Construction of a versatile SNP array for pyramiding useful genes of rice
DNA 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 re...
| Autores principales: | , , , , , , , , , , , , |
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| Formato: | Journal Article |
| Lenguaje: | Inglés |
| Publicado: |
Elsevier
2016
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| Materias: | |
| Acceso en línea: | https://hdl.handle.net/10568/165318 |
| _version_ | 1855513078004711424 |
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| author | Kurokawa, 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 Doi, Kazuyuki |
| author_browse | Angeles-Shim, Rosalyn Ashikari, Motoyuki Doi, Kazuyuki Furuta, Tomoyuki Jena, Kshirod Kumar Kurokawa, Yusuke Nagai, Keisuke Noda, Tomonori Sunohara, Hidehiko Uehara, Kanako Yamagata, Yoshiyuki Yasui, Hideshi Yoshimura, Atsushi |
| author_facet | Kurokawa, 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 Doi, Kazuyuki |
| author_sort | Kurokawa, Yusuke |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | DNA 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. |
| format | Journal Article |
| id | CGSpace165318 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2016 |
| publishDateRange | 2016 |
| publishDateSort | 2016 |
| publisher | Elsevier |
| publisherStr | Elsevier |
| record_format | dspace |
| spelling | CGSpace1653182024-12-19T14:11:31Z Construction of a versatile SNP array for pyramiding useful genes of rice Kurokawa, 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 Doi, Kazuyuki genetic markers marker-assisted selection plant breeding genomes genes single nucleotide polymorphism DNA 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. 2016-01 2024-12-19T12:54:56Z 2024-12-19T12:54:56Z Journal Article https://hdl.handle.net/10568/165318 en Open Access Elsevier Kurokawa, 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 |
| spellingShingle | genetic markers marker-assisted selection plant breeding genomes genes single nucleotide polymorphism Kurokawa, 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 Doi, Kazuyuki Construction of a versatile SNP array for pyramiding useful genes of rice |
| title | Construction of a versatile SNP array for pyramiding useful genes of rice |
| title_full | Construction of a versatile SNP array for pyramiding useful genes of rice |
| title_fullStr | Construction of a versatile SNP array for pyramiding useful genes of rice |
| title_full_unstemmed | Construction of a versatile SNP array for pyramiding useful genes of rice |
| title_short | Construction of a versatile SNP array for pyramiding useful genes of rice |
| title_sort | construction of a versatile snp array for pyramiding useful genes of rice |
| topic | genetic markers marker-assisted selection plant breeding genomes genes single nucleotide polymorphism |
| url | https://hdl.handle.net/10568/165318 |
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