Advertisement

Molecular Genetics and Genomics

, Volume 290, Issue 4, pp 1615–1625 | Cite as

Cotton QTLdb: a cotton QTL database for QTL analysis, visualization, and comparison between Gossypium hirsutum and G. hirsutum × G. barbadense populations

  • Joseph I Said
  • Joseph A Knapka
  • Mingzhou Song
  • Jinfa Zhang
Original Paper

Abstract

Key message

A specialized database currently containing more than 2200 QTL is established, which allows graphic presentation, visualization and submission of QTL.

Abstract

In cotton quantitative trait loci (QTL), studies are focused on intraspecific Gossypium hirsutum and interspecific G. hirsutum × G. barbadense populations. These two populations are commercially important for the textile industry and are evaluated for fiber quality, yield, seed quality, resistance, physiological, and morphological trait QTL. With meta-analysis data based on the vast amount of QTL studies in cotton it will be beneficial to organize the data into a functional database for the cotton community. Here we provide a tool for cotton researchers to visualize previously identified QTL and submit their own QTL to the Cotton QTLdb database. The database provides the user with the option of selecting various QTL trait types from either the G. hirsutum or G. hirsutum × G. barbadense populations. Based on the user’s QTL trait selection, graphical representations of chromosomes of the population selected are displayed in publication ready images. The database also provides users with trait information on QTL, LOD scores, and explained phenotypic variances for all QTL selected. The CottonQTLdb database provides cotton geneticist and breeders with statistical data on cotton QTL previously identified and provides a visualization tool to view QTL positions on chromosomes. Currently the database (Release 1) contains 2274 QTLs, and succeeding QTL studies will be updated regularly by the curators and members of the cotton community that contribute their data to keep the database current. The database is accessible from http://www.cottonqtldb.org.

Keywords

Gossypiumhirsutum Gossypium barbadense QTL Fiber quality Database CottonQTLdb 

Notes

Acknowledgments

This study was funded in part by New Mexico Agricultural Experiment Station.

Conflict of interest

The authors declare that they have no conflict of interests.

Ethnical standard

This article does not contain any studies with human participants or animals performed by any of the authors.

Informed consent

Informed consent was obtained from all individual participants included in the study.

Supplementary material

438_2015_1021_MOESM1_ESM.docx (42 kb)
Supplementary material 1 (DOCX 41 kb)

References

  1. An CF, Jenkins JN, Wu JX, Guo YF, McCarty JC Jr (2010) Use of fiber and fuzz mutants to detect QTL for yield components, seed, and fiber traits of upland cotton. Euphytica 172:21–34CrossRefGoogle Scholar
  2. Arcade A, Labourdette A, Falque M, Mangin B, Chardon F, Charcosset A, Joets J (2004) BioMercator: integrating genetic maps and QTL towards discovery of candidate genes. Bioinformatics 20:2324–2326PubMedCrossRefGoogle Scholar
  3. Blenda A, Scheffler J, Sheffler B, Palmer M, Lacape JM, Yu JZ, Jesudurai C, Jung S, Muthukumar S, Yellambalase P, Ficklin S et al (2006) CMD: a cotton microsatellite database resource for Gossypium genomics. BMC Genom 7:132CrossRefGoogle Scholar
  4. Cai C, Ye W, Zhang T, Guo W (2013) Association analysis of fiber quality traits and exploration of elite alleles in Upland cotton cultivars/accessions (Gossypium hirsutum L.). J Integr Plant Biol 56:51–62CrossRefGoogle Scholar
  5. Chee P, Draye X, Jiang CX, Decanini L, Delmonte TA, Bredhauer R, Smith CW, Paterson AH (2005a) Molecular dissection of interspecific variation between Gossypium hirsutum and Gossypium barbadense (cotton) by a backcross-self approach: I fiber elongation. Theor Appl Genet 111:757–763PubMedCrossRefGoogle Scholar
  6. Chee PW, Draye X, Jiang CX, Decanini L, Delmonte TA, Bredhauer R, Smith CW, Paterson AH (2005b) Molecular dissection of phenotypic variation between Gossypium hirsutum and Gossypium barbadense (cotton) by a backcross-self approach: III fiber length. Theor Appl Genet 111:772–781PubMedCrossRefGoogle Scholar
  7. Chen L, Zhang ZS, Hu MC, Wang W, Zhang J, Liu DJ, Zheng J, Zheng FM, Ma J (2008) Genetic linkage map construction and QTL mapping for yield and fiber quality in Upland cotton (Gossypium hirsutum L.). Acta Agron Sin 34:1199–1205CrossRefGoogle Scholar
  8. Chen H, Qian N, Guo WZ, Song QP, Li BC, Deng FJ, Dong CG, Zhang TZ (2009) Using three overlapped RILs to dissect genetically clustered QTL for fiber strength on Chro. D8 in Upland cotton. Theor Appl Genet 119:605–612PubMedCrossRefGoogle Scholar
  9. Draye X, Chee P, Jiang CX, Decanini L, Delmonte TA, Bredhauer R, Smith CW, Paterson AH (2005) Molecular dissection of interspecific variation between Gossypium hirsutum and G barbadense (cotton) by a backcross-self approach: II fiber fineness. Theor Appl Genet 111:764–771PubMedCrossRefGoogle Scholar
  10. Fang H, Zhou H, Sanogo S, Flynn R, Percy RG, Hughs SE, Ulloa M, Jones DC, Zhang JF (2013) Quantitative trait locus mapping for Verticillium wilt resistance in a backcross inbred line population of cotton (Gossypium hirsutum × Gossypium barbadense) based on RGA-AFLP analysis. Euphytica 194:79–91CrossRefGoogle Scholar
  11. Fang H, Zhou H, Sanogo S, Lipka AE, Fang DD, Percy RG, Hughs SE, Jones DC, Gore MA, Zhang JF (2014) Quantitative trait locus analysis of Verticillium wilt resistance in an introgressed recombinant inbred population of Upland cotton. Mol Breed 33:709–720CrossRefGoogle Scholar
  12. Feng J, Zhao J, Zhou L, Guo WZ, Zhang TZ (2009) Molecular mapping of Verticillium wilt resistance QTL clustered on chromosomes D7 and D9 in Upland cotton. Sci China C Life Sci 52:872–884CrossRefGoogle Scholar
  13. Ge HY, Wang YC, Guo WZ, Zhang TZ (2008) Inheritance and molecular tagging of resistance against Verticillium wilt in Upland cotton. Cotton Sci 20:19–22Google Scholar
  14. Gore MA, Fang DD, Poland JA, Zhang JF, Percy RG, Cantrell RG, Thyssen G, Lipka AE (2014) Linkage map construction and quantitative trait locus analysis of agronomic and fiber quality traits in cotton. Plant Genome 7:1–10CrossRefGoogle Scholar
  15. Guo YF, McCarty JC, Jenkins JN, Saha S (2008) QTLs for node of first fruiting branch in a cross of an upland cotton, Gossypium hirsutum L., cultivar with primitive accession Texas 701. Euphytica 163:113–122CrossRefGoogle Scholar
  16. Gutierrez OA, Jenkins JN, McCarty JC, Wubben MJ, Hayes RW, Callahan FE (2010) SSR markers closely associated with genes for resistance to root-knot nematode on chromosomes 11 and 14 of Upland cotton. Theor Appl Genet 121:1323–1337PubMedCrossRefGoogle Scholar
  17. Gutierrez OA, Robinson AF, Jenkins JN, McCarty JC, Wubben MJ, Callahan FE, Nichols RL (2011) Identification of QTL regions and SSR markers associated with resistance to reniform nematode in Gossypium barbadense L. accession GB713. Theor Appl Genet 122:271–280PubMedCrossRefGoogle Scholar
  18. Hu WJ, Zhang XY, Zhang TZ, Guo WZ (2008) Molecular tagging and source analysis of QTL for elite fiber quality in Upland Cotton. Acta Agron Sin 34:578–586CrossRefGoogle Scholar
  19. Jia F, Sun FD, Li JW, Liu AY, Shi YZ, Gong JW, Shang HH, Gong WK, Wang T, Liu Z, Yuan YL (2011) Identification of QTL for boll weight and lint percentage of Upland cotton (Gossypium hirsutum L.) RIL population in multiple environments. Mol Plant Breed 9:318–326Google Scholar
  20. Jiang CX, Wright RJ, El-Zik KM, Paterson AH (1998) Polyploid formation created unique avenues for response to selection in Gossypium (cotton). Proc Natl Acad Sci USA 95:4419–4424PubMedCentralPubMedCrossRefGoogle Scholar
  21. Jiang C, Wright RJ, Woo SS, DelMonte TA, Paterson AH (2000) QTL analysis of leaf morphology in tetraploid Gossypium (cotton). Theor Appl Genet 100:409–418CrossRefGoogle Scholar
  22. Kong FJ, Li JW, Gong JW, Shi YZ, Liu AY, Shang HH, Gong WK, Wang T, Yuan YL (2011) QTL mapping for lint percentage and seed index in Upland cotton (Gossypium hirsutum L.) of different genetic backgrounds. Chin Agric Sci Bull 27:104–109Google Scholar
  23. Kumar P, Singh R, Lubbers EL, Shen X, Paterson AH, Campbell BT, Jones DC, Chee PW (2012) Mapping and validation of fiber strength quantitative trait loci on chromosome 24 in Upland cotton. Crop Sci 52:1115–1122CrossRefGoogle Scholar
  24. Lacape JM, Nguyen TB, Courtois B, Belot JL, Giband M, Gourlot JP, Gawryziak G, Roques S, Hau B (2005) QTL analysis of cotton fiber quality using multiple Gossypium hirsutum x Gossypium barbadense backcross generations. Crop Sci 45:123–140CrossRefGoogle Scholar
  25. Lacape JM, Llewellyn D, Jacobs J, Arioli T, Becker D, Calhoun S, Al-Ghazi Y, Liu SM, Palai O, Georges S et al (2010) Meta-analysis of cotton fiber quality QTLs across diverse environments in a Gossypium hirsutum x G. barbadense RIL population. BMC Plant Biol 10:132PubMedCentralPubMedCrossRefGoogle Scholar
  26. Lacape JM, Gawrysiak G, Cao TV, Viot C, Liewellyn D, Liu S, Jacobs J, Becker D, Barroso PAV et al (2013) Mapping QTLs for traits related to phenology, morphology and yield components in an inter-specific Gossypium hirsutum × G. barbadense cotton RIL population. Field Crops Res 144:256–267CrossRefGoogle Scholar
  27. Li PB, Cao ML, Liu HM, Yang LL, Chen G (2006) Genetic map construction and QTL mapping of fiber quality in Upland cotton (Gossypium hirsutum L.). Acta Bot Boreall-Occident Sin 26:1098–1104Google Scholar
  28. Li CQ, Guo WZ, Ma XL, Zhang TZ (2008) Tagging and mapping of QTL for yield and its components in Upland Cotton (Gossypium hirsutum L.) population with varied lint percentage. Cotton Sci 20:163–169Google Scholar
  29. Li K, Yang DG, Ma XF, ZhouXJ Wang HF, Meng QQ, Pei XY (2010) QTL mapping of yield traits in high advantage combination of cotton. Mol Plant Breed 8:673–679Google Scholar
  30. Li CQ, Wang CB, Dong N, Wang XY, Zhao HH, Converse R, Xia Z, Wang R, Wang QL (2012) QTL detection for node of first fruiting branch and its height in Upland cotton (Gossypium hirsutum L.). Euphytica 188:441–451CrossRefGoogle Scholar
  31. Liu DJ, Zhang J, Zhang K, Wang W, Zhang ZS (2010) QTL mapping of seed physical traits in Upland cotton (Gossypium hirsutum L.). Acta Agron Sin 36:53–60CrossRefGoogle Scholar
  32. Liu HY, Quampah A, Chen JH, Li JR, Huang ZR, He QL, Shi CH, Zhu SJ (2012a) QTL analysis for gossypol and protein contents in upland cottonseeds with two different genetic systems across environments. Euphytica 188:453–463CrossRefGoogle Scholar
  33. Liu RZ, Wang BH, Guo WZ, Qin YS, Wang LG, Zhang YM, Zhang TZ (2012b) Quantitative trait loci mapping for yield and its components by using two immortalized populations of a heterotic hybrid in Gossypium hirsutum L. Mol Breed 29:297–311CrossRefGoogle Scholar
  34. Liu H, Quampah A, Chen J, Li J, Huang Z, He Q, Zhu S, Shi C (2013a) QTL mapping based on different genetic systems for essential amino acid contents in cottonseeds in different environments. PLoS One 8:e57531PubMedCentralPubMedCrossRefGoogle Scholar
  35. Liu R, Ai N, Zhu X, Liu F, Guo W, Zhang T (2013b) Genetic analysis of plant height using two immortalized populations of “CRI12 × J8891” in Gossypium hirsutum L. Euphytica 196:51–60CrossRefGoogle Scholar
  36. Liu XF, Li JW, Yu XK, Shi YZ, Jia F, Sun DF, Liu AY, Gong JW, Shang HH, Gong WK, Wang T, Deng HB, Yuan YL (2013c) Identification of QTL for cottonseed oil and protein content in Upland cotton (Gossypium hirsutum L.) based on a RIL population. Mol Plant Breed 11:520–528Google Scholar
  37. Lopez-Lavalle LAB, Gillespie VJ, Tate WA, Ellis MH, Stiller WN, Liewellyn DL, Wilson IW (2012) Molecular mapping of a new source of Fusarium wilt resistance in tetraploid cotton (Gossypium hirsutum L.). Mol Breed 30:1181–1191CrossRefGoogle Scholar
  38. Mei M, Syed NH, Gao W, Thaxton PM, Smith CW, Stelly DM, Chen ZJ (2004) Genetic mapping and QTL analysis of fiber-related traits in cotton (Gossypium). Theor Appl Genet 108:280–291PubMedCrossRefGoogle Scholar
  39. Mei H, Zhu X, Zhang T (2013) Favorable QTL Alleles for yield and its components identified by association mapping in Chinese Upland cotton cultivars. PLoS One 12:e82193CrossRefGoogle Scholar
  40. Mei H, Ai N, Zhang X, Ning Z, Zhang T (2014) QTLs conferring FOV 7 resistance detected by linkage and association mapping in Upland cotton. Euphytica 197:237–249CrossRefGoogle Scholar
  41. Nusurat O, Yu SX, Fan SL, Pang CY (2012) Correlation of agronomic characters and QTL mapping in mechanical harvest cotton (Gossypum hirsutum L.). Xinjiang Agric Sci 9:791–795Google Scholar
  42. Paterson AH, Saranga Y, Menz M, Jiang CX, Wright RJ (2003) QTL analysis of genotype x environment interactions affecting cotton fiber quality. Theor Appl Genet 106:384–396PubMedGoogle Scholar
  43. Qin HD, Guo WZ, Zhang YM, Zhang TZ (2008) QTL mapping of yield and fiber traits based on a four-way cross population in Gossypium hirsutum L. Theor Appl Genet 117:883–894PubMedCrossRefGoogle Scholar
  44. Qin YS, Liu RZ, Mei HX, Zhang TZ, Guo WZ (2009) QTL mapping for yield traits in Upland Cotton (Gossypium hirsutum L.). Acta Agron Sin 5:1812–1821CrossRefGoogle Scholar
  45. QingZhi L, Cheng H, Hua H, ZhaoHu L, JinPing H (2013) Construction of a linkage map and QTL mapping for fiber quality traits in upland cotton (Gossypium hirsutum L.). Chin Sci Bull 58:3233–3243CrossRefGoogle Scholar
  46. Romano GB, Sacks EJ, Stetina SR, Robinson AF, Fang DD, Gutierrez OA, Scheffler JA (2009) Identification and genomic location of a reinform nematode (Rotylenchulus reniformis) resistance locus (Renari) introgressed from Gossypium aridum into upland cotton (G. hirsutum). Theor Appl Genet 120:139–150PubMedCentralPubMedCrossRefGoogle Scholar
  47. Rong J, Feltus EA, Waghmare VN, Pierce GJ, Chee PW, Draye X, Saranga Y, Wright RJ, Wilkins TA, May OL et al (2007) 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 176:2577–2588PubMedCentralPubMedCrossRefGoogle Scholar
  48. Said JI, Lin Z, Zhang X, Song M, Zhang JF (2013) A comprehensive Meta QTL analysis for fiber quality, yield, yield related and morphological traits, drought tolerance, and disease resistance in tetraploid cotton. BMC Genom 14:776CrossRefGoogle Scholar
  49. Said JI, Song M, Wang H, Lin Z, Zhang X, Fang DD, Zhang JF (2014) A comparative meta-analysis of QTL between intraspecific Gossypium hirsutum and interspecific G hirsutum × G barbadense populations. Mol Genet Genom. doi: 10.1007/s00438-014-0963-9 Google Scholar
  50. Saranga Y, Jiang CX, Wright RJ, Yakir D, Paterson AH (2004) Genetic dissection of cotton physiological responses to arid conditions and their inter-relationships with productivity. Plant Cell Environ 27:263–277CrossRefGoogle Scholar
  51. Shen XL, Guo WZ, Zhu XF, Yuan YL, Yu JZ, Kohel RJ, Zhang TZ (2005) Molecular mapping of QTLs for fiber qualities in three diverse lines in Upland cotton using SSR markers. Mol Breed 15:169–181CrossRefGoogle Scholar
  52. Shen X, Van Becelaere G, Kumar P, Davis RF, May OL, Chee P (2006a) QTL mapping for resistance to root-knot nematodes in the M-120 RNR Upland cotton line (Gossypium hirsutum L.) of the Auburn 623 RNR source. Theor Appl Genet 11:1539–1549CrossRefGoogle Scholar
  53. Shen XL, Zhang TZ, Guo WZ, Zhu XF, Zhang XY (2006b) Mapping fiber and yield QTLs with main, epistatic, and QTL X environment interaction effects in recombinant inbred lines of Upland cotton. Crop Sci 46:61–66CrossRefGoogle Scholar
  54. Shen X, He Y, Lubbers EL, Davis RF, Nichols RL, Chee PW (2010) Fine mapping QMi-C11, a major QTL controlling root-knot nematodes resistance in Upland cotton. Theor Appl Genet 121:1623–1631PubMedCrossRefGoogle Scholar
  55. Su C, Wang W, Qui X, Yang L, Li S, Wang M, Pan Q (2013) Fine-mapping a fiber strength QTL QFS-D11-1 on cotton chromosome 21 using introgressed lines. Plant Breed 132:725–730CrossRefGoogle Scholar
  56. Sun FD, Zhang JH, Wang SF, Gong WK, Shi YZ, Liu AY, Li JW, Gong JW, Shang HH, Yuan YL (2012) QTL mapping for fiber quality traits across multiple generations and environments in upland cotton. Mol Breed 30:569–582CrossRefGoogle Scholar
  57. Ulloa M, Wang C, Roberts PA (2009) Gene action analysis by inheritance and quantitative trait loci mapping of resistance to root-knot nematodes in cotton. Plant Breed 129:541–550Google Scholar
  58. Ulloa M, Wang C, Hutmacher RB, Wright SD, Davis RM, Saski CA, Robers PA (2011) Mapping Fusarium wilt race 1 resistance genes in cotton by inheritance, QTL and sequencing composition. Mol Genet Genom 286:21–36CrossRefGoogle Scholar
  59. Ulloa M, Hutmacher RB, Robers PA, Wright SD, Nichols RL, Davis RM (2013) Inheritance and QTL mapping of Fusarium wilt race 4 resistance in cotton. Theor Appl Genet 126:1405–1418PubMedCrossRefGoogle Scholar
  60. Wang BH, Guo WZ, Zhu XF, Wu YT, Huang NT, Zhang TZ (2006) QTL mapping of fiber quality in an elite hybrid derived-RIL population of upland cotton. Euphytica 152:367–378CrossRefGoogle Scholar
  61. Wang FR, Liu RZ, Wang LM, Zhang CY, Liu GD, Liu QH, Ma XB, Zhang J (2007a) Molecular markers of Verticillium wilt resistance in Upland Cotton (Gossypium hirsutum L.) cultivar and their effects on assisted phenotypic selection. Cotton Sci 19:424–430Google Scholar
  62. Wang J, Guo WZ, Zhang TZ (2007b) QTL mapping for fiber quality properties in cotton cultivar Yumian 1. Acta Agron Sin 33:1915–1921Google Scholar
  63. Wang PZ, Qin L, Su L, Hu BM, Zhang TZ (2007c) QTL Mapping of some plant morphological traits for main Upland Cotton cultivars planted in Xinjiang. Mol Plant Breed 5:811–818Google Scholar
  64. Wang HM, Lin ZX, Zhang XL, Chen W, Guo XP, Nie YC, Li YH (2008) Mapping and quantitative trait loci analysis of Verticillium wilt resistance genes in cotton. J Integr Plant Biol 50:174–182PubMedCrossRefGoogle Scholar
  65. Wang PZ, Su L, Qin L, Hu BM, Guo WZ, Zhang TZ (2009) Identification and molecular mapping of a Fusarium wilt resistant gene in upland cotton. Theor Appl Genet 119:733–739PubMedCrossRefGoogle Scholar
  66. Wang YQ, Li JW, Shi YZ, Liu AY, Shang HH, Gong JW, Wang T, Gong WK, Yuan YL (2010) Molecular marker of QTL for fiber quality traits in Upland cotton with elite fiber quality. Cotton Sci 22:533–538Google Scholar
  67. Wang XK, Pan ZE, Sun JL, He SP, Tang CM, Du XM (2011) Correlation analysis and QTL mapping for plant height and fiber quality of dwarf mutant in Upland cotton (Gossypium hirsutum L.). J Nucl Agric Sci 25:448–455Google Scholar
  68. Wang C, Ulloa M, Mullens TR, Yu JZ, Roberts PA (2012a) QTL analysis for transgressive resistance to root-knot nematode in interspecific cotton (Gossypium spp.) progeny derived from susceptible parents. PLoS One 7:e34874PubMedCentralPubMedCrossRefGoogle Scholar
  69. Wang L, Liu F, Li SH, Wang CY, Zhang XD, Wang YH, Hua JP, Wang KB (2012b) QTL mapping for fiber quality properties in Lumianyan 15. Cotton Sci 24:97–105Google Scholar
  70. Wang P, Zhu YJ, Song XL, Cao ZB, Ding YZ, Liu BL, Zhu XF, Wang S, Guo WZ, Zhang TZ (2012c) Inheritance of long staple fiber quality traits of Gossypium barbadense in G. hirsutum background using CSILs. Theor Appl Genet 124:1415–1428PubMedCrossRefGoogle Scholar
  71. Wang F, Zhenzhen X, Sun R, Gong Y, Liu G, Zhang J, Wang L, Zhang C, Fan S, Zhang J (2013) Genetic dissection of the introgressive genomic components from Gossypium barbadense L. that contribute to improved fiber quality in Gossypium hirsutum L. Mol Breed 32:1–16CrossRefGoogle Scholar
  72. Wang P, Ning Z, Lin L, Chen H, Mei H, Zhao J, Liu B, Zhang X, Guo W, Zhang T (2014) Genetic dissection of tetraploid cotton resistance to Verticillium wilt using interspecific chromosome segment introgression lines. Crop J 2:278–288CrossRefGoogle Scholar
  73. Wendel JF, Cronn RC (2002) Polyploidy and the evolutionary history of cotton. Adv Agron 78:139–186CrossRefGoogle Scholar
  74. Wright RJ, Thaxton PM, El-Zik KM, Paterson AH (1998) D-subgenome bias of Xcm resistance genes in tetraploid Gossypium (Cotton) suggests that polyploid formation has created novel avenues for evolution. Genetics 149:1987–1996PubMedCentralPubMedGoogle Scholar
  75. Wright RJ, Thaxton PM, El-Zik KH, Paterson AH (1999) Molecular mapping of genes affecting pubescence of cotton. J Hered 90:215–219CrossRefGoogle Scholar
  76. Wu JX, Gutierrez OA, Jenkins JN, McCarty JC, Zhu J (2009) Quantitative analysis and QTL mapping for agronomic and fiber traits in an RI population of upland cotton. Euphytica 165:231–245CrossRefGoogle Scholar
  77. Xu P, Guo TT, Zhang XG, Ni WC, Shen XL (2010) QTL mapping of seed oil content in Upland cotton (Gossypium hirsutum L.). In: China Cotton Society Annual Meeting ProceedingsGoogle Scholar
  78. Yang C, Guo WZ, Zhang TZ (2007) QTL Mapping for resistance to Verticillium wilt fiber quality and yield traits in Upland cotton (Gossypium hirsutum L.). Mol Plant Breed 5:797–805Google Scholar
  79. Yang C, Guo WZ, Li GY, Gao F, Lin SS, Zhang TZ (2008) QTLs mapping for Verticillium wilt resistance at seedling and maturity stages in Gossypium barbadense L. Plant Sci 174:290–298CrossRefGoogle Scholar
  80. Yang XL, Wang ZW, Zhang GY, Pan YX, Wu LQ, Li ZK, Wang XF, Ma ZY (2009) Construction of molecular genetic map and QTL analysis of fiber quality in cotton. Acta Agron Sin 35:2159–2166CrossRefGoogle Scholar
  81. Yao JB, Zhang YS, Chen W, Luan MB, Feng ZD, Guo XM (2010) Tagging QTLs of yield-related traits in chromosome 22sh of aIIotetraploid cotton using substitution line. Cotton Sci 22:521–526Google Scholar
  82. Yin JM, Wu YT, Zhang J, Zhang TZ, Guo WZ, Zhu XF (2002) Tagging and mapping of QTLs controlling lint yield and yield components in Upland cotton (Gossypium hirsutum L.) using SSR and RAPD markers. Chin J Biotech 18:162–166Google Scholar
  83. Yu J, Kohel RJ, Hinze LL, Frelichowski JE, Xu Z, Yu J, Percy RG (2009) CottonDB, A resource for cotton genome research [abstract]. In: Proceedings of the Plant and Animal Genome Conference, January 10–14, 2009, San Diego, California CDRO. (http://www.cottondb.org)
  84. Yu JW, Yu SX, Fan SL, Song MZ, Zhai HH, Li XL (2012) Zhang JF (2012) Mapping quantitative trait loci for cottonseed oil, protein and gossypol content in a Gossypium hirsutum × Gossypium barbadense backcross inbred line population. Euphytica 187:191–201CrossRefGoogle Scholar
  85. Yu JW, Yu S, Gore M, Wu M, Zhai H, Li X, Fan S, Song M, Zhang JF (2013a) Identification of quantitative trait loci across interspecific F2, F2:3 and testcross populations for agronomic and fiber traits in tetraploid cotton. Euphytica 191:375–389CrossRefGoogle Scholar
  86. Yu JW, Zhang K, Li S, Yu S, Zhai H, Wu M, Li X, Fan S, Song M, Yang D, Li Y (2013b) Zhang JF (2013) Mapping quantitative trait loci for lint yield and fiber quality across environments in a Gossypium hirsutum × Gossypium barbadense backcross inbred line population. Theor Appl Genet 126:275–287PubMedCrossRefGoogle Scholar
  87. Yu J, Jung S, Cheng CH, Ficklin SP, Lee T, Zheng P, Jones D, Percy R, Main D (2014) CottonGen: a genomics, genetics and breeding database for cotton research. Nucleic Acids Res 42(Database issue):D1229–D1236PubMedCentralPubMedCrossRefGoogle Scholar
  88. Zhang PT, Zhu XF, Guo WZ, Zhang TZ (2005) Genetic analysis and OTLs tagging of lint percentage and its closely related yield components in Upland Cotton. Jiangsu J Agr Sci 21:264–271Google Scholar
  89. Zhang PT, Guo WZ, Zhu XF, Yu JZ, Zhang TZ (2006) Molecular tagging of QTLs and its components of G. hirsutum. cv. Simian3. Acta Agron Sin 32:1197–1203Google Scholar
  90. Zhang ZS, Hu MC, Zhang J, Liu DJ, Zheng J, Zhang K, Wang W, Wan Q (2009) Construction of a comprehensive PCR-based marker linkage map and QTL mapping for fiber quality traits in upland cotton (Gossypium hirsutum L.). Mol Breed 24:49–61CrossRefGoogle Scholar
  91. Zhang J, Chen X, Zhang K, Liu DJ, Wei XQ, Zhang ZS (2010) QTL mapping of yield traits with composite cross population in Upland cotton (Gossypium hirsutum L.). J Agric Biotech 18:476–481Google Scholar
  92. Zhang J, Ma J, Chen X, Liu DJ, Zhang ZS (2011a) QTL mapping of fiber quality traits with a composite cross population in Upland cotton (Gossypium hirsutum L.). J Agric Biotech 19:230–235Google Scholar
  93. Zhang J, Liu DJ, Lin G, Zhang ZS (2011b) QTL mapping for chlorophyll content in Upland cotton (Gossypium hirsutum L.). J Southwest Univ 34:1–4Google Scholar
  94. Zhang W, Liu F, Li SH, Wang W, Wang CY, Zhang XD, Wang YH, Song GL, Wang KB (2011c) QTL analysis on yield and its components in Upland cotton RIL. Acta Agron Sin 37:433–442Google Scholar
  95. Zhang K, Zhang J, Ma J, Tang SY, Liu DJ, Teng ZH, Liu DX, Zhang ZS (2012) Genetic mapping and quantitative trait locus analysis of fiber quality traits using a three-parent composite population in upland cotton (Gossypium hirsutum L.). Mol Breed 29:335–348CrossRefGoogle Scholar
  96. Zhang T, Qian N, Zhu X, Chen H, Wang S, Mei H, Zhang Y (2013) Variations and transmission of QTL alleles for yield and fiber qualities in Upland cotton cultivars developed in China. PLoS One 8:e57220PubMedCentralPubMedCrossRefGoogle Scholar
  97. Zhang JF, Percy RG, McCarty JC Jr (2014a) Introgression genetics and breeding between Upland and Pima cotton: a review. Euphytica 198:1–12CrossRefGoogle Scholar
  98. Zhang X, Yuan Y, Wei Z, Guo X, Guo Y, Zhang S, Zhao J, Zhang G, Song X, Sun X (2014b) Molecular mapping and validation of a major QTL conferring resistance to defoliating isolate of Verticillium wilt in cotton (Gossypium hirsutum L.). PLoS One 9:e96226PubMedCentralPubMedCrossRefGoogle Scholar
  99. Zhao Y, Wang H, Chen W (2014) Li Y (2014), Genetic structure, linkage disequilibrium and association mapping of Verticillium wilt resistance in elite cotton (Gossypium hirsutum L.) germplasm population. PLoS One 9:e86308PubMedCentralPubMedCrossRefGoogle Scholar
  100. Zhiyuan N, Chen H, Mei H, Zhang T (2013) Molecular tagging of QTLs for fiber quality and yield in the upland cotton cultivar Acala-Prema. Euphytica 195:143–156CrossRefGoogle Scholar

Copyright information

© Springer-Verlag Berlin Heidelberg 2015

Authors and Affiliations

  1. 1.Department of Plant and Environmental SciencesNew Mexico State UniversityLas CrucesUSA
  2. 2.Department of Computer ScienceThe University of Texas at El PasoEl PasoUSA
  3. 3.Department of Computer ScienceNew Mexico State UniversityLas CrucesUSA

Personalised recommendations