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Sasaki K, Fujita D, Koide Y, Lumanglas PD, Gannaban RB, Tagle AG, Obara M, Fukuta Y, Kobayashi N, Ishimaru T. Fine mapping of a quantitative trait locus for spikelet number per panicle in a new plant type rice and evaluation of a near-isogenic line for grain productivity. J Exp Bot 2017; 68:2693-2702. [PMID: 28582550 PMCID: PMC5853308 DOI: 10.1093/jxb/erx128] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/25/2016] [Accepted: 04/13/2017] [Indexed: 05/20/2023]
Abstract
Total spikelet number per panicle (TSN) is one of the determinants of grain productivity in rice (Oryza sativa L.). In this study, we attempted to detect quantitative trait loci (QTLs) for TSN in the introgression lines with high TSN, derived from the cross of Indica Group variety IR 64 with new plant type lines. Two QTLs were detected on the long arm of chromosome 12: qTSN12.1 in the BC4F2 population of YTH63/IR 64 and qTSN12.2 in the BC4F3 population of YTH83/IR 64. TSN of the main tiller was significantly higher in near-isogenic lines (NILs) for qTSN12.1 (IR 64-NIL1; 188.6) and for qTSN12.2 (IR 64-NIL12; 199.4) than in IR 64 (141.2), owing to a significant increase in both primary and secondary branch numbers. These results suggest the critical function of these QTLs in the promotion of rachis branching at the panicle formation stage. Fine mapping of qTSN12.2 revealed six candidate genes in a 92-kb region of the Nipponbare reference genome sequence between flanking markers RM28746 and RM28753. Detailed phenotyping of agronomic traits of IR 64-NIL12 carrying qTSN12.2 showed drastic changes in plant architecture: this line had lower panicle number, longer culm, and longer and wider leaves compared with IR 64. Percentage of fertility and 1000-grain weight tended to be greater, and grain yield per square meter was also greater in IR 64-NIL12 than in IR 64. The newly identified QTLs will be useful for genetic improvement of the yield potential of Indica Group varieties. The markers tightly linked to qTSN12.2 are available for marker-assisted breeding.
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Affiliation(s)
- Kazuhiro Sasaki
- Japan International Research Center for Agricultural Sciences (JIRCAS), Ohwashi, Tsukuba, Ibaraki, Japan
- International Rice Research Institute (IRRI), DA, Metro Manila, Philippines
- Graduate School of Agricultural and Life Sciences, Institute of Sustainable Agro-ecosystem Services (ISAS), The University of Tokyo, Midoricho, Nishitokyo, Tokyo, Japan
| | - Daisuke Fujita
- Japan International Research Center for Agricultural Sciences (JIRCAS), Ohwashi, Tsukuba, Ibaraki, Japan
- International Rice Research Institute (IRRI), DA, Metro Manila, Philippines
- Faculty of Agriculture, Saga University, Honjo-machi, Saga, Japan
| | - Yohei Koide
- Japan International Research Center for Agricultural Sciences (JIRCAS), Ohwashi, Tsukuba, Ibaraki, Japan
- International Rice Research Institute (IRRI), DA, Metro Manila, Philippines
- Research Faculty of Agriculture, Hokkaido University, Kita-9 Nishi-9, Kita-ku, Sapporo, Japan
| | | | - Ritchel B Gannaban
- International Rice Research Institute (IRRI), DA, Metro Manila, Philippines
| | - Analiza G Tagle
- International Rice Research Institute (IRRI), DA, Metro Manila, Philippines
| | - Mitsuhiro Obara
- Japan International Research Center for Agricultural Sciences (JIRCAS), Ohwashi, Tsukuba, Ibaraki, Japan
| | - Yoshimichi Fukuta
- Japan International Research Center for Agricultural Sciences (JIRCAS), Ohwashi, Tsukuba, Ibaraki, Japan
| | - Nobuya Kobayashi
- Japan International Research Center for Agricultural Sciences (JIRCAS), Ohwashi, Tsukuba, Ibaraki, Japan
- International Rice Research Institute (IRRI), DA, Metro Manila, Philippines
- National Institute of Crop Science (NICS), NARO, Kannondai, Tsukuba, Ibaraki, Japan
| | - Tsutomu Ishimaru
- Japan International Research Center for Agricultural Sciences (JIRCAS), Ohwashi, Tsukuba, Ibaraki, Japan
- International Rice Research Institute (IRRI), DA, Metro Manila, Philippines
- Central Region Agricultural Research Center (CARC), National Agriculture and Food Research Organization (NARO), Inada, Joetsu, Niigata, Japan
- Correspondence:
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Fujita D, Tagle AG, Ebron LA, Fukuta Y, Kobayashi N. Characterization of near-isogenic lines carrying QTL for high spikelet number with the genetic background of an indica rice variety IR64 (Oryza sativa L.). Breed Sci 2012; 62:18-26. [PMID: 23136510 PMCID: PMC3405953 DOI: 10.1270/jsbbs.62.18] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/12/2011] [Accepted: 11/21/2011] [Indexed: 05/14/2023]
Abstract
Total spikelet number per panicle (TSN) is one of the most important traits associated with rice yield potential. This trait was assessed in a set of 334 chromosomal segment introgression lines (ILs: BC(3)-derived lines), developed from new plant type (NPT) varieties as donor parents and having the genetic background of an indica-type rice variety IR64. Among the 334 ILs, five lines which had different donor parents and showed significantly higher TSN than IR64 were used for genetic analysis. Quantitative trait locus (QTL) analysis was conducted using F(2) populations derived from crosses between IR64 and these ILs. As a result, a QTL for high TSN (one from each NPT donor variety) was detected on common region of the long arm of chromosome 4. The effect of the QTL was confirmed by an increase in TSN of five near-isogenic lines (NILs) developed in the present study. The variation in TSN was found among these NILs, attributing to the panicle architecture in the numbers of primary, secondary and tertiary branches. The NILs for TSN and the SSR markers linked to the TSN QTLs are expected to be useful materials for research and breeding to enhance the yield potential of rice varieties.
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Affiliation(s)
- Daisuke Fujita
- International Rice Research Institute, DAPO Box 7777, Metro Manila, Philippines
- Japan International Research Center for Agricultural Sciences, 1-1 Ohwashi, Tsukuba, Ibaraki 305-8686, Japan
| | - Analiza G. Tagle
- International Rice Research Institute, DAPO Box 7777, Metro Manila, Philippines
| | - Leodegario A. Ebron
- International Rice Research Institute, DAPO Box 7777, Metro Manila, Philippines
| | - Yoshimichi Fukuta
- Japan International Research Center for Agricultural Sciences, 1-1 Ohwashi, Tsukuba, Ibaraki 305-8686, Japan
| | - Nobuya Kobayashi
- International Rice Research Institute, DAPO Box 7777, Metro Manila, Philippines
- Japan International Research Center for Agricultural Sciences, 1-1 Ohwashi, Tsukuba, Ibaraki 305-8686, Japan
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