Abstract
A panel of 94 diverse hexaploid wheat accessions was used to map quantitative trait loci (QTL) underlying the yield related traits on chromosome 3A. Population structure and kinships were estimated using unlinked SSR markers from all 21 chromosomes. Analysis of variance revealed significant difference among accessions; however, genotype × year interaction was non-significant for majority of yield related traits. A mixed linear model (MLM) approach identified six QTLs for four traits that individually accounted for 10.7 to 17.3% phenotypic variability. All QTLs were consistently observed for both study years. New putative QTLs for the maximum fertile florets per spike and spike length were identified. This report on QTLs for yield related traits on chromosome 3A will extend the existing knowledge and may prove useful in marker-assisted selection (MAS) for development of high yielding cultivars.
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Abdurakhmonov, A.Y., Abdukarimov, A. 2008. Application of association mapping to understanding the genetic diversity of plant germplasm resources. Int. J. Plant. Genom. 2008: 574927.
Ali, M.L., Baenziger, P.S., Ajlouni, Z.A., Campbell, B.T., Gill, K.S., Eskridge, K.M., Mujeeb-Kazi, A., Dweikat, I. 2011. Mapping QTL for agronomic traits on wheat chromosome 3A and a comparision of recombinant inbred chromosome line populations. Crop Sci. 51: 553–566.
Al-Maskri, A.H., Sajjad, M., Khan, S.H. 2012. Association mapping: A step forward to discovering new alleles for crop improvement. Int. J. Agric. Biol. 14: 153–160.
Anderson, J.R., Zein, I., Wenzel, G., Krützfeldt, B., Eder, J., Ouzunova, M., Lübberstedt, T. 2007. High levels of linkage disequilibrium and associations with forage quality at a Phenylalanine Ammonia-Lyase locus in European maize (Zea mays L.) inbreds. Theor. Appl. Genet. 114: 307–319.
Breseghello, F., Sorrells, M.E. 2006. Association mapping of kernel size and milling quality in wheat (Triticum aestivum L.) cultivars. Genetics 172: 1165–1177.
Crossa, J., Burgueno, J., Dreisickacker, S., Vargas, M., Herrera-Foessel, S.A., Lillemo, M., Singh, R.P., Trethowan, R., Warburton, M., Franco, J., Reynolds, M., Crouch, J.H., Ortiz, R. 2007. Association analysis of historical bread wheat germplasm using additive genetic covariance of relatives and population structure. Genetics 177: 1889–1913.
DeWan, A., Liu, M., Hartman, S., Zhang, S.S., Liu, D.T.L., Zhao, C., Tam, P.O.S., Chan, W.M., Lam, D.S.C., Snyder, M., Barnstable, C., Pang, C.P., Hoh, J. 2006. HTRA1 promoter polymorphism in wet age-related macular degeneration. Science 314: 989–992.
Gupta, P.K., Rustgi, S., Kulwal, P.L. 2005. Linkage disequilibrium and association studies in higher plants: Present status and future prospects. Plant. Mol. Biol. 57: 461–485.
Gurung, S., Mamidi, S., Bonman, J.M., Jackson, E.W., del Rýo, L.E., Acevedo, M., Mergoum, M., Adhikari, T.B. 2011. Identification of novel genomic regions associated with resistance to Pyrenophora tritici-repentis races 1 and 5 in spring wheat landraces using association analysis. Theor. Appl. Genet. 123: 1029–1041.
Huang, X.Q., Borner, A., Roder, M.S., Ganal, M.W. 2002. Assessing genetic diversity of wheat (Triticum aestivum L.) germplasm using microsatellite markers. Theor. Appl. Genet. 105: 699–707.
Karlsson, E.K., Baranowska, I., Wade, C.M., Hillbertz, N.H.C.S., Zody, M.C., Anderson, N., Biagi, T.M., Patterson, N., Pielberg, G.R., Kulbokas, E.J.I., Comstock, K.E., Keller, E.T., Mesirov, J.P., Euler, H., Kämpe, O., Hedhammar, A., Lander, E.S., Andersson, G., Andersson, L., Lindblad-Toh, K. 2007. Efficient mapping of Mendelian traits in dogs through genome-wide association. Nat. Genet. 39: 1321–1328.
Liu, L., Wang, L., Yao, J., Zheng, Y., Zhao, C. 2010. Association mapping of six agronomic traits on chromosome 4A of wheat (Triticum aestivum L.). Mol. Plant Breed. 1: 1–10.
Mengistu, N., Baenziger, P.S., Eskridge, K.M., Dweikat, I., Wegulo, S.N., Gill, K.S., Mujeeb-Kazi, A. 2012. Validation of QTL for grain yield-related traits on wheat chromosome 3A using recombinant inbred chromosome lines. Crop Sci. 52: 1622–1632.
Palaisa, K.A., Morgante, M., Williams, M., Rafalski, A. 2003. Contrasting effects of selection on sequence diversity and linkage disequilibrium at two phytoene synthase loci. Plant Cell 15: 1795–1806.
Peng, J.H., Bai, Y., Haley, S.D., Lapitan, N.L.V. 2009. Microsatellite-based molecular diversity of bread wheat germplasm and association mapping of wheat resistance to the Russian wheat aphid. Genetica 135: 95–122.
Pritchard, J.K., Stephens, M., Donnelly, P. 2000. Inference of population structure using multilocus genotype data. Genetics 155: 945–959.
Ravel, C., Praud, S., Murigneux, A., Linossier, L., Dardevet, M., Balfourier, F., Dufour, P., Brunel, D., Charmet, G. 2006. Identification of Glu-B1-1 as a candidate gene for the quantity of high-molecular-weight glutenin in bread wheat (Triticum aestivum L.) by means of an association study. Theor. Appl. Genet. 112: 738–743.
Remington, D.L., Thornsberry, J.M., Matsuoka, Y., Wilson, L.M., Whitt, S.R., Doebley, J., Kresovich, S., Goodman, M.M., Buckler, E.S. IV. 2001. Structure of linkage disequilibrium and phenotypic associations in the maize genome. PNAS 98: 11479–11484.
Rogowsky, P.M., Guidet, F.L.Y., Langridge, P., Shepherd, K.W., Koebner, R.D.M. 1991. Isolation and characterization of wheat-rye recombinants involving chromosome arm 1DS of wheat. Theor. Appl. Genet. 82: 537–544.
Roy, J.K., Bandopadhyay, R., Rustgi, S., Balyan, H.S., Gupta, P.K. 2006. Association analysis of agronomically important traits using SSR, SAMPL, and AFLP markers in bread wheat. Curr. Sci. 90: 683–689.
Sajjad, M., Khan, S.H., Mujeeb-Kazi, A. 2012. The lowdown on association mapping in hexaploid wheat (Triticum aestivum L.). J. Crop Sci. Biotech. 15: 147–158.
Sajjad, M., Khan, S.H., Fatima, N., Rana, R.M., Shah, K.N. 2013. Family and/or friends? Gene mapping at crossroads. Amer. J. Plant. Sci. in press
Sanchez-Pérez, R., Ballester, J., Dicenta, F., Arús, P., Martínez-Gómez, P. 2006. Comparison of SSR polymorphisms using automated capillary sequencers, and polyacrylamide and agarose gel electrophoresis: Implications for the assessment of genetic diversity and relatedness in almond. Sci. Hort. 108: 310–316.
Somers, D.J., Isaac, P., Edwards, K. 2004. A high density microsatellite consensus map for bread wheat (Triticum aestivum L.). Theor. Appl. Genet. 109: 1105–1114.
Stich, B., Melchinger, A.E., Frisch, M., Maurer, H.P., Heckenberger, M., Reif, J.C. 2005. Linkage disequilibrium in European elite maize germplasm investigated with SSRs. Theor. Appl. Genet. 111: 723–730.
Tenaillon, M.I., Sawkins, M.C., Long, A.D., Gaut, R.L., Oebley, J.F.D., Gaut, B.S. 2001. Patterns of DNA sequence polymorphism along chromosome 1 of maize (Zea mays ssp mays L.). Proc. Natl Acad. Sci. USA 98: 9161–9166.
Tommasini, L., Schnurbusch, T., Fossati, D., Mascher, F., Keller, B. 2007. Association mapping of Stagonospora nodorum blotch resistance in modern European winter wheat varieties. Theor. Appl. Genet. 115: 697–708.
Yao, J., Wang L., Liu, L., Zhao, C., Zheng, Y. 2009. Association mapping of agronomic traits on chromosome 2A of wheat. Genetica 137: 67–75.
Yu, J., Buckler, E.S. 2006. Genetic association mapping and genome organization of maize. Curr. Opin. Biotech. 17: 155–160.
Yu, J., Pressoir, G., Briggs, W.H., Bi, I.V, Yamasaki, M., Doebley, J.F., McMullen, M.D., Gaut, B.S., Nielsen, D.M., Holland, J.B., Kresovich, S., Buckler, E.S. 2006. A unified mixed-model method for association mapping that accounts for multiple levels of relatedness. Nat. Genet. 38: 203–208.
Yu, L.X., Lorenz, A., Rutkoski, J., Singh, R.P., Bhavani, S., Huerta-Espino, J., Sorrells, M.E. 2011. Association mapping and gene–gene interaction for stem rust resistance in CIMMYT spring wheat germplasm. Theor. Appl. Genet. 123: 1257–1268.
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Sajjad, M., Khan, S.H., Ahmad, M.Q. et al. Association Mapping Identifies QTLS on Wheat Chromosome 3A for Yield Related Traits. CEREAL RESEARCH COMMUNICATIONS 42, 177–188 (2014). https://doi.org/10.1556/CRC.2013.0061
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DOI: https://doi.org/10.1556/CRC.2013.0061