Scientific Data (May 2024)
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 Chen,
- Chun 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
Affiliations
- Yifan Wang
- State Key Laboratory of Sheep Genetic Improvement and Healthy Production, Xinjiang Academy of Agricultural Reclamation Sciences
- Yiming Huang
- State Key Laboratory of Sheep Genetic Improvement and Healthy Production, Xinjiang Academy of Agricultural Reclamation Sciences
- Yongkang Zhen
- College of Animal Science and Technology, Yangzhou University
- Jiasheng Wang
- College of Animal Science and Technology, Yangzhou University
- Limin Wang
- State Key Laboratory of Sheep Genetic Improvement and Healthy Production, Xinjiang Academy of Agricultural Reclamation Sciences
- Ning Chen
- State Key Laboratory of Sheep Genetic Improvement and Healthy Production, Xinjiang Academy of Agricultural Reclamation Sciences
- Feifan Wu
- College of Animal Science and Technology, Yangzhou University
- Linna Zhang
- Hubei Key Laboratory of Agricultural Bioinformatics and Hubei Engineering Technology Research Center of Agricultural Big Data, College of Informatics, Huazhong Agricultural University
- Yizhao Shen
- College of Animal Science and Technology, Hebei Agricultural University
- Congliang Bi
- College of Life Science, Linyi University
- Song Li
- College of Life Science, Guizhou University
- Kelsey Pool
- UWA Institute of Agriculture, The University of Western Australia
- Dominique Blache
- UWA Institute of Agriculture, The University of Western Australia
- Shane K. Maloney
- UWA Institute of Agriculture, The University of Western Australia
- Dongxu Liu
- Hubei Key Laboratory of Agricultural Bioinformatics and Hubei Engineering Technology Research Center of Agricultural Big Data, College of Informatics, Huazhong Agricultural University
- Zhiquan Yang
- Hubei Key Laboratory of Agricultural Bioinformatics and Hubei Engineering Technology Research Center of Agricultural Big Data, College of Informatics, Huazhong Agricultural University
- Chuang Li
- College of Animal Science and Technology, Yangzhou University
- Xiang Yu
- College of Animal Science and Technology, Yangzhou University
- Zhenbin Zhang
- College of Animal Science and Technology, Yangzhou University
- Yifei Chen
- College of Animal Science and Technology, Yangzhou University
- Chun Xue
- College of Animal Science and Technology, Yangzhou University
- Yalan Gu
- College of Animal Science and Technology, Yangzhou University
- Weidong Huang
- College of Animal Science and Technology, Yangzhou University
- Lu Yan
- College of Animal Science and Technology, Yangzhou University
- Wenjun Wei
- College of Animal Science and Technology, Yangzhou University
- Yusu Wang
- College of Animal Science and Technology, Yangzhou University
- Jinying Zhang
- College of Animal Science and Technology, Yangzhou University
- Yifan Zhang
- College of Animal Science and Technology, Yangzhou University
- Yiquan Sun
- College of Animal Science and Technology, Yangzhou University
- Shengbo Wang
- Hubei Key Laboratory of Agricultural Bioinformatics and Hubei Engineering Technology Research Center of Agricultural Big Data, College of Informatics, Huazhong Agricultural University
- Xinle Zhao
- Hubei Key Laboratory of Agricultural Bioinformatics and Hubei Engineering Technology Research Center of Agricultural Big Data, College of Informatics, Huazhong Agricultural University
- Chengfang Luo
- Hubei Key Laboratory of Agricultural Bioinformatics and Hubei Engineering Technology Research Center of Agricultural Big Data, College of Informatics, Huazhong Agricultural University
- Haodong Wang
- Hubei Key Laboratory of Agricultural Bioinformatics and Hubei Engineering Technology Research Center of Agricultural Big Data, College of Informatics, Huazhong Agricultural University
- Luoyang Ding
- College of Animal Science and Technology, Yangzhou University
- Qing-Yong Yang
- State Key Laboratory of Sheep Genetic Improvement and Healthy Production, Xinjiang Academy of Agricultural Reclamation Sciences
- Ping Zhou
- State Key Laboratory of Sheep Genetic Improvement and Healthy Production, Xinjiang Academy of Agricultural Reclamation Sciences
- Mengzhi Wang
- College of Animal Science and Technology, Yangzhou University
- DOI
- https://doi.org/10.1038/s41597-024-03338-5
- Journal volume & issue
-
Vol. 11,
no. 1
pp. 1 – 7
Abstract
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.
