Constructing a high-density linkage map for Gossypium hirsutum×Gossypium barbadense and identifying QTLs for lint percentage

Journal of Integrative Plant Biology

Volumn 57, Issue 5, 2015, Pages 450-467

  Shi, Yuzhen ^a   Li, Wentan ^a,b   Li, Aiguo ^a,c   Ge, Ruihua ^a,d   Zhang, Baocai ^a   Li, Junzhi ^a,d   Liu, Guangping ^a,d   Li, Junwen ^a   Liu, Aiying ^a   Shang, Haihong ^a   Gong, Juwu ^a   Gong, Wankui ^a   Yang, Zemao ^a,d   Tang, Feiyü ^b   Liu, Zhi ^d   Zhu, Weiping ^d   Jiang, Jianxiong ^d   Yu, Xiaonan ^d   Wang, Tao ^a   Wang, Wei ^a   Chen, Tingting ^a   Wang, Kunbo ^a   Zhang, Zhengsheng ^e   Yuan, Youlu ^a   more..

^a INSTITUTE OF PLANT PROTECTION   (China)

^b JIANGXI AGRICULTURAL UNIVERSITY   (China)

^c Henan Province Luohe City Children s Hospital   (China)

^d HUNAN AGRICULTURAL UNIVERSITY   (China)

^e SOUTHWEST UNIVERSITY   (China)

Author keywords

Cotton (Gossypium spp.); Genetic linkage map; Gossypium barbadense; Lint percentage; Simple sequence repeat

Indexed keywords

CHROMOSOME; COTTON; GENOME; MAP;

GOSSYPIUM; GOSSYPIUM BARBADENSE; GOSSYPIUM HIRSUTUM;

GENETIC MARKER; MICROSATELLITE DNA;

ALLELE; CHROMOSOMAL MAPPING; CROSS BREEDING; GENE FREQUENCY; GENE LOCUS; GENETIC LINKAGE; GENETIC MARKER; GENETIC POLYMORPHISM; GENETICS; GENOTYPE; GOSSYPIUM; HETEROZYGOTE; PLANT CHROMOSOME; PLANT GENOME; POLYPLOIDY; QUANTITATIVE TRAIT LOCUS; TEXTILE;

ALLELES; CHROMOSOME MAPPING; CHROMOSOMES, PLANT; CROSSES, GENETIC; GENE FREQUENCY; GENETIC LINKAGE; GENETIC LOCI; GENETIC MARKERS; GENOME, PLANT; GENOTYPE; GOSSYPIUM; HETEROZYGOTE; MICROSATELLITE REPEATS; POLYMORPHISM, GENETIC; POLYPLOIDY; QUANTITATIVE TRAIT LOCI; TEXTILES;

EID: 84928201990     PISSN: 16729072     EISSN: 17447909     Source Type: Journal    
DOI: 10.1111/jipb.12288     Document Type: Article

References (59)

1. Blenda A, Fang DD, Rami JF, Garsmeur O, Luo F, Lacape JM (2012) A high density consensus genetic map of tetraploid cotton that integrates multiple component maps through molecular marker redundancy check. PLoS ONE 7: e45739
2. Churchill GA, Doerge RW (1994) Empirical threshold values for quantitative trait mapping. Genetics 138: 963-971
3. Guo WZ, Cai CP, Wang CB, Han ZG, Song XL, Wang K, Niu X, Lu K, Shi B, Zhang T (2007) A microsatellite-based, gene-rich linkage map reveals genome structure, function and evolution in Gossypium. Genetics 176: 527-541
4. Han ZG, Guo WZ, Song XL, Zhang TZ (2004) Genetic mapping of EST-derived microsatellites from the diploid Gossypium arboreum in allotetraploid cotton. Mol Genet Genomics 272: 308-327
5. Han ZG, Wang C, Song X, Guo W, Gou J, Li C, Chen X, Zhang TZ (2006) Characteristics, development and mapping of Gossypium hirsutum derived EST-SSRs in allotetraploid cotton. Theor Appl Genet 112: 430-439
6. He D, Lin Z, Zhang X, Nie Y, Guo X, Feng C, Stewart JM (2005) Mapping QTLs of traits contributing to yield and analysis of genetic effects in tetraploid cotton. Euphytica 144: 141-149
7. He D, Lin Z, Zhang X, Nie Y, Guo X, Zhang Y, Li W (2007) 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 153: 181-197
8. Jiang C, Chee PW, Draye X, Morrell PL, Smith CW, Paterson AH (2000) Multilocus interactions restrict gene introgression in interspecific populations of polyploidy Gossypium (cotton). Evolution 54: 798-814
9. 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: 4419-4424
10. Jing SR, Zhan XH (1990) Breeding of new types of dominant glandless Upland cotton (G. hirsutum L). Agric Sci Chin (in Chinese) 23: 22-27
11. Kohel RJ, Yu J, Park Y, Lazo R (2001) Molecular mapping and characterization of traits controlling fiber quality in cotton. Euphytica 121: 163-172
12. Kosambi DD (1944) The estimation of map distance from recombination values. Ann Eugen 12: 172-175
13. Lacape JM, Jacobs J, Arioli T, Derijcker R, Forestier-Chiron N, Llewellyn D, Jean J, Thomas E, Viot C (2009) A new interspecific, Gossypium hirsutum × G. barbadense, RIL population: Towards a unified consensus linkage map of tetraploid cotton. Theor Appl Genet 119: 281-292
14. 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 × Gossypium barbadense backcross generations. Crop Sci 45: 123-140
15. Lacape JM, Nguyen TB, Thibivilliers S, Bojinov B, Courtois B, Cantrell RG, Burr B, Hau B (2003) A combined RFLP-SSR-AFLP map of tetraploid cotton based on a Gossypium hirsutum × Gossypium barbadense backcross population. Genome 46: 612-626
16. 3 populations from Gossypium hirsutum × Gossypium barbadense. Sci Agric Sin 44: 3086-3097
17. Li L (2008) Molecular Marker Study on Cotton Fiber Quality, Yield and Resistance to Verticillium Wilt Using Advanced Backcross Recombinational Lines Between Upland Cotton (G. hirsutum L.) and Island Cotton (G. barbadense L.). Dissertation: Chinese Academy of Agricultural Sciences
18. Li WT (2012) Construction of Genetic Linkage Map and QTL Analysis of Yield and Fiber Quality in Interspecific Population of Cotton. Dissertation: Chinese Academy of Agricultural Sciences
19. Liang Y (2010) Construction of Chromosome Segment Substitution Lines and Primary QTL Mapping in Early Maturing Upland Cotton. Dissertation: Chinese Academy of Agricultural Sciences
20. Lin Z, He D, Zhang X, Nie Y, Guo X, Feng C, Stewart JM (2005) Linkage map construction and mapping QTL for cotton fibre quality using SRAP, SSR and RAPD. Plant Breed 124: 180-187
21. Lin Z, Zhang Y, Zhang X, Guo X (2009) A high-density integrative linkage map for Gossypium. Euphytica 166: 35-45
22. Ma LJ, Shi YZ, Lan MJ, Yang ZM, Zhang JF, Zhang BC, Li JW Wang Tao Gong JW, Liu AY, Shang HH, Gong WK, Yuan YL (2013) Evaluation of chromosome segment substitution lines related to fiber yield and quality traits from Gossypium hirsutum × Gossypium barbadense. Cotton Sci 25: 486-495
23. Nguyen TB, Giband M, Brottier P, Risterucci AM, Lacape JM (2004) Wide coverage of the tetraploid cotton genome using newly developed microsatellite markers. Theor Appl Genet 109: 167-175
24. Ning ZY, Chen H, Mei HX, Zhang TZ (2014) Molecular tagging of QTLs for fiber quality and yield in the upland cotton cultivar Acala-Prema. Euphytica 195: 143-156
25. Park YH, Alabady MS, Ulloa M, Sickler B, Wilkins TA, Yu J, Stelly DM, Kohel RJ, El-Shihy OM, Cantrell RG (2005) Genetic mapping of new cotton fiber loci using EST-derived microsatellites in an interspecific recombinant inbred line cotton population. Mol Genet Genomics 274: 428-441
26. Paterson AH, Brubaker CL, Wendel JF (1993) A rapid method for extraction of cotton (Gossypium spp.) genomic DNA suitable for RFLP or PCR analysis. Plant Mol Biol Rep 11: 122-127
27. Paterson AH, Saranga Y, Menz M, Jiang C, Wright RJ (2003) QTL analysis of genotype × environment interactions affecting cotton fiber quality. Theor Appl Genet 106: 384-396
28. Paterson AH, Wendel JF, Gundlach H, Guo H, Jenkins J et al. (2012) Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres. Nature 492: 423-427
29. Reinisch AJ, Dong JM, Brubaker CL, Stelly DM, Wendel JM, Paterson AH (1994) A detailed RFLP map of cotton, Gossypium hirsutum × Gossypium barbadense: Chromosome organization and evolution in a disomic polyploid genome. Genetics 138: 829-847
30. Rong J, Abbey C, Bowers JE, Brubaker CL, Chang C, Chee PW, Delmonte TA, Ding X, Garza JJ, Marler BS, Park CH, Pierce GJ, Rainey KM, Rastogi VK, Schulze SR, Trolinder NL, Wendel JF, Wilkins TA, Williams-Coplin TD, Wing RA, Wright RJ, Zhao X, Zhu L, Paterson AH (2004) A 3347-locus genetic recombination map of sequence-tagged sites reveals features of genome organization, transmission and evolution of cotton (Gossypium). Genetics 161: 389-417
31. Said JI, Zhongxu Lin ZX, Zhang XL, Song MZ, 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 Genomics, doi: 10.1186/1471-2164-14-776
32. Shen XL, Guo WZ, Lu QX, Zhu XF, Yuan YL, Zhang TZ (2007) Genetic mapping of quantitative trait loci for fiber quality and yield trait by RIL approach in upland cotton. Euphytica 155: 371-380
33. 1 mapping populations from the same crossing between Gossypium hirsutum L. and Gossypium barbadense L. Genome 48: 378-390
34. 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 Breeding 30: 569-582
35. Van Ooijen JW (2006) JoinMap 4.0, Software for the Calculation of Genetic Linkage Maps in Experimental Populations. Kyazma B.V, Wageningen
36. Voorrips RE (2006) MapChart 2.2: Software for the graphical presentation of linkage maps and QTLs, Plant Research International, Wageningen
37. Wang FR, Gong YC, Zhang CY, Liu GD, Wang LM, Xu ZZ, Zhang J (2011) Genetic effects of introgression genomic components from Sea Island cotton (Gossypium barbadense L.) on fiber related traits in upland cotton (G. hirsutum L.). Euphytica 181: 41-53
38. Wang P, Ding YZ, Lu QX, Guo WZ, Zhang TZ (2008) Development of Gossypium barbadense chromosome segment substitution lines in the genetic standard line TM-1 of Gossypium hirsutum. Chin Sci Bull 53: 1065-1069
39. Wang P, Zhang TZ (2012) Genetic dissection of photosynthetic pigment content in cotton interspecific chromosome segment introgression lines. Acta Agron Sin 38: 947-953
40. Wang S, Basten CJ, Zeng ZB (2006) Windows QTL Cartographer 2.5. Department of Statistics, North Carolina State University, Raleigh: Available on-line: http://www.statgen.ncsu.edu/qtlcart/ WQTLCart.htm
41. Wang ZN, Zhang D, Wang XY, Tan X, Guo H, Paterson AH (2013) A whole-genome DNA marker map for cotton based on the D-genome sequence of Gossypium raimondii L. G3 (Bethesda) 3: 1759-1767
42. 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: 231-245
43. Yang ZM, Li JZ, Li AG, Zhang BC, Liu GP, Li JW, Shi YZ, Liu AY, Jiang JX, Wang T, Yuan YL (2009) Developing chromosome segment substitution lines (CSSLs) in Cotton (Gossypium) using advanced backcross and MAS. Mol Plant Breed 7: 233-241
44. 4 of Gossypium barbadense. Shandong Agric Sci 46: 19-22
45. Yu JZ, Kohel RJ, Fang DD, Cho J, Van Deynze A, Ulloa M, Hoffman SM, Pepper AE, Stelly DM, Jenkins JN, Saha S, Kumpatla SP, Shah MR, Hugie WV, Percy RG (2012) A High-density simple sequence repeat and single nucleotide polymorphism genetic map of the tetraploid cotton genome. G3 (Bethesda) 2: 43-58
46. Yu J, Kohel RJ, Smith CW (2010) The construction of a tetraploid cotton genome wide comprehensive reference map. Genomics 95: 230-240
47. 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: 375-389
48. Yu JW, Yu SX, Lu CR, Wang W, Fan SL, Song MZ, Lin ZX, Zhang XL, Zhang JF (2007) High-density linkage map of cultivated allotetraploid cotton based on SSR, TRAP, SRAP and AFLP markers. J Integr Plant Biol 49: 716-724
49. 1 population between Gossypium hirsutum and G. barbadense. BMC Genomics 12: 15
50. Yu JW, Zhang K, Li S, Yu S, Zhai H, Wu M, Li X, Fan S, Song M, Yang D, Li Y, Zhang JF (2013b) 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: 275-287
51. Zeng ZB (1994) Precision mapping of quantitative trait loci. Genetics 136: 1457-1468
52. Zhang BC (2006) QTL Analysis of Fiber Quality and Resistance to Verticillium Wilt Using Gossypium hirsutum G. barbadense Backcross Populations. Dissertation: Chinese Academy of Agricultural Sciences
53. Zhang J, Guo W, Zhang T (2002) Molecular linkage map of allotetraploid cotton (Gossypium hirsutum L. × Gossypium barbadense L.) with a haploid population. Theor Appl Genet 105: 1166-1174
54. 3:5) in Upland Cotton. Dissertation: Chinese Academy of Agricultural Sciences
55. Zhang JF, Percy RG (2007) Improving Upland cotton by introducing desirable genes from Pima cotton. World Cotton Res Conf. http://wcrc.confex.com/wcrc/2007/techprogram/P1901.HTM
56. 1 population between Gossypium hirsutum and G. barbadense. Genome 51: 534-546
57. Zhang ZS, Xiao YH, Luo M, Li XB, Luo XY, Hou L, Li DM, Pei Y (2005) Construction of a genetic linkage map and QTL analysis of fiber-related traits in upland cotton Gossypium hirsutum L. Euphytica 144: 91-99
58. Zhao L, Lv YD, Cai CP, Tong XC, Chen XD, Zhang W, Du H, Guo XH, Guo WZ (2012) Toward allotetraploid cotton genome assembly: Integration of a high-density molecular genetic linkage map with DNA sequence information. BMC Genomics 13: 539. doi: 10.1186/1471-2164-13-539
59. Zhu YJ, Wang P, Guo WZ, Zhang TZ (2010) Mapping QTLs for lint percentage and seed index using Gossypium barbadense chromosome segment introgression lines. Acta Agron Sin 36: 1318-1323