关键词: 刚毛棉鼠, 转录组测序, 微卫星

Abstract: Objective　To study the characteristics of microsatellites in the transcriptome of Sigmodon hispidus, develop microsatellite molecular markers,and promote the open sharing of these animal resources.Methods　RNA-seq sequencing technology was used to perform transcriptome sequenceing and bioinformatics analysis on five tissues (heart, liver, spleen, lungs, and kidney) of Sigmodon hispidus. MISA software was used to search microsatellite loci. In addition, PCR validation was performed on 30 randomly selected predicted microsatellite sequences. Results　Based on transcriptome sequencing, 216 139 unigenes were obtained for Sigmodon hispidus. A total of 114 469 microsatellite loci were searched, which were distributed in sequences of 69 631 unigenes. Among all microsatellite loci,there were 6 types of repeats,mainly single nucleotide (53.32%) and dinucleotide (34.52%). The frequency of A/T and AC/GT repeat motifs was relatively high, accounting for 49.47% and 24.26% of the total number of microsatellites, respectively. The sequence length distribution of microsatellites ranged from 10 to 617 bp, with 83 761 microsatellites ranging from 10 to 20 bp, accounting for 73.17% of the total number of microsatellites. 30 microsatellite sequences were randomly selected for PCR validation, and 25 of them were successfully verified.Conclusion　This study obtained rich microsatellite information from Sigmodon hispidus through transcriptome sequencing analysis, laying the foundation for further research on microsatellite molecular markers, genetic quality evaluation, and development and utilization of germplasm resources in Sigmodon hispidus.

Key words: Sigmodon hispidus, RNA-seq sequencing, microsatellite