Whole-Genome survey and microsatellite analysis of spotbanded scat Selenotoca multifasciata

Abstract

In this study, we conducted a comprehensive genome survey of Selenotoca multifasciata using Illumina short-read sequencing technology. A total of 51.63 Gb of high-quality clean sequencing data were generated, with Q20 and Q30 values reaching 98.77% and 96.64%, respectively. The 42.59 Gb of clean reads were assembled into 551,813 contigs (587.82 Mb) and 431,116 scaffolds (593.38 Mb). 17-mer frequency analysis estimated a genome size of 575.38 Mb, with 42.20% GC content, 0.43% heterozygosity, and 25.97% repeat ratio. 214,419 SSR loci were detected genome-wide, with dinucleotide repeats being the most prevalent type (80.49%) and AC/AG as the dominant motifs. Among 53 tested markers, 30 produced clear and stable bands, and 9 polymorphic loci were applied to assess the genetic diversity of a wild S. multifasciata population from Zhanjiang Bay. These results provide a valuable genomic basis for whole-genome sequencing and molecular marker development in S. multifasciata and related Scatophagidae species.