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Comprehensive analysis of full-length transcriptomes of Schizothorax prenanti by single-molecule long-read sequencing

文献类型： 外文期刊

作者： Wang, Linjie 1 ; Zhu, Peng 1 ; Mo, Qilang 1 ; Luo, Wei 1 ; Du, Zongjun 1 ; Jiang, Jun 1 ; Yang, Song 1 ; Zhao, Liulan 1 ; Gong, Quan 2 ; Wang, Yan 1 ;

作者机构： 1.Sichuan Agr Univ, Coll Anim Sci & Technol, Chengdu 611130, Sichuan, Peoples R China

2.Sichuan Acad Agr Sci, Fisheries Inst, Chengdu 611713, Sichuan, Peoples R China

关键词： Cyprinidae; RNA-seq; Gene ontology; Long non-coding RNA; Microsatellite

期刊名称：GENOMICS （ 影响因子：4.31； 五年影响因子：4.38 ）

ISSN： 0888-7543

年卷期： 2022 年 114 卷 1 期

页码：

收录情况： SCI

摘要： Schizothorax prenanti (S. prenanti) is one of the most important aquaculture species in the southwest of China. However, information of the full-length transcripts in S. prenanti remains unknown. In this study, single-molecule real-time (SMRT) sequencing was performed to generate full-length transcriptomes of S.prenanti. In total, 23.26 Gb of clean reads were generated. A total of 312,587 circular consensus sequences (CCS) were obtained with average lengths of 2634 bp and 84.16% (270,662) of CCS were full-length non-chimeric reads. After being corrected with Illumina library sequencing, 18,005 contigs were obtained, with 17,797 (98.81%) successfully annotated in eight public databases, including 15,839 complete open reading frames (ORFs) with an average length of 1330 bp. Furthermore, a total of 4152 alternative splicing (AS) events and 250 long non-coding RNA (lncRNA) transcripts were detected. Additionally, a total of 1129 putative transcription factors (TFs) members from 56 TF families and 11,660 simple sequence repeats (SSRs) were identified. This study provided a valuable resource of full-length transcripts for further research on S. prenanti.

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