Complete characterization of the yak testicular development using accurate full-length transcriptome sequencing

牦牛 转录组 计算生物学 生物 男科 遗传学 医学 基因 基因表达 动物科学
作者
Xingdong Wang,Shaoke Guo,Lin Xiong,Xiaoyun Wu,Pengjia Bao,Yandong Kang,Mengli Cao,Ziqiang Ding,Chunnian Liang,Jie Pei,Xian Guo
出处
期刊:International Journal of Biological Macromolecules [Elsevier]
卷期号:271: 132400-132400
标识
DOI:10.1016/j.ijbiomac.2024.132400
摘要

Alternative splicing is a prevalent phenomenon in testicular tissues. Due to the low assembly accuracy of short-read RNA sequencing technology in analyzing post-transcriptional regulatory events, full-length (FL) transcript sequencing is highly demanded to accurately determine FL splicing variants. In this study, we performed FL transcriptome sequencing of testicular tissues from 0.5, 1.5, 2.5, and 4-year-old yaks and 4-year-old cattle-yaks using Oxford Nanopore Technologies. The obtained sequencing data were predicted to have 47,185 open reading frames (ORFs), including 26,630 complete ORFs, detected 7645 fusion transcripts, 15,355 alternative splicing events, 25,798 simple sequence repeats, 7628 transcription factors, and 35,503 long non-coding RNAs. A total of 40,038 novel transcripts were obtained from the sequencing data, and the proportion was almost close to the number of known transcripts identified. Structural analysis and functional annotation of these novel transcripts resulted in the successful annotation of 9568 transcripts, with the highest and lowest annotation numbers in the Nr and KOG databases, respectively. Weighted gene co-expression network analysis revealed the key regulatory pathways and hub genes at various stages of yak testicular development. Our findings enhance our comprehension of transcriptome complexity, contribute to genome annotation refinement, and provide foundational data for further investigations into male sterility in cattle-yaks.
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