基于cytb基因的台湾岛竹叶青蛇扩散的初步分析
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摘要
为研究竹叶青蛇在中国台湾岛的扩散趋势,从Gen Bank上获取竹叶青蛇部分cytb基因序列,长度约655 bp,通过Seqman对序列进行格式转换、剪切与校正,再用MEGA6.0进行序列比对,统计碱基含量和变异位点。从内类群个体共定义了28个单倍型,其中1个来自福建武夷山,27个来自台湾岛。运用Microsoft Visio 2007软件绘制cytb部分序列统计简约网络图。结合生物地理学信息,发现早期竹叶青蛇基本是由北向南的扩散路线,可以初步推断在中国台湾地区竹叶青蛇大体是由北部(台北)向中南部山区扩散的总体趋势。用分子方法推断物种扩散,为新兴的分子生态学研究方法,可以广泛应用于未来系统发育地理学研究。
The study aimed at investigating the spread directions of Trimeresurus stejnegeri in Taiwan island.655 bp cytb gene sequences of were obtained from Gen Bank.Seqman software and was used for the format conversion,shearing and correction of sequences,then the contents of bases and mutation loci were compared and counted by MEGA 6.0 software.The total 28 individual haploid types were defined in the species groups of which 1 from Fujian Wuyi mountain and the other 27 from Taiwan island.The statistical simple network diagram of partial cytb sequence was drawn by Microsoft Visio 2007 software.Combining with biological geography information,the results showed that the early route of the snakes was spread from north to south.Thus,the author preliminarily inferred that T.stejnegeri spread roughly from northern(Taipei)to central and southern mountains for the overall trend.The species diffusion was inferred by using molecular methods as an emerging molecular ecology research way,which could be widely used in the phylogeography research in the future.
The study aimed at investigating the spread directions of Trimeresurus stejnegeri in Taiwan island.655 bp cytb gene sequences of were obtained from Gen Bank.Seqman software and was used for the format conversion,shearing and correction of sequences,then the contents of bases and mutation loci were compared and counted by MEGA 6.0 software.The total 28 individual haploid types were defined in the species groups of which 1 from Fujian Wuyi mountain and the other 27 from Taiwan island.The statistical simple network diagram of partial cytb sequence was drawn by Microsoft Visio 2007 software.Combining with biological geography information,the results showed that the early route of the snakes was spread from north to south.Thus,the author preliminarily inferred that T.stejnegeri spread roughly from northern(Taipei)to central and southern mountains for the overall trend.The species diffusion was inferred by using molecular methods as an emerging molecular ecology research way,which could be widely used in the phylogeography research in the future.
引文
Avise J.C.,Arnold J.,Ball R.M.,Berminham E.,Lamb T.,Neigel J.E.,Reeb C.A.,and Saunders N.C.,1987,Intraspecific phylogeography:the mitochondrial DNA bridge between population genetics and systematics,Annual Review of Ecology and Systematics,18:489-522
Creer S.,Malhotra A.,Thorpe R.S.,and Chou W.H.,2001,Multiple causation of phylogeographical pattern as revealed by nested clade analysis of the bamboo viper(Trimeresurus stejnegeri)within Taiwan,Mol.Ecol.,10(8):1967-1981
Deng L.B.,Tang X.L.,Shao J.M.,Xiong Z.Y.,Xiong D.Q.,Fang J.,Long F.,Chen J.G.,Xiao L.,and Wang Y.,2011,Initially study of the 16 S rR NA gene in DNA barcoding for snakes from JIANGXI,Nachang Daxue Xuebao(Journal of Nanchang University(Natural Science)),35(1):95-102(邓立彬,汤晓丽,邵建明,熊志勇,熊家强,熊丹群,方进,龙飞,陈极光,肖俐,汪雁,2011,江西7种蛇类基于16S rR NA基因的DNA条形码构建,南昌大学学报(理科版),35(1):95-102)
Guo P.,2005,Taxonomic and phylogenetic studies on Trimeresurus(S.L.,)(Serpentes:Crotalinae),Dissertation for Ph.D.,Sichuan University,Supervisor:Zhao E.M.,pp.71-72(郭鹏,2005,广义竹叶青蛇属的分类及系统发育研究(蛇亚目:蝮亚科),博士学位论文,四川大学,导师:赵尔宓,pp.71-72)
Hu Q.,Huang C.X.,Xu S.,Zhang Q.M.,Ma N.,and Zhong H.M.,2013,Primary phylogenies of mauremys Guangxiensis and Mauremys iversoni inferred from DNA sequences of mitochondrial ND4 gene and nuclear c-mos gene,Sichuan Dongwu(Sichuan Journal of Zoology),32(2):180-186(胡启平,黄程新,许淑茹,张秋明,马宁,钟汉明,2013,基于线粒体ND4基因和核c-mos基因初步探讨广西拟水龟和艾氏拟水龟的系统发生,四川动物,32(2):180-186)
Huang S.,2007,Phylogeography and conservation genetics of sharp-snouted Fu(Deinagkistrodon acutus;Reptilia Viperidae),Dissertation for Ph.D.,Sichuan University,Supervisor:Zhao E.M.,pp.30-44(黄松,2007,尖吻蝮的亲缘地理学和保护遗传学研究,博士学位论文,四川大学,导师:赵尔宓,pp.30-44)
Malhotra A.,and Thorpe R.S.,2000,A phylogeny of the trimeresurus group of pit vipers:new evidence from a mitochondrial gene tree,Mol.Phylogenet.Evol.,16(2):199-211
Malhotra A.,and Thorpe R.S.,2005,A phylogeny of four mitochondrial gene regions suggests a revised taxonomy for Asian pitvipers(Trimeresurus and Ovophis),Molecular Phylogenetics and Evolution,34(3):680-681
Wang X.J.,and Zhao E.M.,2008,Revised the taxonomic status of Gloydius blomhoffii dubitatus and infraspecific categories of G.brevicaudus,Sichuan Dongwu(Sichuan Journal of Zoology),27(2):172-177(王湘君,赵尔宓,2008,华北地区的短尾蝮分类地位的确定及短尾蝮种下分类的探讨,四川动物,27(2):172-177)
Wang X.J.,Chen W.,Du Y.,and Lin C.X.,2011,Study on the taxonomic status of Trimeresurus gracili,Anhui Nongye Kexue(Anhui Agricultural Science),51(32):19885-19887,19890(王湘君,陈文,杜宇,林炽贤,2011,台湾竹叶青蛇的分类学研究,安徽农业科学,51(32):19885-19887,19890)
Wu B.Y.,1982,Climatic Characteristics of the Taiwan strait,Taiwan Haixia(The Taiwan Strait),1(2):14-18(伍伯瑜,1982,台湾海峡的气候特征,台湾海峡,1(2):14-18)
Zhou J.L.,Yao Y.G.,Huang M.H.,Yang D.T.,Lv S.Q.,and Zhang Y.P.,2000,Pylogenetic relationships among viperidae,crotalinae based on mitoehondrial 12S rRNA Sequence Variations,Yichuan Xuebao(Acta Genetica Sinica),27(4):283-289(周继亮,姚永刚,黄美华,杨大同,吕顺清,张亚平,2000,蝰科(Viperidae)蝮亚科(Crotalinae)线粒体12S rR BA基因序列分析及其系统发育,遗传学报,27(4):283-289)
Zhou J.L.,Zhang Y.P.,Huang M.H.,Chen Y.J.,Chen X.Q.,and Yao G.D.,2001,Phylogenetic relationships among crotalinae based on mitochondrial cytochrome b gene sequence variations,Dongwu Xuebao(Acta Zoologica Sinica),47(4):361-366(周继亮,张亚平,黄美华,陈永久,陈小青,姚耿东,2001,蝮亚科蛇线粒体细胞色素b基因序列分析及其系统发育,动物学报,47(4):361-366)
Zhu F.,Liu Q.,Che J.,Zhang L.,Chen X.,Yan F.,Murphy R.,Guo C.,and Guo P.,2016,Molecular phylogeography of white-lipped tree viper(Trimeresurus;Viperidae),Zoologica Scripta,45(3):252-262
Creer S.,Malhotra A.,Thorpe R.S.,and Chou W.H.,2001,Multiple causation of phylogeographical pattern as revealed by nested clade analysis of the bamboo viper(Trimeresurus stejnegeri)within Taiwan,Mol.Ecol.,10(8):1967-1981
Deng L.B.,Tang X.L.,Shao J.M.,Xiong Z.Y.,Xiong D.Q.,Fang J.,Long F.,Chen J.G.,Xiao L.,and Wang Y.,2011,Initially study of the 16 S rR NA gene in DNA barcoding for snakes from JIANGXI,Nachang Daxue Xuebao(Journal of Nanchang University(Natural Science)),35(1):95-102(邓立彬,汤晓丽,邵建明,熊志勇,熊家强,熊丹群,方进,龙飞,陈极光,肖俐,汪雁,2011,江西7种蛇类基于16S rR NA基因的DNA条形码构建,南昌大学学报(理科版),35(1):95-102)
Guo P.,2005,Taxonomic and phylogenetic studies on Trimeresurus(S.L.,)(Serpentes:Crotalinae),Dissertation for Ph.D.,Sichuan University,Supervisor:Zhao E.M.,pp.71-72(郭鹏,2005,广义竹叶青蛇属的分类及系统发育研究(蛇亚目:蝮亚科),博士学位论文,四川大学,导师:赵尔宓,pp.71-72)
Hu Q.,Huang C.X.,Xu S.,Zhang Q.M.,Ma N.,and Zhong H.M.,2013,Primary phylogenies of mauremys Guangxiensis and Mauremys iversoni inferred from DNA sequences of mitochondrial ND4 gene and nuclear c-mos gene,Sichuan Dongwu(Sichuan Journal of Zoology),32(2):180-186(胡启平,黄程新,许淑茹,张秋明,马宁,钟汉明,2013,基于线粒体ND4基因和核c-mos基因初步探讨广西拟水龟和艾氏拟水龟的系统发生,四川动物,32(2):180-186)
Huang S.,2007,Phylogeography and conservation genetics of sharp-snouted Fu(Deinagkistrodon acutus;Reptilia Viperidae),Dissertation for Ph.D.,Sichuan University,Supervisor:Zhao E.M.,pp.30-44(黄松,2007,尖吻蝮的亲缘地理学和保护遗传学研究,博士学位论文,四川大学,导师:赵尔宓,pp.30-44)
Malhotra A.,and Thorpe R.S.,2000,A phylogeny of the trimeresurus group of pit vipers:new evidence from a mitochondrial gene tree,Mol.Phylogenet.Evol.,16(2):199-211
Malhotra A.,and Thorpe R.S.,2005,A phylogeny of four mitochondrial gene regions suggests a revised taxonomy for Asian pitvipers(Trimeresurus and Ovophis),Molecular Phylogenetics and Evolution,34(3):680-681
Wang X.J.,and Zhao E.M.,2008,Revised the taxonomic status of Gloydius blomhoffii dubitatus and infraspecific categories of G.brevicaudus,Sichuan Dongwu(Sichuan Journal of Zoology),27(2):172-177(王湘君,赵尔宓,2008,华北地区的短尾蝮分类地位的确定及短尾蝮种下分类的探讨,四川动物,27(2):172-177)
Wang X.J.,Chen W.,Du Y.,and Lin C.X.,2011,Study on the taxonomic status of Trimeresurus gracili,Anhui Nongye Kexue(Anhui Agricultural Science),51(32):19885-19887,19890(王湘君,陈文,杜宇,林炽贤,2011,台湾竹叶青蛇的分类学研究,安徽农业科学,51(32):19885-19887,19890)
Wu B.Y.,1982,Climatic Characteristics of the Taiwan strait,Taiwan Haixia(The Taiwan Strait),1(2):14-18(伍伯瑜,1982,台湾海峡的气候特征,台湾海峡,1(2):14-18)
Zhou J.L.,Yao Y.G.,Huang M.H.,Yang D.T.,Lv S.Q.,and Zhang Y.P.,2000,Pylogenetic relationships among viperidae,crotalinae based on mitoehondrial 12S rRNA Sequence Variations,Yichuan Xuebao(Acta Genetica Sinica),27(4):283-289(周继亮,姚永刚,黄美华,杨大同,吕顺清,张亚平,2000,蝰科(Viperidae)蝮亚科(Crotalinae)线粒体12S rR BA基因序列分析及其系统发育,遗传学报,27(4):283-289)
Zhou J.L.,Zhang Y.P.,Huang M.H.,Chen Y.J.,Chen X.Q.,and Yao G.D.,2001,Phylogenetic relationships among crotalinae based on mitochondrial cytochrome b gene sequence variations,Dongwu Xuebao(Acta Zoologica Sinica),47(4):361-366(周继亮,张亚平,黄美华,陈永久,陈小青,姚耿东,2001,蝮亚科蛇线粒体细胞色素b基因序列分析及其系统发育,动物学报,47(4):361-366)
Zhu F.,Liu Q.,Che J.,Zhang L.,Chen X.,Yan F.,Murphy R.,Guo C.,and Guo P.,2016,Molecular phylogeography of white-lipped tree viper(Trimeresurus;Viperidae),Zoologica Scripta,45(3):252-262