De novo transcriptome assembly database for 100 tissues from each of seven species of domestic herbivore

Yifan Wang, Yiming Huang, Yongkang Zhen, Jiasheng Wang, Limin Wang, Ning Chen, Feifan Wu, Linna Zhang, Yizhao Shen, Congliang Bi, Song Li, Kelsey Pool, Dominique Blache, Shane K. Maloney, Dongxu Liu, Zhiquan Yang, Chuang Li, Xiang Yu, Zhenbin Zhang, Yifei ChenChun Xue, Yalan Gu, Weidong Huang, Lu Yan, Wenjun Wei, Yusu Wang, Jinying Zhang, Yifan Zhang, Yiquan Sun, Shengbo Wang, Xinle Zhao, Chengfang Luo, Haodong Wang, Luoyang Ding, Qing Yong Yang, Ping Zhou, Mengzhi Wang

Research output: Contribution to journalData articlepeer-review

Abstract

Domesticated herbivores are an important agricultural resource that play a critical role in global food security, particularly as they can adapt to varied environments, including marginal lands. An understanding of the molecular basis of their biology would contribute to better management and sustainable production. Thus, we conducted transcriptome sequencing of 100 to 105 tissues from two females of each of seven species of herbivore (cattle, sheep, goats, sika deer, horses, donkeys, and rabbits) including two breeds of sheep. The quality of raw and trimmed reads was assessed in terms of base quality, GC content, duplication sequence rate, overrepresented k-mers, and quality score distribution with FastQC. The high-quality filtered RNA-seq raw reads were deposited in a public database which provides approximately 54 billion high-quality paired-end sequencing reads in total, with an average mapping rate of ~93.92%. Transcriptome databases represent valuable resources that can be used to study patterns of gene expression, and pathways that are related to key biological processes, including important economic traits in herbivores.

Original languageEnglish
Article number488
JournalScientific Data
Volume11
Issue number1
DOIs
Publication statusPublished - Dec 2024

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