Fine Mapping of qTGW3-1, a QTL for 1000-Grain Weight on Chromosome 3 in Rice

Journal of Integrative Agriculture

Volumn 11, Issue 6, 2012, Pages 879-887

  Zhang, Qiang ^a,b   Yao, Guo xin ^a,c   Hu, Guang long ^a   Chen, Chao ^a   Tang, Bo ^a   Zhang, Hong liang ^a   Li, Zi chao ^a  

^a CHINA AGRICULTURAL UNIVERSITY   (China)

^b JILIN ACADEMY OF AGRICULTURAL SCIENCES   (China)

^c XIAOGAN UNIVERSITY   (China)

Author keywords

1000 grain weight; Near isogenic line (NIL) population; QTL mapping; Rice

Indexed keywords

ORYZA SATIVA;

EID: 84862193207     PISSN: 20953119     EISSN: None     Source Type: Journal    
DOI: 10.1016/S2095-3119(12)60078-1     Document Type: Article

References (66)

1. Alpert KB, Tanksley SD High-resolution mapping and isolation of a yeast artificial chromosome contig containing fw2. 2: A major fruit weight quantitative trait locus in tomato. Proceedings of the National Academy of Sciences of the United States of America 1996, 93:15503-15507.
2. Ashikari M, Sakakibara H, Lin SY, Yamamoto T, Takashi T, Nishimura A, Angeles ER, Qian Q, Kitano H, Matsuoka M Cytokinin oxidase regulates rice grain production. Science 2005, 309:741-745.
3. Bai XF, Luo LJ, Yan WH, Kovi MR, Zhan W, Xing YZ Genetic dissection of rice grain shape using a recombinant inbred line population derived from two contrasting parents and fine mapping a pleiotropic quantitative trait locus qGL7. BMC Genetics 2010, 11:16.
4. Chen JJ, Ding JH, Ouyang YD, Du HY, Yang JY, Cheng K, Zhao J, Qiu SQ, Zhang XL, Yao JL, et al. A triallelic system of S5 is a major regulator of the reproductive barrier and compatibility of indicajaponica hybrids in rice. Proceedings of the National Academy of Sciences of the United States of America 2008, 105:11436-11441.
5. Chen J, Xiao Q, Pei ZM, Zheng HL The new discovery of plant haemoglobins' function-modulation of nitric oxide bioactivity. Journal of Biology 2007, 29:513-518. (in Chinese).
6. Chen X, Temnykh S, Xu Y, Cho YG, McCouch SR Development of a microsatellite framework map providing genome-wide coverage in rice (Oryza sativa L.). Theoretical and Applied Genetics 1997, 95:553-567.
7. Cook D, Rasche M, Elsnger W Regulation of ethylene biosynthesis and action in cut carnation flower senescence by cytokinins. Journal of the American Society for Horticultural Science 1985, 110:24-27.
8. Dong MH, Zhao BH, Wu XZ, Chen T, Yang JC Difference in hormonal content and activities of key enzymes in the grains at different positions on a rice panicle during grain filling and their correlations with rice qualities. Scientia Agricultura Sinica 2008, 41:370-380. (in Chinese).
9. Dorweiler L, Stec A, Kermicle J, Dcebley J Teosinte glume architecture 1, a genetic locus controlling a key step in maize evolution. Science 1993, 262:233-235.
10. Edwards K, Johnstone C, Thompson C A simple and rapid method for the preparation of plant genomic DNA for PCR analysis. Nucleic Acids Research 1991, 19:1349.
11. Fan CC, Xing YZ, Mao HL, Lu TT, Han B, Xu CG, Li XH, Zhang QF GS3, a major QTL for grain length and weight and minor QTL for grain width and thickness in rice, encodes a putative transmembrane protein. Theoretical and Applied Genetics 2006, 112:1164-1171.
12. Frary A, Nesbitt TC, Grandillo S, Knaap E, Cong B, Liu J, Meller J, Elber R, Alpert KB, Tanksley SD fw2.2, a quantitative trait locus key to the evolution of tomato fruit size. Science 2000, 289:85-88.
13. Gabali SAM, Bagga AK, Bhardwaj SN Hormonal basis of grain growth and development in wheat. Indian Journal of Plant Physiology 1986, 29:387-396.
14. Gao YM, Zhu J Mapping QTLs with digenic epistasis under multiple environments and predicting heterosis based on QTL effects. Theoretical and Applied Genetics 2007, 115:325-333.
15. Hanks SK, Hunter T The eukaryotic protein kinase superfamily: kinase (catalytic) domain structure and classification. The FASEB Journal 1995, 9:576-596.
16. Huang XZ, Qian Q, Liu ZB, Sun HY, He SY, Luo D, Xia GM, Chu CC, Li JY, Fu XD Natural variation at the DEP1 locus enhances grain yield in rice. Nature Genetic 2009, 41:494-497.
17. Jin J, Wei H, Gao JP, Yang J, Shi M, Zhu MZ, Luo D, Lin HX Genetic control of rice plant architecture under domestication. Nature Genetic 2008, 40:1365-1369.
18. Kitagawa K, Kurinami S, Oki K, Abe Y, Ando T, Kono I, Yano M, Kitano H, Iwasaki Y A novel kinesin 13 protein regulating rice seed length. Plant and Cell Physiology 2010, 51:1315-1329.
19. Kojima S, Takahashi Y, Kobayashi Y, Monna L, Sasaki T, Araki T, Yano M Hd3a, a rice ortholog of the Arabidopsis FT gene, promotes transition to flowering downstream of Hd1 under short-day conditions. Plant Cell Physiology 2002, 43:1096-1105.
20. Laudert D, Weiler EW Allene oxide synthase: A major control point in Arabidopsis thaliana octadecanoid signalling. The Plant Journal 1998, 15:675-684.
21. Li JM, Thomason M, McCouch SR Fine mapping of a grain-weight quantitative trait locus in the pericentromeric region of rice chromosome 3. Genetics 2004, 168:2187-2195.
22. Li MM, Xu L, Liu CW, Cao GL, He HH, Han LZ Progress of genetic research and QTL analysis for grain shape in rice. Journal of Agricultural Science and Technology 2008, 10:34-42. (in Chinese).
23. Lin HX, Min SK, Xiong ZM, Qian HR, Zhuang JY, Lu J, Zheng KL, Huang N RFLP mapping of QTLs for grain shape traits in indica rice (Oryza sativa L. Subsp. Indica). Scientia Agricultura Sinica 1995, 28:1-7. (in Chinese).
24. Lincoln SE, Daly MJ, Lander ES Constructing genetic maps with MAPMAKER/EXP 3.0 1992, Whitehead Institute, Cambridge. 3rd ed.
25. Liu K, Ye YX, Tang C, Wang ZQ, Yang JC Responses of ethylene and ACC in rice grains to soil moisture and their relation to grain filling. Acta Agronomica Sinica 2007, 33:539-546. (in Chinese).
26. Liu Q, Sun J, Li LY, Liu LJ, Xu ZD, Wang HJ, Jin MJ, Liu GZ Cloning, expression and autophosphorylation of 5 rice protein kinases. Chinese Agricultural Science Bulletin 2007, 23:83-88.
27. Liu T, Shao D, Kovi MR, Xing YZ Mapping and validation of quantitative trait loci for spikelets per panicle and 1000-grain weight in rice (Oryza sativa L.). Theoretical and Applied Genetics 2010, 120:933-942.
28. McCouch SR, Cho YG, Yano M, Paul E, Blinstrub M Report on QTL nomenclature. Rice Genetic Newsletter 1997, 14:11-13.
29. McCouch SR, Kochert G, Yu ZH, Wang ZY, Khush GS, Coffman WR, Tanksley SD Molecular mapping of rice chromosomes. Theoretical and Applied Genetics 1998, 76:815-829.
30. McCouch SR, Teytelman L, Xu YB, Lobos KB, Clare K, Walton M, Fu BY, Maghirang Re, Li ZK, Xing YZ, et al. Development and mapping of 2240 new SSR markers for rice (Oryza sativa L.). DNA Research 2002, 9:199-207.
31. Morris RO, Blevins DG, Dietrich JT, Durley RC, Gelvin SB, Gray J, Hommes NG, Kaminek M, Mathews LJ, Meilan R, et al. Cytokinins in plant pathogenic bacteria and developing cereal grains. Australian Journal of Plant Physiology 1993, 20:621-637.
32. Mueller MJ Enzymes involved in jasmonic acid biosynthesis. Physiologia Plantarum 1997, 100:653-663.
33. Murray MG, Thompson WF Rapid isolation of high molecular weight plant DNA. Nucleic Acids Research 1980, 8:4321-4326.
34. Panaud O, Chen X, McCouch SR Development of microsatellite markers and characterization of simple sequence length polymorphism (SSLP) in rice (Oryza sativa L.). Molecular Genetics and Genomics 1996, 252:597-607.
35. Paterson AH, DeVerna JW, Lanini BS, Tanksley D Fine mapping of quantitative trait loci using selected overlapping recombinant chromosomes, in an interspecific cross of tomato. Genetics 1990, 124:735-742.
36. Peracchia G, Jensen AB, Culiáñez-Macià FA, Grosset J, Goday A, Issinger OG, Pagès M Characterization, subcellular localization and nuclear targeting of casein kinase 2 from Zea mays. Plant Molecular Biology 1999, 40:199-211.
37. Ren ZH, Gao JP, Li LG, Cai XL, Huang W, Chao DY, Zhu MZ, Wang ZY, Luan S, Lin HX A rice quantitative trait locus for salt tolerance encodes a sodium transporter. Nature Genetic 2005, 37:1141-1146.
38. Salvi S, Tuberosa R To clone or not to clone plant QTLs, present and future challenges. Trends in Plant Science 2005, 10:297-304.
39. Shao GN, Tang SQ, Luo J, Jiao GA, Wei XJ, Tang A, Wu JL, Zhuang JY, Hu PS Mapping of qGL7-2, a grain length QTL on chromosome 7 of rice. Journal of Genetics and Genomics 2010, 37:23-531.
40. Shi CH, Zhu J Genetic analysis of endosperm, cytoplasmic and maternal effects for exterior quality traits in indica rice. Journal of Biomathematics 1996, 11:73-81. (in Chinese).
41. Shi CH Seed shape and breeding for good quality in rice. China Agricultural Bulletin 1994, 10:41-45. (in Chinese).
42. Shomura A, Izawa T, Ebana K, Ebitani T, Kanegae H, Konishi S, Yano M Deletion in a gene associated with grain size increased yields during rice domestication. Nature Genetic 2008, 40:1023-1028.
43. Song XJ, Huang W, Shi M, Zhu MZ, Lin HX A QTL for rice grain width and weight encodes a previously unknown RING-type E3 ubiquitin ligase. Nature Genetic 2007, 39:623-630.
44. Takahashi Y, Shomura A, Sasaki T, Yano M Hd6, a rice quantitative trait locus involved in photoperiod sensitivity, encodes the a-subunit of protein kinase CK2. Proceedings of the National Academy of Sciences of the United States of America 2001, 98:7922-7927.
45. Takite T Breeding for grain shape in rice. Agricultural Science 1989, 44:39-42.
46. Tan LB, Li XR, Liu FX, Sun XY, Li CG, Zhu ZF, Fu YC, Cai HW, Wang XK, Xie DX, et al. Control of a key transition from prostrate to erect growth in rice domestication. Nature Genetic 2008, 40:1360-1364.
47. Tanabe S, Kurinami S, Ashikari M, Kitano H, Iwasaki Y Mapping of small and round seed 3 gene in rice. Rice Genetics Newsletters 2007, 23:56-58.
48. Tanksley SD High-resolution mapping and isolation of a yeast artificial chromosome contig containing fw2.2: A major fruit weight quantitative trait locus in tomato. Proceedings of the National Academy of Sciences of the United States of America 1996, 93:15503-15507.
49. Temnykh S, Park WD, Ayres N, Cartinhour S, Hauck N, Lipovich L, Cho YG, Ishii T, McCouch SR Mapping and genome organization of microsatellite sequences in rice (Oryza sativa L.). Theoretical and Applied Genetics 2000, 100:697-712.
50. Wang ET, Wang JJ, Zhu XD, Hao W, Wang LY, Li Q, Zhang LX, He W, Lu BR, Lin HX, et al. Control of rice grain-filling and yield by a gene with a potential signature of domestication. Nature Genetics 2008, 40:1370-1374.
51. Wang NN, Wang Y, Wang SF, Zhu LJ, Zhang R The relationship between the effect of exogenous 6-BA in retarding soybean leaf senescence and plasma membrane protein phosphorylation. Acta Phytophysiologica Sinica 1998, 3:305-308. (in Chinese).
52. Wang RL, Stec A, Hey J, Lukens L, Doebley J The limits of selection during maize domestication. Nature 1999, 398:236-239.
53. Weng JF, Gu SH, Wan XY, Gao H, Guo T, Su N, Lei CL, Zhang X, Cheng ZJ, Guo XP, et al. Isolation and initial characterization of GW5, a major QTL associated with rice grain width and weight. Cell Research 2008, 18:1199-1209.
54. Xie XB, Jin FX, Song MH, Suh JP, Hwang HG, Kim YG, McCouch SR, Ahn SN Fine mapping of a yield-enhancing QTL cluster associated with transgressive variation in an Oryza sativa×O. rufipogon cross. Theoretical and Applied Genetics 2008, 116:613-622.
55. Xie XB, Song MH, Jin FX, Ahn S, Suh J, Hwang H, McCouch SR Fine mapping of a grain weight quantitative trait locus on rice chromosome 8 using near-isogenic lines derived from a cross between Oryza sativa and Oryza rufipogon. Theoretical and Applied Genetics 2006, 113:885-894.
56. Xu ZJ, Chen WF, Ma DR, Lü YN, Zhou SQ, Liu LX Correlations between rice grain shapes and main qualitative characteristics. Acta Agronomica Sinica 2004, 9:894-900. (in Chinese).
57. Yan LL, Loukoianov A, Blechl A, Tranquilli G, Ramakrishna W, SanMigue P, Bennetzen JL, Echenique V, Dubcovsky J The wheat VRN2 gene is a flowering repressor down-regulated by vernalization. Science 2004, 303:1640-1644.
58. Yan L, Loukoianov A, Tranquilli G, Helguer M, Fahima T, Dubcovsky J Positional cloning of the wheat vernalization gene VRN1. Proceedings of the National Academy of Sciences of the United States of America 2003, 100:6263-6268.
59. Yano M, Katayose Y, Ashikari M, Yamanouchic U, Monnac L, Fuse T, Baba T, Yamamoto K, Umehara Y, Nagamura Y, et al. Hd1, a major photoperiod sensitivity quantitative trait locus in rice, is closely related to the arabidopsis flowering time gene CONSTANS. The Plant Cell 2000, 12:2473-2483.
60. Yao GX, Li JJ, Zhang Q, Hu GL, Chen C, Tang B, Zhang HL, Li ZC Mapping grain weight and shape QTLs using four sister near isogenic lines (SNILs) of rice (Oryza sativa L.). Acta Agronomica Sinica 2010, 36:1310-1317. (in Chinese).
61. Yu BS, Lin ZG, Li HX, Li XJ, Li JY, Wang YH, Zhang X, Zhu ZF, Zhai WX, Wang XK, et al. TAC1, a major quantitative trait locus controlling tiller angle in rice. The Plant Journal 2007, 52:891-898.
62. Zeng RZ, Akshay T, Liu F, Zhang GQ Mapping of the QTLs for grain shape using single segment substitution lines in rice. Scientia Agricultura Sinica 2006, 39:647-654. (in Chinese).
63. Zhang QF, Shen BZ, Dai XK, Mei MH, Maroof M, Li ZB Using bulked extremes and recessive class to map genes for photoperiod-sensitive genic male sterility in rice. Proceedings of the National Academy of Sciences of the United States of America 1994, 91:8675-8679.
64. Zhang Z, Deng Y, Tan J, Hu S, Yu J, Xue Q A genome-wide microsatellite polymorphism database for the indica and japonica rice. DNA Research 2007, 14:37-45.
65. Zheng PZ, Allen WB, Roesler K, Williams ME, Zhang SR, Li JM, Glassman K, Ranch J, Nubel D, Solawetz W, et al. A phenylalanine in DGAT is a key determinant of oil content and composition in maize. Nature Genetic 2008, 40:367-372.
66. Zhou QH, Li CQ, Kuang Q Advancements in plant protein kinase. Journal of Biology 2003, 20:1-4. (in Chinese).