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Acta Agron Sin ›› 2008, Vol. 34 ›› Issue (12): 2085-2091.doi: 10.3724/SP.J.1006.2008.02085

• CROP GENETICS & BREEDING · GERMPLASM RESOURCES · MOLECULAR GENETICS • Previous Articles     Next Articles

Genetic Evaluation of EST-SSRs Derived from Gossypium herbaceum

YU Yu12,WANG Zhi-Wei1,FENG Chang-Hui1,ZHANG Yan-Xin1,LIN Zhong-Xu1*,ZHANG Xian-Long1   

  1. 1 National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan 430070, Hubei; 2 Cotton Institute, Xinjiang Academy Agricultural and Reclamation Science, Shihezi 832000, Xinjiang, China
  • Received:2008-05-06 Revised:2008-07-15 Online:2008-12-12 Published:2008-10-10
  • Contact: LIN Zhong-Xu

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Abstract:

Gossypium herbaceum (A genome) is generally regarded as the most closely relative of the progenitor at subgenomes of allotetraploid cotton, of which the evolution is necessary to study. In order to investigate the contribution of G. herbaceum to the tetraploid genome, EST-SSRs were isolated from 247 EST sequences of G. herbaceum documented in GenBank. Twenty-seven perfect SSRs were identified from twenty-five unique ESTs. These SSRs contained 1–6 bp nucleotide motifs with high frequency for 2-bp and 3-bp nucleotide motifs. A total of 25 primers were developed and 22 of them could amplify 24 cotton accessions including 7 diploids of A genome, 11 diploids of D genome and 6 allotetraploids of AD genome; only HAU217 could specifically amplified A genome and the other 21 primers could amplified both A and D genomes. The number of polymorphic fragments generated by each primer ranged from 1 to 9 with an average of 3.64. The PIC values ranged from 0.49 to 0.91 with an average of 0.81. Among the 25 EST-SSR primers, six primers revealed polymorphism between Emian 22 and Pima 3-79, and yielded seven polymorphic loci (five were codominant and two dominant) in the BC1 [(Emian22 × Pima3-79) × Emian22] population. Only HAU230b showed distorted segregation in the BC1 population. Six polymorphic loci were integrated into six chromosomes of our interspecific BC1 backbone genetic linkage map among which, four loci were mapped on four chromosomes of A sub-genome (Chr. 6, 10, 11, 12), and two loci on two chromosomes of D sub-genome (Chr. 19 and 20).

Key words: Gossypium herbaceum, EST, SSR, Polymorphism information content (PIC), Genetic map

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