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利用MISA(Micro SAtelite)软件对测序得到的蒙药冷蒿转录组序列143 700条跨叠群(contigs)进行简单重复序列(SSR)位点的挖掘,发现3 614条序列含有3 753个SSR位点,发生频率为2.51%,共有122种重复基元,平均每18.46 kb出现1个SSR位点。冷蒿转录组序列的SSR主要集中在三核苷酸重复(56.12%),其次是二核苷酸重复(31.60%)。AC/TG、AT/TA、CA/GT、AAT/TTA和AAC/TTG是二核苷酸、三核苷酸中的优势重复基元。冷蒿转录组SSR以5~12次重复为主,基序长度主要集中于12~36 bp。冷蒿转录组共注释43 415个contigs,其中578个SSRs位于编码区,主要以三核苷酸重复为主(397,68.69%)。从分子水平和生物信息学角度介绍了蒙药冷蒿转录组SSR信息的开发利用,其出现频率高、重复类型丰富,将为冷蒿的分子标记辅助育种、遗传多样性分析、遗传图谱构建和功能基因挖掘提供了候选序列。
Mosa (Micro SAtelite) software was used to search Simple Sequences (SSRs) of 143 700 contigs from the sequenced Mongolian medicinal plants Artemisia frigida and found that 3 614 sequences contained 3 753 SSR loci , With a frequency of 2.51%. There were 122 kinds of repeat motifs, with an average of 1 SSR loci per 18.46 kb. The SSRs of A. frigida transcriptome were mainly found in trinucleotide repeats (56.12%), followed by dinucleotide repeats (31.60%). AC / TG, AT / TA, CA / GT, AAT / TTA and AAC / TTG are the dominant repeat units in dinucleotides and trinucleotides. The SSRs of Artemisia frigida were mainly duplicated 5 to 12 times with the length of motifs mainly ranging from 12 to 36 bp. A total of 43 415 contigs were annotated in the transcriptome of Artemisia frigida, of which 578 SSRs were located in the coding region and mainly dominated by trinucleotide repeats (397,68.69%). From the perspective of molecular biology and bioinformatics, the author introduced the development and utilization of SSR information of Mongolian Artemisia frigida transcriptome. The frequency of SSR was high, and the types of SSR were abundant. It would be molecular marker-assisted breeding, genetic diversity analysis, genetic map construction and function Gene mining provides a candidate sequence.