Microsatellite markers associated with lint percentage trait in cotton, Gossypium hirsutum

Euphytica

Volumn 156, Issue 1-2, 2007, Pages 141-156

  Abdurakhmonov, I Y ^a   Buriev, Z T ^a   Saha, S ^b   Pepper, A E ^c   Musaev, J A ^a   Almatov, A ^a   Shermatov, S E ^a   Kushanov, F N ^a   Mavlonov, G T ^a   Reddy, U K ^d   Yu, J Z ^e   Jenkins, J N ^b   Kohel, R J ^e   Abdukarimov, A ^a  

^a S YU YUNUSOV INSTITUTE OF THE CHEMISTRY OF PLANT SUBSTANCES   (Uzbekistan)

^b CROP SCIENCE RESEARCH LABORATORY   (United States)

^c TEXAS A AND M UNIVERSITY   (United States)

^d WEST VIRGINIA STATE UNIVERSITY   (United States)

^e Crop Germplasma Research Unit   (United States)

Author keywords

Cotton lint percentage; Expressed Sequence Tag Simple Sequence Repeats (EST SSR); Fuzzless lintless cotton lines; Quantitative Trait Loci (QTL) mapping; Simple Sequence Repeats (SSRs)

Indexed keywords

GOSSYPIUM HIRSUTUM;

EID: 34249100070     PISSN: 00142336     EISSN: 15735060     Source Type: Journal    
DOI: 10.1007/s10681-007-9361-2     Document Type: Article

References (81)

1. Altschul SF, Madden TL, Schäffer AA, Zhang J, Zhang Z, Miller W, Lipman DJ (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 25:3389-3402
2. Akkaya MS, Bhagwat AA, Cregan PB (1995) Integration of simple sequence repeat DNA markers into a soybean linkage map. Crop Sci35:1439-1445
3. Arpat AB, Waugh M, Sullivan JP, Gonzales M, Frisch D, Main D, Wood T, Leslie A, Wing RA, Wilkins TA (2004) Functional genomics of cell elongation in developing cotton fibers. Plant Mol Biol 54:911-929
4. Asnaghi C, Blewitt M, Guo Y, Lin D, Burr B (2001) Identification of genes involved in quality of cotton fiber by fiber cDNA microarray and QTL analysis. In: Plant and animal genomes IX conference, P5q_26.html. San Diego, California
5. Balls WL (1912) The cotton plant in Egypt. Macmillan, London
6. Basra AS, Saha SS (1999) Growth regulation of cotton fibers. Food product press 47-63
7. Basra AS, Malik AC (1984) Development of the cotton fiber. Int rev Cytol 9:65-113
8. Bell CJ, Ecker JR (1994) Assignment of 30 microsatellite loci to the linkage map of Arabidopsis. Genomics 19:137-144
9. Beavis WD (1994) The power and deceit of QTL experiments: lessons from comparative QTL studies. In: Proceedings of the 49th annual corn and sorghum industry research conference, American Seed Trade Association, Washington, DC, pp 250-266
10. Blenda, A, Scheffler J, Scheffler B, Palmer M, Lacape JM, Yu JZ, Jesudurai C, Jung S, Muthukumar S, Yellambalase P, Ficklin S, Staton M, Eshelman R, Ulloa M, Saha S, Burr B, Liu S, Zhang T, Fang D, Pepper A, Kumpatla S, Jacobs J, Tomkins J, Cantrell R, Main D (2006) CMD: a cotton microsatellite database resource for Gossypium genomics. BMC genomics 7:132 doi:10.1186/1471-2164-7-132
11. Brooks TD (2001) Mapping of cotton fiber length and strength quantitative trait loci using microsatellites. PhD Dissertation. Texas A&M University, USA
12. Carver WA (1929) The inheritance of certain seed, leaf and flower characters in Gossypium hirsutum and their genetic interrelations. J Am Soc Agron 21:467-480
13. Churchill GA, Doerge RW (1994) Empirical threshold values for quantitative trait mapping. Genetics 138:963-971
14. Darvasi A (1997) The effect of selective genotyping on QTL mapping accuracy. Mamm Genome 8:67-68
15. Darvasi A, Soller M (1992) Selective genotyping for determination of linkage between a marker locus and quantitative trait locus. Theor Appl Genet 85:353-359
16. Dellaporta SL, Wood J, Hicks JP (1983) A plant DNA minipreparation: Version II. Plant Mol Biol Rep 1:19-21
17. Du XM, Pan JJ, Wang RH, Zhang TZ, Shi Y (2001) Genetic analysis of presence and absence of lint and fuzz in cotton. Plant Breed 120:519-522
18. Endrizzi JE, Turcotte EL, Kohel RJ (1984) Quantitative genetics, cytology and cytogenetics. In: Cotton Kohel RJ, Lewis CF (eds) Amer Soc Agron Madison. WI, USA, pp 81-129
19. Endrizzi JE, Turcotte EL, Kohel RJ (1985) Genetics, cytology, and evolution of Gossypium. Adv Genet 23:272-375
20. Giband, M, Pagant S, Pannetier C, Hofte H (2003) Arabidopsis thaliana as a source of candidate genes for cotton fiber quality. In: The proceedings of the 3rd World Cotton Research Conference. Cape Town, South Africa, pp 58-63
21. Griffee F, Ligon LL (1929) Occurrence of "lintless" cotton plants and inheritance of character "lintless". J Am Soc Agron 21:711-717
22. Haley CS, Knott SA (1992) A simple method for mapping quantitative trait loci in line crosses using flanking markers. Heredity 69:315-324
23. Han ZG, Guo WZ, Song XL, Zhang TZ (2004) Genetic mapping of EST-derived microsatellites from the diploid Gossypium arboreum in allotetraploid cotton. Mol Gen Genomics 272:308-327
24. Han ZG, Wang C, Song XL, Guo WZ, 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(3):430-439
25. Harland SC (1939) The genetics of cotton. Jonathan Cape, London
26. Jansen RC (1993) Interval mapping of multiple quantitative trait loci. Genetics 135:205-211
27. Jansen RC, Stam P (1994) High resolution of quantitative traits into multiple loci via Interval mapping. Genetics 136:1447-1455
28. Ji SS, Lu YC, Feng JX, Wei G, Li S, Shi YH, Fu Q, Liu D, JC Luo, Zhu YX (2003) Isolation and analyses of genes preferentially expressed during early cotton fiber development by subtractive PCR and c DNA array. Nucleic Acid Res 31:2534-2543
29. Karaca M, Saha S, Jenkins JN, Zipf A, Kohel RJ, Stelly MD (2002) Simple sequence Repeat (SSR) markers Linked to the ligon lintless (Li) mutant in cotton. J Hered 93:221-224
30. Kearney TH, Harrison CJ (1927) The inheritance of smoothness seeds in cotton. J Agric Res 35:193-217
31. Kohel RJ (1972) Linkage tests in upland cotton, Gossypium hirsutum L. II. Crop Sci 12:66-69
32. Kohel RJ (1973) Genetic nomenclature in cotton. J Hered 64:291-295
33. Kohel RJ, Yu JZ, Park YH, Lazo GR (2001) Molecular mapping and characterization of genes controlling fiber quality in cotton. Euphytica 121:163-172
34. Knapp SJ (1991) Using molecular markers to map multiple quantitative trait loci: model for backcross, recombinant inbred and double haploid progeny. Theor Appl Genet 81:333-338
35. 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 x G. barbadense backcross population. Genome 46:612-626
36. 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 45:123-140
37. Lander ES, Botstein D (1989) Mapping mendelian factors underlying quantitative traits using RFLP linkage maps. Genetics 134:943-951
38. Lee JJ, Hassan OS, Gao W, Wei NE, Kohel RJ, Chen XY, Payton P, Sze SH, Stelly DM, Chen ZJ (2006) Developmental and gene expression analyses of a cotton naked seed mutant. Planta 223:418-432
39. Lehmann EL (1975) Nonparametrics. McGraw-Hill, New York
40. Li XB, Fan XP, Wang XL, Cai L, Yang WC (2005) The cotton ACTIN1 gene is functionally expressed in fibers and participates in fiber elongation. Plant Cell 17:859-875
41. McCouch SR, Chen X, Panaud O, Temnykh S, Xu Y, Cho YG, Huang N, Ishii T, Blair M (1997) Microsatellite marker development, mapping applications in rice genetics and breeding. Plant Mol Biol 35:89-99
42. Mc Lendon CA (1972) Mendelian inheritance in cotton hybrids. Georgia Sta Bull No 99
43. Musaev, JA, Abzalov MF (1972) Some questions concerning the inheritance of fuzzy in cotton seeds (G. hirsutum L.) Genetika 7-16 (in Russian)
44. Musaev JA (1979) Genetic collection of cotton. Fan UzSSR (in Russian)
45. Musaev JA, Abzalov MF, Almatov A, Sanamyan MF, Gubanova N, Nadjimov U (2000) Cotton genetics and genetic collection of isogenic, monosomic and translocation lines. Bulletins SCST of the republic of Uzbekistan (in Russian), p 28-39
46. Nadarajan N, Rangasamy SR (1988) Inheritance of the fuzzless-lintless character in cotton (Gossypium hirsutum). Theor Appl Genet 75:728-730
47. Narbuth EV, Kohel RJ (1990) Inheritance and linkage analysis of a new fiber mutant in cotton. J Hered 81:131-133
48. Nelson JC (1997) QGene: software for marker-based genomic analysis breeding. Molecular Breeding 3:293-245
49. 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
50. Nolte KD, Hendrix DL, Radin JW, Koch KE (1995) Sucrose synthase localization during initiation of seed development and trichome differentiation in cotton ovules. Plant Physiol 109:1285-1293
51. Orford SJ, Timmis JN (1998) Specific expression of an expansin gene during elongation of cotton fibers. Biochim Biophys Acta 1398:342-346
52. Paterson AH, Saranga Y, Menz M, Ziang CX (2003) QTL analysis of genotype X environment interactions affecting cotton fiber quality. Theor Appl Genet 106:384-396
53. Pear JR, Kawagoe Y, Schreckengost WE, Delmer DP, Stalker DM (1996) Higher plants contain homologs of the bacterial celA genes encoding the catalytic subunit of cellulose synthase. Proc Natl Acad Sci USA 93:12637-12642
54. Qureshi SN, Saha S, Kantety RV, Jenkins JN (2004) EST-SSR: a new class of genetic markers in cotton. J Cotton Sci 8:112-123
55. Reddy OUK, Pepper AE, Abdurakhmonov IY, Saha S, Jenkins JN, Brooks TD, Bolek Y, El-Zik KM (2001) The identification of dinucleotide and trinucleotide microsatellite repeat loci from cotton G. hirsutum L. J Cotton Sci 5:103-113
56. Richmond TR (1947) The genetics of certain factors responsible for lint quantity in American Upland cotton. Bull Tex Agric Sta vol 716
57. Rong J, Abbey C, Bowers JE, Brubaker CL, Chang C, Chee PW, Delmonte TA et al. (2004) A3347-locus genetic recombination map of sequence-tagged sites reveals features of genome organization, transmission and evolution of cotton (Gossypium). Genetics 166:389-417
58. Rong, J, Pierce GJ, Waghmare VN, Rogers CJ, Desai A, Chee PW, May OL, Gannaway JR, Wendel JF, Wilkins TA, Paterson AH (2005) Genetic mapping and comparative analysis of seven mutants related to seed fiber development in cotton. Theor Appl Genet DOI 10.1007/s00122-005-0041-0
59. Ruan YL, Llewellyn DJ, Furbank RT (2001) 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 13:47-63
60. Ruan YL, Llewellyn DJ, Furbank RT (2003) Suppression of sucrose synthase gene expression represses cotton fiber cell initiation, elongation, and seed development. Plant Cell 15:952-964
61. Saha S, Jenkins JN, Wu J, McCarty JC, Gutierrez OA, Percy RG, Cantrell RG, Stelly DM (2006) Effects of chromosome-specific introgression in upland cotton on fiber and agronomic traits. Genetics 172(3):1927-38
62. Shen X, Guo W, Zhu X, Yuan Y, Yu JZ, Kohel RJ, Zhang T (2005) Molecular mapping of QTLs for fiber qualities in three diverse lines in Upland cotton using SSR markers. Mol Breed 15:169-181
63. Soller M, Genizi A, Brody T (1976) On the power of experimental designs for the detection of linkage between marker loci and quantitative loci in crosses between inbred lines. Theor Appl Genet 47:35-39
64. Stelly DM, Saha S, Raska DA, Jenkins JN Jr, McCarty JC, Gutiérrez OA (2005) Registration of 17 Upland (Gossypium hirsutum) Cotton germplasm lines disomic for different G. barbadense chromosome or arm substitutions. Crop Sci 45:2663-2665
65. Suo J, Liang X, Pu L, Zhang Y, Xue Y (2003) Identification of GhMYB109 encoding a R2R3 MYB transcription factor that expressed specifically in fiber initials and elongating fibers of cotton (Gossypium hirsutum L.). Biochim Biophys Acta 1630(1):25-34
66. Tanksley SD, McCouch SR (1997) Seed banks and molecular maps: Unlocking genetic potential from the wild. Science 277:1063-1066
67. Thadani KI (1923) Linkage relations in the cotton plant. Agric J India No 18
68. Thadani KI (1925) Inheritance of certain characters in Gossypium. Agric J India vol 20
69. Turley RB, Kloth RH (2002) Identification of a third fuzzless seed locus in Upland cotton (Gossypium hirsutum L.). J Hered 93:359-364
70. Van Ooijen JW (1999) LOD significance thresholds for QTL analysis in experimental populations of diploid species. Heredity 83:613-624
71. Van Ooijen JW, Boer MP, Jansen RC, Maliepaard C (2002) MapQTL@4.0, Software for the calculation of QTL positions of genetic maps. Plant Research International, Wageningen, The Netherlands
72. Ware JO (1929) Inheritance of linted percentage in cotton. J Am Soc Agron 21:876-894
73. Ware JO, Benedict LN, Rolfe WH (1947) A recessive naked seed character in Upland cotton. J Hered 38:313-331
74. Wilkins TA, Jernstedt JA (1999) Molecular genetics of developing cotton fibers. Food product press 231-269
75. Wu Y, Llewellyn DJ, Dennis ES (2001) Gene discovery in cotton fiber initiation using EST and microarray approaches. Plant and animal genomes IX conference abstract P01_76.html
76. Young DN (2000) Constructing a plant genetic linkage map with DNA markers. In: Philips RL, Vasil JK (eds) DNA-based Markers in plants. Kluwer Academic Publishers, Netherlands, pp 31-47
77. Yu JZ, Kohel RJ, Dong J (2002) Development of integrative SSR markers from TM-1 BACs. In: Proceedings of beltwide cotton improvement conference, CDROM (2002) Altlanta, Georgia
78. Yu JZ, Kohel RJ, Zhang H, Stelly DM, Xu Z, Dong J, Covaleda L, Lee M, Cui P, Lazo GR, Gupta P, Ding K (2004a) Toward an integrated physical and genetic map of the cultivated allotetraploid cotton genome. In: Plant and animal genome conference XII, W147. San Diego, California
79. Yu JZ, Kohel RJ, Cantrell RG, Jones D, Saha S, Tomkins J, Main D, Palmer M, Pepper AE, Stelly DM, Ulloa M, Scheffler J (2004b) Establishment of standardized cotton microsatellite database (CMD) panel. In: The proceedings of cotton beltwide conference. San Antonio, Texas, p 1129
80. Zang T, Pan J (1991) Genetic analysis of fuzzless-lintless mutant in Gossypium hirsutum L. Jiangsu J Agric Sci 7:13-16
81. Zhang J, Guo W, Zhang T (2002) Molecular linkage map of allotetraploid cotton (Gossypium hirsutum L x Gossypium barbadense L.) with a haploid population. Theor Appl Genet 105:1166-117