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Genome-Wide Microsatellites in Acanthopagrus latus: Development, Distribution, Characterization, and Polymorphism

文献类型： 外文期刊

作者： Peng, Chao 1 ; Luo, Congqiang 1 ; Xiang, Guangqing 2 ; Huang, Jiezhen 2 ; Shao, Liye 1 ; Huang, Haihong 1 ; Fan, Sigang 3 ;

作者机构： 1.Hunan Univ Arts & Sci, Coll Life & Environm Sci, Hunan Prov Key Lab Mol Immun Technol Aquat Anim Di, Changde Key Innovat Team Wetland Biol & Environm E, Changde 415000, Peoples R China

2.Longshan Anim Husb & Fisheries Affairs Ctr, Xiangxi 416800, Peoples R China

3.Chinese Acad Fishery Sci, South China Sea Fisheries Res Inst, Guangdong Prov Key Lab Fishery Ecol & Environm, Guangzhou 510300, Peoples R China

关键词： genome-wide; microsatellite; Acanthopagrus latus; GO; KEGG

期刊名称：ANIMALS （ 影响因子：2.7； 五年影响因子：3.2 ）

ISSN： 2076-2615

年卷期： 2024 年 14 卷 24 期

页码：

收录情况： SCI

摘要： The yellowfin seabream (Acanthopagrus latus) is an economically important commercial mariculture fish in China and Southeast Asia. Only a few simple sequence repeats (SSRs) of A. latus have been isolated and reported, which has hindered breeding progress. A total of 318,862 SSRs were isolated and characterized from the A. latus genome in this study. All SSRs were 9,069,670 bp in length, accounting for 1.32% of the genome. The density and frequency of SSRs were 468.40 loci/Mb and 13,323.19 bp/Mb, respectively. The major SSRs were dinucleotides (accounting for 76.92%), followed by trinucleotides (15.75%). The most abundant SSR motif was (AC)n (168,390, accounting for 53%), with the highest frequency (245.78 loci/Mb) and density (7304.18 bp/Mb). Most SSRs were located in non-coding regions, such as intergenic regions (34.54%) and introns (56.91%). SSR-containing exons were distributed into 51 gene ontology (GO) terms and significantly enriched in immunity- and growth-related pathways. A total of 217,791 SSR markers were successfully designed. Nine SSR markers were amplified in 29 A. latus individuals, and eight of them possess high polymorphism. The cross-species transferability of 33 out of the 37 tested loci were successfully amplified in Acanthopagrus schlegelii. These results lay the foundation for the molecular marker-assisted breeding and genetic information assessment of A. latus.

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