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  • 1 University of Arid Agriculture Department of Plant Breeding and Genetics, PMAS Rawalpindi Pakistan
  • 2 University of Agriculture Center of Agricultural Biochemistry and Biotechnology (CABB) Faisalabad Pakistan
  • 3 Quaid-i-Azam University Department of Plant Sciences Islamabad Pakistan
  • 4 National Institute of Biotechnology and Genetic Engineering (NIBGE) Faisalabad Pakistan
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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.

  • 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.

    Abdukarimov A. , 'Application of association mapping to understanding the genetic diversity of plant germplasm resources ' (2008 ) 2008 Int. J. Plant. Genom. : 574927 -.

    • Search Google Scholar
  • 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.

    Dweikat I. , 'Mapping QTL for agronomic traits on wheat chromosome 3A and a comparision of recombinant inbred chromosome line populations ' (2011 ) 51 Crop Sci. : 553 -566.

    • Search Google Scholar
  • 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.

    Khan S.H. , 'Association mapping: A step forward to discovering new alleles for crop improvement ' (2012 ) 14 Int. J. Agric. Biol. : 153 -160.

    • Search Google Scholar
  • 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.

    Lübberstedt T. , 'High levels of linkage disequilibrium and associations with forage quality at a Phenylalanine Ammonia-Lyase locus in European maize (Zea mays L.) inbreds ' (2007 ) 114 Theor. Appl. Genet. : 307 -319.

    • Search Google Scholar
  • Breseghello, F., Sorrells, M.E. 2006. Association mapping of kernel size and milling quality in wheat (Triticum aestivum L.) cultivars. Genetics 172: 1165–1177.

    Sorrells M.E. , 'Association mapping of kernel size and milling quality in wheat (Triticum aestivum L.) cultivars ' (2006 ) 172 Genetics : 1165 -1177.

    • Search Google Scholar
  • 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.

    Ortiz R. , 'Association analysis of historical bread wheat germplasm using additive genetic covariance of relatives and population structure ' (2007 ) 177 Genetics : 1889 -1913.

    • Search Google Scholar
  • 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.

    Hoh J. , 'HTRA1 promoter polymorphism in wet age-related macular degeneration ' (2006 ) 314 Science : 989 -992.

    • Search Google Scholar
  • 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.

    Kulwal P.L. , 'Linkage disequilibrium and association studies in higher plants: Present status and future prospects ' (2005 ) 57 Plant. Mol. Biol. : 461 -485.

    • Search Google Scholar
  • 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.

    Adhikari T.B. , 'Identification of novel genomic regions associated with resistance to Pyrenophora tritici-repentis races 1 and 5 in spring wheat landraces using association analysis ' (2011 ) 123 Theor. Appl. Genet. : 1029 -1041.

    • Search Google Scholar
  • 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.

    Ganal M.W. , 'Assessing genetic diversity of wheat (Triticum aestivum L.) germplasm using microsatellite markers ' (2002 ) 105 Theor. Appl. Genet. : 699 -707.

    • Search Google Scholar
  • 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.

    Lindblad-Toh K. , 'Efficient mapping of Mendelian traits in dogs through genome-wide association ' (2007 ) 39 Nat. Genet. : 1321 -1328.

    • Search Google Scholar
  • 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.

    Zhao C. , 'Association mapping of six agronomic traits on chromosome 4A of wheat (Triticum aestivum L.) ' (2010 ) 1 Mol. Plant Breed. : 1 -10.

    • Search Google Scholar
  • 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.

    Mujeeb-Kazi A. , 'Validation of QTL for grain yield-related traits on wheat chromosome 3A using recombinant inbred chromosome lines ' (2012 ) 52 Crop Sci. : 1622 -1632.

    • Search Google Scholar
  • 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.

    Rafalski A. , 'Contrasting effects of selection on sequence diversity and linkage disequilibrium at two phytoene synthase loci ' (2003 ) 15 Plant Cell : 1795 -1806.

    • Search Google Scholar
  • 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.

    Lapitan N.L.V. , 'Microsatellite-based molecular diversity of bread wheat germplasm and association mapping of wheat resistance to the Russian wheat aphid ' (2009 ) 135 Genetica : 95 -122.

    • Search Google Scholar
  • Pritchard, J.K., Stephens, M., Donnelly, P. 2000. Inference of population structure using multilocus genotype data. Genetics 155: 945–959.

    Donnelly P. , 'Inference of population structure using multilocus genotype data ' (2000 ) 155 Genetics : 945 -959.

    • Search Google Scholar
  • 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.

    Charmet G. , '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 ' (2006 ) 112 Theor. Appl. Genet. : 738 -743.

    • Search Google Scholar
  • 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.

    Buckler E.S. IV. , 'Structure of linkage disequilibrium and phenotypic associations in the maize genome ' (2001 ) 98 PNAS : 11479 -11484.

    • Search Google Scholar
  • 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.

    Koebner R.D.M. , 'Isolation and characterization of wheat-rye recombinants involving chromosome arm 1DS of wheat ' (1991 ) 82 Theor. Appl. Genet. : 537 -544.

    • Search Google Scholar
  • 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.

    Gupta P.K. , 'Association analysis of agronomically important traits using SSR, SAMPL, and AFLP markers in bread wheat ' (2006 ) 90 Curr. Sci. : 683 -689.

    • Search Google Scholar
  • 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.

    Mujeeb-Kazi A. , 'The lowdown on association mapping in hexaploid wheat (Triticum aestivum L.) ' (2012 ) 15 J. Crop Sci. Biotech. : 147 -158.

    • Search Google Scholar
  • 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

    Shah K.N. , '', in Family and/or friends , (2013 ) -.

  • 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.

    Martínez-Gómez P. , '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 ' (2006 ) 108 Sci. Hort. : 310 -316.

    • Search Google Scholar
  • 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.

    Edwards K. , 'A high density microsatellite consensus map for bread wheat (Triticum aestivum L.) ' (2004 ) 109 Theor. Appl. Genet. : 1105 -1114.

    • Search Google Scholar
  • 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.

    Reif J.C. , 'Linkage disequilibrium in European elite maize germplasm investigated with SSRs ' (2005 ) 111 Theor. Appl. Genet. : 723 -730.

    • Search Google Scholar
  • 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.

    Gaut B.S. , 'Patterns of DNA sequence polymorphism along chromosome 1 of maize (Zea mays ssp mays L.) ' (2001 ) 98 Proc. Natl Acad. Sci. USA : 9161 -9166.

    • Search Google Scholar
  • 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.

    Keller B. , 'Association mapping of Stagonospora nodorum blotch resistance in modern European winter wheat varieties ' (2007 ) 115 Theor. Appl. Genet. : 697 -708.

    • Search Google Scholar
  • 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.

    Zheng Y. , 'Association mapping of agronomic traits on chromosome 2A of wheat ' (2009 ) 137 Genetica : 67 -75.

    • Search Google Scholar
  • Yu, J., Buckler, E.S. 2006. Genetic association mapping and genome organization of maize. Curr. Opin. Biotech. 17: 155–160.

    Buckler E.S. , 'Genetic association mapping and genome organization of maize ' (2006 ) 17 Curr. Opin. Biotech. : 155 -160.

    • Search Google Scholar
  • 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.

    Buckler E.S. , 'A unified mixed-model method for association mapping that accounts for multiple levels of relatedness ' (2006 ) 38 Nat. Genet. : 203 -208.

    • Search Google Scholar
  • 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.

    Sorrells M.E. , 'Association mapping and gene–gene interaction for stem rust resistance in CIMMYT spring wheat germplasm ' (2011 ) 123 Theor. Appl. Genet. : 1257 -1268.

    • Search Google Scholar