397895</ArticleId></ArticleIdList></Reference><Reference><Citation>Plant Biotechnol J. 2013 Sep;11(7):809-17</Citation><ArticleIdList><ArticleId IdType="pubmed">23639032</ArticleId></ArticleIdList></Reference><Reference><Citation>PLoS One. 2012;7(7):e37558</Citation><ArticleIdList><ArticleId IdType="pubmed">22911679</ArticleId></ArticleIdList></Reference><Reference><Citation>Nat Rev Genet. 2011 Jul;12(7):499-510</Citation><ArticleIdList><ArticleId IdType="pubmed">21681211</ArticleId></ArticleIdList></Reference><Reference><Citation>Mol Ecol. 2008 Nov;17(22):4827-44</Citation><ArticleIdList><ArticleId IdType="pubmed">19140975</ArticleId></ArticleIdList></Reference><Reference><Citation>PLoS One. 2008;3(10):e3376</Citation><ArticleIdList><ArticleId IdType="pubmed">18852878</ArticleId></ArticleIdList></Reference><Reference><Citation>Mol Ecol. 2013 Jun;22(11):3179-90</Citation><ArticleIdList><ArticleId IdType="pubmed">23551379</ArticleId></ArticleIdList></Reference><Reference><Citation>Genetics. 2013 Apr;193(4):1073-81</Citation><ArticleIdList><ArticleId IdType="pubmed">23410831</ArticleId></ArticleIdList></Reference><Reference><Citation>PLoS One. 2009;4(11):e7888</Citation><ArticleIdList><ArticleId IdType="pubmed">19924308</ArticleId></ArticleIdList></Reference><Reference><Citation>Mol Ecol. 2013 Jun;22(11):3028-35</Citation><ArticleIdList><ArticleId IdType="pubmed">23174005</ArticleId></ArticleIdList></Reference><Reference><Citation>Genetica. 2011 Mar;139(3):353-67</Citation><ArticleIdList><ArticleId IdType="pubmed">21279823</ArticleId></ArticleIdList></Reference><Reference><Citation>Mol Ecol. 2012 Dec;21(24):5911-7</Citation><ArticleIdList><ArticleId IdType="pubmed">23121160</ArticleId></ArticleIdList></Reference><Reference><Citation>Mol Ecol Resour. 2011 Sep;11(5):759-69</Citation><ArticleIdList><ArticleId IdType="pubmed">21592312</ArticleId></ArticleIdList></Reference><Reference><Citation>Nat Rev Genet. 2011 Jun;12(6):443-51</Citation><ArticleIdList><ArticleId IdType="pubmed">21587300</ArticleId></ArticleIdList></Reference><Reference><Citation>PLoS Genet. 2010 Feb;6(2):e1000862</Citation><ArticleIdList><ArticleId IdType="pubmed">20195501</ArticleId></ArticleIdList></Reference><Reference><Citation>Nat Rev Genet. 2005 Nov;6(11):847-59</Citation><ArticleIdList><ArticleId IdType="pubmed">16304600</ArticleId></ArticleIdList></Reference><Reference><Citation>Mol Ecol. 2013 Jun;22(11):2841-7</Citation><ArticleIdList><ArticleId IdType="pubmed">23711105</ArticleId></ArticleIdList></Reference><Reference><Citation>PLoS One. 2007;2(11):e1172</Citation><ArticleIdList><ArticleId IdType="pubmed">18000544</ArticleId></ArticleIdList></Reference><Reference><Citation>Mol Ecol. 2012 Jun;21(12):2991-3005</Citation><ArticleIdList><ArticleId IdType="pubmed">22404645</ArticleId></ArticleIdList></Reference><Reference><Citation>G3 (Bethesda). 2011 Aug;1(3):171-82</Citation><ArticleIdList><ArticleId IdType="pubmed">22384329</ArticleId></ArticleIdList></Reference><Reference><Citation>Mol Ecol. 2004 Jul;13(7):1799-814</Citation><ArticleIdList><ArticleId IdType="pubmed">15189204</ArticleId></ArticleIdList></Reference><Reference><Citation>Mol Ecol. 2013 Mar;22(5):1214-30</Citation><ArticleIdList><ArticleId IdType="pubmed">23094714</ArticleId></ArticleIdList></Reference><Reference><Citation>Bioinformatics. 2011 Nov 1;27(21):3070-1</Citation><ArticleIdList><ArticleId IdType="pubmed">21926124</ArticleId></ArticleIdList></Reference><Reference><Citation>Genetics. 2011 Aug;188(4):941-52</Citation><ArticleIdList><ArticleId IdType="pubmed">21624997</ArticleId></ArticleIdList></Reference><Reference><Citation>Genome Res. 2013 May;23(5):833-42</Citation><ArticleIdList><ArticleId IdType="pubmed">23296920</ArticleId></ArticleIdList></Reference><Reference><Citation>Science. 2006 Sep 15;313(5793):1596-604</Citation><ArticleIdList><ArticleId IdType="pubmed">16973872</ArticleId></ArticleIdList></Reference><Reference><Citation>PLoS One. 2013;8(1):e54603</Citation><ArticleIdList><ArticleId IdType="pubmed">23372741</ArticleId></ArticleIdList></Reference><Reference><Citation>Mol Ecol Resour. 2011 Jul;11(4):591-611</Citation><ArticleIdList><ArticleId IdType="pubmed">21565126</ArticleId></ArticleIdList></Reference><Reference><Citation>Mol Biol Evol. 2012 Oct;29(10):3143-52</Citation><ArticleIdList><ArticleId IdType="pubmed">22513286</ArticleId></ArticleIdList></Reference><Reference><Citation>Nature. 2000 Sep 28;407(6803):513-6</Citation><ArticleIdList><ArticleId IdType="pubmed">11029002</ArticleId></ArticleIdList></Reference><Reference><Citation>Mol Ecol. 2010 Jun 1;19(12):2455-73</Citation><ArticleIdList><ArticleId IdType="pubmed">20497324</ArticleId></ArticleIdList></Reference><Reference><Citation>PLoS One. 2012;7(2):e32253</Citation><ArticleIdList><ArticleId IdType="pubmed">22389690</ArticleId></ArticleIdList></Reference><Reference><Citation>BMC Bioinformatics. 2011;12:451</Citation><ArticleIdList><ArticleId IdType="pubmed">22099972</ArticleId></ArticleIdList></Reference><Reference><Citation>Mol Ecol Resour. 2012 Nov;12(6):1168-76</Citation><ArticleIdList><ArticleId IdType="pubmed">22978657</ArticleId></ArticleIdList></Reference><Reference><Citation>Nat Methods. 2008 Mar;5(3):247-52</Citation><ArticleIdList><ArticleId IdType="pubmed">18297082</ArticleId></ArticleIdList></Reference><Reference><Citation>PLoS One. 2012;7(5):e37135</Citation><ArticleIdList><ArticleId IdType="pubmed">22675423</ArticleId></ArticleIdList></Reference></ReferenceList></PubmedData></pubmed><affiliations><list><country><li>États-Unis</li></country><region><li>Utah</li></region></list><tree><country name="États-Unis"><region name="Utah"><name sortKey="Schilling, Martin P" sort="Schilling, Martin P" uniqKey="Schilling M" first="Martin P" last="Schilling">Martin P. Schilling</name></region><name sortKey="Duffy, Aaron M" sort="Duffy, Aaron M" uniqKey="Duffy A" first="Aaron M" last="Duffy">Aaron M. Duffy</name><name sortKey="Mock, Karen E" sort="Mock, Karen E" uniqKey="Mock K" first="Karen E" last="Mock">Karen E. Mock</name><name sortKey="Rai, Hardeep S" sort="Rai, Hardeep S" uniqKey="Rai H" first="Hardeep S" last="Rai">Hardeep S. Rai</name><name sortKey="Richardson, Bryce A" sort="Richardson, Bryce A" uniqKey="Richardson B" first="Bryce A" last="Richardson">Bryce A. Richardson</name><name sortKey="Rowe, Carol A" sort="Rowe, Carol A" uniqKey="Rowe C" first="Carol A" last="Rowe">Carol A. Rowe</name><name sortKey="Wolf, Paul G" sort="Wolf, Paul G" uniqKey="Wolf P" first="Paul G" last="Wolf">Paul G. Wolf</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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|type= RBID
|clé= pubmed:24748384
|texte= Genotyping-by-sequencing for Populus population genomics: an assessment of genome sampling patterns and filtering approaches.
}}
Pour générer des pages wiki
HfdIndexSelect -h $EXPLOR_AREA/Data/Main/Exploration/RBID.i -Sk "pubmed:24748384" \
| HfdSelect -Kh $EXPLOR_AREA/Data/Main/Exploration/biblio.hfd \
| NlmPubMed2Wicri -a PoplarV1
| This area was generated with Dilib version V0.6.37. |  |