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A comprehensive genome survey study unveils the genomic characteristics and phylogenetic evolution of fishes in the Uranoscopidae family

Qi Liu; Xiang Zhao; Yinquan Qu; Yiting Wang; Xingle Guo; Wenyu Li; Tianxiang Gao; Ying Qiao
Frontiers in Marine Science · Vol. 11 · 2024

Abstract

The construction of high-quality genomes is fundamental for molecular studies of species. Currently, there are no published genome sequences within the Uranoscopidae family, and research on the genomic characteristics of this family is lacking. In this study, genomic analyses of seven species from the Uranoscopidae family which captured from the southeastern coast of China were conducted using next-generation sequencing technology. The results revealed that the genomic characteristics of the seven species are relatively similar. The genome sizes of the seven Uranoscopidae species ranged from 536.00 Mb to 652.49 Mb, with repeat sequence proportions between 20.09% and 36.64%, and heterozygosity levels ranging from 0.41% to 0.88%. The assembled draft genomes exhibited GC contents of these species ranging from approximately 42.14% to 43.53%. Furthermore, the mitochondrial sequences for the seven species were assembled, with sizes ranging from 14,966 to 18,446 bp. The evolutionary relationships between different species were depicted through the mapping of conserved genes, whole-genome variances and mitochondrial genome sequences. Besides, the historical effective population sizes of all species experienced rapid expansion after the Last Interglacial Period, with three species undergoing bottleneck effects. In conclusion, this study provides a reference for the subsequent construction of high-quality genomes for species within the Uranoscopidae family and offers a rich data resource for further evolutionary research.

Bibliographic Information

JournalFrontiers in Marine Science
PublisherFrontiers
Publication Date2024-05-21
Publication Year2024
Volume11
Document TypeJournal Article
eISSN2296-7745
DOI10.3389/fmars.2024.1383635
SubjectMarine science; fisheries; aquaculture; pollution; ocean observation; policy

Access Information

NARA Access CoverageOA / free full text
Journal Homepagehttps://www.frontiersin.org/journals/marine-science
Publisher PageOpen Publisher Page
This article is openly available from the publisher.