Barbel regeneration and function divergence in red-tail catfish (Hemibagrus wyckioides) based on the chromosome-level genomes and comparative transcriptomes

Zhou, Yanmin; Wu, Junjie; Gong, Gaorui; Liu, Min; Li, Zhi; Guo, Xinfeng; Wang, Wei; Zhang, Xiaojuan; Mei, Jie; Zhou, Li; Wang, Zhongwei; Gui, Jian‐Fang

doi:10.1016/j.ijbiomac.2023.123374

Cited by 1 publication

(1 citation statement)

References 76 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…With the rapid development of sequencing technologies, the chromosome-level genomes of more than 10 catfish species have been assembled, including Ictalurus punctatus (Liu et al, 2016), Pelteobagrus fulvidraco (Gong et al, 2018), Bagarius yarrelli (Jiang et al, 2019), Silurus meridionalis (Zheng et al, 2021), Leiocassis longirostris (He et al, 2021), Hemibagrus wyckioides (Shao et al, 2021), Pangasianodon hypophthalmus (Gao et al, 2021), Pseudobagrus ussuriensis (Zhu et al, 2022), Cranoglanis bouderius (Xu et al, 2022), Ictalurus furcatus (Wang et al, 2022), and Ancistrus triradiatus (Lemopoulos and Montoya-Burgos, 2022). These genomic resources facilitate studies of sex determination mechanisms (Bao et al, 2019;Gong et al, 2022), chromosomal and genome evolution (Zhu et al, 2022), ecological adaptation, and gene evolution and function (Liu et al, 2016;Zhou et al, 2023).…”

Section: Introductionmentioning

confidence: 99%

Chromosome-level genome assembly of the largefin longbarbel catfish (Hemibagrus macropterus)

Ye,

Fan,

Hou

et al. 2023

Front. Genet.

View full text Add to dashboard Cite

The largefin longbarbel catfish, Hemibagrus macropterus, is an economically important fish species in southwestern China, with males growing faster than females. This study presents a high-quality chromosome-level genome assembly of the largefin longbarbel catfish, generated by integrating Illumina short reads, PacBio HiFi long reads, and Hi-C data. The assembled genome size was 858.5 Mb, with a contig and scaffold N50 of 5.8 Mb and 28.4 Mb, respectively. A total of 656 contigs were successfully anchored to 30 pseudochromosomes with a BUSCO score of 97.7%, consistent with the number of chromosomes analyzed by karyotype. The genome contained 29.5% repeat sequences, and a predicted total of 26,613 protein-coding genes, of which 25,769 (96.8%) were functionally annotated in different databases. Evolutionary analysis showed that H. macropterus was most closely related to H. wyckioides, with a divergence time of approximately 16.3 million years. Chromosomal syntenic relationships among H. macropterus, H. wyckioides, and Pelteobagrus fulvidraco revealed a one-to-one relationship for most chromosomes, except for break, fission, and inversion of some chromosomes. The first high-quality reference genome will not only provide a valuable genetic resource for the study of sex determination mechanisms and genetic breeding of largefin longbarbel catfish, but also contribute to comparative analyses of genome and chromosome evolution within Siluriformes.

show abstract