title: [SSR information in transcriptome of Pinellia ternata].
abstract: OBJECTIVE
  In order to establish new molecular markers and to design SSR primers,the SSR information was analyzed in the transcriptome of Pinellia ternata.
  
  
  METHODS
  The unigenes in transcriptome were filtered and then redundant sequences were removed by the tool of EST-trimmer and cross-match, respectively. Meanwhile, the non-redundant unigenes were examined by the tool of MISA.
  
  
  RESULTS
  14,468 SSRs were found, and these SSRs were distributed in 12 000 unigenes in the examined sequences. Frequency of occurrences for SSRs was 16.24%, and density of distribution was on average 1/4.33 kb in the present study. Di-nucleotide and tri-nucleotide were the major repeated types,accounting for 51.15% and 41.50%, respectively. AG/CT and CCG/CGG were most frequent motifs in di-nucleotide and tri-nucleotide, accounting for 41.54% and 11. 84%, respectively. 87.14% motifs in the length ranged from 12 bp to 20 bp.
  
  
  CONCLUSIONS
  The SSR site in the transcriptome of Pinellia ternata have the characteristics of high frequency of occurrences, type richness, high density and high potential of polymorphism, and these characteristics might be applied in the study on genetic diversity, marker-assisted breeding,and genetic map of Pinellia ternata.
authors: Sen
authors: S
authors: Wang
authors: Zhen
authors: Z
authors: Zhang
authors: Ni-hao
authors: NH
authors: Jiang
authors: Guang-hui
authors: GH
authors: Zhang
authors: Ben-cai
authors: BC
authors: Sha
authors: Sheng-chao
authors: SC
authors: Yang
authors: Jun-wen
authors: JW
authors: Chen
mesh_terms: D017931:DNA Primers; D020224:Expressed Sequence Tags; D018895:Microsatellite Repeats; D030021:Pinellia; D059467:Transcriptome
chemical_list: D017931:DNA Primers