Insights into chromosomal evolution and sex determination of Pseudobagrus ussuriensis (Bagridae, Siluriformes) based on a chromosome-level genome. (21st July 2022)

• Record Type: Journal Article
• Authors: Zhu, Chuankun; Liu, Haiyang; Pan, Zhengjun; Cheng, Lei; Sun, Yanhong; Wang, Hui; Chang, Guoliang; Wu, Nan; Ding, Huaiyu; Zhao, Haitao; Zhang, Lei; Yu, Xiangsheng
• Is Part Of: DNA research. Volume 29:Number 4(2022)
• Publication Date: 2022-07-21
• Subjects: Pseudobagrus ussuriensis -- whole-genome sequencing -- chromosome evolution -- sex-determining region -- sex chromosome; Genes -- Periodicals; Genomes -- Periodicals; Genes -- Research -- Periodicals; Genomics -- Periodicals; DNA -- Research -- Periodicals; 572.86072
• DOI: 10.1093/dnares/dsac028
• Languages: English
• ISSNs: 1340-2838

Abstract

Abstract: Pseudobagrus ussuriensis is an aquaculture catfish with significant sexual dimorphism. In this study, a chromosome-level genome with a size of 741.97 Mb was assembled for female P. ussuriensis . A total of 26 chromosome-level contigs covering 97.34% of the whole-genome assembly were obtained with an N50 of 28.53 Mb and an L50 of 11. A total of 24, 075 protein-coding genes were identified, with 91.54% (22, 039) genes being functionally annotated. Based on the genome assembly, four chromosome evolution clusters of catfishes were identified and the formation process of P. ussuriensis chromosomes was predicted. A total of 55 sex-related quantitative trait loci (QTLs) with a phenotypic variance explained value of 100% were located on chromosome 8 (chr08). The QTLs and other previously identified sex-specific markers were located in a sex-determining region of 16.83 Mb (from 6.90 to 23.73 Mb) on chr08, which was predicted as the X chromosome. The sex-determining region comprised 554 genes, with 135 of which being differently expressed between males and females/pseudofemales, and 16 candidate sex-determining genes were screened out. The results of this study provided a useful chromosome-level genome for genetic, genomic and evolutionary studies of P. ussuriensis, and also be useful for further studies on sex-determination mechanism analysis and sex-control breeding of this fish.