PacBio Single-Molecule Long-Read Sequencing Provides New Light on the Complexity of Full-Length Transcripts in Cattle

文献类型： 外文期刊

第一作者： Chang, Tianpeng

作者： Chang, Tianpeng;An, Bingxing;Liang, Mang;Du, Lili;Cai, Wentao;Zhu, Bo;Gao, Xue;Chen, Yan;Xu, Lingyang;Zhang, Lupei;Gao, Huijiang;Li, Junya;Duan, Xinghai

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关键词： cattle; PacBio single-molecule long-read sequencing; full-length transcript; alternative splicing; alternative polyadenylation; long non-coding RNA

期刊名称：FRONTIERS IN GENETICS （ 影响因子：4.599； 五年影响因子：4.888 ）

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年卷期： 2021 年 12 卷

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收录情况： SCI

摘要： Cattle (Bos taurus) is one of the most widely distributed livestock species in the world, and provides us with high-quality milk and meat which have a huge impact on the quality of human life. Therefore, accurate and complete transcriptome and genome annotation are of great value to the research of cattle breeding. In this study, we used error-corrected PacBio single-molecule real-time (SMRT) data to perform whole-transcriptome profiling in cattle. Then, 22.5 Gb of subreads was generated, including 381,423 circular consensus sequences (CCSs), among which 276,295 full-length non-chimeric (FLNC) sequences were identified. After correction by Illumina short reads, we obtained 22,353 error-corrected isoforms. A total of 305 alternative splicing (AS) events and 3,795 alternative polyadenylation (APA) sites were detected by transcriptome structural analysis. Furthermore, we identified 457 novel genes, 120 putative transcription factors (TFs), and 569 novel long non-coding RNAs (lncRNAs). Taken together, this research improves our understanding and provides new insights into the complexity of full-length transcripts in cattle.

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