Construction and integration of genetic linkage maps from three multi-parent advanced generation inter-cross populations in rice

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cg.contributor.crpAgriculture for Nutrition and Health
cg.contributor.donorNational Natural Science Foundation of China
cg.contributor.donorAgricultural Science and Technology Innovation Program and the Cooperation and Innovation Mission
cg.contributor.donorCGIAR Trust Fund
cg.identifier.doihttps://doi.org/10.1186/s12284-020-0373-z
cg.identifier.projectIFPRI - HarvestPlus
cg.issn1939-8425
cg.issue1
cg.journalRice
cg.number13
cg.reviewStatusPeer Review
cg.volume13
dc.contributor.authorQu, Pingping
dc.contributor.authorShi, Jinhui
dc.contributor.authorChen, Tianxiao
dc.contributor.authorChen, Kai
dc.contributor.authorShen, Congcong
dc.contributor.authorWang, Jiankang
dc.contributor.authorZhao, Xiangqian
dc.contributor.authorYe, Guoyou
dc.contributor.authorXu, Jianlong
dc.contributor.authorZhang, Luyan
dc.date.accessioned2024-12-19T12:54:01Zen
dc.date.available2024-12-19T12:54:01Zen
dc.identifier.urihttps://hdl.handle.net/10568/164546
dc.titleConstruction and integration of genetic linkage maps from three multi-parent advanced generation inter-cross populations in riceen
dcterms.abstractThe construction of genetic maps based on molecular markers is a crucial step in rice genetic and genomic studies. Pure lines derived from multiple parents provide more abundant genetic variation than those from bi-parent populations. Two four-parent pure-line populations (4PL1 and 4PL2) and one eight-parent pure-line population (8PL) were developed from eight homozygousindicavarieties of rice by the International Rice Research Institute (IRRI). To the best of our knowledge, there have been no reports on linkage map construction and their integration in multi-parent populations of rice.ResultsWe constructed linkage maps for the three multi-parent populations and conducted quantitative trait locus (QTL) mapping for heading date (HD) and plant height (PH) based on the three maps by inclusive composite interval mapping (ICIM). An integrated map was built from the three individual maps and used for QTL projection and meta-analysis. QTL mapping of the three populations was also conducted based on the integrated map, and the mapping results were compared with those from meta-analysis. The three linkage maps developed for 8PL, 4PL1 and 4PL2 had 5905, 4354 and 5464 bins and were 1290.16, 1720.01 and 1560.30 cM in length, respectively. The integrated map was 3022.08 cM in length and contained 10,033 bins. Based on the three linkage maps, 3, 7 and 9 QTLs were detected for HD while 6, 9 and 10 QTLs were detected for PH in 8PL, 4PL1 and 4PL2, respectively. In contrast, 19 and 25 QTLs were identified for HD and PH by meta-analysis using the integrated map, respectively. Based on the integrated map, 5, 9, and 10 QTLs were detected for HD while 3, 10, and 12 QTLs were detected for PH in 8PL, 4PL1 and 4PL2, respectively. Eleven of these 49 QTLs coincided with those from the meta-analysis.ConclusionsIn this study, we reported the first rice linkage map constructed from one eight-parent recombinant inbred line (RIL) population and the first integrated map from three multi-parent populations, which provide essential information for QTL linkage mapping, meta-analysis, and map-based cloning in rice genetics and breeding.en
dcterms.accessRightsOpen Access
dcterms.available2020-02-14
dcterms.bibliographicCitationQu, Pingping; Shi, Jinhui; Chen, Tianxiao; Chen, Kai; Shen, Congcong; Wang, Jiankang; Zhao, Xiangqian; Ye, Guoyou; Xu, Jianlong and Zhang, Luyan. 2020. Construction and integration of genetic linkage maps from three multi-parent advanced generation inter-cross populations in rice. Rice, Volume 13, no. 1 https://doi.org/10.1186/s12284-020-0373-zen
dcterms.issued2020-12
dcterms.languageen
dcterms.licenseCC-BY-4.0
dcterms.publisherSpringer
dcterms.replaceshttps://hdl.handle.net/10568/171247
dcterms.subjectagronomyen
dcterms.subjectcrop scienceen
dcterms.subjectplant scienceen
dcterms.subjectsoil scienceen
dcterms.subjectriceen
dcterms.subjectmapsen
dcterms.subjectplant breedingen
dcterms.subjectgenetic linkageen
dcterms.subjectdiversificationen
dcterms.subjectrecombinant dnaen
dcterms.typeJournal Article

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