Scientia Agricultura Sinica ›› 2015, Vol. 48 ›› Issue (11): 2108-2117.doi: 10.3864/j.issn.0578-1752.2015.11.003

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

Analysis of SSR Loci in Nicotina tabacum Genome and Its Two Ancestral Species Genome

TONG Zhi-jun, JIAO Fang-chan, XIAO Bing-guang   

  1. Yunnan Academy of Tobacco Agricultural Sciences/Key Laboratory of Tobacco Biotechnological Breeding/National Tobacco Genetic Engineering Research Center, Kunming 650021
  • Received:2014-10-13 Online:2015-06-01 Published:2015-06-01

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Abstract: 【Objective】 The statistical analysis of SSR loci genomic information in Nicotina tabacum (2n = 24Ⅱ= 48 TTSS) and its two ancestral species (N. tomentosiformis 2n = 12Ⅱ= 24 TT and N. sylvestris 2n = 12Ⅱ= 24 SS) are carried out for the genetic analysis of plants of the Nicotiana genus. 【Method】 The data in the above-mentioned three tobacco genomes were downloaded from a public database NCBI (National Center for Biotechnology Information), 50 pairs of random amplified polymorphic SSR were synthesized for each genome, and analyzed by the SSRIT and TRF soft-wares for their SSR-loci distribution. 【Result】 A total of 218 081, 263 478 and 397 432 SSR loci, with their average distance 7.52, 7.78 and 9.06 kb were found in the genomes of N. tomentosiformis, N. sylvestris and N. tabacum, respectively. Almost all the SSR loci are distributed in the intron domains and especially the 5′-UTR domains. The SSR motifs within the genome are dominated by the types of Di-nucleotide and Tri-nucleotide, with more than 2/3 in the total number of SSR motifs, and the type of Di-nucleotide motifs has a most abundant peak, and contains the highest frequency and quantity of A (T)n motif structure. The most of SSR motifs types have 3-10 repetitions, except mono-nucleotide type. There are 150 pairs of primers synthesized are subjected to PCR for the DNAs from eight tobacco species, all of which can amplify the clearly stable target fragments, with 36 pairs of primers shows polymorphisms. 【Conclusion】 Some distribution characteristcs of SSRs in the genomes of N. tomentosiformis, N. sylvestris and N. tabacum were observed, which indicated a high conservation for the SSR loci among the relatively closed tobacco species.

Key words: N. tomentosiformis, N. sylvestris, N. tabacum, genome, SSR loci

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