Mapping QTLs with epistatic effects and QTL-by-environment interactions for seed coat cracking in soybeans

Euphytica

Volumn 186, Issue 3, 2012, Pages 933-942

  Ha, Bo Keun ^a   Kim, Hyeun Kyeung ^b   Kang, Sung Taeg ^c  

^a Korea Atomic Energy Research Institute   (South Korea)

^b Pusan National University School of Medicine   (South Korea)

^c Dankook University   (South Korea)

Author keywords

Additive by environment interaction; Epistasis; QTL; Seed coat cracking (SCC); Soybean

Indexed keywords

GLYCINE MAX;

EID: 84864378220     PISSN: 00142336     EISSN: 15735060     Source Type: Journal    
DOI: 10.1007/s10681-012-0719-8     Document Type: Article

References (37)

1. Benitez ER, Funatsuki H, Kaneko Y, Matsuzawa Y, Bang SW, Takahashi R (2004) Soybean maturity gene effects on seed coat pigmentation and cracking in response to low temperatures. Crop Sci 44: 2038-2042.
2. Burchett CA, Schapaugh WT, Overley CB, Walter TL (1985) Influence of etched seed coats and environmental conditions on soybean seed quality. Crop Sci 25: 655-660.
3. Collard BCY, Mackill DJ (2008) Marker-assisted selection: an approach for precision plant breeding in the twenty-first century. Philos Trans R Soc B 363: 557-572.
4. Duke SH, Kakefuda G, Henson CA, Loeffler NL, van Hulle NM (1986) Role of the testa epidermis in the leakage of intracellular substances from imbibing soybean seeds and its implications for seedling survival. Physiol Plant 68: 625-631.
5. Hong EH, Kim SD, Lee YH, Hwang YH, Moon YH, Kim HS, Park EH, Seong YG, Kim YH, Kim WH, Ryu YH, Park RK (1992) A good quality, semi-dwarf, high density adaptable and high yielding new soybean variety "Sinpaldalkong". RDA J Agric Sci 34(2): 20-25.
6. Kang S-T, Kwak M, Kim H-K, Choung M-G, Han W-Y, Baek I-Y, Kim M, van K, Lee S-H (2009) Population-specific QTLs and their different epistatic interactions for pod dehiscence in soybean [Glycine max (L.) Merr.]. Euphytica 166: 15-24.
7. Keim P, Olson TC, Shoemaker RC (1988) A rapid protocol for isolating soybean DNA. Soybean Genet Newsl 15: 150-154.
8. Kim HK, Kang ST, Suh DY (2005) Analysis of quantitative trait loci associated with leaflet types in two recombinant inbred lines of soybean. Plant Breeding 124: 582-589.
9. Korir PC, Qi B, Wang Y, Zhao T, Yu D, Chen S, Gai J (2011) A study on relative importance of additive, epistasis and unmapped QTL for aluminium tolerance at seedling stage in soybean. Plant Breed 130: 551-562.
10. Kosambi DD (1944) The estimation of map distances from recombination values. Ann Eugen 12: 172-175.
11. Lande R (1992) Marker-assisted selection in relation to traditional methods of plant breeding. In: Stalker HT, Murphy JP (eds) Plant breeding in the 1990s. C. A. B. International, Wallingford, pp 437-451.
12. Liu HL (1949) Inheritance of defective seed coat in soybean. J Hered 40: 317-322.
13. Manly KF, Cudmore JRH, Meer JM (2001) Map Manager QTX, cross-platform software for genetic mapping. Mamm Genome 12: 930-932.
14. Mohan A, Kulwal P, Singh R, Kumar V, Mir R, Kumar J, Prasad M, Balyan H, Gupta P (2009) Genome-wide QTL analysis for pre-harvest sprouting tolerance in bread wheat. Euphytica 168: 319-329.
15. Molnar SJ, Rai S, Charette M, Cober ER (2003) Simple sequence repeat (SSR) markers linked to E1, E3, E4, and E7 maturity genes in soybean. Genome 46: 1024-1036.
16. Nakamura T, Yang D, Kalaiselvi S, Uematsu Y, Takahashi R (2003) Genetic analysis of net-like cracking in soybean seed coats. Euphytica 133: 179-184.
17. Nicholas CD, Lindstrom JT, Vodkin LO (1993) Variation of proline rich cell wall proteins in soybean lines with anthocyanin mutations. Plant Mol Biol 21: 145-156.
18. Oyoo ME, Benitez ER, Matsumura H, Takahashi R (2010a) QTL analysis of seed coat cracking in soybean. Crop Sci 50: 1230-1235.
19. Oyoo ME, Githiri SM, Benitez ER, Takahashi R (2010b) QTL analysis of net-like cracking in soybean seed coats. Breed Sci 60: 28-33.
20. Percy J, Philip R, Vodkin L (1999) A defective seed coat pattern (Net) is correlated with the post-transcriptional abundance of soluble proline-rich cell wall proteins. Plant Mol Biol 40: 603-613.
21. Ravi K, Vadez V, Isobe S, Mir R, Guo Y, Nigam S, Gowda M, Radhakrishnan T, Bertioli D, Knapp S, Varshney R (2011) Identification of several small main-effect QTLs and a large number of epistatic QTLs for drought tolerance related traits in groundnut (Arachis hypogaea L.). Theor Appl Genet 122: 1119-1132.
22. Shen X, Zhang T, Guo W, Zhu X, Zhang X (2006) Mapping fiber and yield QTLs with main, epistatic, and QTL × environment interaction effects in recombinant inbred lines of upland cotton. Crop Sci 46: 61-66.
23. Srinivasan A, Arihara J (1994) Soybean seed discoloration and cracking in response to low temperatures during early reproductive growth. Crop Sci 34: 1611-1617.
24. Suh HS, Shin IY, Baek IY, Park CK, Kim YC, Lee JM, Lee SK (1992) A new high yielding summer soybean variety "Keunolkong". RDA J Agric Sci 34(2): 16-19.
25. Takahashi R (1997) Association of soybean genes I and T with low-temperature induced seed coat deterioration. Crop Sci 37: 1755-1759.
26. Takahashi R, Abe J (1999) Soybean maturity genes associated with seed coat pigmentation and cracking in response to low temperatures. Crop Sci 39: 1657-1662.
27. Takahashi R, Asanuma S (1996) Association of T gene with chilling tolerance in soybean. Crop Sci 36: 559-562.
28. Wang C, Chen Y, Ku L, Wang T, Sun Z, Cheng F, Wu L (2010) Mapping QTL associated with photoperiod sensitivity and assessing the importance of QTL × environment interaction for flowering time in maize. PLoS ONE 5: e14068.
29. Wang S, Basten CJ, Zeng ZB (2011) Windows QTL cartographer 2. 5. Department of Statistics, North Carolina State University, Raleigh.
30. Watanabe S, Hideshima R, Xia Z, Tsubokura Y, Sato S, Nakamoto Y, Yamanaka N, Takahashi R, Ishimoto M, Anai T, Tabata S, Harada K (2009) Map-based cloning of the gene associated with the soybean maturity locus E3. Genetics 182: 1251-1262.
31. Yaklich RW, Barla-Szabo G (1993) Seed coat cracking in soybean. Crop Sci 33: 1016-1019.
32. Yang J, Zhu J (2005) Methods for predicting superior genotypes under multiple environments based on QTL effects. Theor Appl Genet 110: 1268-1274.
33. Yang D, Nakamura T, Ohtsubo N, Takahashi K, Abe J, Takahashi R (2002) Seed coat cracking in soybean isolines for pubescence color and maturity. Crop Sci 42: 71-75.
34. Yang J, Hu C, Hu H, Yu R, Xia Z, Ye X, Zhu J (2008) QTLNetwork: mapping and visualizing genetic architecture of complex traits in experimental populations. Bioinformatics 24: 721-723.
35. Yang K, Jeong N, Moon J-K, Lee Y-H, Lee S-H, Kim HM, Hwang CH, Back K, Palmer RG, Jeong S-C (2010) Genetic analysis of genes controlling natural variation of seed coat and flower colors in soybean. J Hered 101: 757-768.
36. Yu JB, Bai GH, Zhou WC, Dong YH, Kolb FL (2007) Quantitative trait loci for Fusarium head blight resistance in a recombinant inbred population of Wangshuibai/Wheaton. Phytopathology 98: 87-94.
37. Zeng G, Li D, Han Y, Teng W, Wang J, Qiu L, Li W (2009) Identification of QTL underlying isoflavone contents in soybean seeds among multiple environments. Theor Appl Genet 118: 1455-1463.