基于线粒体细胞色素b的秋刀鱼种群遗传结构的研究
|
摘要
秋刀鱼主要分布在西北太平洋亚热带到温带水域中,是一种资源量较高的上层洄游性鱼类。为了对秋刀鱼的遗传结构进行研究,2016年6月-11月,在38°38′-44°31′N,146°36′-162°26′E海域随机取145条秋刀鱼,取其肌肉与DNA、PCR以及测序后获得421 bp基于线粒体细胞色素b (Cytb)基因的DNA序列。分析结果显示,145条序列中共发现了15个单倍型,单倍型多样性指数h=0.258±0.049,核苷酸多样性π=0.000 87±0.007 56。计算得出Tajima′s D与Fu′s Fs均呈负值并且绘制的核苷酸不配对曲线呈现单峰,可得出秋刀鱼群体经历了种群扩张。Nm值表明4个采样点的秋刀鱼群体之间存在频繁的基因交流,AMOVA分析结果显示97.22%的遗传变异来自群体内,结合遗传分化系数Fst得出群体遗传分化水平较低。单倍型网络图呈现星状拓扑结构、系统发育树分枝不明显均显示地域性差异不显著。研究发现秋刀鱼群体遗传多样性较低,需对其进行合理保护。
Saury, a high-capacity upper migratory fish, is mainly distributed in the subtropical to temperate waters of the Northwestern Pacific. From June 2016 to November 2016, 145 random samplings was performed in sea area at 38°38′-44°31′N,146° 36′-162° 26′ E, Taking DNA from the muscle, the mitochondrial were found in 145 sequences. with the haplotype diversity index h =0.258 ±0.049, and the nucleotide diversity index π = 0.000 87 ± 0.007 56. It was calculated that both Tajima′s D and Fu′s Fs were negative and the nucleotide unpaired curve was a single peak, which indicated that the saury population experienced population expansion. Fstanalysis of gene exchange and poor differentiation coefficient indicated that there were frequent gene exchanges between the saury populations at the four sampling points. The results of AMOVA analysis showed that 97.22 % of the genetic variation came from the population, and the genetic differentiation of the population was not significant. The haplotype network diagram presented a star-like topology, and the phylogenetic tree branches were not obvious, and the regional differences were not significant. In this study, it was found that the saury population had low genetic diversity and needed to be protected reasonably.
Saury, a high-capacity upper migratory fish, is mainly distributed in the subtropical to temperate waters of the Northwestern Pacific. From June 2016 to November 2016, 145 random samplings was performed in sea area at 38°38′-44°31′N,146° 36′-162° 26′ E, Taking DNA from the muscle, the mitochondrial were found in 145 sequences. with the haplotype diversity index h =0.258 ±0.049, and the nucleotide diversity index π = 0.000 87 ± 0.007 56. It was calculated that both Tajima′s D and Fu′s Fs were negative and the nucleotide unpaired curve was a single peak, which indicated that the saury population experienced population expansion. Fstanalysis of gene exchange and poor differentiation coefficient indicated that there were frequent gene exchanges between the saury populations at the four sampling points. The results of AMOVA analysis showed that 97.22 % of the genetic variation came from the population, and the genetic differentiation of the population was not significant. The haplotype network diagram presented a star-like topology, and the phylogenetic tree branches were not obvious, and the regional differences were not significant. In this study, it was found that the saury population had low genetic diversity and needed to be protected reasonably.
引文
Chow S,Suzuki N,Brodeur R D,et al,2009.Little population structuring and recent evolution of the Pacific saury(Cololabis saira)as indicated by mitochondrial and nuclear DNA sequence data.Journal of Experimental Marine Biology&Ecology,369(1):17-21.
Frankham R,2003.Genetics and conservation biology.Comptes Rendus Biologies,326(S1):22-29.
Gray M W,Burger G,Lang B F,1999.Mitochondrial evolution.Science,283(5407):1476-1481.
Hassanin A,Douzery E J P,1999.Evolutionary affinities of theenigmatic saola(Pseudoryx nghetinhensis)in the context of the molecular phylogeny of Bovidae.Proceedings of Royal SocietyLondon,266(1422):893-900.
Lau C H,Drinkwater R D,Yusoff K,et al,1998.Genetic diversityof Asian water buffalo(Bubalus bubalis):mitochondrial DNAD-loop and cytochrome b sequence variation.Animenet,29(4):253-264.
Loeschcke V,Tomiuk J,Jian S K,1994.Conservation Genetics,Basel:Birkhuser Verlag,37-53.
Michael M M,Susan M T,Philip J L,1989.Systematic relationshipin the artiodactyls tribe bovini(family Bovidae),as determined from mitochondrial DNA sequences.Systematic Zoology,38(4):342-349.
Meng W,Guo Y,Haisa,et al,2012.Genetic structure and diversity of Schizothorax biddulphi populations.Acta Hydrobi ologica Sinica,36(5):851-857.
Suyama S,Oshima K,Nakagami M,et al,2009.Seasonal change in the relationship between otolith radius and body length in age-zero Pacific saury Cololabis saira.Fisheries Science,75(2):325-333.
Su B,Fu Y,Wang Y,et al,2001.Genetic diversity and population history of the red panda(Ailurus fulgens)as inferred from mitochondrial DNA sequence variations.Molecular Biology and Evolution,18(6):1070-1076.
Tian Y,Ueno Y,Suda M,et al.Climate-ocean variability and the response of Pacific saury(Cololabis saira)in the northwestern Pacific during the last half century[J].Fisheries science,2002,68(sup1):158-161.
Wang P X,1999.Response of western Pacific marginal seas to glacial cycles:paleoceanographic and sedimentological features.Marine Geology,156(1-4):5-39.
Zhang E.Phylogenetic relationships of the endemic chinesecyprinid fish Pseudogrincheilus procheiluys.Zoological Research,15:26-35.
高玉珍,2016.西北太平洋秋刀鱼耳石微结构及其年龄与生长.上海:上海海洋大学.
黄洪亮,张勋,徐宝生,等,2005.北太平洋公海秋刀鱼渔场初步分析.海洋渔业,27(3):206-212.
贾超峰,刘海林,许津,等,2017.大黄鱼种质遗传多样性研究进展.海洋通报,36(1):12-18
李小兵,唐琼英,俞丹,等,2018.基于线粒体细胞色素b基因序列探讨长江流域斑点蛇种群遗传结构和地理分化.四川动物,(3):17-25.
李渝成,李康,蒋建桥,等,1986.中国鲤科鱼类染色体组型的研究X.鲃亚科五种鱼和鮈亚科四种鱼的染色体组型.动物学研究,7(2):183-189.
李文静,王环珊.赤水河半鳆的遗传多样性和种群历史动态分析.水生生物学报,1000-3207(2018)01-0106-08.
刘连为,周永东,陆化杰,等,2017.西北太平洋鸢乌贼种群遗传结构.水产学报,41(9):1355-1364.
李伟文,许强华,陈新军,等,2014.基于线粒体控制区的中部太平洋黄鳍金枪鱼种群遗传结构的研究.上海海洋大学学报,23(5):782-788.
孙满昌,叶旭昌,张健,等,2003.西北太平洋秋刀鱼渔业探析.海洋渔业,25(3):112-115.
沈建华,韩士鑫,樊伟,等,2004.西北太平洋秋刀鱼资源及其渔场.海洋渔业,26(1):61-65.
司从利,章群,马奔,等,2012.基于线粒体细胞色素b基因序列分析的泉水鱼遗传多样性研究.广东农业科学,39(1):6-8.
石永闯,朱清澄,花传祥,等,2018.基于海上实测的秋刀鱼舷提网沉降和提升性能研究.海洋通报,(4):459-467
汤振明,黄洪亮,石建高,2004.中国开发利用西北太平洋秋刀鱼资源的探讨.海洋科学,28(10):56-59.
王明彦,张勋,2003.秋刀鱼舷提网渔业的现状及发展趋势.现代渔业信息,18(4):4-7.
许巍,朱清澄,张先存,2005.西北太平洋秋刀鱼舷提网捕捞技术.齐鲁渔业,22(10):43-46.
杨凡,彭博,赵爽,2010.基于线粒体控制区全序列的长江中下游鳊的遗传多样性研究.广东农业科学(3):173-181.
应一平,2011.斑鰶和青鳞小沙丁鱼的种群遗传结构与分子系统地理学研究.青岛:中国海洋大学.
张阳,2012.西北太平洋公海秋刀鱼生物学特性与耳石形态研究.上海:上海海洋大学.
朱清澄,张衍栋,夏辉,2013.秋刀鱼集鱼灯箱内不同灯位的照度实验比较研究.上海海洋大学学报,22(5):778-783.
Frankham R,2003.Genetics and conservation biology.Comptes Rendus Biologies,326(S1):22-29.
Gray M W,Burger G,Lang B F,1999.Mitochondrial evolution.Science,283(5407):1476-1481.
Hassanin A,Douzery E J P,1999.Evolutionary affinities of theenigmatic saola(Pseudoryx nghetinhensis)in the context of the molecular phylogeny of Bovidae.Proceedings of Royal SocietyLondon,266(1422):893-900.
Lau C H,Drinkwater R D,Yusoff K,et al,1998.Genetic diversityof Asian water buffalo(Bubalus bubalis):mitochondrial DNAD-loop and cytochrome b sequence variation.Animenet,29(4):253-264.
Loeschcke V,Tomiuk J,Jian S K,1994.Conservation Genetics,Basel:Birkhuser Verlag,37-53.
Michael M M,Susan M T,Philip J L,1989.Systematic relationshipin the artiodactyls tribe bovini(family Bovidae),as determined from mitochondrial DNA sequences.Systematic Zoology,38(4):342-349.
Meng W,Guo Y,Haisa,et al,2012.Genetic structure and diversity of Schizothorax biddulphi populations.Acta Hydrobi ologica Sinica,36(5):851-857.
Suyama S,Oshima K,Nakagami M,et al,2009.Seasonal change in the relationship between otolith radius and body length in age-zero Pacific saury Cololabis saira.Fisheries Science,75(2):325-333.
Su B,Fu Y,Wang Y,et al,2001.Genetic diversity and population history of the red panda(Ailurus fulgens)as inferred from mitochondrial DNA sequence variations.Molecular Biology and Evolution,18(6):1070-1076.
Tian Y,Ueno Y,Suda M,et al.Climate-ocean variability and the response of Pacific saury(Cololabis saira)in the northwestern Pacific during the last half century[J].Fisheries science,2002,68(sup1):158-161.
Wang P X,1999.Response of western Pacific marginal seas to glacial cycles:paleoceanographic and sedimentological features.Marine Geology,156(1-4):5-39.
Zhang E.Phylogenetic relationships of the endemic chinesecyprinid fish Pseudogrincheilus procheiluys.Zoological Research,15:26-35.
高玉珍,2016.西北太平洋秋刀鱼耳石微结构及其年龄与生长.上海:上海海洋大学.
黄洪亮,张勋,徐宝生,等,2005.北太平洋公海秋刀鱼渔场初步分析.海洋渔业,27(3):206-212.
贾超峰,刘海林,许津,等,2017.大黄鱼种质遗传多样性研究进展.海洋通报,36(1):12-18
李小兵,唐琼英,俞丹,等,2018.基于线粒体细胞色素b基因序列探讨长江流域斑点蛇种群遗传结构和地理分化.四川动物,(3):17-25.
李渝成,李康,蒋建桥,等,1986.中国鲤科鱼类染色体组型的研究X.鲃亚科五种鱼和鮈亚科四种鱼的染色体组型.动物学研究,7(2):183-189.
李文静,王环珊.赤水河半鳆的遗传多样性和种群历史动态分析.水生生物学报,1000-3207(2018)01-0106-08.
刘连为,周永东,陆化杰,等,2017.西北太平洋鸢乌贼种群遗传结构.水产学报,41(9):1355-1364.
李伟文,许强华,陈新军,等,2014.基于线粒体控制区的中部太平洋黄鳍金枪鱼种群遗传结构的研究.上海海洋大学学报,23(5):782-788.
孙满昌,叶旭昌,张健,等,2003.西北太平洋秋刀鱼渔业探析.海洋渔业,25(3):112-115.
沈建华,韩士鑫,樊伟,等,2004.西北太平洋秋刀鱼资源及其渔场.海洋渔业,26(1):61-65.
司从利,章群,马奔,等,2012.基于线粒体细胞色素b基因序列分析的泉水鱼遗传多样性研究.广东农业科学,39(1):6-8.
石永闯,朱清澄,花传祥,等,2018.基于海上实测的秋刀鱼舷提网沉降和提升性能研究.海洋通报,(4):459-467
汤振明,黄洪亮,石建高,2004.中国开发利用西北太平洋秋刀鱼资源的探讨.海洋科学,28(10):56-59.
王明彦,张勋,2003.秋刀鱼舷提网渔业的现状及发展趋势.现代渔业信息,18(4):4-7.
许巍,朱清澄,张先存,2005.西北太平洋秋刀鱼舷提网捕捞技术.齐鲁渔业,22(10):43-46.
杨凡,彭博,赵爽,2010.基于线粒体控制区全序列的长江中下游鳊的遗传多样性研究.广东农业科学(3):173-181.
应一平,2011.斑鰶和青鳞小沙丁鱼的种群遗传结构与分子系统地理学研究.青岛:中国海洋大学.
张阳,2012.西北太平洋公海秋刀鱼生物学特性与耳石形态研究.上海:上海海洋大学.
朱清澄,张衍栋,夏辉,2013.秋刀鱼集鱼灯箱内不同灯位的照度实验比较研究.上海海洋大学学报,22(5):778-783.