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dc.contributor.authorHODKINSON, TREVORen
dc.date.accessioned2017-01-17T12:28:13Z
dc.date.available2017-01-17T12:28:13Z
dc.date.issued2016en
dc.date.submitted2016en
dc.identifier.citationArojju SK, Barth S, Milbourne D, Conaghan P, Velmurugan J, Hodkinson TR, Byrne SL, Markers associated with heading and aftermath heading in perennial ryegrass full-sib families, BMC Plant Biology, 16, 2016, 1 - 16en
dc.identifier.otherYen
dc.identifier.urihttp://hdl.handle.net/2262/78779
dc.descriptionPUBLISHEDen
dc.description.abstractBackground Heading and aftermath heading are important traits in perennial ryegrass because they impact forage quality. So far, genome-wide association analyses in this major forage species have only identified a small number of genetic variants associated with heading date that overall explained little of the variation. Some possible reasons include rare alleles with large phenotypic affects, allelic heterogeneity, or insufficient marker density. We established a genome-wide association panel with multiple genotypes from multiple full-sib families. This ensured alleles were present at the frequency needed to have sufficient statistical power to identify associations. We genotyped the panel via partial genome sequencing and performed genome-wide association analyses with multi-year phenotype data collected for heading date, and aftermath heading. Results Genome wide association using a mixed linear model failed to identify any variants significantly associated with heading date or aftermath heading. Our failure to identify associations for these traits is likely due to the extremely low linkage disequilibrium we observed in this population. However, using single marker analysis within each full-sib family we could identify markers and genomic regions associated with heading and aftermath heading. Using the ryegrass genome we identified putative orthologs of key heading genes, some of which were located in regions of marker-trait associations. Conclusion Given the very low levels of LD, genome wide association studies in perennial ryegrass populations are going to require very high SNP densities. Single marker analysis within full-sibs enabled us to identify significant marker-trait associations. One of these markers anchored proximal to a putative ortholog of TFL1, homologues of which have been shown to play a key role in continuous heading of some members of the rose family, Rosaceae.en
dc.description.sponsorshipSKA is supported by a Teagasc PhD Walsh Fellowship. SLB is supported by an EU Marie-Sklodowska-Curie Fellowship (H2020-MSCA-IF: 658031). The study was funded through a DAFM project (RSF 14/S/819) and Teagasc core funding. The funders played no role in design of the study, collection of the data, analysis, and interpretation of data and in writing the manuscript.en
dc.format.extent1en
dc.format.extent16en
dc.language.isoenen
dc.relation.ispartofseriesBMC Plant Biologyen
dc.relation.ispartofseries16en
dc.rightsYen
dc.subjectgenome wide association studiesen
dc.subject.lcshgenome wide association studiesen
dc.titleMarkers associated with heading and aftermath heading in perennial ryegrass full-sib familiesen
dc.typeJournal Articleen
dc.type.supercollectionscholarly_publicationsen
dc.type.supercollectionrefereed_publicationsen
dc.identifier.peoplefinderurlhttp://people.tcd.ie/hodkinsten
dc.identifier.rssinternalid121917en
dc.identifier.doihttp://dx.doi.org/10.1186/s12870-016-0844-yen
dc.rights.ecaccessrightsopenAccess
dc.subject.TCDThemeGenes & Societyen
dc.subject.TCDThemeSmart & Sustainable Planeten
dc.identifier.rssurihttp://bmcplantbiol.biomedcentral.com/articles/10.1186/s12870-016-0844-yen
dc.identifier.orcid_id0000-0003-1384-7270en


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