Genetic diversity analysis of three Opsariichthys bidens populations in Zhejiang Province based on mitochondrial Cyt b gene sequences

doi:10.3969/j.issn.1004-1524.2023.02.06

Acta Agriculturae Zhejiangensis ›› 2023, Vol. 35 ›› Issue (2): 293-300.DOI: 10.3969/j.issn.1004-1524.2023.02.06

• Animal Science • Previous Articles Next Articles

Genetic diversity analysis of three Opsariichthys bidens populations in Zhejiang Province based on mitochondrial Cyt b gene sequences

LIU Shili¹^,²(), LIAN Qingping¹^,², JIA Yongyi¹, CHI Meili¹, LI Fei¹, JIANG Jianhu¹, LIU Yinuo¹, ZHENG Jianbo¹, CHENG Shun¹, GU Zhimin¹^,^*()

1. Key Laboratory of Healthy Freshwater Aquaculture, Ministry of Agriculture and Rural Affairs / Key Laboratory of Freshwater Aquatic Animal Genetic and Breeding of Zhejiang Province, Zhejiang Institute of Freshwater Fisheries, Huzhou 313001, Zhejiang, China
2. Key Laboratory of Exploration and Utilization of Aquatic Genetic Resources, Ministry of Agriculture and Rural Affairs, Shanghai Ocean University, Shanghai 201306, China

Received:2021-11-05 Online:2023-02-25 Published:2023-03-14
Contact: GU Zhimin

Abstract

Abstract:

To further understand the status of germplasm resources and impact of artificial reproduction on population genetic structure of Opsariichthys bidens in Zhejiang Province, the mitochondrial Cyt b gene of Qiantang River (QT), Oujiang (OJ), and a cultured population from Balidian (BL) were amplified and determined. The 1 140 bp Cyt b gene sequence was obtained, and analyzed with the sequences of 236 individuals in GenBank. In these sequences, 288 variation sites were detected and 136 haplotypes were defined. The haplotype numbers of OJ, QT and BL populations were 1, 10 and 6, respectively. The haplotype diversity and nucleotide diversity of QT population were 0.716 and 0.016 16 respectively, while that of BL population were 0.607 and 0.012 05. The molecular variance analysis (AMOVA) showed that the genetic differences in Opsariichthys bidens were primarily derived from inter populations (55.06%) and minority from intra populations (44.94%), there was significant genetic differentiation among these populations (P<0.05). The stock of BL population came from QT, but its genetic diversity decreased after several generations of artificial reproduction. Phylogenetic tree constructed by the neighbor-joining method demonstrated that QT population could be divided into three branches: one branch was clustered with the haplotypes collected from Hunan of the Yangtze River system, and 63.64% of QT individuals belonged to this branch; the second branch was clustered with the haplotypes collected from Guangxi of the Pearl River System, 9.38% of the individuals belonged to this branch, and the remaining samples of QT and all the samples collected from OJ of Zhejiang were clustered into the third branch. This indicates that the ancestral origin of QT population is complex. This study provides reference for the protection and utilization of its germplasm resources.

Key words: Opsariichthys bidens, Cyt b, genetic diversity

CLC Number:

S965

LIU Shili, LIAN Qingping, JIA Yongyi, CHI Meili, LI Fei, JIANG Jianhu, LIU Yinuo, ZHENG Jianbo, CHENG Shun, GU Zhimin. Genetic diversity analysis of three Opsariichthys bidens populations in Zhejiang Province based on mitochondrial Cyt b gene sequences[J]. Acta Agriculturae Zhejiangensis, 2023, 35(2): 293-300.

Figures/Tables 7

References 20

[1]	金柏, 金克伟. 铁甲水库马口鱼生物学的初步研究[J]. 水产科学, 1985, 4(4): 8-12.
	JIN B, JIN K W. Preliminary study on biology of Opsariichthys bidens in Tiejia Reservoir[J]. Fisheries Science, 1985, 4(4): 8-12. (in Chinese)
[2]	母丹利, 袁思平, 薛聪顺, 等. 马口鱼消化道的形态及组织学结构特征[J]. 宁波大学学报(理工版), 2016, 29(3): 39-44.
	MU D L, YUAN S P, XUE C S, et al. Morphological and histological structural feature of digestive tract in Opsariichthys bidens[J]. Journal of Ningbo University(Natural Science & Engineering Edition), 2016, 29(3): 39-44. (in Chinese with English abstract)
[3]	金丹璐, 张清科, 王友发, 等. 鲤科经济鱼类马口鱼(Opsariichthys bidens)胚胎发育及仔稚鱼形态与生长观察研究[J]. 海洋与湖沼, 2017, 48(4): 838-847.
	JIN D L, ZHANG Q K, WANG Y F, et al. Observation of embryonic, larva and juvenile development of Opsariichthys bidens[J]. Oceanologia et Limnologia Sinica, 2017, 48(4): 838-847. (in Chinese with English abstract)
[4]	张胜金戈, 文志安, 段鹏翔, 等. 南方马口鱼人工繁育技术[J]. 海洋与渔业, 2017(11): 64-66.
	ZHANG S J G, WEN Z A, DUAN P X, et al. The artificial breeding technology of Opsariichthys bidens in southern China[J]. Ocean & Fishery, 2017(11): 64-66. (in Chinese)
[5]	练青平, 张任驰, 宓国强, 等. 马口鱼规模化人工繁殖技术的初步研究[J]. 浙江海洋大学学报(自然科学版), 2017, 36(5): 409-413.
	LIAN Q P, ZHANG R C, MI G Q, et al. Preliminary study on large-scale of artificial propagation techniques of Opsariichthys bidens[J]. Journal of Zhejiang Ocean University (Natural Science), 2017, 36(5): 409-413. (in Chinese with English abstract)
[6]	董新培, 武小斌, 万海付, 等. 河北3个日本沼虾野生群体线粒体DNA D-Loop基因序列变异及种群遗传结构分析[J]. 水产学报, 2017, 41(2): 182-188.
	DONG X P, WU X B, WAN H F, et al. Genetic variation analysis of three wild populations of Oriental River prawn (Macrobrachium nipponense) in Hebei Province with mtDNA D-Loop sequences[J]. Journal of Fisheries of China, 2017, 41(2): 182-188. (in Chinese with English abstract)
[7]	冯建彬, 孙悦娜, 程熙, 等. 我国五大淡水湖日本沼虾线粒体COI基因部分片段序列比较[J]. 水产学报, 2008, 32(4): 517-525.
	FENG J B, SUN Y N, CHENG X, et al. Sequence analysis of mitochondrial COI gene of Macrobrachium nipponense from the five largest freshwater lakes in China[J]. Journal of Fisheries of China, 2008, 32(4): 517-525. (in Chinese with English abstract)
[8]	李大命, 唐晟凯, 刘燕山, 等. 基于线粒体COⅠ基因序列的江苏省4个太湖新银鱼群体遗传多样性分析[J]. 海洋渔业, 2020, 42(3): 277-286.
	LI D M, TANG S K, LIU Y S, et al. Genetic diversity analysis of four Neosalanx taihuensis populations in Jiangsu Province based on mitochondrial COⅠ gene sequences[J]. Marine Fisheries, 2020, 42(3): 277-286. (in Chinese with English abstract)
[9]	张东亚, 汪登强, 刘绍平, 等. 怒江濒危鱼类缺须盆唇鱼基于线粒体Cyt b序列的群体遗传结构分析[J]. 中国水产科学, 2009, 16(4): 477-486.
	ZHANG D Y, WANG D Q, LIU S P, et al. Population genetic structure analysis of endangered species Placocheilus cryptonemus in the Nujiang River based on Cyt b sequences of mtDNA[J]. Journal of Fishery Sciences of China, 2009, 16(4): 477-486. (in Chinese with English abstract)
[10]	ZARDOYA R, MEYER A. Phylogenetic performance of mitochondrial protein-coding genes in resolving relationships among vertebrates[J]. Molecular Biology and Evolution, 1996, 13(7): 933-942.
[11]	高嘉昕, 俞丹, 刘焕章. 基于cyt b基因的长江中上游大鳞马口鱼遗传多样性及谱系生物地理学过程分析[J]. 四川动物, 2021, 40(4): 361-373.
	GAO J X, YU D, LIU H Z. Genetic diversity and phylogeography of Opsariichthys macrolepis from the upper and middle Yangtze River based on cytochrome b sequences[J]. Sichuan Journal of Zoology, 2021, 40(4): 361-373. (in Chinese with English abstract)
[12]	PERDICES A, SAYANDA D, COELHO M M. Mitochondrial diversity of Opsariichthys bidens(Teleostei, Cyprinidae) in three Chinese drainages[J]. Molecular Phylogenetics and Evolution, 2005, 37(3): 920-927.
[13]	LI G Y, WANG X Z, ZHAO Y H, et al. Speciation and phytogeography of Opsariichthys bidens(Pisces: Cypriniformes: Cyprinidae) in China: Analysis of the Cytochrome b Gene of mtDNA from diverse populations[J]. Zoological Studies, 2009, 48(4): 569-583.
[14]	邓艳, 王雪, 林鹏程, 等. 伊洛河马口鱼遗传差异及其种群分化研究[J]. 水生生物学报, 2020, 44(2): 339-345.
	DENG Y, WANG X, LIN P C, et al. Genetic divergence and population differentiation analysis of Opsariichthys bidens from yiluo he[J]. Acta Hydrobiologica Sinica, 2020, 44(2): 339-345. (in Chinese with English abstract)
[15]	刘士力, 贾永义, 迟美丽, 等. 浙江3个河川沙塘鳢群体线粒体16S rRNA基因序列的研究[J]. 基因组学与应用生物学, 2018, 37(11): 4742-4748.
	LIU S L, JIA Y Y, CHI M L, et al. Research on mitochondrial 16S rRNA genetic sequence from three populations of Odontobutis potamophila in Zhejiang Province[J]. Genomics and Applied Biology, 2018, 37(11): 4742-4748. (in Chinese with English abstract)
[16]	鲁翠云, 陈昕, 那荣滨, 等. 用Cyt b基因分析松嫩平原区湖泊水库大银鱼的遗传多样性[J]. 水产学杂志, 2020, 33(5): 1-6.
	LU C Y, CHEN X, NA R B, et al. Genetic diversity of clearhead icefish(Protosalanx hyalocranius)in lakes and reservoirs of Songnen Plain by Cyt b gene[J]. Chinese Journal of Fisheries, 2020, 33(5): 1-6. (in Chinese with English abstract)
[17]	隋宥珍, 刘连为, 徐开达, 等. 基于线粒体Cyt b基因的口虾蛄种群遗传结构研究[J]. 大连海洋大学学报, 2019, 34(3): 355-361.
	SUI Y Z, LIU L W, XU K D, et al. Population genetic structure of Mantis shrimp Oratosquilla oratoria based on the partial mitochondrial DNA cytochrome b gene[J]. Journal of Dalian Ocean University, 2019, 34(3): 355-361. (in Chinese with English abstract)
[18]	GRANT W, BOWEN B. Shallow population histories in deep evolutionary lineages of marine fishes: insights from sardines and anchovies and lessons for conservation[J]. Journal of Heredity, 1998, 89(5): 415-426.
[19]	SHAKLEE J B, TAMARU C S, WAPLES R S. Speciation and evolution of marine fishes studied by the electrophoretic analysis of proteins[J]. Pacific Science, 1982, 36(2): 141-157.
[20]	WRIGHT S. Evolution and the genetics of population, variability within and among natural populations[M]. Chicago: The University of Chicago Press, 1978.

群体 Population	碱基Base
群体 Population	A	G	T	C	A+T	C+G
瓯江Oujiang	24.3	16.7	29.5	29.6	53.8	46.3
钱塘江Qiantang River	24.2	16.7	29.4	29.7	53.6	46.4
八里店Balidian	24.4	16.6	29.6	29.5	54.0	46.1

群体 Population	碱基Base
群体 Population	A	G	T	C	A+T	C+G
瓯江Oujiang	24.3	16.7	29.5	29.6	53.8	46.3
钱塘江Qiantang River	24.2	16.7	29.4	29.7	53.6	46.4
八里店Balidian	24.4	16.6	29.6	29.5	54.0	46.1

单倍型 Haplotype	瓯江 Oujiang	钱塘江 Qiantang River	八里店 Balidian	总计 Total
Hap1	33	0	0	33
Hap2	0	17	1	18
Hap3	0	5	19	24
Hap4	0	1	0	1
Hap5	0	1	0	1
Hap6	0	3	0	3
Hap7	0	2	0	2
Hap8	0	1	0	1
Hap9	0	1	0	1
Hap10	0	1	0	1
Hap11	0	1	3	4
Hap12	0	0	7	7
Hap13	0	0	1	1
Hap14	0	0	1	1

单倍型 Haplotype	瓯江 Oujiang	钱塘江 Qiantang River	八里店 Balidian	总计 Total
Hap1	33	0	0	33
Hap2	0	17	1	18
Hap3	0	5	19	24
Hap4	0	1	0	1
Hap5	0	1	0	1
Hap6	0	3	0	3
Hap7	0	2	0	2
Hap8	0	1	0	1
Hap9	0	1	0	1
Hap10	0	1	0	1
Hap11	0	1	3	4
Hap12	0	0	7	7
Hap13	0	0	1	1
Hap14	0	0	1	1

群体 Population	样本数/个 Sample size	变异位点/个 Variable sites	单倍型数/个 Number of haplotypes	单倍型多样性 Haplotype diversity (h)	核苷酸多样性 Nucleotide diversity (π)	Tajima’s D	P	Fu’s Fs	P
瓯江Oujiang	33	0	1	0	0	0	1.000	0	N.A.
钱塘江	33	52	10	0.716	0.016 16	1.610 20	0.925	9.297 38	0.999
Qiantang River
八里店Balidian	32	51	6	0.607	0.012 05	0.230 24	0.637	12.905 59	1.000
总体Total	334	288	130	0.968	0.060 17

Genetic diversity analysis of three Opsariichthys bidens populations in Zhejiang Province based on mitochondrial Cyt b gene sequences

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变异来源 Source of variation	自由度 Degree of freedom	方差总和 Sum of squares	变异组分 Variance components	变异百分比 Percentage of variation /%	遗传分化指数 Fst
群体间Among populations	2	434.558	6.489 89 Va	55.06	0.550 55
群体内Within populations	95	503.319	5.298 10 Vb	44.94
总计Total	97	937.878	11.787 99

群体 Population	瓯江 Oujiang	钱塘江 Qiantang River	八里店 Balidian
瓯江Oujiang		0.696 61	0.504 80
钱塘江Qiantang River	0.027 505		0.402 95
八里店Balidian	0.012 072	0.024 195

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