AI Article Synopsis
- The study conducted a genome survey of the fish species Sillago sihama using Illumina sequencing, yielding a clean genome size of 522.6 Mb with detailed genetic characteristics.
- A total of 630,028 microsatellites were identified, with dinucleotide repeats being the most common, and 15 polymorphic microsatellite loci were developed for studying a wild population of this species.
- Statistical analysis revealed a range of genetic diversity in terms of allele numbers and heterozygosity, with several loci showing significant deviation from Hardy-Weinberg equilibrium, indicating a rich resource for future genetic research on S. sihama.
Article Abstract
In this study, we first conducted a genome survey assay for Sillago sihama by Illumina sequencing platform, and then developed 15 polymorphic microsatellite loci in a wild population. A total of 129.46 Gb raw data were obtained, of which 115.07 Gb were clean data, with a sequencing depth of 179.3-folds. This genome was estimated to be 522.6 Mb in size, with the heterozygosity, repeat content and GC content being 0.63%, 21% and 44%. A total of 630,028 microsatellites were identified from the genome, of which, dinucleotide repeat was the most abundant (56.80%), followed by mononucleotide repeat (30.23%). Furthermore, 60 pairs of primers were designed and synthesized based on microsatellite sequences, of which 15 were polymorphic in a wild population. A total of 91 alleles were found, with an average of 6.07 per locus. Number of alleles, observed and expected heterozygosity per locus ranged from two to 13, from 0.250 to 0.862, and from 0.396 to 0.901, respectively. Twelve loci were highly informative (PIC > 0.5), and the others were medium informative (0.25 < PIC < 0.5). Seven loci deviated from Hardy-Weinberg equilibrium after Bonferroni correction (P < 0.0033). No significant linkage disequilibrium was detected between loci pairs. This study provided a large number of genomic resources and 15 polymorphic microsatellite loci that should be helpful for the further genetic studies in S. sihama.
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