Sexual epigenetics: gender-specific methylation of a gene in the sex determining region of Populus balsamifera.
Identifieur interne : 001201 ( Main/Exploration ); précédent : 001200; suivant : 001202Sexual epigenetics: gender-specific methylation of a gene in the sex determining region of Populus balsamifera.
Auteurs : Katharina Br Utigam [Canada] ; Raju Soolanayakanahally [Canada] ; Marc Champigny [Canada] ; Shawn Mansfield [Canada] ; Carl Douglas [Canada] ; Malcolm M. Campbell [Canada] ; Quentin Cronk [Canada]Source :
- Scientific reports [ 2045-2322 ] ; 2017.
Descripteurs français
- KwdFr :
- MESH :
- génétique : Génome végétal, Méthylation de l'ADN, Populus, Régulation de l'expression des gènes végétaux, Épigenèse génétique.
- méthodes : Épigénomique.
English descriptors
- KwdEn :
- MESH :
- genetics : DNA Methylation, Epigenesis, Genetic, Gene Expression Regulation, Plant, Genome, Plant, Populus.
- methods : Epigenomics.
Abstract
Methylation has frequently been implicated in gender determination in plants. The recent discovery of the sex determining region (SDR) of balsam poplar, Populus balsamifera, pinpointed 13 genes with differentiated X and Y copies. We tested these genes for differential methylation using whole methylome sequencing of xylem tissue of multiple individuals grown under field conditions in two common gardens. The only SDR gene to show a marked pattern of gender-specific methylation is PbRR9, a member of the two component response regulator (type-A) gene family, involved in cytokinin signalling. It is an ortholog of Arabidopsis genes ARR16 and ARR17. The strongest patterns of differential methylation (mostly male-biased) are found in the putative promoter and the first intron. The 4th intron is strongly methylated in both sexes and the 5th intron is unmethylated in both sexes. Using a statistical learning algorithm we find that it is possible accurately to assign trees to gender using genome-wide methylation patterns alone. The strongest predictor is the region coincident with PbRR9, showing that this gene stands out against all genes in the genome in having the strongest sex-specific methylation pattern. We propose the hypothesis that PbRR9 has a direct, epigenetically mediated, role in poplar sex determination.
DOI: 10.1038/srep45388
PubMed: 28345647
PubMed Central: PMC5366940
Affiliations:
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Utigam</name><affiliation wicri:level="1"><nlm:affiliation>Department of Biology, University of Toronto Missisauga, Mississauga ON, L5L 1C6, Canada.</nlm:affiliation><country xml:lang="fr">Canada</country><wicri:regionArea>Department of Biology, University of Toronto Missisauga, Mississauga ON, L5L 1C6</wicri:regionArea><wicri:noRegion>L5L 1C6</wicri:noRegion></affiliation></author><author><name sortKey="Soolanayakanahally, Raju" sort="Soolanayakanahally, Raju" uniqKey="Soolanayakanahally R" first="Raju" last="Soolanayakanahally">Raju Soolanayakanahally</name><affiliation wicri:level="1"><nlm:affiliation>Saskatoon Research and Development Centre, Agriculture and Agri-Food Canada, 107 Science Place, Saskatoon SK, S7N OX2, Canada.</nlm:affiliation><country xml:lang="fr">Canada</country><wicri:regionArea>Saskatoon Research and Development Centre, Agriculture and Agri-Food Canada, 107 Science Place, Saskatoon SK, S7N OX2</wicri:regionArea><wicri:noRegion>S7N OX2</wicri:noRegion></affiliation></author><author><name sortKey="Champigny, Marc" sort="Champigny, Marc" uniqKey="Champigny M" first="Marc" last="Champigny">Marc Champigny</name><affiliation wicri:level="1"><nlm:affiliation>Department of Biological Sciences, University of Toronto Scarborough, Toronto, ON M1C 1A4, Canada.</nlm:affiliation><country xml:lang="fr">Canada</country><wicri:regionArea>Department of Biological Sciences, University of Toronto Scarborough, Toronto, ON M1C 1A4</wicri:regionArea><wicri:noRegion>ON M1C 1A4</wicri:noRegion></affiliation></author><author><name sortKey="Mansfield, Shawn" sort="Mansfield, Shawn" uniqKey="Mansfield S" first="Shawn" last="Mansfield">Shawn Mansfield</name><affiliation wicri:level="4"><nlm:affiliation>Department of Wood Science, University of British Columbia, 4030-2424 Main Mall, Vancouver BC, V6T 1Z4, Canada.</nlm:affiliation><country xml:lang="fr">Canada</country><wicri:regionArea>Department of Wood Science, University of British Columbia, 4030-2424 Main Mall, Vancouver BC, V6T 1Z4</wicri:regionArea><orgName type="university">Université de la Colombie-Britannique</orgName><placeName><settlement type="city">Vancouver</settlement><region type="state">Colombie-Britannique </region></placeName></affiliation></author><author><name sortKey="Douglas, Carl" sort="Douglas, Carl" uniqKey="Douglas C" first="Carl" last="Douglas">Carl Douglas</name><affiliation wicri:level="4"><nlm:affiliation>Department of Botany, University of British Columbia, Vancouver BC, V6T 1Z4, Canada.</nlm:affiliation><country xml:lang="fr">Canada</country><wicri:regionArea>Department of Botany, University of British Columbia, Vancouver BC, V6T 1Z4</wicri:regionArea><orgName type="university">Université de la Colombie-Britannique</orgName><placeName><settlement type="city">Vancouver</settlement><region type="state">Colombie-Britannique </region></placeName></affiliation></author><author><name sortKey="Campbell, Malcolm M" sort="Campbell, Malcolm M" uniqKey="Campbell M" first="Malcolm M" last="Campbell">Malcolm M. Campbell</name><affiliation wicri:level="1"><nlm:affiliation>Department of Molecular and Cellular Biology, University of Guelph, Guelph ON N1G 2W1, Canada.</nlm:affiliation><country xml:lang="fr">Canada</country><wicri:regionArea>Department of Molecular and Cellular Biology, University of Guelph, Guelph ON N1G 2W1</wicri:regionArea><wicri:noRegion>Guelph ON N1G 2W1</wicri:noRegion></affiliation></author><author><name sortKey="Cronk, Quentin" sort="Cronk, Quentin" uniqKey="Cronk Q" first="Quentin" last="Cronk">Quentin Cronk</name><affiliation wicri:level="4"><nlm:affiliation>Department of Botany, University of British Columbia, Vancouver BC, V6T 1Z4, Canada.</nlm:affiliation><country xml:lang="fr">Canada</country><wicri:regionArea>Department of Botany, University of British Columbia, Vancouver BC, V6T 1Z4</wicri:regionArea><orgName type="university">Université de la Colombie-Britannique</orgName><placeName><settlement type="city">Vancouver</settlement><region type="state">Colombie-Britannique </region></placeName></affiliation></author></analytic><series><title level="j">Scientific reports</title><idno type="eISSN">2045-2322</idno><imprint><date when="2017" type="published">2017</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>DNA Methylation (genetics)</term><term>Epigenesis, Genetic (genetics)</term><term>Epigenomics (methods)</term><term>Gene Expression Regulation, Plant (genetics)</term><term>Genome, Plant (genetics)</term><term>Populus (genetics)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Génome végétal (génétique)</term><term>Méthylation de l'ADN (génétique)</term><term>Populus (génétique)</term><term>Régulation de l'expression des gènes végétaux (génétique)</term><term>Épigenèse génétique (génétique)</term><term>Épigénomique (méthodes)</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>DNA Methylation</term><term>Epigenesis, Genetic</term><term>Gene Expression Regulation, Plant</term><term>Genome, Plant</term><term>Populus</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Génome végétal</term><term>Méthylation de l'ADN</term><term>Populus</term><term>Régulation de l'expression des gènes végétaux</term><term>Épigenèse génétique</term></keywords><keywords scheme="MESH" qualifier="methods" xml:lang="en"><term>Epigenomics</term></keywords><keywords scheme="MESH" qualifier="méthodes" xml:lang="fr"><term>Épigénomique</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Methylation has frequently been implicated in gender determination in plants. The recent discovery of the sex determining region (SDR) of balsam poplar, Populus balsamifera, pinpointed 13 genes with differentiated X and Y copies. We tested these genes for differential methylation using whole methylome sequencing of xylem tissue of multiple individuals grown under field conditions in two common gardens. The only SDR gene to show a marked pattern of gender-specific methylation is PbRR9, a member of the two component response regulator (type-A) gene family, involved in cytokinin signalling. It is an ortholog of Arabidopsis genes ARR16 and ARR17. The strongest patterns of differential methylation (mostly male-biased) are found in the putative promoter and the first intron. The 4th intron is strongly methylated in both sexes and the 5th intron is unmethylated in both sexes. Using a statistical learning algorithm we find that it is possible accurately to assign trees to gender using genome-wide methylation patterns alone. The strongest predictor is the region coincident with PbRR9, showing that this gene stands out against all genes in the genome in having the strongest sex-specific methylation pattern. We propose the hypothesis that PbRR9 has a direct, epigenetically mediated, role in poplar sex determination.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">28345647</PMID><DateCompleted><Year>2018</Year><Month>11</Month><Day>13</Day></DateCompleted><DateRevised><Year>2018</Year><Month>11</Month><Day>13</Day></DateRevised><Article PubModel="Electronic"><Journal><ISSN IssnType="Electronic">2045-2322</ISSN><JournalIssue CitedMedium="Internet"><Volume>7</Volume><PubDate><Year>2017</Year><Month>03</Month><Day>27</Day></PubDate></JournalIssue><Title>Scientific reports</Title><ISOAbbreviation>Sci Rep</ISOAbbreviation></Journal><ArticleTitle>Sexual epigenetics: gender-specific methylation of a gene in the sex determining region of Populus balsamifera.</ArticleTitle><Pagination><MedlinePgn>45388</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1038/srep45388</ELocationID><Abstract><AbstractText>Methylation has frequently been implicated in gender determination in plants. The recent discovery of the sex determining region (SDR) of balsam poplar, Populus balsamifera, pinpointed 13 genes with differentiated X and Y copies. We tested these genes for differential methylation using whole methylome sequencing of xylem tissue of multiple individuals grown under field conditions in two common gardens. The only SDR gene to show a marked pattern of gender-specific methylation is PbRR9, a member of the two component response regulator (type-A) gene family, involved in cytokinin signalling. It is an ortholog of Arabidopsis genes ARR16 and ARR17. The strongest patterns of differential methylation (mostly male-biased) are found in the putative promoter and the first intron. The 4th intron is strongly methylated in both sexes and the 5th intron is unmethylated in both sexes. Using a statistical learning algorithm we find that it is possible accurately to assign trees to gender using genome-wide methylation patterns alone. The strongest predictor is the region coincident with PbRR9, showing that this gene stands out against all genes in the genome in having the strongest sex-specific methylation pattern. We propose the hypothesis that PbRR9 has a direct, epigenetically mediated, role in poplar sex determination.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Bräutigam</LastName><ForeName>Katharina</ForeName><Initials>K</Initials><AffiliationInfo><Affiliation>Department of Biology, University of Toronto Missisauga, Mississauga ON, L5L 1C6, Canada.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Soolanayakanahally</LastName><ForeName>Raju</ForeName><Initials>R</Initials><AffiliationInfo><Affiliation>Saskatoon Research and Development Centre, Agriculture and Agri-Food Canada, 107 Science Place, Saskatoon SK, S7N OX2, Canada.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Champigny</LastName><ForeName>Marc</ForeName><Initials>M</Initials><AffiliationInfo><Affiliation>Department of Biological Sciences, University of Toronto Scarborough, Toronto, ON M1C 1A4, Canada.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Mansfield</LastName><ForeName>Shawn</ForeName><Initials>S</Initials><AffiliationInfo><Affiliation>Department of Wood Science, University of British Columbia, 4030-2424 Main Mall, Vancouver BC, V6T 1Z4, Canada.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Douglas</LastName><ForeName>Carl</ForeName><Initials>C</Initials><AffiliationInfo><Affiliation>Department of Botany, University of British Columbia, Vancouver BC, V6T 1Z4, Canada.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Campbell</LastName><ForeName>Malcolm M</ForeName><Initials>MM</Initials><AffiliationInfo><Affiliation>Department of Molecular and Cellular Biology, University of Guelph, Guelph ON N1G 2W1, Canada.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Cronk</LastName><ForeName>Quentin</ForeName><Initials>Q</Initials><AffiliationInfo><Affiliation>Department of Botany, University of British Columbia, Vancouver BC, V6T 1Z4, Canada.</Affiliation></AffiliationInfo></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>2017</Year><Month>03</Month><Day>27</Day></ArticleDate></Article><MedlineJournalInfo><Country>England</Country><MedlineTA>Sci Rep</MedlineTA><NlmUniqueID>101563288</NlmUniqueID><ISSNLinking>2045-2322</ISSNLinking></MedlineJournalInfo><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D019175" MajorTopicYN="N">DNA Methylation</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D044127" MajorTopicYN="N">Epigenesis, Genetic</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D057890" MajorTopicYN="N">Epigenomics</DescriptorName><QualifierName UI="Q000379" MajorTopicYN="N">methods</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D018506" MajorTopicYN="N">Gene Expression Regulation, Plant</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D018745" MajorTopicYN="N">Genome, Plant</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D032107" MajorTopicYN="N">Populus</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName></MeshHeading></MeshHeadingList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="received"><Year>2016</Year><Month>12</Month><Day>08</Day></PubMedPubDate><PubMedPubDate PubStatus="accepted"><Year>2017</Year><Month>02</Month><Day>27</Day></PubMedPubDate><PubMedPubDate 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IdType="pubmed">18687965</ArticleId></ArticleIdList></Reference></ReferenceList></PubmedData></pubmed><affiliations><list><country><li>Canada</li></country><region><li>Colombie-Britannique </li></region><settlement><li>Vancouver</li></settlement><orgName><li>Université de la Colombie-Britannique</li></orgName></list><tree><country name="Canada"><noRegion><name sortKey="Br Utigam, Katharina" sort="Br Utigam, Katharina" uniqKey="Br Utigam K" first="Katharina" last="Br Utigam">Katharina Br Utigam</name></noRegion><name sortKey="Campbell, Malcolm M" sort="Campbell, Malcolm M" uniqKey="Campbell M" first="Malcolm M" last="Campbell">Malcolm M. Campbell</name><name sortKey="Champigny, Marc" sort="Champigny, Marc" uniqKey="Champigny M" first="Marc" last="Champigny">Marc Champigny</name><name sortKey="Cronk, Quentin" sort="Cronk, Quentin" uniqKey="Cronk Q" first="Quentin" last="Cronk">Quentin Cronk</name><name sortKey="Douglas, Carl" sort="Douglas, Carl" uniqKey="Douglas C" first="Carl" last="Douglas">Carl Douglas</name><name sortKey="Mansfield, Shawn" sort="Mansfield, Shawn" uniqKey="Mansfield S" first="Shawn" last="Mansfield">Shawn Mansfield</name><name sortKey="Soolanayakanahally, Raju" sort="Soolanayakanahally, Raju" uniqKey="Soolanayakanahally R" first="Raju" last="Soolanayakanahally">Raju Soolanayakanahally</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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