Abstract
Acanthogobius ommaturus is one of the suitable species to study the genetic mechanism of adaptive evolution, but there are few reports on its genetics. In the present study, the genomic survey sequencing method was used to analyze the genome characters of A. ommaturus. A total of 50.50 G high-quality sequence data were obtained in the present study. From the 19-mer distribution frequency, the estimated genome size was 928.01 Mb. The calculated sequence repeat rate was about 38.31%, the heterozygosity was approximately 0.17%, and the GC% content was approximately 40.88%. Moreover, 475,724 simple sequence repeats (SSRs) were identified. Among them, dinucleotide repeats were the most (53.70% of the total SSRs), followed by tri- (35.36%), hexa- (4.59%), tetra- (4.57%) and penta- (1.77%) nucleotide repeats type. This is the first genome-wide feature of this species to be reported.
Highlights
Acanthogobius ommaturus belongs to the order Perciformes, Gobioidei, Gobiidae and Acanthogobius
A 350-bp insert library was constructed using the genomic DNA of the A. ommaturus sample, which was sequenced and filtered on the Illumina sequencing platform
Genome survey sequencing yielded a total of 50.50 Gb high-quality data, which were used for subsequent K-mer analysis
Summary
Acanthogobius ommaturus belongs to the order Perciformes, Gobioidei, Gobiidae and Acanthogobius It is a large-body goby fish distributed in the subsea or brackish waters of China, Korea, Japan and Indonesia [1]. High-throughput next-generation sequencing (NGS) is the main method of genome investigation, which is an important and effective strategy to generate genetic and genomic information [11]. In the present study, based on high-throughput sequencing, K-mer analysis was used to investigate the genomic characteristics of A. ommaturus and give profile of its microsatellite primers. The results of the present study will provide theoretical basis for the subsequent development of the whole genome de novo sequencing assembly strategy [11,19], and can be used to describe the genetic background of many other marine animals [11,20,21,22]. The draft genome that is obtained by this sequencing is conducive to the detecting of SNP loci
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