Identification of stress-related genes by co-expression network analysis based on the improved turbot genome
文献类型： 外文期刊
作者： Xu, Xi-wen 1 ; Zheng, Weiwei 1 ; Meng, Zhen 1 ; Xu, Wenteng 1 ; Liu, Yingjie 3 ; Chen, Songlin 1 ;
作者机构： 1.Chinese Acad Fishery Sci, Yellow Sea Fisheries Res Inst, Lab Marine Fisheries Sci & Food Prod Proc, Qingdao Natl Lab Marine Sci & Technol, Nanjing Rd 106, Nanjing 106266071, Peoples R China
2.Minist Agr, Key Lab Sustainable Dev Marine Fisheries, Wenhai Rd 1, Qingdao 266071, Peoples R China
3.Shanghai Ocean Univ, Coll Fisheries & Life Sci, Shanghai, Peoples R China
4.Chinese Acad Fishery Sci, CAFS, 150 Qingta,Yongdinglu Nan, Beijing 100141, Peoples R China
期刊名称：SCIENTIFIC DATA （ 影响因子：8.501； 五年影响因子：11.211 ）
ISSN：
年卷期： 2022 年 9 卷 1 期
页码：
收录情况： SCI
摘要： Turbot (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.
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