Abstract：To elucidate the current status of germplasm resources of Huangsha strain, a local specialty in Guangxi Zhuang Autonomous Region, of Chinese soft-shelled turtle (Pelodiscus sinensis), genetic structure and genetic germplasm characteristics of the Xijiang Huangsha strain were investigated in 90 samples with body weight from 817 g to 1164 g collected from 3 major production areas including Guiping, Nanning and Yulin using genotyping-by-sequencing (GBS) technology. After strict quality control,235 231 high-quality SNPs were obtained. Genetic parameter analysis (PIC=0.221 4—0.245 3, Ho=0.252 0—0.274 6 and Pi=0.272 8—0.319 3) showed that the genetic diversity of all three populations was at a low level. Fixation index (Fst)<0.05, indicates that there was no significant genetic differentiation in the three populations. Population genetic structure analysis including principal component analysis, phylogenetic tree, shared SNP Venn diagram, and population genetic structure revealed a mixed clustering phenomenon in the three populations, with two subgroups of the optimal genetic structure (K=2). The Nanning population and Yulin population were shown to share the most SNP sites (328 633), indicating that they had the maximal genetic background similarity. Linkage disequilibrium decay (LD dacay) analysis showed that there was the fastest rate of decay in Guiping population. In conclusion, Huangsha populations of Chinese soft-shelled turtle had genetic homogeneity, with the low genetic diversity and weak population differentiation. A genome-wide SNP database was established for Huangsha populations of Chinese soft-shelled turtle for the first time, and the results provide an important scientific basis for the conservation of this characteristic germplasm resource. It is suggested that the genetic diversity of Chinese soft-shelled turtle in Guangxi be maintained through the conservation and development of high-quality and controllable parental seed source strategy.
马远雄, 莫飞龙, 刘康, 韦玲静, 卢玉典, 杨宾兰, 甘宝江, 张盛, 肖珊. 基于基因分型的黄沙鳖遗传结构与种质评估[J]. 水产科学, 2026, 45(3): 405-417.
MA Yuanxiong, MO Feilong, LIU Kang, WEI Lingjing, LU Yudian, YANG Binlan, GAN Baojiang, ZHANG Sheng, XIAO Shan. Genetic Structure and Germplasm Assessment of Chinese Soft-ShelledTurtle Pelodiscus sinensis Based on Genotyping. Fisheries Science, 2026, 45(3): 405-417.
[1] 朱新平,陈辰,黄启成,等.中华鳖“珠水1号”[J].中国水产,2021(5):92-97. [2] 赵忠添,李青,周靓婧,等.黄沙鳖良种选育研究[J].南方农业学报,2011,42(10):1291-1293. [3] 陶弘景(南朝 梁).名医别录[M].北京:北京科学技术出版社,2021:463. [4] 陈寿福,叶香尘,韦玲静,等.桂平黄沙鳖产业发展现状、问题与对策[J].科学养鱼,2022(7):4-5. [5] 谭乃淙,梁联滨,戴治力,等.广西贵港市黄沙鳖产业发展现状、存在问题和对策分析[J].广西畜牧兽医,2023,39(4):170-173. [6] 许飘尹,杨廷雅,胡大胜,等.黄沙鳖β-防御素基因克隆及其表达分析[J].南方农业学报,2020,51(9):2269-2277. [7] 张燕萍,习宏斌,阙江龙,等.赣江中华鳖(♀)、黄沙鳖(♂)及杂交鳖F4代肌肉营养成分分析比较[J].江苏农业科学,2021,49(8):158-162. [8] 荣仕屿,张讯潮,李岚,等.广西稻田鱼鳖混养技术——三江侗族自治县模式[J].广西农学报,2023,38(5):42-45. [9] 吴祥庆,黎小正,兰柳春,等.广西水产品地理标志产品品质分析[J].食品科学,2011,32(18):230-233. [10] 黄胜.苗岭山区斑鳜群体遗传多样性研究[D].贵阳:贵州大学,2020. [11] FISCHER M C, RELLSTAB C, LEUZINGER M, et al. Estimating genomic diversity and population differentiation—an empirical comparison of microsatellite and SNP variation in Arabidopsis halleri[J]. BMC Genomics,2017,18(1):69. [12] 王鹤,李战军,王亮,等.金乌贼微卫星标记开发及两个野生群体遗传多样性比较[J].大连海洋大学学报,2019,34(4):482-491. [13] 邹喻苹,葛颂.新一代分子标记——SNPs及其应用[J].生物多样性,2003,11(5):370-382. [14] PÉREZ-GONZÁLEZ J, CARRANZA J, ANAYA G, et al. Comparative analysis of microsatellite and SNP markers for genetic management of red deer[J]. Animals,2023,13(21):3374. [15] 尤宏争,孟睦涵,马林,等.基于GBS测序的3个野生单环刺螠群体遗传多样性和群体结构分析[J].四川农业大学学报,2024,42(5):1145-1151. [16] 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. [17] NEI M, LI W H. Mathematical model for studying genetic variation in terms of restriction endonucleases[J]. Proceedings of the National Academy of Sciences of the United States of America,1979,76(10):5269-5273. [18] NEI M. Estimation of average heterozygosity and genetic distance from a small number of individuals[J]. Genetics,1978,89(3):583-590. [19] WEIR B S, COCKERHAM C C. Estimating F-statistics for the analysis of population structure[J]. Evolution,1984,38(6):1358-1370. [20] 金方彭,左鹏翔,冷云,等.澜沧裂腹鱼4个地理群体遗传多样性分析[J].水产科学,2022,41(5):851-859. [21] 刘阳,史燕,朱新平,等.中华鳖5个群体遗传多样性的微卫星分析[J].基因组学与应用生物学,2012,31(2):141-146. [22] 陈静,何吉祥,黄龙,等.3个中华鳖群体遗传多样性的微卫星标记分析[J].广东农业科学,2017,44(7):141-146. [23] 高祥刚,鲍相渤,高美玲.基于GBS技术的中华绒螯蟹的遗传特征分析[J].安徽农业科学,2017,45(36):80-82. [24] 于思梦,高磊,王伟,等.辽宁黄渤海沿岸长牡蛎遗传多样性分析[J].经济动物学报,2017,21(4):215-220. [25] 崔同心,刘海洋,张晋,等.基于单核苷酸多态性标记的7个斑鳢野生群体的遗传结构和遗传多样性分析[J].中国水产科学,2024,31(7):829-838. [26] 张嘉丽,罗燕秋,黄怡,等.马氏珠母贝近交与杂交家系的遗传结构比较[J].基因组学与应用生物学,2015,34(4):723-730. [27] 邹杰,彭慧婧,郑德斌,等.广西合浦珠母贝3个不同群体遗传关系分析[J].水产科学,2023,42(3):466-473. [28] 高磊,鲍相渤,于思梦,等.基于GBS技术的黄渤海沿岸托氏琩螺遗传特征分析[J].中国水产科学,2020,27(2):204-212. [29] LIANG Y X, TIAN P, LU Y K, et al. Establishment and population genetic analysis of SNP fingerprinting of Chinese soft-shelled turtle (Pelodiscus sinensis)[J]. Aquaculture Reports,2024,38:102340. [30] ALBERO L, MARTÍNEZ-SOLANO Í, TARROSO P, et al. Traditional agro-livestock areas support functional landscape connectivity for syntopic pond-breeding amphibians in Mediterranean ecosystems[J]. Conservation Genetics,2025,26(4):643-656. [31] 梁宏伟,曹力欢,罗相忠,等.基于线粒体COⅠ基因的中华鳖3个品系遗传多样性分析[J].基因组学与应用生物学,2021,40(9):2908-2915. [32] 肖明松,崔峰,康健,等.长吻鮠养殖群体与野生群体遗传多样性分析[J].水生生物学报,2013,37(1):90-99.
2026, Vol. 45 
