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- Title
基于RNA-seq 技术的奥利亚罗非鱼转录组 SSR 位点信息分析.
- Authors
周康奇; 潘贤辉; 黄 姻; 覃俊奇; 徐俊龙; 杜雪松; 文露婷; 陈 忠; 潘志忠; 邓 潜; 林 勇
- Abstract
In order to develop molecular markers related to salt tolerance in Oreochromis aurea, the nextgeneration sequencing RNA-seq method was used to mine microsatellite tags in O. aurea. The results showed that a total of 71 009 unigenes were obtained by splicing and assembly, and a total of 10 875 SSR loci were found in all sequences. The number of sequences contained SSR loci was 8 315, accounting for 11. 71% of the total sequences. There were many types of SSR loci in the transcriptome of O. aurea, and 5 different nucleotide repeat types and 126 different repeat motifs were recognized. Among them, the content of the dinucleotide tandem repeat unit type was the most, with 5 779, accounting for 53. 14% of the total number of sites. And among dinucleotide repeat types AC / GT the motif type had the highest frequency( 3 954 times, 36. 36%). In addition, SSR loci were dominated by 6 repetitions(3 048), accounting for 27. 77% of the total number of loci; SSR loci sequence length was 12—254 bp, of which 3 480 loci were highly polymorphic(29. 14%), and 8 462 loci were moderate polymorphic(70. 86%).
- Subjects
TANDEM repeats; RNA sequencing; MICROSATELLITE repeats
- Publication
Journal of Henan Agricultural Sciences, 2020, Vol 49, Issue 11, p147
- ISSN
1004-3268
- Publication type
Article
- DOI
10.15933/j.cnki.1004-3268.2020.11.019