Analysis of segregation distortion and its relationship to hybrid barriers in rice

详细信息    查看全文

• 作者：Reflinur (1) (2)
  Backki Kim (1)
  Sun Mi Jang (1)
  Sang-Ho Chu (1)
  Yogendra Bordiya (1)
  Md Babul Akter (1)
  Joohyun Lee (3)
  Joong Hyoun Chin (4)
  Hee-Jong Koh (1)
  
  1. Department of Plant Science ; Plant Genomics and Breeding Institute ; and Research Institute for Agriculture and Life Sciences ; Seoul National University ; Seoul ; 151-921 ; Korea
  2. Indonesian Center for Agricultural Biotechnology and Genetic Resources Research and Development ; IAARD ; Bogor ; Indonesia
  3. Department of Applied Bioscience ; Konkuk University ; Seoul ; 143-701 ; Korea
  4. International Rice Research Institute ; Los Banos ; Philippines
  
• 关键词：Segregation distortion ; Linkage map ; Reproductive barrier
• 刊名：Rice
• 出版年：2014
• 出版时间：December 2014
• 年：2014
• 卷：7
• 期：1
• 全文大小：600 KB
• 参考文献：1. Alheit, KV, Reif, JC, Maurer, HP, Hahn, V, Weissmann, EA, Miedaner, T, W眉rschum, T (2011) Detection of segregation distortion loci in triticale (x TriticosecaleWittmack) based on a high-density DArT marker consensus genetic linkage map. BMC Genomics 12: pp. 380 CrossRef
  2. Antonio, BA, Inoue, T, Kajiya, H, Nagamura, Y, Kurata, N, Minobe, Y, Yano, M, Nakagahra, M, Sasaki, T (1996) Comparison of genetic distance and order of DNA markers in five populations of rice. Genome 39: pp. 946-956 CrossRef
  3. Causse, MA, Fulton, TM, Cho, YG, Ahn, SN, Chunwongse, J, Wu, KS, Xiao, JH, Yu, ZH, Ronald, PC, Harrington, SE, Second, G, McCouch, SR, Tanksley, SD (1994) Saturated molecular map of the rice genome based on an interspecific backcross population. Genetics 138: pp. 1251-1274
  4. Chen, J, Jiang, L, Wang, CM, Ikehashi, H, Zhai, HQ, Wan, JM (2006) Mapping of loci for pollen sterility of indica/japonica hybrids in rice (Oryza sativa L.). Acta Agr Sinica 32: pp. 515-521
  5. Chen, JJ, Ding, JH, Ouyang, YD, Du, HY, Yang, JY, Cheng, K, Zhao, J, Qiu, SQ, Zhang, XL, Yao, JL, Liu, KD, Wang, L, Xu, CG, Li, XH, Xue, YB, Xia, M, Ji, Q, Lu, JF, Xu, ML, Zhang, QF (2008) A triallelic system of S5 is a major regulator of the reproductive barrier and compatibility of indica-japonica hybrids in rice. Proc Natl Acad Sci 105: pp. 11436-11441 CrossRef
  6. Chin, JH, Kim, JH, Jiang, W, Chu, SH, Woo, MO, Han, L, Brar, D, Koh, HJ (2007) Identification of subspecies-specific STS markers and their association with segregation distortion in rice (Oryza sativa L.). J Crop Sci Biotechnol 10: pp. 175-184
  7. Faris, JD, Laddomada, B, Gill, BS (1998) Molecular mapping of segregation distortion loci in Aegilopstauschii. Genetics 149: pp. 319-327
  8. Fishman, L, Willis, JH (2005) A novel meiotic drive locus almost completely distorts segregation in Mimulus (monkeyflower) hybrids. Genetics 169: pp. 347-353 CrossRef
  9. Fishman, L, Kelly, AJ, Morgan, E, Willis, JH (2001) A genetic map in the Mimulus guttatus species complex reveals transmission ratio distortion due to heterospecific interactions. Genetics 159: pp. 1701-1716
  10. Fishman, L, Aagaard, J, Tuthill, JC (2008) Toward the evolutionary genomics of gametophytic divergence: Patterns of transmission ratio distortion in monkeyflower (Mimulus) hybrids reveal a complex genetic basis for conspecific pollen precedence. Evolution 62: pp. 2958-2970 CrossRef
  11. Goloenko, IM, Davydenko, OG, Shimkevich, AM (2002) Segregation distortion of marker nuclear genes in alloplasmic and isoplasmic lines of barley. Russian J Genet 38: pp. 791-795 CrossRef
  12. Harushima, Y, Kurata, N, Yano, M, Nagamura, Y, Sasaki, T, Minobe, Y, Nakagahra, M (1996) Detection of segregation distortions in an indica-japonica rice cross using a high-resolution molecular map. Theor Appl Genet 92: pp. 145-150 CrossRef
  13. Harushima, Y, Yano, M, Shomura, P, Sato, M, Shimano, T, Kuboki, Y, Yamamoto, T, Lin, SY, Antonio, BA, Parco, A, Kajiya, H, Huang, N, Yamamoto, K, Nagamura, Y, Kurata, N, Khush, GS, Sasaki, T (1998) A high-density rice genetic linkage map with 2275 markers using a single F2 population. Genetics 148: pp. 479-494
  14. Harushima, Y, Nakagahra, M, Yano, M, Sasaki, T, Kurata, N (2001) A genome-wide survey of reproductive barriers in an intraspecific hybrid. Genetics 159: pp. 883-892
  15. Harushima, Y, Nakagahra, M, Yano, M, Sasaki, T, Kurata, N (2002) Diverse variation of reproductive barriers in three intraspecific rice crosses. Genetics 160: pp. 313-322
  16. He, YQ, Xu, CG (2000) Importance of epistasis as the genetic basis of sterility instability for photoperiod-sensitive genic male sterile rice. Acta B Sinica 42: pp. 1062-1068
  17. He, YQ, Yang, J, Xu, CG, Zhang, ZG, Zhang, Q (1999) Genetic bases of instability of male sterility and fertility reversibility in photoperiod-sensitive genic male-sterile rice. Theor Appl Genet 99: pp. 683-693 CrossRef
  18. He, P, Li, JZ, Zheng, XW, Shen, LS, Lu, CF, Chen, Y, Zhu, LH (2001) Comparison of molecular linkage maps and agronomic trait loci between DH and RIL populations derived from the same rice cross. Crop Sci 41: pp. 1240-1246 CrossRef
  19. Jing, W, Zhang, WW, Jiang, L, Chen, LM, Zhai, HQ, Wan, JM (2007) Two novel loci for pollen sterility in hybrids between the weedy strain Ludao and the Japonica variety Akihikari of rice (Oryza sativa L.). Theor Appl Genet 114: pp. 915-925 CrossRef
  20. Kinoshita, T (1995) Report of the committee on gene symbolization, nomenclature and linkage groups. Rice Genet Newsl 12: pp. 9-93
  21. Koide, Y, Ikenaga, M, Sawamura, N, Nishimoto, D, Matsubara, K, Onishi, K, Kanazawa, A, Sano, Y (2008) The evolution of sex-independent transmission ratio distortion involving multiple allelic interactions at a single locus in rice. Genetics 180: pp. 409-420 CrossRef
  22. Koide, Y, Onishi, K, Nishimoto, D, Baruah, AR, Kanazawa, A, Sano, Y (2008) Sex-independent transmission ratio distortion system responsible for reproductive barriers between Asian and African rice species. New Phytol 179: pp. 888-900 CrossRef
  23. Koide, Y, Shinya, Y, Ikenaga, M, Sawamura, N, Matsubara, K, Onishi, K, Kanazawa, A, Sano, Y (2011) Complex genetic nature of sex-independent transmission ratio distortion in Asian rice species: the involvement of unlinked modifiers and sex-specific mechanisms. Heredity 108: pp. 242-247 CrossRef
  24. Kosambi, DD (1944) The estimation of map distances from recombination values. Ann Eugenics 12: pp. 172-175 CrossRef
  25. Kubo, T, Eguchi, M, Yoshimura, A (2000) A new gene for F1 pollen sterility in Japonica/Indica cross of rice. Rice Genet Newsl 17: pp. 63-69
  26. Lander, ES, Green, P, Abrahamson, J, Barlow, A, Daly, MJ, Lincoln, SE, Newberg, LA (1987) MAPMAKER: an interactive computer package for constructing primary genetic linkage maps of experimental and natural populations. Genomics 1: pp. 174-181 CrossRef
  27. Li, JM, Xiao, JH, Grandillo, S, Jiang, LY, Wan, YZ, Deng, QY, Yuan, LP, McCouch, SR (2004) QTL detection for rice grain quality traits using an interspecific backcross population derived from cultivated Asian (O. sativa L.) and African (O. glaberrima S.) rice. Genome 47: pp. 697-704 CrossRef
  28. Lin, SY, Ikehashi, H, Yanagihara, S, Kawashima, A (1992) Segregation distortion via male gametes in hybrids between Indica and Japonica or wide-compatibility varieties of rice (Oryza sativa L). Theor Appl Genet 84: pp. 812-818
  29. Lincoln, S, Daly, M, Lander, ES (1992) Constructing genetic maps with MAPMAKER/EXP 3.0. Whitehead Institute Technical Report. Whitehead Institute, Cambridge, Massachusetts, USA
  30. Liu, JJ, Qu, LJ (2008) Meiotic and mitotic cell cycle mutants involved in gametophyte development in Arabidopsis. Mol Plant 1: pp. 564-574 CrossRef
  31. Liu, YS, Zhu, LH, Sun, JS, Chen, Y (2001) Mapping QTLs for defective female gametophyte development in an inter-subspecific cross in Oryza sativa L. Theor Appl Genet 102: pp. 1243-1251 CrossRef
  32. Liu, GJ, Bernhardt, JL, Jia, MH, Wamishe, YA, Jia, YL (2008) Molecular characterization of the recombinant inbred line population derived from a japonica/indica rice cross. Euphytica 159: pp. 73-82 CrossRef
  33. Lorieux, M, Perrier, X, Goffinet, B, Lanaud, C, Deleon, DG (1995) Maximum-likelihood models for mapping genetic-markers showing segregation distortion. 2. F2 populations. Theor Appl Genet 90: pp. 81-89
  34. Lyttle, TW (1991) Segregation distorters. Ann Rev Genet 25: pp. 511-557 CrossRef
  35. Manabe, M, Ino, T, Kasaya, M, Takumi, S, Mori, N, Ohtsuka, I, Nakamura, C (1999) Segregation distortion through female gametophytes in interspecific hybrids of tetraploid wheat as revealed by RAPD analysis. Hereditas 131: pp. 47-53 CrossRef
  36. Marri, PR, Sarla, N, Reddy, LV, Siddiq, EA (2005) Identification and mapping of yield and yield related QTLs from an Indian accession of Oryza rufipogon. BMC Genet 6: pp. 33 CrossRef
  37. Matsubara, K, Khin-Thidar, SY (2003) A gene block causing cross-incompatibility hidden in wild and cultivated rice. Genetics 165: pp. 343-352
  38. Matsushita, S, Iseki, T, Fukuta, Y, Araki, E, Kobayashi, S, Osaki, M, Yamagishi, M (2003) Characterization of segregation distortion on chromosome 3 induced in wide hybridization between indica and japonica type rice varieties. Euphytica 134: pp. 27-32 CrossRef
  39. Peng, Y, Liang, YS, Wang, SQ, Wu, FQ, Li, SC, Deng, QM, Li, P (2006) Analysis of segregation distortion of SSR markers in the RI population of rice. Mol Plant Breed 4: pp. 786-790
  40. Pham, JL, Glaszmann, JC, Sano, R, Barbier, P, Ghesquiere, A, Second, G (1990) Isozyme markers in rice: genetic analysis and linkage relationships. Genome 33: pp. 348-359 CrossRef
  41. Reflinur, CJH, Jang, SM, Kim, B, Lee, J, Koh, HJ (2012) QTLs for hybrid fertility and their association with female and male sterility in rice. Gene Genomics 34: pp. 355-365 CrossRef
  42. Rice, WR (1989) Analyzing tables of statistical tests. Evolution 43: pp. 223-225 CrossRef
  43. Sandler, L, Novitski, E (1957) Meiotic drive as an evolutionary force. Am Nat 91: pp. 105-110 CrossRef
  44. Sobrizal, MY, Yoshimura, A (2001) Mapping of a gene for pollen semi-sterility on rice chromosome 8 of rice. Rice Genet Newsl 18: pp. 59-61
  45. Taylor, DR, Ingvarsson, PK (2003) Common features of segregation distortion in plants and animals. Genetica 117: pp. 27-35 CrossRef
  46. Wan, JM, Yanagihara, S, Kato, H, Ikehashi, H (1993) Multiple alleles at a new locus causing hybrid sterility between a Korean indica variety and a javanica variety in rice (Oryza sativa L). Jap J Breed 43: pp. 507-516 CrossRef
  47. Wang, J, Liu, KD, Xu, CG, Li, XH, Zhang, QF (1998) The high level of wide compatibility of variety 鈥楧ular鈥?has a complex genetic basis. Theor Appl Genet 97: pp. 407-412 CrossRef
  48. Wang, CM, Zhu, CS, Zhai, HQ, Wan, JM (2005) Mapping segregation distortion loci and quantitative trait loci for spikelet sterility in rice (Oryza sativa L.). Genet Res 86: pp. 97-106 CrossRef
  49. Wang, GW, He, YQ, Xu, CG, Zhang, QF (2006) Fine mapping of f5-Du, a gene conferring wide-compatibility for pollen fertility in inter-subspecific hybrids of rice (Oryza sativa L.). Theor Appl Genet 112: pp. 382-387 CrossRef
  50. Wang, SH, Tan, XL, Tan, YL, Zhang, ZL, Wen, JC, Kou, SY (2009) Segregation distortion detected in six rice F2 populations generated from reciprocal hybrids at three altitudes. Genet Res 91: pp. 345-353 CrossRef
  51. Wu, YP, Ko, PY, Lee, WC, Wei, FJ, Kuo, SC, Ho, SW, Hour, AL, Hsing, YI, Lin, YR (2010) Comparative analyses of linkage maps and segregation distortion of two F2 populations derived from japonica crossed with indica rice. Hereditas 147: pp. 225-236 CrossRef
  52. Xu, Y, Zhu, L, Xiao, J, Huang, N, McCouch, SR (1997) Chromosomal regions associated with segregation distortion of molecular markers in F2, backcross, doubled haploid, and recombinant inbred populations in rice (Oryza sativa L). Mol Gen Genet 253: pp. 535-545 CrossRef
  53. Yang, J, Zhao, X, Cheng, K, Du, H, Ouyang, Y, Chen, J, Qiu, S, Huang, J, Jiang, Y, Jiang, L, Ding, J, Wang, J, Xu, C, Li, X, Zhang, Q (2012) A killer-protector system regulates both hybrid sterility and segregation distortion in rice. Science 337: pp. 1336-1340 CrossRef
  54. Yano, M, Harushima, Y, Shomura, P, Sato, M, Shimano, T, Kuboki, Y, Yamamoto, T, Lin, SY, Antonio, BA, Parco, A, Kajiya, H, Huang, N, Yamamoto, K, Nagamura, Y, Kurata, N, Khush, GS, Sasaki, T (1998) A high-density rice genetic linkage map with 2275 markers using a single F2 population. Genetics 148: pp. 479-494
  55. Zhao, ZG, Jiang, L, Zhang, WW, Yu, CY, Zhu, SS, Xie, K, Tian, H, Liu, LL, Ikehashi, H, Wan, JM (2007) Fine mapping of S31, a gene responsible for hybrid embryo-sac abortion in rice (Oryza sativa L.). Planta 226: pp. 1087-1096 CrossRef
  
• 刊物主题：Plant Sciences; Plant Genetics & Genomics; Plant Breeding/Biotechnology; Agriculture; Plant Ecology;
• 出版者：Springer US
• ISSN：1939-8433

文摘

Background Segregation distortion (SD) is a frequently observed occurrence in mapping populations generated from crosses involving divergent genotypes. In the present study, ten genetic linkage maps constructed from reciprocal F2 and BC1F1 mapping populations derived from the parents Dasanbyeo (indica) and Ilpumbyeo (japonica) were used to identify the distribution, effect, and magnitude of the genetic factors underlying the mechanisms of SD between the two subspecies. Results SD loci detected in the present study were affected by male function, female function, and zygotic selection. The most pronounced SD loci were mapped to chromosome 3 (transmitted through male gametes), chromosome 5 (transmitted through male gametes), and chromosome 6 (transmitted through female gametes). The level of SD in BC1F1 populations which defined by chi-square value independence multiple tests was relatively low in comparison to F2 populations. Dasanbyeo alleles were transmitted at a higher frequency in both F2 and BC1F1 populations, suggesting that indica alleles are strongly favored in inter-subspecific crosses in rice. SD loci in the present study corresponded to previously reported loci for reproductive barriers. In addition, new SD loci were detected on chromosomes 2 and 12. Conclusion The identification of the distribution of SD and the effect of genetic factors causing SD in genetic mapping populations provides an opportunity to survey the whole genome for new SD loci and their relationships to reproductive barriers. This provides a basis for future research on the elucidation of the genetic mechanisms underlying SD in rice, and will be useful in molecular breeding programs.