Author:
Xu Xi-wen,Zheng Weiwei,Meng Zhen,Xu Wenteng,Liu Yingjie,Chen Songlin
Abstract
AbstractTurbot (Scophthalmus maximus), commercially important flatfish species, is widely cultivated in Europe and China. With the continuous expansion of the intensive breeding scale, turbot is exposed to various stresses, which greatly impedes the healthy development of turbot industry. Here, we present an improved high-quality chromosome-scale genome assembly of turbot using a combination of PacBio long-read and Illumina short-read sequencing technologies. The genome assembly spans 538.22 Mb comprising 27 contigs with a contig N50 size of 25.76 Mb. Annotation of the genome assembly identified 104.45 Mb repetitive sequences, 22,442 protein-coding genes and 3,345 ncRNAs. Moreover, a total of 345 stress responsive candidate genes were identified by gene co-expression network analysis based on 14 published stress-related RNA-seq datasets consisting of 165 samples. Significantly improved genome assembly and stress-related candidate gene pool will provide valuable resources for further research on turbot functional genome and stress response mechanism, as well as theoretical support for the development of molecular breeding technology for resistant turbot varieties.
Funder
Taishan Scholar Project of Shandong Province
National Natural Science Foundation of China
Publisher
Springer Science and Business Media LLC
Subject
Library and Information Sciences,Statistics, Probability and Uncertainty,Computer Science Applications,Education,Information Systems,Statistics and Probability
Reference92 articles.
1. Bjørndal, T. & Øiestad, V. J. W. P. The development of a new farmed species: production technology and markets for turbot. Working Paper (2010).
2. Lei, J. L., Liu, X. F. & Guan, C. T. Turbot culture in China for two decades: achievements and prospect. Progress in Fishery Sciences 33, 123–130 (2012).
3. Ronza, P. et al. Blood transcriptomics of turbot Scophthalmus maximus: A tool for health monitoring and disease studies. Animals 11, 1296 (2021).
4. Ronza, P. et al. RNA-seq analysis of early enteromyxosis in turbot (Scophthalmus maximus): new insights into parasite invasion and immune evasion strategies. Int J Parasitol 46, 507–517 (2016).
5. Gao, C. et al. Comparative analysis of the miRNA-mRNA regulation networks in turbot (Scophthalmus maximus L.) following Vibrio anguillarum infection. Developmental and Comparative Immunology 124, 104164 (2021).
Cited by
6 articles.
订阅此论文施引文献
订阅此论文施引文献,注册后可以免费订阅5篇论文的施引文献,订阅后可以查看论文全部施引文献