The Chromosome-Scale Genome of Chitala ornata Illuminates the Evolution of Early Teleosts

• Published in: Biology (Basel, Switzerland) Vol. 13; no. 7; p. 478
• Main Authors: Yuan, Zengbao, Song, Yue, Zhang, Suyu, Chen, Yadong, Xu, Mengyang, Fan, Guangyi, Liu, Xin
• Format: Journal Article
• Language: English
• Published: Switzerland MDPI AG 27-06-2024
• Subjects: Annotations; Chitala chitala; Chitala ornata; Chromosomes; conserved elements; Evolution; Evolution & development; Gene deletion; Genes; Genomes; Genomics; Gli3 protein; Osteoglossiformes; pectoral fins; Phylogeny; Proteins; Regulatory sequences; Software; teleost; Zebrafish; United States > US; China; pectoral fins; teleost; conserved elements; Osteoglossiformes
• ISSN: 2079-7737; 2079-7737
• DOI: 10.3390/biology13070478

Teleosts are the most prolific vertebrates, occupying the vast majority of aquatic environments, and their pectoral fins have undergone remarkable physiological transformations throughout their evolution. Studying early teleost fishes, such as those belonging to the Osteoglossiformes order, could offer crucial insights into the adaptive evolution of pectoral fins within this group. In this study, we have assembled a chromosomal-level genome for the Clown featherback (
), achieving the highest quality genome assembly for Osteoglossiformes to date, with a contig N50 of 32.78 Mb and a scaffold N50 of 40.73 Mb. By combining phylogenetic analysis, we determined that the Clown featherback diverged approximately 202 to 203 million years ago (Ma), aligning with continental separation events. Our analysis revealed the intriguing discovery that a unique deletion of regulatory elements is adjacent to the
gene, specifically in teleosts. This deletion might be tied to the specialized adaptation of their pectoral fins. Furthermore, our findings indicate that specific contractions and expansions of transposable elements (TEs) in teleosts, including the Clown featherback, could be connected to their adaptive evolution. In essence, this study not only provides a high-quality genomic resource for Osteoglossiformes but also sheds light on the evolutionary trajectory of early teleosts.