Analytical and numerical comparisons of two methods of estimation of additive × additive interaction of QTL effects

Scientia Agricola

Volumn 69, Issue 4, 2012, Pages 240-246

  Bocianowski, Jan ^a  

^a POZNA UNIVERSITY OF LIFE SCIENCES   (Poland)

Author keywords

Doubled haploid lines; Nonallelic interaction effect; Quantitative trait loci

Indexed keywords

HORDEUM; HORDEUM VULGARE SUBSP. VULGARE;

EID: 84859323054     PISSN: 01039016     EISSN: 1678992X     Source Type: Journal    
DOI: 10.1590/S0103-90162012000400002     Document Type: Article

References (37)

1. Bocianowski, J.; Krajewski, P.; Kaczmarek, Z. 1999. Comparison of methods of choosing extreme doubled haploid lines for genetic parameter estimation. Colloquium Biometryczne 29: 193-202 (in Polish, with abstract in English).
2. Chen, G.; Geng, J.; Rahman, M.; Liu, X.; Tu, J.; Fu, T.; Li, G.; McVetty, P.B.E.; Tahir, M. 2010. Identification of QTLs for oil content, seed yield, and flowering time in oilseed rape (Brassica napus). Euphytica 175: 161-174.
3. Cheverud, J.M.; Routman, E.J. 1995. Epistasis and its contribution to genetic variance components. Genetics 139: 1455-1461.
4. Choo, T.M.; Reinbergs, E. 1982. Estimation of the number of genes in doubled haploid populations of barley (Hordeum vulgare). Canadian Journal of Genetics and Cytology 24: 337-341.
5. Cockerham, C.C. 1954. An extension of the concept of partitioning hereditary variance for analysis of covariance among relatives when epistasis is present. Genetics 39: 859-882.
6. Frova, C.; Krajewski, P.; di Fonzo, N.; Villa, M.; Sari-Gorla, M. 1999. Genetic analysis of drought tolerance in maize by molecular markers. I. Yield components. Theoretical and Applied Genetics 99: 280-288.
7. Govindaraj, P.; Vinod, K.K.; Arumugachamy, S.; Maheswaran, M. 2009. Analysing genetic control of cooked grain traits and gelatinization temperature in a doubled haploid population of rice by quantitative trait loci mapping. Euphytica 166: 165-176.
8. Hayes, P.M.; Liu, B.H.; Knapp, S.J.; Chen, F.; Jones, B.; Blake, T.; Franckowiak, J.; Rasmusson, D.; Sorrells, M.; Ullrich, S.E.; Wesenberg, D.; Kleinhofs, A. 1993. Quantitative trait locus effects and environmental interaction in a sample of North American barley germ plasm. Theoretical and Applied Genetics 87: 392-401.
9. He, X.-H.; Qin, H.; Hu, Z.; Zhang, T.; Zhang, Y.-M. 2011. Mapping of epistatic quantitative trait loci in four-way crosses. Theoretical and Applied Genetics 122: 33-48.
10. Jansen, R.C.; Stam, P. 1994. High resolution of quantitative traits into multiple loci via interval mapping. Genetics 136: 1447-1455.
11. Kang, S.-T.; Kwak, M.; Kim, H.-K.; Choung, M.-G.; Han, W.-Y.; Baek, I.-Y.; Kim, M.Y.; 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.
12. Kearsey, M.J.; Pooni, H.S. 1996. The Genetical Analysis of Quantitative Traits. Chapman and Hall, London, UK.
13. Kleinhofs, A.; Kilian, A.; Saghai Maroof, M.A.; Biyashev, R.M.; Hayes, P.; Chen, F.Q.; Lapitan, N.; Fenwick, A.; Blake, T.K.; Kanazin, V.; Ananiev, E.; Dahleen, L.; Kudrna, D.; Bollonger, J.; Knapp, S.J.; Liu, B.; Sorrells, M.; Heun, M.; Franckowiak, J.D.; Hoffman, D.; Skadsen, R.; Steffenson, B.J. 1993. A molecular, isozyme and morphological map of the barley (Hordeum vulgare) genome. Theoretical and Applied Genetics 86: 705-712.
14. Lark, K.G.; Chase, K.; Adelf, F.; Mansur, L.M.; Orf, J.H. 1995. Interactions between quantitative trait loci in soybean in which trait variation at one locus is conditional upon a specific allele at another. Proceedings of the National Academy of Sciences of the United States of America 92: 4656-4660.
15. Li, Z.K.; Pinson, S.R.M.; Park, W.D.; Paterson, A.H.; Stansel, J.W. 1997. Epistasis for three grain yield components in rice Oryza sativa L. Genetics 145: 453-465.
16. Li, H.; Ribaut, J.-M.; Li, Z.; Wang, J. 2008. Inclusive composite interval mapping (ICIM) for digenic epistasis of quantitative traits in biparental populations. Theoretical and Applied Genetics 116: 243-260.
17. Liang, Y.; Zhang, K.; Zhao, L.; Liu, B.; Meng, Q.; Tian, J.; Zhao, S. 2010. Identification of chromosome regions conferring dry matter accumulation and photosynthesis in wheat (Triticum aestivum L.). Euphytica 171: 145-156.
18. Ma, W.; Appels, R.; Bekes, F.; Larroque, O.; Morell, M.K.; Gale, K.R. 2005. Genetic characterisation of dough rheological properties in a wheat doubled haploid population: additive genetic effects and epistatic interactions. Theoretical and Applied Genetics 111: 410-422.
19. Mares, D.J.; Campbell, A.W. 2001. Mapping components of flour and noodle color in Australian wheat. Australian Journal of Agricultural Research 52: 1297-1309.
20. Martinez, O.; Curnow, R.N. 1994. Missing markers when estimating quantitative trait loci using regression mapping. Heredity 73: 198-206.
21. Maughan, P.J.; Saghai Maroof, M.A.; Buss, G.R. 1996. Molecular-marker analysis of seed-weight: genomic locations, gene action, and evidence for orthologous evolution among three legume species. Theoretical and Applied Genetics 93: 574-579.
22. Mei, H.W.; Li, Z.K.; Shu, Q.Y.; Guo, L.B.; Wang, Y.P.; Yu, X.Q.; Ying, C.S.; Luo, L.J. 2005. Gene actions of QTL affecting several agronomic traits resolved in a recombinant inbred rice population and two backcross population. Theoretical and Applied Genetics 110: 649-659.
23. Norton, G.J.; Price, A.H. 2010. Mapping of quantitative trait loci for seminal root morphology and gravitropic response in rice. Euphytica 166: 229-237.
24. Parker, G.D.; Chalmers, K.J.; Rathjen, A.J.; Langridge, P. 1998. Mapping loci associated with flour color in wheat (Triticum aestivum L.). Theoretical and Applied Genetics 97: 238-245.
25. Romagosa, I.; Ullrich, S.E.; Han, F.; Hayes, P.M. 1996. Use of the additive main effects and multiplicative interaction model in QTL mapping for adaptation in barley. Theoretical and Applied Genetics 93: 30-37.
26. Sari-Gorla, M.; Krajewski, P.; di Fonzo, N.; Villa, M.; Frova, C. 1999. Genetic analysis of drought tolerance in maize by molecular markers. II. Plant height and flowering. Theoretical and Applied Genetics 99: 289-295.
27. Searle, S.P. 1982. Matrix Algebra Useful for Statistics. John Wiley, New York, USA.
28. Surma, M.; Adamski, T.; Kaczmarek, Z. 1984. The use of doubled haploid lines for estimation of genetic parameters. Genetica Polonica 25: 27-32.
29. Tinker, N.A.; Mather, D.E.; Rossnagel, B.G.; Kasha, K.J.; Kleinhofs, A.; Hayes, P.M.; Falk, D.E.; Ferguson, T.; Shugar, L.P.; Legge, W.G.; Irvine, R.B.; Choo, T.M.; Briggs, K.G.; Ullrich, S.E.; Franckowiak, J.D.; Blake, T.K.; Graf, R.J.; Dofing, S.M.; Saghai Maroof, M.A.; Scoles, G.J.; Hoffman, D.; Dahleen, L.S.; Kilian, A.; Chen, F.; Biyashev, R.M.; Kudrna, D.A.; Steffenson, B.J. 1996. Regions of the genome that affect agronomic performance in two-row barley. Crop Science 36: 1053-1062.
30. Ullrich, S.E.; Lee, H.; Clancy, J.A.; del Blanko, I.A.; Jitkov, V.A.; Kleinhofs, A.; Han, F.; Prada, D.; Romagosa, I.; Molina-Cano, J.L. 2009. Genetic relationship between preharvest sprouting and dormancy in barley. Euphytica 168: 331-345.
31. Xing, Y.Z.; Tan, Y.F.; Hua, J.P.; Sun, X.L.; Xu, C.G.; Zhang, Q. 2002. Characterization of the main effects, epistatic effects and their environmental interactions of QTLs on the genetic basis of yield traits in rice. Theoretical and Applied Genetics 105: 248-257.
32. Xue, D.; Chen, M.; Zhang, G. 2009a. Mapping of QTLs associated with cadium tolerance and accumulation during seedling stage in rice (Oryza sativa L.). Euphytica 165: 587-596.
33. Xue, D.; Huang, Y.; Zhang, X.; Wei, K.; Westcott, S.; Li, C.; Chen, M.; Zhang, G.; Lance, R. 2009b. Identification of QTLs associated with salinity tolerance at late growth stage in barley. Euphytica 169: 187-196.
34. Yu, S.B.; Li, J.X.; Xu, C.G.; Tan, Y.P.; Gao, Y.J.; Li, X.H.; Zhang, Q.; Saghai-Maroof, M.A. 1997. Importance of epistasis as the genetic basis of heterosis in an elite rice hybrid. Proceedings of the National Academy of Sciences of the United States of America 94: 9226-9231
35. Zhang, Y.M.; Hu, S. 2005. A penalized maximum likelihood method for estimating epistatic effects of QTL. Heredity 95: 96-104.
36. Zhao, X.; Qin, Y.; Sohn, J.-K. 2010a. Identification of main effects, epistatic effects and their environmental interactions of QTLs for yield traits in rice. Genes and Genomics 32: 37-45.
37. Zhao, L.; Zhang, K.-P.; Liu, B.; Deng, Z.-Y.; Qu, H.-L.; Tian, J.-C. 2010b. A comparison of grain protein content QTLs and flour protein content QTLs across environmental in cultivated wheat. Euphytica 174: 325-335.