Abstract：Utilizing filefish Thamnaconus modestus complete genome sequence published in NCBI database, we screened microsatellite loci in the genome and designed primer pairs. Among 50 microsatellite loci selected randomly, 20 novel loci amplified target products efficiently and steadily and the 20 microsatellite markers were evaluated using a wild filefish population. The number of allele (Na) and effective allele (Ne) for these markers was found to be ranged from 4 to 13 and from 3.758 to 12.000 per locus, the observed heterozygosity (Ho) and expected heterozygosity (He) values were ranged from 0.267 to 0.833 and from 0.413 to 0.932, respectively, polymorphism information content (PIC) ranged from 0.361 to 0.910, and the Shannon-Weiner′s diversity index ranged from 0.806 to 2.520. Comparison of genetic diversity was conducted between the wild and cultured populations, the average Na and Ne were 8.2 and 7.3; the average Ne were 7.168 and 6.239; the average Ho and He were 0.663 and 0.561; the average PIC were 0.780 and 0.684; the average value of Shannon-Weiner′s diversity index were 1.914 and 1.647. The high-genetic diversity was shown to be maintained in the cultured population while polymorphism of the cultured population was lower than the wild, indicating that artificial breeding had a certain impact on the genetic diversity of the cultured population. The microsatellite markers developed in the present research could be used in population genetics and molecular marker-assisted selection for the filefish, and the findings provided theoretical basis of resources conservation and genetic breeding for T. modestus.
[1] 郑元甲.东海区马面鲀资源变动及其原因的初步研究[J].中国水产科学,1997,4(4):18-24. [2] 姜良龙,张哲,王臻,等.绿鳍马面鲀工厂化早繁苗种培育关键技术[J].水产科学,2021,40(6):801-809. [3] 张立宁,邵鑫斌,单乐州,等.绿鳍马面鲀规模化人工繁育技术[J].水产科技情报,2020,47(5):258-260. [4] 秦忆芹.东海外海绿鳍马面鲀摄食习性的研究[J].水产学报,1981,5(3):245-251. [5] 温海深,陈志信,张家男,等.绿鳍马面鲀仔鱼和稚鱼培育技术研究[J].水产养殖,2010,31(12):34-35. [6] 张哲,姜良龙,王臻,等.绿鳍马面鲀早期生长发育与摄食特性的研究[J].海洋科学,2021,45(1):1-13. [7] BIAN L, LI F H, GE J L, et al. Chromosome-level genome assembly of the greenfin horse-faced filefish (Thamnaconus septentrionalis) using Oxford Nanopore Promethion sequencing and Hi-C technology[J]. Molecular Ecology Resources, 2020, 20(4): 1069-1079. [8] ELLEGREN H. Microsatellites:simple sequences with complex evolution[J].Nature Reviews Genetics,2004,5(6):435-445. [9] 杨万云,郑军军,贾博寅,等.微卫星分子标记及其在动物遗传育种中的研究进展[J].基因组学与应用生物学,2017,36(11):4644-4649. [10] GUO X, LI Q, WANG Q Z, et al. Genetic mapping and QTL analysis of growth-related traits in the Pacific oyster[J].Marine Biotechnology,2012,14(2):218-226. [11] XU G B, TIAN Y S, LIAO X L, et al. Isolation and characterization of polymorphic microsatellite loci from bluefin leatherjacket (Navodon septentrionalis Gunther, 1877)[J].Conservation Genetics,2009,10(4):1181-1184. [12] XU G B, CHEN S L, TIAN Y S. New polymorphic microsatellite markers for bluefin leatherjacket (Navodon septentrionalis Gunther,1877)[J].Conservation Genetics,2010,11(3):1111-1113. [13] AN H S, KIM E M, LEE J W, et al. Novel polymorphic microsatellite loci for the Korean black scraper (Thamnaconus modestus),and their application to the genetic characterization of wild and farmed populations[J].International Journal of Molecular Sciences,2011,12(6):4104-4119. [14] AN H S, LEE J W, DONG C M, et al. Development and characterization of microsatellite markers for genetic analysis of the Korean black scraper,Thamnaconus modestus[J].Genes & Genomics,2011,33(5):499-504. [15] 于红.牡蛎良种选育的遗传学基础研究[D].青岛:中国海洋大学,2010:13-15. [16] 王九龙,李洪莉,尹硕,等.绿鳍马面鲀全基因组微卫星分布特征[J].烟台大学学报(自然科学与工程版),2022,35(3):285-293. [17] 王娟娟,赵明,韩雨威,等.微卫星DNA标记开发技术进展及其在经济植物研究中的应用[J].生命科学研究,2016,20(3):260-266. [18] YU H, LI Q. Exploiting EST databases for the development and characterization of EST-SSRs in the Pacific oyster (Crassostrea gigas)[J].Journal of Heredity,2008,99(2):208-214. [19] BABU B K, RANI K L M, SAHU S, et al. Development and validation of whole genome-wide and genic microsatellite markers in oil palm (Elaeis guineensis Jacq.):first microsatellite database (OpSatdb)[J].Scientific Reports,2019,9:1899. [20] TAHERI S, LEE ABDULLAH T, YUSOP M, et al.Mining and development of novel SSR markers using next generation sequencing (NGS) data in plants[J].Molecules,2018,23(2):399. [21] TEHRANI M S, MARDI M, SAHEBI J, et al. Genetic diversity and structure among Iranian tall fescue populations based on genomic-SSR and EST-SSR marker analysis[J].Plant Systematics and Evolution,2009,282(1):57-70. [22] WANG J L, LI Q, ZHANG J X, et al. High macro-collinearity between Crassostrea angulata and C. gigas genomes was revealed by comparative genetic mapping with transferable EST-SNP markers[J].Aquaculture,2021,545:737183. [23] KONG L F, BAI J, LI Q. Comparative assessment of genomic SSR,EST-SSR and EST-SNP markers for evaluation of the genetic diversity of wild and cultured Pacific oyster,Crassostrea gigas Thunberg[J].Aquaculture,2014,420/421:S85-S91. [24] WEBER J L. Informativeness of human (dC-dA)n·(dG-dT)n polymorphisms[J]. Genomics, 1990, 7(4): 524-530. [25] 韩承慧,马海涛,姜海滨,等.许氏平鲉(Sebastes schlegeli)微卫星标记开发及野生、养殖群体遗传多样性分析[J].海洋与湖沼,2016,47(1):213-220. [26] 吕建建,王渝,高保全,等.三疣梭子蟹Ⅰ型微卫星标记的发掘及多态性分析[J].水产学报,2013,37(6):816-822. [27] GROENEVELD L F, LENSTRA J A, EDING H, et al.Genetic diversity in farm animals-a review[J].Animal Genetics,2010,41:6-31. [28] VOETEN R L C, VENTOURI I K, HASELBERG R, et al. Capillary electrophoresis:trends and recent advances[J].Analytical Chemistry,2018,90(3):1464-1481. [29] BOTSTEIN D, WHITE R L, SKOLNICK M, et al. Construction of a genetic linkage map in man using restriction fragment length polymorphisms[J].American Journal of Human Genetics,1980,32(3):314-331. [30] 边力,王鹏飞,陈四清,等.基于线粒体Cyt b基因序列的绿鳍马面鲀6个野生群体的遗传结构分析[J].中国水产科学,2018,25(4):827-836. [31] YANG T Y, WANG Z Y, LIU Y, et al. Population genetics and molecular phylogeography of Thamnaconus modestus(Tetraodontiformes,Monachanthidae) in Northwestern Pacific inferred from variation of the mtDNA control region[J].Aquatic Living Resources,2019,32:18. [32] CHEN B W, COLE J W, GROND-GINSBACH C. Departure from hardy Weinberg equilibrium and genotyping error[J].Frontiers in Genetics,2017,8:167.
2024, Vol. 43 
