Table of Contents
International Journal of Plant Genomics
Volume 2011 (2011), Article ID 670104, 16 pages
http://dx.doi.org/10.1155/2011/670104
Review Article

Marker-Assisted Breeding as Next-Generation Strategy for Genetic Improvement of Productivity and Quality: Can It Be Realized in Cotton?

1Department of Plant Molecular Biology and Biotechnology, Tamil Nadu Agricultural University, Coimbatore 641003, India
2Department of Cotton, Tamil Nadu Agricultural University, Coimbatore 641003, India

Received 29 September 2010; Accepted 22 January 2011

Academic Editor: T. Zhang

Copyright © 2011 N. Manikanda Boopathi et al. This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

Linked References

  1. Z. J. Chen, B. E. Scheffler, E. Dennis et al., “Toward sequencing cotton (Gossypium) genomes,” Plant Physiology, vol. 145, no. 4, pp. 1303–1310, 2007. View at Publisher · View at Google Scholar · View at Scopus
  2. U. Kambhampati, S. Morse, R. Bennett, and Y. Ismael, “Perceptions of the impacts of genetically modified cotton varieties: a case study of the cotton industry in Gujarat, India,” AgBioForum, vol. 8, no. 2-3, pp. 161–171, 2005. View at Google Scholar · View at Scopus
  3. R. B. Barwale, V. R. Gadwal, U. Zehr, and B. Zehr, “Prospects for Bt cotton technology in India,” AgBioForum, vol. 7, no. 1-2, pp. 23–26, 2004. View at Google Scholar · View at Scopus
  4. T. A. Wilkins, K. Rajasekaran, and D. M. Anderson, “Cotton biotechnology,” Critical Reviews in Plant Sciences, vol. 19, no. 6, pp. 511–550, 2000. View at Publisher · View at Google Scholar · View at Scopus
  5. H. J. Kim and B. A. Triplett, “Cotton fiber germin-like protein. I. Molecular cloning and gene expression,” Planta, vol. 218, no. 4, pp. 516–524, 2004. View at Publisher · View at Google Scholar · View at Scopus
  6. H. Budak, Y. Bölek, T. Dokuyucu, and A. Akkaya, “Potential uses of molecular markers in crop improvement,” KSU Journal of Science and Engineering, vol. 7, no. 1, pp. 75–79, 2004. View at Google Scholar
  7. L. D. Stromberg, J. W. Dudley, and G. K. Rufener, “Comparing conventional early generation selection with molecular marker assisted selection in maize,” Crop Science, vol. 34, no. 5, pp. 1221–1225, 1994. View at Google Scholar · View at Scopus
  8. W. L. Balls, “Studies in Egyptian cotton,” in Yearbook Khediv. Agriculture Society for 1906, pp. 29–89, Cairo, Egypt, 1906. View at Google Scholar
  9. A. J. Reinisch, J. M. Dong, C. L. Brubaker, D. M. Stelly, J. F. Wendel, and A. H. Paterson, “A detailed RFLP map of cotton, Gossypium hirsutum × Gossypium barbadense: chromosome organization and evolution in a disomic polyploid genome,” Genetics, vol. 138, no. 3, pp. 829–847, 1994. View at Google Scholar · View at Scopus
  10. J. A. Udall, L. E. Flagel, F. Cheung et al., “Spotted cotton oligonucleotide microarrays for gene expression analysis,” BMC Genomics, vol. 8, article no. 81, 2007. View at Publisher · View at Google Scholar · View at Scopus
  11. W. L. Applequist, R. Cronn, and J. F. Wendel, “Comparative development of fiber in wild and cultivated cotton,” Evolution and Development, vol. 3, no. 1, pp. 3–17, 2001. View at Publisher · View at Google Scholar · View at Scopus
  12. I. V. Bi, A. Maquet, J. P. Baudoin, P. Du Jardin, J. M. Jacquemin, and G. Mergeai, “Breeding for 'low-gossypol seed and high-gossypol plants' in upland cotton. Analysis of tri-species hybrids and backcross progenies using AFLPs and mapped RFLPs,” Theoretical and Applied Genetics, vol. 99, no. 7-8, pp. 1233–1244, 1999. View at Publisher · View at Google Scholar · View at Scopus
  13. W. R. Meredith Jr., “Continued progress for breeding for yield in the USA,” in Proceedings of World Cotton Research Conference II, pp. 97–101, Athens, Greece, 2000.
  14. J. M. Lacape, D. Dessauw, M. Rajab, J. L. Noyer, and B. Hau, “Microsatellite diversity in tetraploid Gossypium germplasm: assembling a highly informative genotyping set of cotton SSRs,” Molecular Breeding, vol. 19, no. 1, pp. 45–58, 2007. View at Publisher · View at Google Scholar · View at Scopus
  15. M. Ulloa and W. R. Meredith Jr., “Genetic linkage map and QTL analysis of agronomic and fibre quality traits in an intraspecific population,” Journal of Cotton Science, vol. 4, pp. 161–170, 2000. View at Google Scholar
  16. V. Rossbach, P. Patanathabutr, and J. Wichitwechkarn, “Copying and manipulating nature: innovation for textile material,” Fibers and Polymers, vol. 4, no. 1, pp. 8–14, 2003. View at Google Scholar · View at Scopus
  17. W. Guo, J. Sun, and T. Zhang, “Gene cloning and molecular breeding to improve fiber qualities in cotton,” Chinese Science Bulletin, vol. 48, no. 8, pp. 709–717, 2003. View at Publisher · View at Google Scholar · View at Scopus
  18. J. H. Nadeau and W. N. Frankel, “The roads from phenotypic variation to gene discovery: mutagenesis versus QTLs,” Nature Genetics, vol. 25, no. 4, pp. 381–384, 2000. View at Publisher · View at Google Scholar · View at Scopus
  19. A. D. Herring, D. L. Auld, M. D. Ethridge et al., “Inheritance of fiber quality and lint yield in a chemically mutated population of cotton,” Euphytica, vol. 136, no. 3, pp. 333–339, 2004. View at Publisher · View at Google Scholar · View at Scopus
  20. C. X. Jiang, R. J. Wright, K. M. El-Zik, and A. H. Paterson, “Polyploid formation created unique avenues for response to selection in Gossypium (cotton),” Proceedings of the National Academy of Sciences of the United States of America, vol. 95, no. 8, pp. 4419–4424, 1998. View at Publisher · View at Google Scholar · View at Scopus
  21. Z. W. Shappley, J. N. Jenkins, J. Zhu, and J. C. McCarty, “Quantitative trait loci associated with agronomic and fiber traits of upland cotton,” Journal of Cotton Science, vol. 2, no. 4, pp. 153–163, 1998. View at Google Scholar · View at Scopus
  22. Z. W. Shappley, J. N. Jenkins, W. R. Meredith, and J. C. McCarty Jr., “An RFLP linkage map of Upland cotton, Gossypium hirsutum L,” Theoretical and Applied Genetics, vol. 97, no. 5-6, pp. 756–761, 1998. View at Publisher · View at Google Scholar · View at Scopus
  23. C. X. Jiang, P. W. Chee, X. Draye, P. L. Morrell, C. W. Smith, and A. H. Paterson, “Multilocus interactions restrict gene introgression in interspecific populations of polyploid Gossypium (cotton),” Evolution, vol. 54, no. 3, pp. 798–814, 2000. View at Google Scholar · View at Scopus
  24. M. Ulloa, R. G. Cantrell, R. G. Percy, E. Zeiger, and Z. Lu, “QTL analysis of stomatal conductance and relationship to lint yield in an interspecific cotton,” Journal of Cotton Science, vol. 4, no. 1, pp. 10–18, 2000. View at Google Scholar · View at Scopus
  25. R. J. Kohel, J. Yu, Y. H. Park, and G. R. Lazo, “Molecular mapping and characterization of traits controlling fiber quality in cotton,” Euphytica, vol. 121, no. 2, pp. 163–172, 2001. View at Publisher · View at Google Scholar · View at Scopus
  26. Y. Saranga, M. Menz, C. X. Jiang, R. J. Wright, D. Yakir, and A. H. Paterson, “Genomic dissection of genotype x environment interactions conferring adaptation of cotton to arid conditions,” Genome Research, vol. 11, no. 12, pp. 1988–1995, 2001. View at Publisher · View at Google Scholar · View at Scopus
  27. M. Ulloa, W. R. Meredith Jr., Z. W. Shappley, and A. L. Kahler, “RFLP genetic linkage maps from four F2:3 populations and a joinmap of Gossypium hirsutum L,” Theoretical and Applied Genetics, vol. 104, no. 2-3, pp. 200–208, 2002. View at Publisher · View at Google Scholar · View at Scopus
  28. A. H. Paterson, Y. Saranga, M. Menz, C. X. Jiang, and R. J. Wright, “QTL analysis of genotype × environment interactions affecting cotton fiber quality,” Theoretical and Applied Genetics, vol. 106, no. 3, pp. 384–396, 2003. View at Google Scholar · View at Scopus
  29. Y. Saranga, C. X. Jiang, R. J. Wright, D. Yakir, and A. H. Paterson, “Genetic dissection of cotton physiological responses to arid conditions and their inter-relationships with productivity,” Plant, Cell and Environment, vol. 27, no. 3, pp. 263–277, 2004. View at Publisher · View at Google Scholar · View at Scopus
  30. T. Zhang, Y. Yuan, J. Yu, W. Guo, and R. J. Kohel, “Molecular tagging of a major QTL for fiber strength in Upland cotton and its marker-assisted selection,” Theoretical and Applied Genetics, vol. 106, no. 2, pp. 262–268, 2003. View at Google Scholar · View at Scopus
  31. Z. Lin, X. Zhang, Y. Nie, D. He, and M. Wu, “Construction of a genetic linkage map for cotton based on SRAP,” Chinese Science Bulletin, vol. 48, no. 19, pp. 2063–2067, 2003. View at Publisher · View at Google Scholar · View at Scopus
  32. Z. G. Han, W. Z. Guo, X. L. Song, and T. Z. Zhang, “Genetic mapping of EST-derived microsatellites from the diploid Gossypium arboreum in allotetraploid cotton,” Molecular Genetics and Genomics, vol. 272, no. 3, pp. 308–327, 2004. View at Publisher · View at Google Scholar · View at Scopus
  33. Z. Han, C. Wang, X. Song et al., “Characteristics, development and mapping of Gossypium hirsutum derived EST-SSRs in allotetraploid cotton,” Theoretical and Applied Genetics, vol. 112, no. 3, pp. 430–439, 2006. View at Publisher · View at Google Scholar · View at Scopus
  34. M. Mei, N. H. Syed, W. Gao et al., “Genetic mapping and QTL analysis of fiber-related traits in cotton (Gossypium),” Theoretical and Applied Genetics, vol. 108, no. 2, pp. 280–291, 2004. View at Publisher · View at Google Scholar · View at Scopus
  35. P. Chee, X. Draye, C. X. Jiang et al., “Molecular dissection of interspecific variation between Gossypium hirsutum and Gossypium barbadense (cotton) by a backcross-self approach: I. Fiber elongation,” Theoretical and Applied Genetics, vol. 111, no. 4, pp. 757–763, 2005. View at Publisher · View at Google Scholar · View at Scopus
  36. J. Rong, C. Abbey, J. E. Bowers et al., “A 3347-locus genetic recombination map of sequence-tagged sites reveals features of genome organization, transmission and evolution of cotton (Gossypium),” Genetics, vol. 166, no. 1, pp. 389–417, 2004. View at Publisher · View at Google Scholar · View at Scopus
  37. Y. Bolek, K. M. El-Zik, A. E. Pepper et al., “Mapping of verticillium wilt resistance genes in cotton,” Plant Science, vol. 168, no. 6, pp. 1581–1590, 2005. View at Publisher · View at Google Scholar · View at Scopus
  38. J. M. Lacape, T. B. Nguyen, S. Thibivilliers et al., “A combined RFLP-SSR-AFLP map of tetraploid cotton based on a Gossypium hirsutum × Gossypium barbadense backcross population,” Genome, vol. 46, no. 4, pp. 612–626, 2003. View at Publisher · View at Google Scholar · View at Scopus
  39. T. B. Nguyen, M. Giband, P. Brottier, A. M. Risterucci, and J. M. Lacape, “Wide coverage of the tetraploid cotton genome using newly developed microsatellite markers,” Theoretical and Applied Genetics, vol. 109, no. 1, pp. 167–175, 2004. View at Publisher · View at Google Scholar · View at Scopus
  40. J. M. Lacape, T. B. Nguyen, B. Courtois et al., “QTL analysis of cotton fiber quality using multiple Gossypium hirsutum × Gossypium barbadense backcross generations,” Crop Science, vol. 45, no. 1, pp. 123–140, 2005. View at Google Scholar · View at Scopus
  41. Z. Lin, D. He, X. Zhang et al., “Linkage map construction and mapping QTL for cotton fibre quality using SRAP, SSR and RAPD,” Plant Breeding, vol. 124, no. 2, pp. 180–187, 2005. View at Publisher · View at Google Scholar · View at Scopus
  42. D. H. He, Z. X. Lin, X. L. Zhang et al., “Mapping QTLs of traits contributing to yield and analysis of genetic effects in tetraploid cotton,” Euphytica, vol. 144, no. 1-2, pp. 141–149, 2005. View at Publisher · View at Google Scholar · View at Scopus
  43. D. H. He, Z. X. Lin, X. L. Zhang et al., “QTL mapping for economic traits based on a dense genetic map of cotton with PCR-based markers using the interspecific cross of Gossypium hirsutum × Gossypium barbadense,” Euphytica, vol. 153, no. 1-2, pp. 181–197, 2007. View at Publisher · View at Google Scholar · View at Scopus
  44. Y. H. Park, M. S. Alabady, M. Ulloa et al., “Genetic mapping of new cotton fiber loci using EST-derived microsatellites in an interspecific recombinant inbred line cotton population,” Molecular Genetics and Genomics, vol. 274, no. 4, pp. 428–441, 2005. View at Publisher · View at Google Scholar · View at Scopus
  45. X. Shen, W. Guo, X. Zhu et al., “Molecular mapping of QTLs for fiber qualities in three diverse lines in upland cotton using SSR markers,” Molecular Breeding, vol. 15, no. 2, pp. 169–181, 2005. View at Publisher · View at Google Scholar · View at Scopus
  46. V. N. Waghmare, J. Rong, C. J. Rogers, G. J. Pierce, J. F. Wendel, and A. H. Paterson, “Genetic mapping of a cross between Gossypium hirsutum (cotton) and the Hawaiian endemic, Gossypium tomentosum,” Theoretical and Applied Genetics, vol. 111, no. 4, pp. 665–676, 2005. View at Publisher · View at Google Scholar · View at Scopus
  47. Z. S. Zhang, Y. H. Xiao, M. Luo et al., “Construction of a genetic linkage map and QTL analysis of fiber-related traits in upland cotton (Gossypium hirsutum L.),” Euphytica, vol. 144, no. 1-2, pp. 91–99, 2005. View at Publisher · View at Google Scholar · View at Scopus
  48. J. E. Frelichowski Jr., M. B. Palmer, D. Main et al., “Cotton genome mapping with new microsatellites from Acala ‘Maxxa’ BAC-ends,” Molecular Genetics and Genomics, vol. 275, no. 5, pp. 479–491, 2006. View at Publisher · View at Google Scholar · View at Scopus
  49. X. Shen, T. Zhang, W. Guo, X. Zhu, and X. Zhang, “Mapping fiber and yield QTLs with main, epistatic, and QTL x environment interaction effects in recombinant inbred lines of Upland cotton,” Crop Science, vol. 46, no. 1, pp. 61–66, 2006. View at Publisher · View at Google Scholar · View at Scopus
  50. B. Wang, W. Guo, X. Zhu, Y. Wu, N. Huang, and T. Zhang, “QTL mapping of yield and yield components for elite hybrid derived-RILs in upland cotton,” Journal of Genetics and Genomics, vol. 34, no. 1, pp. 35–45, 2007. View at Publisher · View at Google Scholar · View at Scopus
  51. B. Wang, W. Guo, X. Zhu, Y. Wu, N. Huang, and T. Zhang, “QTL mapping of fiber quality in an elite hybrid derived-RIL population of upland cotton,” Euphytica, vol. 152, no. 3, pp. 367–378, 2006. View at Publisher · View at Google Scholar · View at Scopus
  52. I. Y. Abdurakhmonov, Z. T. Buriev, S. Saha et al., “Microsatellite markers associated with lint percentage trait in cotton, Gossypium hirsutum,” Euphytica, vol. 156, no. 1-2, pp. 141–156, 2007. View at Publisher · View at Google Scholar · View at Scopus
  53. W. Guo, P. Cai, C. Wang et al., “A microsatellite-based, gene-rich linkage map reveals genome structure, function and evolution in Gossypium,” Genetics, vol. 176, no. 1, pp. 527–541, 2007. View at Publisher · View at Google Scholar · View at Scopus
  54. X. Shen, W. Guo, Q. Lu, X. Zhu, Y. Yuan, and T. Zhang, “Genetic mapping of quantitative trait loci for fiber quality and yield trait by RIL approach in upland cotton,” Euphytica, vol. 155, no. 3, pp. 371–380, 2007. View at Publisher · View at Google Scholar · View at Scopus
  55. Q. Wan, Z. Zhang, M. Hu et al., “T1 locus in cotton is the candidate gene affecting lint percentage, fiber quality and spiny bollworm (Earias spp.) resistance,” Euphytica, vol. 158, no. 1-2, pp. 241–247, 2007. View at Publisher · View at Google Scholar · View at Scopus
  56. Z. S. Zhang, M. C. Hu, J. Zhang et al., “Construction of a comprehensive PCR-based marker linkage map and QTL mapping for fiber quality traits in upland cotton (Gossypium hirsutum L.),” Molecular Breeding, vol. 24, no. 1, pp. 49–61, 2009. View at Publisher · View at Google Scholar · View at Scopus
  57. B. H. Wang, Y. T. Wu, N. T. Huang, X. F. Zhu, W. Z. Guo, and T. Z. Zhang, “QTL mapping for plant architecture traits in upland cotton using RILs and SSR markers,” Acta Genetica Sinica, vol. 33, no. 2, pp. 161–170, 2006. View at Publisher · View at Google Scholar · View at Scopus
  58. B. Wang, Y. Wu, W. Guo, X. Zhu, N. Huang, and T. Zhang, “QTL analysis and epistasis effects dissection of fiber qualities in an elite cotton hybrid grown in second generation,” Crop Science, vol. 47, no. 4, pp. 1384–1392, 2007. View at Publisher · View at Google Scholar · View at Scopus
  59. J. Yu, S. Yu, C. Lu et al., “High-density linkage map of cultivated allotetraploid cotton based on SSR, TRAP, SRAP and AFLP markers,” Journal of Integrative Plant Biology, vol. 49, no. 5, pp. 716–724, 2007. View at Publisher · View at Google Scholar · View at Scopus
  60. Y. Guo, J. C. McCarty, J. N. Jenkins, and S. Saha, “QTLs for node of first fruiting branch in a cross of an upland cotton, Gossypium hirsutum L., cultivar with primitive accession Texas 701,” Euphytica, vol. 163, no. 1, pp. 113–122, 2008. View at Publisher · View at Google Scholar · View at Scopus
  61. D. H. He, Z. X. Lin, X. L. Zhang et al., “Dissection of genetic variance of fibre quality in advanced generations from an interspecific cross of Gossypium hirsutum and G. barbadense,” Plant Breeding, vol. 127, no. 3, pp. 286–294, 2008. View at Publisher · View at Google Scholar · View at Scopus
  62. Y. Lu, J. Curtiss, D. Miranda, E. Hughs, and J. Zhang, “ATG-anchored AFLP (ATG-AFLP) analysis in cotton,” Plant Cell Reports, vol. 27, no. 10, pp. 1645–1653, 2008. View at Publisher · View at Google Scholar · View at Scopus
  63. H. Qin, W. Guo, Y. M. Zhang, and T. Zhang, “QTL mapping of yield and fiber traits based on a four-way cross population in Gossypium hirsutum L,” Theoretical and Applied Genetics, vol. 117, no. 6, pp. 883–894, 2008. View at Publisher · View at Google Scholar · View at Scopus
  64. Z. Lin, Y. Zhang, X. Zhang, and X. Guo, “A high-density integrative linkage map for Gossypium hirsutum,” Euphytica, vol. 166, no. 1, pp. 35–45, 2009. View at Publisher · View at Google Scholar · View at Scopus
  65. J. M. Lacape, J. Jacobs, T. Arioli et al., “A new interspecific, Gossypium hirsutum × G. barbadense, RIL population: towards a unified consensus linkage map of tetraploid cotton,” Theoretical and Applied Genetics, vol. 119, no. 2, pp. 281–292, 2009. View at Publisher · View at Google Scholar · View at Scopus
  66. J. M. Lacape, D. Llewellyn, J. Jacobs et al., “Meta-analysis of cotton fiber quality QTLs across diverse environments in a Gossypium hirsutum × G. barbadense RIL population,” BMC Plant Biology, p. 132, 2010. View at Publisher · View at Google Scholar · View at Scopus
  67. J. Wu, O. A. Gutierrez, J. N. Jenkins, J. C. McCarty, and J. Zhu, “Quantitative analysis and QTL mapping for agronomic and fiber traits in an RI population of upland cotton,” Euphytica, vol. 165, no. 2, pp. 231–245, 2009. View at Publisher · View at Google Scholar · View at Scopus
  68. X. L. Yang, Z. W. Wang, G. Y. Zhang, Y. X. Pan, L. Q. Wu, and Z. K. Li, “Construction of molecular genetic map and QTL analysis of fibre quality traits in cotton,” Acta Agronomica Sinica, vol. 35, no. 12, pp. 2159–2166, 2009. View at Google Scholar
  69. M. Santoshkumar, Genetic and Quantitative trait loci analysis for yield and fibre quality traits in cotton (Gossypium spp.), M.S. thesis, Tamil Nadu Agricultural University, Coimbatore, India, 2010.
  70. B. Urbi, Quantitative trait loci analysis for fibre quality traits in cotton (Gossypium spp.) using F2:3 population, M.S. thesis, Tamil Nadu Agricultural University, Coimbatore, India, 2010.
  71. C. An, J. N. Jenkins, J. Wu, Y. Guo, and J. C. McCarty, “Use of fiber and fuzz mutants to detect QTL for yield components, seed, and fiber traits of upland cotton,” Euphytica, vol. 172, no. 1, pp. 21–34, 2010. View at Publisher · View at Google Scholar · View at Scopus
  72. N. M. Boopathi, A. Gopikrishnan, N. Jagadeesh Selvam et al., “Genetic diversity assessment of G. barbadense accessions to widen cotton (Gossypium spp.) gene pool for improved fibre quality,” Journal of Cotton Research and Development, vol. 22, no. 2, pp. 135–138, 2008. View at Google Scholar
  73. S. Saha, J. N. Jenkins, J. Wu et al., “Effects of chromosome-specific introgression in upland cotton on fiber and agronomic traits,” Genetics, vol. 172, no. 3, pp. 1927–1938, 2006. View at Publisher · View at Google Scholar · View at Scopus
  74. M. E. Sorrells and W. A. Wilson, “Direct classification and selection of superior alleles for crop improvement,” Crop Science, vol. 37, no. 3, pp. 691–697, 1997. View at Google Scholar · View at Scopus
  75. P. Winter and G. Kahl, “Molecular marker technologies for plant improvement,” World Journal of Microbiology & Biotechnology, vol. 11, no. 4, pp. 438–448, 1995. View at Publisher · View at Google Scholar · View at Scopus
  76. J. Rong, F. A. Feltus, V. N. Waghmare et al., “Meta-analysis of polyploid cotton QTL shows unequal contributions of subgenomes to a complex network of genes and gene clusters implicated in lint fiber development,” Genetics, vol. 176, no. 4, pp. 2577–2588, 2007. View at Publisher · View at Google Scholar · View at Scopus
  77. D. H. He, Z. X. Lin, X. L. Zhang et al., “QTL mapping for economic traits based on a dense genetic map of cotton with PCR-based markers using the interspecific cross of Gossypium hirsutum × Gossypium barbadense,” Euphytica, vol. 153, no. 1-2, pp. 181–197, 2007. View at Publisher · View at Google Scholar · View at Scopus
  78. A. H. Paterson, Y. Saranga, M. Menz, C. X. Jiang, and R. J. Wright, “QTL analysis of genotype × environment interactions affecting cotton fiber quality,” Theoretical and Applied Genetics, vol. 106, no. 3, pp. 384–396, 2003. View at Google Scholar · View at Scopus
  79. M. Ulloa, S. Saha, J. N. Jenkins, W. R. Meredith, J. C. McCarty, and D. M. Stelly, “Chromosomal assignment of RFLP linkage groups harboring important QTLs on an intraspecific cotton (Gossypium hirsutum L.) joinmap,” Journal of Heredity, vol. 96, no. 2, pp. 132–144, 2005. View at Publisher · View at Google Scholar · View at Scopus
  80. E. S. Lander and S. Botstein, “Mapping mendelian factors underlying quantitative traits using RFLP linkage maps,” Genetics, vol. 121, no. 1, pp. 185–199, 1989. View at Google Scholar · View at Scopus
  81. D. T. Rosenow, J. E. Quisenberry, C. W. Wendt, and L. E. Clark, “Drought tolerant sorghum and cotton germplasm,” Agricultural Water Management, vol. 7, no. 1–3, pp. 207–222, 1983. View at Google Scholar · View at Scopus
  82. X.-P. Zhao, Y. Si, R. E. Hanson et al., “Dispersed repetitive DNA has spread to new genomes since polyploid formation in cotton,” Genome Research, vol. 8, no. 5, pp. 479–492, 1998. View at Google Scholar
  83. O. U. K. Reddy, A. E. Pepper, I. Abdurakhmonov et al., “New dinucleotide and trinucleotide microsatellite marker resources for cotton genome research,” Journal of Cotton Science, vol. 5, no. 2, pp. 103–113, 2001. View at Google Scholar · View at Scopus
  84. T. A. Wilkins and A. B. Arpat, “The cotton fiber transcriptome,” Physiologia Plantarum, vol. 124, no. 3, pp. 295–300, 2005. View at Publisher · View at Google Scholar · View at Scopus
  85. N. M. Boopathi and R. Ravikesavan, “Emerging trends in enhancement of cotton fiber productivity and quality using functional genomics tools,” Biotechnology and Molecular Biology Review, vol. 4, no. 1, pp. 11–28, 2009. View at Google Scholar
  86. Y. L. Ruan, D. J. Llewellyn, and R. T. Furbank, “The control of single-celled cotton fiber elongation by developmentally reversible gating of plasmodesmata and coordinated expression of sucrose and K+ transporters and expansin,” Plant Cell, vol. 13, no. 1, pp. 47–60, 2001. View at Publisher · View at Google Scholar · View at Scopus
  87. Y. Wu, S. Rozenfeld, A. Defferrard et al., “Cycloheximide treatment of cotton ovules alters the abundance of specific classes of mRNAs and generates novel ESTs for microarray expression profiling,” Molecular Genetics and Genomics, vol. 274, no. 5, pp. 477–493, 2005. View at Publisher · View at Google Scholar · View at Scopus
  88. Z. Xu, R. J. Kohel, G. Song et al., “Gene-rich islands for fiber development in the cotton genome,” Genomics, vol. 92, no. 3, pp. 173–183, 2008. View at Publisher · View at Google Scholar · View at Scopus
  89. B. C. Y. Collard, M. Z. Z. Jahufer, J. B. Brouwer, and E. C. K. Pang, “An introduction to markers, quantitative trait loci (QTL) mapping and marker-assisted selection for crop improvement: the basic concepts,” Euphytica, vol. 142, no. 1-2, pp. 169–196, 2005. View at Publisher · View at Google Scholar · View at Scopus
  90. G. A. Churchill and R. W. Doerge, “Empirical threshold values for quantitative trait mapping,” Genetics, vol. 138, no. 3, pp. 963–971, 1994. View at Google Scholar · View at Scopus
  91. M. L. Cedroni, R. C. Cronn, K. L. Adams, T. A. Wilkins, and J. F. Wendel, “Evolution and expression of MYB genes in diploid and polyploid cotton,” Plant Molecular Biology, vol. 51, no. 3, pp. 313–325, 2003. View at Publisher · View at Google Scholar · View at Scopus
  92. E. Jamet, H. Canut, G. Boudart, and R. F. Pont-Lezica, “Cell wall proteins: a new insight through proteomics,” Trends in Plant Science, vol. 11, no. 1, pp. 33–39, 2006. View at Publisher · View at Google Scholar · View at Scopus
  93. R. Babu, S. K. Nair, B. M. Prasanna, and H. S. Gupta, “Integrating marker-assisted selection in crop breeding—prospects and challenges,” Current Science, vol. 87, no. 5, pp. 607–619, 2004. View at Google Scholar · View at Scopus
  94. P. Narain, “Quantitative genetics: past and present,” Molecular Breeding, vol. 26, no. 2, pp. 135–143, 2010. View at Publisher · View at Google Scholar · View at Scopus
  95. B. C. Y. Collard and D. J. Mackill, “Marker-assisted selection: an approach for precision plant breeding in the twenty-first century,” Philosophical Transactions of the Royal Society B, vol. 363, no. 1491, pp. 557–572, 2008. View at Publisher · View at Google Scholar
  96. C. S. Haley and L. Andersson, “Linkage mapping of quantitative trait loci in plants and animals,” in Genome Mapping: A Practical Approach, P. H. Dear, Ed., pp. 49–71, Oxford University Press, New York, NY, USA, 1997. View at Google Scholar
  97. L. Lin, G. J. Pierce, J. E. Bowers et al., “A draft physical map of a D-genome cotton species (Gossypium raimondii),” BMC Genomics, p. 395, 2010. View at Publisher · View at Google Scholar · View at Scopus
  98. S. Vij and A. K. Tyagi, “Emerging trends in the functional genomics of the abiotic stress response in crop plants: review article,” Plant Biotechnology Journal, vol. 5, no. 3, pp. 361–380, 2007. View at Publisher · View at Google Scholar · View at Scopus
  99. B. M. Prasanna, K. Pixley, M. L. Warburton, and C. X. Xie, “Molecular marker-assisted breeding options for maize improvement in Asia,” Molecular Breeding, vol. 26, no. 2, pp. 339–356, 2010. View at Publisher · View at Google Scholar · View at Scopus
  100. E. M. J. Salentijn, A. Pereira, G. C. Angenent et al., “Plant translational genomics: from model species to crops,” Molecular Breeding, vol. 20, no. 1, pp. 1–13, 2007. View at Publisher · View at Google Scholar · View at Scopus
  101. R. C. Jansen and J. P. Nap, “Genetical genomics: the added value from segregation,” Trends in Genetics, vol. 17, no. 7, pp. 388–391, 2001. View at Publisher · View at Google Scholar · View at Scopus