EST-SSR sequences revealed the relationship of D-genome in diploid and tetraploid Species in Gossypium

Plant Science

Volumn 176, Issue 3, 2009, Pages 397-405

  Zhu, Hua Yu ^a   Zhang, Tian Zhen ^a   Yang, Lu Ming ^a   Guo, Wang Zhen ^a  

^a NANJING AGRICULTURAL UNIVERSITY   (China)

Author keywords

Cotton; D genome; Diploid; EST SSR; Genetic relationship; Gossypium; Tetraploid

Indexed keywords

GOSSYPIUM; GOSSYPIUM BARBADENSE; GOSSYPIUM HIRSUTUM; GOSSYPIUM RAIMONDII;

EID: 58749090350     PISSN: 01689452     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.plantsci.2008.12.007     Document Type: Article

References (54)

1. Fryxell P.A., Craven L.A., and Stewart J.M. A revision of Gossypium sect. Grandicalyx (Malvaceae), including the description of six new species. Syst. Bot. 17 (1992) 91-114
2. Menzel M.Y. A cytological method for genome analysis in Gossypium. Genetics 40 (1954) 214-223
3. Beasley J.O. The origin of American tetraploid Gossypium species. Am. Nat. 74 (1940) 285-286
4. Wendel J.F. New world tetraploid cottons contain Old World cytoplasm. Proc. Natl. Acad. Sci. U.S.A. 86 (1989) 4132-4136
5. Endrizzi J.E., Turcotte E.L., and Kohel R.J. Genetics, cytology, and evolution of Gossypium. Adv. Genet. 23 (1985) 271-375
6. Parks C.R., Ezell W.L., Williams D.E., and Dreyer D.L. The application of flavonoid distribution to taxonomic problems in the genus Gossypium. Bull. Torrey Bot. Club 102 (1975) 350-361
7. Wang K.B., and Li M.X. The karyotype variation and evolution of D genome in Gossypium. Acta Agron. Sin. 3 (1990) 200-207
8. Nie R.Z., and Li M.X. Karyotype Analysis in Gossypium (1993), Science Press, Beijing
9. Jiang C.X., Wright R.J., El-zik K.M., and Paterson A.H. Polyploid formation created unique avenues for response to selection in Gossypium (cotton). Proc. Natl. Acad. Sci. U.S.A. 95 (1998) 4419-4424
10. Kohel R.J., Yu J., Park Y.H., and Lazo G.R. Molecular mapping and characterization of traits controlling fiber quality in cotton. Euphytica 121 (2001) 163-172
11. Shen X.L., Guo W.Z., Yu J., Kohel R.J., and Zhang T.Z. Molecular tagging of QTLs for fiber qualities in three diverse lines in Upland cotton using SSR marker. Mol. Breeding 15 (2005) 169-181
12. King D.G. Triple repeat DNA as a highly mutable regulatory system. Science 263 (1994) 595-596
13. Kashi Y., King D., and Soller M. Simple sequence repeats as a source of quantitative genetic variation. Trends Genet. 13 (1997) 74-78
14. Röder M.S., Korzun V., Gill B.S., and Ganal M.W. The physical mapping of microsatellite in wheat. Genome 41 (1998) 278-283
15. Röder M.S., Korzun V., Wendehake K., Plaschke J., Tixier M.H., Leroy P., and Ganal M.W. A microsatellite map of wheat. Genetics 149 (1998) 2007-2023
16. Caudrado A., and Schwarzacher T. The chromosomal organization of simple sequence repeats in wheat and rye genomes. Chromosoma 107 (1998) 587-594
17. Chen X., Cho Y.G., and McCouch S.R. Sequence divergence of rice microsatellites in Oryza and other plant species. Mol. Genet. Genomics 268 (2002) 331-343
18. 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., and Zhang T.Z. A microsatellite-based, gene-rich linkage map reveals genome structure, function, and evolution in Gossypium. Genetics 176 (2007) 527-541
19. Paterson A.H., Brubaker C., and Wendel J.F. A rapid method for extraction of cotton (Gossypium spp.) genomic DNA suitable for RFLP or PCR analysis. Plant Mol. Biol. Rep. 11 (1993) 122-127
20. Zhang T.Z., Yuan Y.L., Yu J., Guo W.Z., and Kohel R.J. Molecular tagging of a major QTL for fiber strength in Upland cotton. Theor. Appl. Genet. 106 (2003) 262-268
21. Zhang J., Wu Y.T., Guo W.Z., and Zhang T.Z. Rapid detection of SSR with PAGE/silver staining. Cotton Sci. 12 (2000) 267-269
22. Guo W.Z., Fang D., Yu W.D., and Zhang T.Z. Sequence divergence of microsatellites and phylogeny analysis in tetraploid cotton species and their putative diploid ancestors. J. Integr. Plant Biol. 47 (2005) 1418-1430
23. Sanger F., Nicklen S., and Coulson A.R. DNA sequencing with chain-terminating inhibitors. Proc. Natl. Acad. Sci. U.S.A. 74 (1977) 5463-5467
24. Fahima T., Roder M.S., Wendehake K., Kirzhner V.M., and Nevo E. Microsatellite polymorphism in natural populations of wild emmer wheat, Triticum dicoccoides, in Israel. Theor. Appl. Genet. 104 (2002) 17-29
25. King D., Soller M., and Kashi Y. Evolutionary tuning knobs. Endeavour 21 (1997) 36-40
26. Eisen J.A. Mechanistic basis for microsatellites instability. In: Goldstein D.B., and Schlotterer C. (Eds). Microsatellites: Evolution and Application (1999), Oxford University Press, New York pp. 34-38
27. Taylor J.S., Durkin J.M.H., and Breden F. The death of a microsatellite: a phylogenetic perspective on microsatellite interruptions. Mol. Biol. Evol. 16 (1999) 567-572
28. Scott K.D., Eggler P., Seaton G., Rossetto M., Ablett E.M., Lee L.S., and Henry R.J. Analysis of SSRs derived from grape ESTs. Theor. Appl. Genet. 100 (2000) 723-726
29. Eujayl I., Sorrells M.E., Baum M., Wolters P., and Powell W. Assessment of genotypic variation among cultivated durum wheat based on EST-SSRs and genomic SSRs. Euphytica 119 (2001) 39-43
30. Song Q.J., Marek L.F., Shoemaker R.C., Lark K.G., Concibido V.C., Delannay X., Specht J.E., and Cregan P.B. A new integrated genetic linkage map of the soybean. Theor. Appl. Genet. 109 (2004) 122-128
31. Fryxell P.A. The Natural History of the Cotton Tribe (1979), Texas A&M Univ Press, College Station, TX
32. Cronn R.C., Zhao X., Paterson A.H., and Wendel J.F. Polymorphism and concerted evolution in a tandemly repeated gene family: 5S ribosomal DNA in diploid and allopolyploid cottons. J. Mol. Evol. 42 (1996) 685-705
33. Cronn R., Small R.L., and Wendel J.F. Duplicated genes evolve independently after polyploid formation in cotton. Proc. Natl. Acad. Sci. U.S.A. 96 (1999) 14406-14411
34. Small R.L., and Wendel J.F. Phylogeny, duplication, and intraspecific variation of Adh sequences in new world diploid cotton (Gossypium L., Malvaceae). Mol. Phylogenet. Evol. 16 (2000) 73-84
35. Liu B., Brubaker C.L., Mergeai G., Cronn R.C., and Wendel J.F. Polyploid formation in cotton is not accompanied by rapid genomic changes. Genome 44 (2001) 321-330
36. Álvarez I., Cronn R., and Wendel J.F. Phylogeny of the new world diploid cottons (Gossypium L., Malvaceae) based on sequences of three low-copy nuclear genes. Plant Syst. Evol. 252 (2005) 199-214
37. Guo W.Z., Sang Z.Q., Zhou B.L., and Zhang T.Z. Genetic relationships of D-genome species based on two types of EST-SSR markers derived from G. arboreum and G. raimondii in Gossypium. Plant Sci. 172 (2007) 808-814
38. Cronn R.C., Small R.L., Haselkorn T., and Wendel J.F. Cryptic repeated genomic recombination during speciation in Gossypium gossypioides. Evolution 57 (2003) 2475-2489
39. Wendel J.F., and Albert V.A. Phylogenetics of the cotton genus (Gossypium): character-state weighted parsimony analysis of chloroplast-DNA restriction site data and its systematic and biogeographic implications. Syst. Bot. 17 (1992) 115-143
40. Wendel J.F., Schnabel A., and Seelanan T. An unusual ribosomal DNA sequence from Gossypium gossypioides reveals ancient, cryptic, intergenomic introgression. Mol. Phylogenet. Evol. 4 (1995) 298-313
41. Zhang J., Guo W.Z., and Zhang T.Z. Molecular linkage map of allotetraploid cotton (Gossypium hirsutum L. × Gossypium barbadense L.) with a haploid population. Theor. Appl. Genet. 105 (2002) 1166-1174
42. Small R.L., Ryburn J.A., Cronn R.C., Seelanan T., and Wendel J.F. The tortoise and the hare: choosing between noncoding plastome and nuclear Adh sequences for phylogeny reconstruction in recently diverged plant group. Am. J. Bot. 85 (1998) 1301-1315
43. Small R.L., Ryburn J.A., and Wendel J.F. Low levels of nucleotide diversity at homoelogous Adh loci in allotetraploid cotton (Gossypium L.). Mol. Biol. Evol. 16 (1999) 491-501
44. Small R.L., and Wendel J.F. DiVerential evolutionary dynamics of duplicated paralogous Adh loci in alloteraploid cotton (Gossypium). Mol. Biol. Evol. 19 (2002) 597-607
45. Liu Q., Brubaker C.L., Green A.G., Marshall D.R., Sharp P.J., and Singh S.P. Evolution of the FAD-2 fatty acid desaturase 5_ UTR intron and the molecular systematics of Gossypium (Malvaceae). Am. J. Bot. 88 (2001) 92-102
46. An C., Saha S., Jenkins J.N., Ma D.P., ScheZer B.E., Kohel R.J., Yu J.Z., and Stelly D.M. Cotton (Gossypium spp.) R2R3-MYB transcription factors SNP identiWcation, phylogenomic characterization, chromosome localization, and linkage mapping. Theor. Appl. Genet. 116 (2008) 1015-1026
47. Brubaker C.L., and Wendel J.F. Reevaluating the origin of domesticated cotton (Gossypium hirsutum; Malvaceae) using nuclear restriction fragment length polymorphisms (RFLPs). Am. J. Bot. 81 (1994) 1309-1326
48. Wendel J.F., Schnabel A., and Seelanan T. Bidirectional interlocus concerted evolution following allopolyploid speciation in cotton (Gossypium). Proc. Natl. Acad. Sci. U.S.A. 92 (1995) 280-284
49. Hanson R.E., Islam-Faridi M.N., Percival E.A., Crane C.F., Ji Y.F., Mcknight T.D., Stelly D.M., and Price H.J. Distribution of 5S and 18S-28S rDNA loci in a tetraploid cotton (Gossypium hirsutum L.) and its pupative diploid ancestors. Chromosoma 105 (1996) 55-61
50. Adams K.L., Cronn R., Percifield R., and Wendel J.F. Genes duplicated by polyploidy show unequal contributions to the transcriptome and organ-specific reciprocal silencing. Proc. Natl. Acad. Sci. U.S.A. 100 (2003) 4649-4654
51. Cronn R.C., Small R.L., Haselkorn T., and Wendel J.F. Rapid diversification of the cotton genus (Gossypium: Malvaceae) revealed by analysis of sixteen nuclear and chloroplast gene. Am. J. Bot. 89 (2002) 707-725
52. Stephens S.G. Polynesian cottons. Ann. MO Bot. Gard. 50 (1963) 1-22
53. Stephens S.G. Native Hawaiian cotton (Gossypium tomentosum Nutt.). Pac. Sci. 18 (1964) 385-398
54. Stephens S.G. Evolution under domestication of the New World cottons (Gossypium spp.). Cienc. Cult. 19 (1967) 118-134