A first generation microsatellite- and SNP-based linkage map of Jatropha.
Identifieur interne : 003021 ( Main/Exploration ); précédent : 003020; suivant : 003022A first generation microsatellite- and SNP-based linkage map of Jatropha.
Auteurs : Chun Ming Wang [Singapour] ; Peng Liu ; Chengxin Yi ; Keyu Gu ; Fei Sun ; Lei Li ; Loong Chueng Lo ; Xiaokun Liu ; Felicia Feng ; Grace Lin ; Suying Cao ; Yan Hong ; Zhongchao Yin ; Gen Hua YueSource :
- PloS one [ 1932-6203 ] ; 2011.
Descripteurs français
- KwdFr :
- Cartographie chromosomique (MeSH), Chromosomes de plante (génétique), Génome végétal (génétique), Jatropha (génétique), Liaison génétique (génétique), Locus de caractère quantitatif (génétique), Polymorphisme de nucléotide simple (génétique), Répétitions microsatellites (génétique), Étiquettes de séquences exprimées (MeSH).
- MESH :
English descriptors
- KwdEn :
- MESH :
Abstract
Jatropha curcas is a potential plant species for biodiesel production. However, its seed yield is too low for profitable production of biodiesel. To improve the productivity, genetic improvement through breeding is essential. A linkage map is an important component in molecular breeding. We established a first-generation linkage map using a mapping panel containing two backcross populations with 93 progeny. We mapped 506 markers (216 microsatellites and 290 SNPs from ESTs) onto 11 linkage groups. The total length of the map was 1440.9 cM with an average marker space of 2.8 cM. Blasting of 222 Jatropha ESTs containing polymorphic SSR or SNP markers against EST-databases revealed that 91.0%, 86.5% and 79.2% of Jatropha ESTs were homologous to counterparts in castor bean, poplar and Arabidopsis respectively. Mapping 192 orthologous markers to the assembled whole genome sequence of Arabidopsis thaliana identified 38 syntenic blocks and revealed that small linkage blocks were well conserved, but often shuffled. The first generation linkage map and the data of comparative mapping could lay a solid foundation for QTL mapping of agronomic traits, marker-assisted breeding and cloning genes responsible for phenotypic variation.
DOI: 10.1371/journal.pone.0023632
PubMed: 21901124
PubMed Central: PMC3161998
Affiliations:
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first="Chengxin" last="Yi">Chengxin Yi</name></author><author><name sortKey="Gu, Keyu" sort="Gu, Keyu" uniqKey="Gu K" first="Keyu" last="Gu">Keyu Gu</name></author><author><name sortKey="Sun, Fei" sort="Sun, Fei" uniqKey="Sun F" first="Fei" last="Sun">Fei Sun</name></author><author><name sortKey="Li, Lei" sort="Li, Lei" uniqKey="Li L" first="Lei" last="Li">Lei Li</name></author><author><name sortKey="Lo, Loong Chueng" sort="Lo, Loong Chueng" uniqKey="Lo L" first="Loong Chueng" last="Lo">Loong Chueng Lo</name></author><author><name sortKey="Liu, Xiaokun" sort="Liu, Xiaokun" uniqKey="Liu X" first="Xiaokun" last="Liu">Xiaokun Liu</name></author><author><name sortKey="Feng, Felicia" sort="Feng, Felicia" uniqKey="Feng F" first="Felicia" last="Feng">Felicia Feng</name></author><author><name sortKey="Lin, Grace" sort="Lin, Grace" uniqKey="Lin G" first="Grace" last="Lin">Grace Lin</name></author><author><name sortKey="Cao, Suying" sort="Cao, Suying" uniqKey="Cao S" first="Suying" last="Cao">Suying Cao</name></author><author><name sortKey="Hong, Yan" sort="Hong, Yan" uniqKey="Hong Y" first="Yan" last="Hong">Yan Hong</name></author><author><name sortKey="Yin, Zhongchao" sort="Yin, Zhongchao" uniqKey="Yin Z" first="Zhongchao" last="Yin">Zhongchao Yin</name></author><author><name sortKey="Yue, Gen Hua" sort="Yue, Gen Hua" uniqKey="Yue G" first="Gen Hua" last="Yue">Gen Hua Yue</name></author></analytic><series><title level="j">PloS one</title><idno type="eISSN">1932-6203</idno><imprint><date when="2011" type="published">2011</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Chromosome Mapping (MeSH)</term><term>Chromosomes, Plant (genetics)</term><term>Expressed Sequence Tags (MeSH)</term><term>Genetic Linkage (genetics)</term><term>Genome, Plant (genetics)</term><term>Jatropha (genetics)</term><term>Microsatellite Repeats (genetics)</term><term>Polymorphism, Single Nucleotide (genetics)</term><term>Quantitative Trait Loci (genetics)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Cartographie chromosomique (MeSH)</term><term>Chromosomes de plante (génétique)</term><term>Génome végétal (génétique)</term><term>Jatropha (génétique)</term><term>Liaison génétique (génétique)</term><term>Locus de caractère quantitatif (génétique)</term><term>Polymorphisme de nucléotide simple (génétique)</term><term>Répétitions microsatellites (génétique)</term><term>Étiquettes de séquences exprimées (MeSH)</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Chromosomes, Plant</term><term>Genetic Linkage</term><term>Genome, Plant</term><term>Jatropha</term><term>Microsatellite Repeats</term><term>Polymorphism, Single Nucleotide</term><term>Quantitative Trait Loci</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Chromosomes de plante</term><term>Génome végétal</term><term>Jatropha</term><term>Liaison génétique</term><term>Locus de caractère quantitatif</term><term>Polymorphisme de nucléotide simple</term><term>Répétitions microsatellites</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Chromosome Mapping</term><term>Expressed Sequence Tags</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Cartographie chromosomique</term><term>Étiquettes de séquences exprimées</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Jatropha curcas is a potential plant species for biodiesel production. However, its seed yield is too low for profitable production of biodiesel. To improve the productivity, genetic improvement through breeding is essential. A linkage map is an important component in molecular breeding. We established a first-generation linkage map using a mapping panel containing two backcross populations with 93 progeny. We mapped 506 markers (216 microsatellites and 290 SNPs from ESTs) onto 11 linkage groups. The total length of the map was 1440.9 cM with an average marker space of 2.8 cM. Blasting of 222 Jatropha ESTs containing polymorphic SSR or SNP markers against EST-databases revealed that 91.0%, 86.5% and 79.2% of Jatropha ESTs were homologous to counterparts in castor bean, poplar and Arabidopsis respectively. Mapping 192 orthologous markers to the assembled whole genome sequence of Arabidopsis thaliana identified 38 syntenic blocks and revealed that small linkage blocks were well conserved, but often shuffled. The first generation linkage map and the data of comparative mapping could lay a solid foundation for QTL mapping of agronomic traits, marker-assisted breeding and cloning genes responsible for phenotypic variation.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">21901124</PMID><DateCompleted><Year>2012</Year><Month>04</Month><Day>13</Day></DateCompleted><DateRevised><Year>2020</Year><Month>03</Month><Day>05</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1932-6203</ISSN><JournalIssue CitedMedium="Internet"><Volume>6</Volume><Issue>8</Issue><PubDate><Year>2011</Year></PubDate></JournalIssue><Title>PloS one</Title><ISOAbbreviation>PLoS One</ISOAbbreviation></Journal><ArticleTitle>A first generation microsatellite- and SNP-based linkage map of Jatropha.</ArticleTitle><Pagination><MedlinePgn>e23632</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1371/journal.pone.0023632</ELocationID><Abstract><AbstractText>Jatropha curcas is a potential plant species for biodiesel production. However, its seed yield is too low for profitable production of biodiesel. To improve the productivity, genetic improvement through breeding is essential. A linkage map is an important component in molecular breeding. We established a first-generation linkage map using a mapping panel containing two backcross populations with 93 progeny. We mapped 506 markers (216 microsatellites and 290 SNPs from ESTs) onto 11 linkage groups. The total length of the map was 1440.9 cM with an average marker space of 2.8 cM. Blasting of 222 Jatropha ESTs containing polymorphic SSR or SNP markers against EST-databases revealed that 91.0%, 86.5% and 79.2% of Jatropha ESTs were homologous to counterparts in castor bean, poplar and Arabidopsis respectively. Mapping 192 orthologous markers to the assembled whole genome sequence of Arabidopsis thaliana identified 38 syntenic blocks and revealed that small linkage blocks were well conserved, but often shuffled. The first generation linkage map and the data of comparative mapping could lay a solid foundation for QTL mapping of agronomic traits, marker-assisted breeding and cloning genes responsible for phenotypic variation.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Wang</LastName><ForeName>Chun Ming</ForeName><Initials>CM</Initials><AffiliationInfo><Affiliation>Molecular Population Genetics Group, Temasek Life Sciences Laboratory, National University of Singapore, Singapore, Singapore.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Liu</LastName><ForeName>Peng</ForeName><Initials>P</Initials></Author><Author ValidYN="Y"><LastName>Yi</LastName><ForeName>Chengxin</ForeName><Initials>C</Initials></Author><Author ValidYN="Y"><LastName>Gu</LastName><ForeName>Keyu</ForeName><Initials>K</Initials></Author><Author ValidYN="Y"><LastName>Sun</LastName><ForeName>Fei</ForeName><Initials>F</Initials></Author><Author ValidYN="Y"><LastName>Li</LastName><ForeName>Lei</ForeName><Initials>L</Initials></Author><Author ValidYN="Y"><LastName>Lo</LastName><ForeName>Loong Chueng</ForeName><Initials>LC</Initials></Author><Author ValidYN="Y"><LastName>Liu</LastName><ForeName>Xiaokun</ForeName><Initials>X</Initials></Author><Author ValidYN="Y"><LastName>Feng</LastName><ForeName>Felicia</ForeName><Initials>F</Initials></Author><Author ValidYN="Y"><LastName>Lin</LastName><ForeName>Grace</ForeName><Initials>G</Initials></Author><Author ValidYN="Y"><LastName>Cao</LastName><ForeName>Suying</ForeName><Initials>S</Initials></Author><Author ValidYN="Y"><LastName>Hong</LastName><ForeName>Yan</ForeName><Initials>Y</Initials></Author><Author ValidYN="Y"><LastName>Yin</LastName><ForeName>Zhongchao</ForeName><Initials>Z</Initials></Author><Author ValidYN="Y"><LastName>Yue</LastName><ForeName>Gen Hua</ForeName><Initials>GH</Initials></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType><PublicationType UI="D013485">Research Support, Non-U.S. Gov't</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2011</Year><Month>08</Month><Day>25</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="D002874" MajorTopicYN="N">Chromosome Mapping</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D032461" MajorTopicYN="N">Chromosomes, Plant</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D020224" MajorTopicYN="N">Expressed Sequence Tags</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D008040" MajorTopicYN="N">Genetic Linkage</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D018745" MajorTopicYN="N">Genome, Plant</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D031286" MajorTopicYN="N">Jatropha</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D018895" MajorTopicYN="N">Microsatellite Repeats</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D020641" MajorTopicYN="N">Polymorphism, Single Nucleotide</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D040641" MajorTopicYN="N">Quantitative Trait Loci</DescriptorName><QualifierName UI="Q000235" 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Lei" uniqKey="Li L" first="Lei" last="Li">Lei Li</name><name sortKey="Lin, Grace" sort="Lin, Grace" uniqKey="Lin G" first="Grace" last="Lin">Grace Lin</name><name sortKey="Liu, Peng" sort="Liu, Peng" uniqKey="Liu P" first="Peng" last="Liu">Peng Liu</name><name sortKey="Liu, Xiaokun" sort="Liu, Xiaokun" uniqKey="Liu X" first="Xiaokun" last="Liu">Xiaokun Liu</name><name sortKey="Lo, Loong Chueng" sort="Lo, Loong Chueng" uniqKey="Lo L" first="Loong Chueng" last="Lo">Loong Chueng Lo</name><name sortKey="Sun, Fei" sort="Sun, Fei" uniqKey="Sun F" first="Fei" last="Sun">Fei Sun</name><name sortKey="Yi, Chengxin" sort="Yi, Chengxin" uniqKey="Yi C" first="Chengxin" last="Yi">Chengxin Yi</name><name sortKey="Yin, Zhongchao" sort="Yin, Zhongchao" uniqKey="Yin Z" first="Zhongchao" last="Yin">Zhongchao Yin</name><name sortKey="Yue, Gen Hua" sort="Yue, Gen Hua" uniqKey="Yue G" first="Gen Hua" last="Yue">Gen Hua Yue</name></noCountry><country name="Singapour"><noRegion><name sortKey="Wang, Chun Ming" 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