A First Insight into a Draft Genome of Silver Sillago (Sillago sihama) via Genome Survey Sequencing

• Published in: Animals (Basel) Vol. 9; no. 10; p. 756
• Main Authors: Li, Zhiyuan, Tian, Changxu, Huang, Yang, Lin, Xinghua, Wang, Yaorong, Jiang, Dongneng, Zhu, Chunhua, Chen, Huapu, Li, Guangli
• Format: Journal Article
• Language: English
• Published: Basel MDPI AG 01.10.2019; MDPI
• Subjects: Anopheles; Aquaculture; Aquaculture industry; Communication; Cytosine; Deoxyribonucleic acid; DNA; DNA sequencing; Economic importance; Frequency distribution; Genetic aspects; genome size; Genomes; Genomics; Guanine; guanine and cytosine (gc) content; Heterozygosity; Identification; Methods; Next-generation sequencing; Nucleotide sequence; Phylogenetics; Polls & surveys; Purines; Pyrimidines; Seafood; Sillaginids; Sillago sihama; simple sequence repeat (ssr); Simple sequence repeats; Software; Technology; China
• ISSN: 2076-2615; 2076-2615
• DOI: 10.3390/ani9100756

Sillago sihama has high economic value and is one of the most attractive aquaculture species in China. Despite its economic importance, studies of its genome have barely been performed. In this study, we conducted a first genomic survey of S. sihama using next-generation sequencing (NGS). In total, 45.063 Gb of high-quality sequence data were obtained. For the 17-mer frequency distribution, the genome size was estimated to be 508.50 Mb. The sequence repeat ratio was calculated to be 21.25%, and the heterozygosity ratio was 0.92%. Reads were assembled into 1,009,363 contigs, with a N50 length of 1362 bp, and then into 814,219 scaffolds, with a N50 length of 2173 bp. The average Guanine and Cytosine (GC) content was 45.04%. Dinucleotide repeats (56.55%) were the dominant form of simple sequence repeats (SSR).