Mapped SSR markers unevenly distributed on the cotton chromosomes

Frontiers of Agriculture in China

Volumn 4, Issue 3, 2010, Pages 257-264

  Lin, Zhongxu ^a   Yuan, Daojun ^a   Zhang, Xianlong ^a  

^a HUAZHONG AGRICULTURAL UNIVERSITY   (China)

Author keywords

Cotton; Genetic linkage map; Motif; SSR

Indexed keywords

GOSSYPIUM HIRSUTUM; TETRA;

EID: 77955173485     PISSN: 16737334     EISSN: 1673744X     Source Type: Journal    
DOI: 10.1007/s11703-010-0012-3     Document Type: Article

References (29)

1. Blenda A, Scheffer J, Scheffer B, Palmer M, Lacape J M, Yu J Z, 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.
2. Brown S M, Hopkins MS, Mitchell S E, Senior ML, Wang T Y, Duncan R R, Gonzalez-Candelas F, Kresovich S (1996). Multiple methods for the identification of polymorphic simple sequence repeats (SSRs) in sorghum [Sorghum bicolor (L.) Moench.]. Theor Appl Genet, 93: 190-198.
3. Connell J P, Pammi S, Iqbal M J, Huizinga T, Reddy A S (1998). A high throughput procedure for capturing microsatellites from complex plant genomes. Plant Mol Biol Rep, 16: 341-349.
4. Field D, Wills C (1996). Long, polymorphic microsatellites in simple organisms. Proc Biol Sci, 263: 209-215.
5. Frelichowski Jr J E, Palmer M B, Main D, Tomkins J P, Cantrell R G, Stelly D M, Yu J, Kohel R J, Ulloa M (2006). Cotton genome mapping with new microsatellites from Acala 'Maxxa' BAC-ends. Mol Gen Genomics, 275: 479-491.
6. Fryxell P A (1992). A revised taxonomic interpretation of Gossypium L. (Malvaceae). Rheedea, 2: 108-165.
7. Guo W Z, Cai C P, Wang C B, Han Z G, Song X L, Wang K, Niu X W, Wang C, Lu K Y, Shi B, Zhang T Z (2007). A microsatellite-based, gene-rich linkage map reveals genome structure, function and evolution in Gossypium. Genetics, 176: 527-541.
8. Guo Y, Saha S, Yu J Z, Jenkins J N, Kohel R J, Scheffler B E, Stelly D M (2008). BAC-derived SSR markers chromosome locations in cotton. Euphytica, 161: 361-370.
9. Han Z G, Guo W Z, Song X L, Zhang T Z (2004). Genetic mapping of EST-derived microsatellites from the diploid Gossypium arboreum in allotetraploid cotton. Mol Gen Genomics, 272: 308-327.
10. Han Z, Wang C, Song X, Guo W, Gou J, Li C, Chen X, Zhang T (2006). Characteristics, development and mapping of Gossypium hirsutum derived EST-SSRs in allotetraploid cotton. Theor Appl Genet, 112: 430-439.
11. He D H, Lin Z X, Zhang X L, Nie Y C, Guo X P, Zhang Y X, 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.
12. Kantety R V, Rota M L, Matthews D E, Sorrells M E (2002). Data mining for simple sequence repeats in expressed sequence tags from barley, maize, sorghum and wheat. Plant Mol Biol, 48: 501-510.
13. Lacape J M, Nguyen T B, Thibivilliers S, Bojinov B, Courtois B, Cantrell R G, 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.
14. Li Y C, Korol A B, Fahima T, Nevo E (2004). Microsatellites within genes: structure, function and evolution. Mol Biol Evol, 21: 991-1007.
15. Nguyen T B, Giband M, Brottier P, Risterucci A M, Lacape J M (2004). Wide coverage of the tetraploid cotton genome using newly developed microsatellite markers. Theor Appl Genet, 109: 167-175.
16. Park Y H, Alabady M S, Ulloa M, Sickler B, Wilkins T A, Yu J, Stelly D M, Kohel R J, El-Shihy O M, Cantrell R G (2005). Genetic mapping of new cotton fiber loci using EST-derived microsatellites in an interspecific recombinant inbred line cotton population. Mol Gen Genomics, 274: 428-441.
17. Qureshi S N, Saha S, Kantety R V, Jenkins J N (2004). EST-SSR: A new class of genetic markers in cotton. J Cotton Sci, 8: 112-123.
18. Reddy O K, Pepper A E, Abdurakhmonov I, Saha S, Jenkins J N, Brooks T, Bolek Y, El-Zik K M (2001). New dinucleotide and trinucleotide microsatellite marker resources for cotton genome research. J Cotton Sci, 5: 103-113.
19. Reinisch A J, Dong J M, Brubaker C L, Stelly D M, Wendel J F, Paterson A H (1994). A detailed RFLP map of cotton Gossypium hirsutum × Gossypium barbadense: chromosome organization and evolution in a disomic polyploid genome. Genetics, 138: 829-847.
20. Rong J K, Abbey C, Bowers J E, Brubaker C L, Chang C, Peng W C, Delmonte T A, Ding X L, Garza J J, Marler B S, Park C, Pierce G J, Rainey K M, Rastogi V K, Schulz S R, Trolinder N L, Wendel J F, Wilkins T A, Williams-Coplin T D, Wing R A, Wrigh R J, Zhao X P, Zhu L H, Paterson A H (2004). A 3347-locus genetic recombination map of sequence-tagged sites reveals features of genome organization, transmission and evolution of cotton (Gossypium). Genetics, 166: 389-417.
21. Scott K D (2001). Microsatellites derived from ESTs, and their comparison with those derived by other methods. In plant genotyping: the DNA fingerprinting of plants. CAB International, Wellingford, 255-237.
22. Taliercio E, Allen R D, Essenberg M, Klueva N, Nguyen H, Patil M A, Payton P, Millena A C M, Phillips A L, Pierce M L, Scheffler B, Turley R, Wang J, Zhang D, Scheffler J (2006). Analysis of ESTs from multiple Gossypium hirsutum tissues and identification of SSRs. Genome, 49: 306-319.
23. Tian A G, Wang J, Cui P, Han Y J, Xu H, Cong L J, Huang X G, Wang X L, Jiao Y Z, Wang B J, Wang Y J, Zhang J S, Chen S Y (2004). Characterization of soybean genomic features by analysis of its expressed sequence tags. Theor Appl Genet, 108: 903-913.
24. Wang C, Guo W, Cai C, Zhang T (2006). Characterization, development and exploitation of EST-derived microsatellites in Gossypium raimondii Ulbrich. Chin Sci Bull, 51: 557-561.
25. Yi G, Lee J M, Lee S, Choi D, Kim B D (2006). Exploitation of pepper EST-SSRs and an SSR-based linkage map. Theor Appl Genet, 114: 113-130.
26. Yu J W, Yu S X, Lu C R, Wang W, Fan S L, Song MZ, Lin Z X, Zhang X L, Zhang J F (2007). High-density linkage map of cultivated allotetraploid cotton based on SSR, TRAP, SRAP and AFLP markers. J Integr Plant Biol, 49: 716-724.
27. Zhang H B, Li Y N, Wang B H, Chee P W (2008a). Recent Advances in Cotton Genomics. Int J Plant Genomics, Volume 2008: Article ID 742304, 20 pages, doi: 10. 1155/2008/742304.
28. Zhang Y X, Lin Z X, Li W, Tu L L, Nie Y C, Zhang X L (2007). Studies of new EST-SSRs derived from Gossypium barbadense. Chin Sci Bull, 52: 2522-2531.
29. Zhang Y X, Lin Z X, Xia Q Z, Zhang M J, Zhang X L (2008b). Characteristics and analysis of simple sequence repeats in the cotton genome based on a linkage map constructed from a BC1 population between Gossypium hirsutum and G. barbadense. Genome, 51: 534-546.