基于线粒体控制区(D-loop)序列的珠江赤眼鳟遗传多样性与遗传分化
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摘要
为了解珠江流域重要野生经济鱼类赤眼鳟的遗传多样性和遗传分化现状,对柳江、西江、北江、郁江、南盘江和红水河6个自然种群共170尾个体的线粒体控制区(D-loop)序列进行测定与分析.结果显示,共获得长978 bp的序列,检测出106个单倍型,单倍型多样性平均为0.982 0,核苷酸多样性平均为0.013 53,表明珠江流域赤眼鳟具有较高的遗传多样性.遗传距离和遗传分化结果均显示珠江流域赤眼鳟未出现明显分化,各种群亲缘关系较近.基于D-loop序列构建的NJ树显示,106个单倍型分为两大支系(A支和B支).A支包含6个种群中的大部分单倍型,未形成明显单系群;B支由西江种群的两个特有单倍型组成.单倍型网络亲缘关系分析结果也表明其未出现明显分化.AMOVA分析结果表明,绝大部分变异出现在种群内(99.36%),而地理区间和地理区内种群间的变异很小.中性检验显示,珠江流域赤眼鳟历史上曾发生过种群扩张.综合上述研究结果,认为西江为珠江流域赤眼鳟的扩散中心.
Squaliobarbus curriculus is one of the most economically important edible freshwater fish in the Pearl River. To assess the level of genetic diversity and genetic variation of S. curriculus populations within the Pearl River, samples were collected from six geographical populations from six drainages. 978 base pairs of the D-loop sequence were obtained as a molecular marker. 106 haplotypes were defined among 170 S. curriculus individuals. Populations of S. curriculus in the Pearl River displayed a high haplotypic diversity index(h = 0.9820) and high nucleotide diversity index(π = 0.01353). The results of genetic distance and genetic differentiation index show that genetic differentiation among S. curriculus populations is not significant. The neighbor-joining tree shows two clades. Clade A is composed of most haplotypes of S. curriculus. Clade B includes two private haplotypes from the Xijiang River. Haplotype network analysis is consistent with the results of genetic distance and genetic differentiation. The results of AMOVA analysis showed that most variation was found within populations(99.36%). Neutral test analysis explained that there was population expansion in the history of S. curriculus in the Pearl River.Xijiang River could be the center of origin, as supported by all the results.
Squaliobarbus curriculus is one of the most economically important edible freshwater fish in the Pearl River. To assess the level of genetic diversity and genetic variation of S. curriculus populations within the Pearl River, samples were collected from six geographical populations from six drainages. 978 base pairs of the D-loop sequence were obtained as a molecular marker. 106 haplotypes were defined among 170 S. curriculus individuals. Populations of S. curriculus in the Pearl River displayed a high haplotypic diversity index(h = 0.9820) and high nucleotide diversity index(π = 0.01353). The results of genetic distance and genetic differentiation index show that genetic differentiation among S. curriculus populations is not significant. The neighbor-joining tree shows two clades. Clade A is composed of most haplotypes of S. curriculus. Clade B includes two private haplotypes from the Xijiang River. Haplotype network analysis is consistent with the results of genetic distance and genetic differentiation. The results of AMOVA analysis showed that most variation was found within populations(99.36%). Neutral test analysis explained that there was population expansion in the history of S. curriculus in the Pearl River.Xijiang River could be the center of origin, as supported by all the results.
引文
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6 朱书礼,李新辉,李跃飞,王超,杨计平,李琳.西江广东肇庆段赤眼鳟的年龄鉴定及生长研究[J].南方水产科学,2013,9(2):27-31[Zhu SL,Li XH,Li YF,Wang C,Yang JP,Li L.Age and growth of Spualiobarbus curriculus from Zhaoqing Guangdong Section of Xijiang River[J].South Chin Fish Sci,2013,9(2):27-31]
7 谭细畅,李跃飞,王超,李捷,庞世勋,李新辉.珠江江段赤眼鳟早期发育形态及其补充群体状况[J].华中农业大学学报,2009,28(5):609-613[Tan XC,Li YF,Wang C,Li J,Pang SX,Li XH.Early morphogenesis and larval resources of Squaliobarbus curriculus in the Pearl River[J].J Huazh Agric Univ,2009,28(5):609-613]
8 杨凯,高银爱,王青云,夏儒龙,曾可为,朱思华,李波,邓国乔,程颖红,郑翠华.赤眼鳟的引种、驯养与人工繁殖技术研究[J].湖北农业科学,2014,53(6):1367-1369[Yang K,Gao Y’A,Wang QY,Xia RL,Zeng KW,Zhu SH,Li B,Deng GQ,Cheng YH,Zheng CH.Introduction,domestication and propagation of Squaliobarbus curriculus richardson[J].Hubei Agric Sci,2014,53(6):1367-1369]
9 彭宁东,汤文圣,郭栋,赵俊.MS-222对赤眼鳟幼鱼麻醉效果的研究[J].华南师范大学学报(自然科学版),2016,48(6):37-43[Peng ND,Tang WS,Guo D,Zhao J.The anaesthesia effects of MS-222 on juvenile Squaliobarbus curriculus[J].J South Chin Norm Univ(Nat Sci Ed),2016,48(6):37-43]
10 杨太有,关建义,陈宏喜.三个地理群体赤眼鳟遗传多样性的RAPD分析[J].水生生物学报,2008,27(5):783-784[Yang TY,Guan JY,Chen HX.Gentic diversity of three geographical populations of Squaliobarbus curriculus revealed by ISSR analysis[J].Acta Hydrobiol Sin,2008,27(5):783-784]
11 杨慧荣,刘丽,龚世园,赵会宏,孙际佳,陈彦珍.利用CR和Cyt b基因序列组合评价珠江和长江水系赤眼鳟的遗传多样性[J].华中农业大学学报,2013,32(4):84-91[Yang HR,Liu L,Geng SY,Zhao HH,Sun JJ,Chen YZ.Evaluation of genetic diversity by using mitochondrial DNA.Control region and cytochrome b gene for Squaliobarbus curriculus in Yangtze River and Pearl River[J].J Huazh Agric Univ,2013,32(4):84-91]
12 杨慧荣,赵会宏,刘丽,陈彦珍,林权卓,黄宏辉.珠江和长江水系赤眼鳟D-loop基因序列遗传变异分析[J].上海海洋大学学报,2012,21(3):337-343[Yang HR,Zhao HH,Liu L,Chen YZ,Lin QZ,Huang HH.Assessing genetic diversity of mitochondrial D-loop sequences of Squaliobarbus curriculus in Yangtze River and Pearl River[J].J Shanghai Ocean Univ,2012,21(3):337-343]
13 杨慧荣,赵会宏,蒙子宁,刘丽,林权卓.赤眼鳟线粒体D-loop和Cyt b基因序列的对比分析[J].中山大学学报,2012,51(5):100-106[Yang HR,Zhao HH,Meng ZN,Liu L,Lin QZ.Comparison of mitochondrial D-loop and Cyt b sequences of Squaliobarbus curriculus[J].Acta Sci Nat Univ Sunyatseni:Nat Sci,2012,51(5):100-106]
14 陈方灿.西江赤眼鳟群体多样性研究[D].上海:上海海洋大学,2015[Chen.Study on diversity of Spualiobarbus curriculus populations In the Xijiang River[D].Shanghai:Shanghai Ocean University,2015]
15 Liu H,Tzeng C,Teng H.Sequence variations in the mitochondrial DNA control region and their implications for the phylogeny of the Cypriniformes[J].Can J Zool,2002,80(3):569-581
16 Swindell SR,Plasterer TN.SEQMAN Sequence data analysis guidebooks[M].New York:Springer,1997:75-89
17 Thompson JD,Gibson TJ,Plewniak F,Jeanmougin F,Higgins DG.The Clustal X win-dows interface:flexible strategies for multiple sequences alignment aided by quality analysis tools[J].Nucleic Acids Res,1997,25:4876-4882
18 Tamura K,Peterson D,Peterson N,Stecher G,Nei M,Kumar S.MEGA5:molecular evolutionary genetics analysis using maximum likelihood,evolutionary distance,and maximum parsimony methods[J].Mol Biol Evol,2011,28(10):2731-2739
19 Librado P,Rozas J.DNASP v5:a software for comprehensive analysis of DNA polymorphism data[J].Bioinformation,2009,25(11):1451-1452
20 Bandelt H,Forster P,R HLA.Median-joining networks for inferring intraspecific phylogenies[J].Mol Biol Evol,1999,16(1):37-48
21 Excoffier L,Lischer HEL.Arlequin suite version 3.5:a new series of programs to perform population genetics analyses under Linux and Windows[J].Mol Ecol Resour,2010,10:564-7
22 Mcneely J,Miller KP,Reid WV,Mittermeier RA,Werner TB.Conserving the World’s Biological Dversity[M].US:Word Bank Press,1990
23 沈浩,刘登.遗传多样性概述[J].生物学杂志,2001,18(3):5-74[Sheng H,Liu D.Summary of genetic diversity[J].J Biol,2001,18(3):5-74]
24 董志国,李晓英,王普力,王文进,张庆起,阎斌伦,孙效文.基于线粒体D-loop基因的中国海三疣梭子蟹遗传多样性与遗传分化研究[J].水产学报,2013,37(9):1304-1312[Dong ZG,Li XY,Wang PL,Wang WJ,Zhang QQ,Yan BL,Sun XW.Genetic diversity and genetic differentiation of swimming crab(Portunus trituberculatus)from six geographical populations of China Sea based on mitochondrial D-loop gene[J].J Fish Chin,2013,37(9):1304-1312]
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