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刘海情,刘楚吾,刘丽.2012.基于COⅢ和HNF-1α序列研究龟鳖类的系统进化特征.动物学杂志,47(6):92-102.
基于COⅢ和HNF-1α序列研究龟鳖类的系统进化特征
Phylogenetic Characteristics of Turtles Based on COⅢ and HNF-1α Sequence
投稿时间:2012-06-26  修订日期:2012-09-07
DOI:
中文关键词:  龟鳖类  CO  HNF-1α  系统进化
英文关键词:Turtles  CO  HNF-1α  Phylogeny
基金项目:广东省科技计划农业攻关项目(No.2010B020308004)
作者单位E-mail
刘海情 广东海洋大学水产学院 南海水产经济动物增养殖广东普通高校重点实验室 湛江 524025 刘丽zjouliuli@163.com 
刘楚吾 广东海洋大学水产学院 南海水产经济动物增养殖广东普通高校重点实验室 湛江 524025  
刘丽 广东海洋大学水产学院 南海水产经济动物增养殖广东普通高校重点实验室 湛江 524025  
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中文摘要:
      用PCR扩增和测序的方法,获得小鳄龟(Chelydra serpentina)的COⅢ和HNF-1α序列,并分别结合NCBI中其他龟鳖的同源性序列进行比对分析。比对后得到757 bp的COⅢ一致序列和769 bp的HNF-1α一致序列。其中,COⅢ一致序列含有可变位点324个,序列总变异率为42.8%,简约信息位点230个;T、C、A、G的平均含量分别为27.5%、26.6%、30.8%、15.1%,A+T含量(58.3%)高于G+C含量(41.7%),转换/颠换比率(R)为2.62。HNF-1α一致序列有变异位点112个,变异率为14.6%,简约信息位点67个;T、C、A、G的平均含量为26.1%、23.1%、28.3%、22.6%,A+T含量为54.4%,G+C含量为45.7%,转换/颠换比率(R)为1.42。基于Kimura双参数模型计算龟鳖类种间、属间、科间遗传距离,并采用邻接法、最大简约法和最大似然法构建分子系统进化树。结果显示:基于COⅢ序列的淡水龟科4个属间的遗传距离为0.090~0.153,平均遗传距离为0.129;曲颈龟亚目5个科之间的遗传距离为0.150~0.207,平均遗传距离为0.177;基于HNF-1α序列的龟科9属间的遗传距离为0.003~0.051,平均为0.016;鳄龟科、龟科、淡水龟科3科间的遗传距离为0.044~0.067,平均为0.053。由遗传距离和构建的系统进化树可知,淡水龟科与陆龟科具有较近的亲缘关系,而与龟科的亲缘关系较远;支持龟科重新划分为两个分支;鳄龟科和海龟科亲缘关系较近,大鳄龟(Macroclemys temminckii)和小鳄龟可能同为一属。
英文摘要:
      COⅢ and HNF-1α sequences of Chelydra serpentina were obtained by using PCR amplification and sequencing in order to study the phylogenetic relationships of turtles. The homologous sequences of other turtles were downloaded from NCBI, and analyzed together with the sequences of C.serpentina. After alignment, 757 bp consensus sequences of COⅢ and 769 bp consensus sequences of HNF-1α were obtained. A total of 324 variable sites were detected in the COⅢ sequence, accounting for 42.8% of total sequences, and there were 230 parsim informative sites. The average contents of T, C, A and G were 27.5%, 26.6%, 30.8%, and 15.1% respectively, the content of A+T (58.3%) was bigger than that of G+C (41.7%), and the ratio between transition and transversion was 2.62. In the HNF-1α sequences, we detected 112 variable sites, accounting for 14.6% of total sequences, and 67 parsim informative sites were also found here. The average content was found to be 26.1% in T, 23.1% in C, 28.3% in A and 22.6% in G, the content of A+T and G+C were 54.4% and 45.7%, respectively, and the ratio between transition and transversion was 1.42. Interspecific, intergenus and interfamily genetic distances were calculated based on the kimura-2-parameter model, and the phylogenetic trees were constructed using neighbor joining (NJ), maximum parsimony (MP) and maximum likelihood (ML) methods. The results indicated that kimura-2-parameter distances among 4 genus within Bataguridae based on COⅢ sequences ranged from 0.090 to 0.153, with an average of 0.129, the distances among 7 families within Testudines ranged from 0.150 to 0.207, with average value 0.177, and the kimura-2-parameter distances among 11 genus of Emydidae and Bataguridae based on HNF-1α sequences ranged from 0.003 to 0.051, with an average of 0.016, the distance among Chelydridae , Emydidae and Bataguridae were from 0.044 to 0.067 with average value 0.053. According to the genetic distance and phylogenetic trees, Bataguridae is closer to Testudinidae than that of Emydidae to Testudinidae. The data indicate that Emydidae may be redivided into two clades. Chelydridae and Cheloniidae have a close relationship, while Macroclemys temminckii and C.serpentina may be combined into one genus.
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