Construction of a versatile SNP array for pyramiding useful genes of rice

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dc.creatorKurokawa, Yusuke
dc.creatorNoda, Tomonori
dc.creatorYamagata, Yoshiyuki
dc.creatorAngeles-Shim, Rosalyn
dc.creatorSunohara, Hidehiko
dc.creatorUehara, Kanako
dc.creatorFuruta, Tomoyuki
dc.creatorNagai, Keisuke
dc.creatorJena, Kshirod Kumar
dc.creatorYasui, Hideshi
dc.creatorYoshimura, Atsushi
dc.creatorAshikari, Motoyuki
dc.creatorDoi, Kazuyuki
dc.date2016-01
dc.date2024-12-19T12:54:56Z
dc.date2024-12-19T12:54:56Z
dc.date.accessioned2026-06-27T04:07:06Z
dc.descriptionDNA marker-assisted selection (MAS) has become an indispensable component of breeding. Single nucleotide polymorphisms (SNP) are the most frequent polymorphism in the rice genome. However, SNP markers are not readily employed in MAS because of limitations in genotyping platforms. Here the authors report a Golden Gate SNP array that targets specific genes controlling yield-related traits and biotic stress resistance in rice. As a first step, the SNP genotypes were surveyed in 31 parental varieties using the Affymetrix Rice 44K SNP microarray. The haplotype information for 16 target genes was then converted to the Golden Gate platform with 143-plex markers. Haplotypes for the 14 useful allele are unique and can discriminate among all other varieties. The genotyping consistency between the Affymetrix microarray and the Golden Gate array was 92.8%, and the accuracy of the Golden Gate array was confirmed in 3 F2 segregating populations. The concept of the haplotype-based selection by using the constructed SNP array was proofed.
dc.identifierhttps://hdl.handle.net/10568/165318
dc.identifier.urihttp://hdl.handle.net/123456789/22161
dc.languageen
dc.publisherElsevier
dc.rightsOpen Access
dc.sourceKurokawa, Yusuke; Noda, Tomonori; Yamagata, Yoshiyuki; Angeles-Shim, Rosalyn; Sunohara, Hidehiko; Uehara, Kanako; Furuta, Tomoyuki; Nagai, Keisuke; Jena, Kshirod Kumar; Yasui, Hideshi; Yoshimura, Atsushi; Ashikari, Motoyuki and Doi, Kazuyuki. 2016. Construction of a versatile SNP array for pyramiding useful genes of rice. Plant Science, Volume 242 p. 131-139
dc.subjectgenetic markers
dc.subjectmarker-assisted selection
dc.subjectplant breeding
dc.subjectgenomes
dc.subjectgenes
dc.subjectsingle nucleotide polymorphism
dc.titleConstruction of a versatile SNP array for pyramiding useful genes of rice
dc.typeJournal Article

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Instituto Internacional de Investigación del Arroz (IRRI)