中国鲿科鱼类线粒体DNA控制区结构及其系统发育分析
STUDIES ON THE STRUCTURE OF THE CONTROL REGION OF THE BAGRIDAE IN CHINA AND ITS PHYLOGENTIC SIGNIFICANCE
-
摘要: 采用PCR技术获得了中国鲿科鱼类代表种类线粒体DNA控制区基因的全序列,对控制区基因结构进行了分析,并选用粒鲇科的中华粒鲇,鮡科的三线纹胸鲿作为外类群,用最大简约法(MP)和邻接法(NJ)构建了系统发育树.结果显示鲿科鱼类中控制区基因适于系统发育分析,鲿科鱼类构成一个单系类群;圆尾拟鲿应该放入鲿属里.Abstract: Bagridae belonging to Siluriformes, is a group of fishes widely distributed in China. The phylogenetic relationships of the species in this family are not fully identified and most of the previous works were based on external and osteological characteristics. Complete sequence of the mitochondrial DNA control region of the typical species of Family Bagridae were obtained by PCR and the structure of the control region was analyzed. The vertebrate mitochondrial control region is commonly subdivided into three domains that different from each other in base cmposition as well as in rate and mode of evolution. The central domain, containing the heavy strand's origin of replication is relatively conserved and characterized by a high GC content served domain; the ETAS(extended termination associated sequence) domain that usually has one or copies of termination associated sequences and that signals termination of the d-loop strands, and the CSB domain that are believed to function in its initiation. Nucleotide sequences of mitochondrial DNA control region were aligned with the Clustal X and MEGALIGN, then refined manually. Choosing A. sinensis and G. trilineatus as the outgroup, the phylogenetic trees were constructed with MEGA 2.1 by the neighbour-joining method and maximum-parsimony method based on the complete sequence of the control region. And the result is compared based on the topology and the bootstrap value. The average base composition is A:31.1% T:31.2% C:23.3 G14.3%. The base composition has bias against G, which is also the characteristic of mitochondrial DNA. And the A+T content is much higher than that of C+G. The mitochondrial DNA control region of Bagridae can also be divided into central domain, ETAS domain and CSB domain, which is in accordance with the basic structure shown in other species. Central domain, ETAS domain and CSB domain as well as some conserved sequences were identified in Bagridae and compared with other species. The phylogenetic studies based on neighbour-joining method and maximum-parsimony method are consistent. Family Bagridae forms a monophyletic group, and there is strong evidence that Pseudobagrus tenuis is grouped with Leiocassis crassilabris. It can be concluded that the control region can be used for the phylogenetic analysis; Family Bagridae forms a monophyletic group; P. tenuis should be transferred to the genus Leiocassis.
-
Keywords:
- Control region /
- Molecular phylogenetics /
- Bagridae /
- Catfish
-
-
[1] Mo T. Anatomy, relationship and systematics of the Bagridae (Teleostei:Siluridei)-with a hypothesis of siluroid phylogeny[M]. Konigstein: Koeltz Scientific Books. 1991[2] Chu X L, Zheng B S, Dai D Y. Fauna Sinica*Osteichthyes*Siluriformes[M]Beijing: Science Press. 1999.[褚新洛等. 中国动物志*硬骨鱼纲*鲇形目. 北京:科学出版社. 1999][3] Alexander R M. Structure and function in catfish [J]. J. Zool, 1965,148:88-152[4] Tilak R. The osteocranium and the Webrian apparatus of the fishes of the family Bagridae (Pisces:Siluroidei)[J]. Morphologisches Jahrbuch, 1965, 107(4):415-443[5] Zhang Y G, Wang D S. Studies on the osteology of the bagrid catfishes from Jialing River(IV):an approach to the phylogenetic relationship [J]. Journal of Southwest China Normal University, 1995, 20(4):432-439[6] Zhang Y G,Wang D S. Studies on the taxonomical position of Pseudobagrus brevicaudatus)(Bagridae, Siluriforme)[J]. Acta Hydrobiologica Sinica, 1996,20(4):379-382. 张耀光,王德寿. 短尾拟NFDA4分类地位的探讨[J]. 水生生物学报,1996,20(4):379-382[7] Dai F T, Su J X, Studies on isozymes, skeleton characters of eight bagrid catifishes and comments on phylogenetic relationship [J]. Acta Zootaxonomica Sinica, 1998,23(4):432-439.[戴凤田,苏锦祥. NFDA4科八种鱼类同工酶和骨骼特征分析及系统演化的探讨(鲇形目:NFDA4科)[J].动物分类学报,1998,23(4):432-439][8] Peng Z G, He S P, Zhang Y G, Mitochondrial cytochrome b sequence variation and phylogeny of the East Asian bagrid catfishes [J]. Prog. Nat. Sci, 2002,12(6):37-41. [彭作刚,何舜平,张耀光. 细胞色素b基因序列变异与东亚NFDA4科鱼类系统发育[J].自然科学进展,2002, 12(6):37-41][9] Xiao W H, Zhang Y P, Genetics and evolution of mitochondrial DNA in fish, Wuhan [J]. Acta Hydrobiologica Sinica, 2000, 24(4):384-391.[肖武汉,张亚平.鱼类线粒体DNA的遗传与进化[J]. 水生生物学报,2000,24(4):384-391][10] Alessandra Larizza, Graziano P esole, Aurelio Reyes, et al. Lineage specificity of the evolutionary dynamics of the mtDNA D-loop region in rodents [J]. J Mol Evol,2002,54:145-155[11] Clayton D A. Replication of animal mitochondrial DNA [J]. Cell, 1982,28:693-705[12] Ettore Randi, Vittorio lucchini. organization and evolution of the mlitochondrial DNA control region in the avian genus alectoris[J]. J Mol Evol, 1998, 47:449-462[13] Lee W-J, Conroy J, Howell W H, et al. Structure and evolution of teleost mitochondrial control region[J]. J Mol Evol, 1995, 41:54-66[14] Myer A. Evolution of mitochondrial DNA in fishes. In: Hochachka and Mommsen eds Biochemistry and molecular biology of fishes [M]. Amsterdam:Elsevier Science Publishers. 1993,1-38[15] Liu H Z. The structure and evolution of mitochondrial DNA control region of fish:a case study to bitterlings [J]. Prog. Nat. Sci, 2002, 12(3):266-271. [刘焕章.鱼类线粒体DNA控制区的结构和进化:以NFDE1NFDE2鱼类为例[J]. 自然科学进展,2002,12(3):266-271[16] Liu H Z, Tzeng C S, Teng H Y. Sequence variations in the mitochondrial DNA control region and their implications for the phylogeny of the Cypriniformes[J]. Can, J, Zool, 2002,80:569-581[17] Ausubel F M. Short Protocols in Molecular Biology [M]. 2nd ed. New York: John Wiley Sons, 1992[18] Thompson J D, The Clustal X windows interface: Flexible strategies for multiple sequences alignment aided by quality analysis tools [J]. Nucleic Acids Res, 1997,25(24):4876[19] Wolstenholme D R. Animal mitochondrial DNA: Structure and evolution in: Mitochondrial genomes[M]. 173-372. San Diego:Academic press.[20] Sàrka O Southern, Peter J.Southern, and Andrew E. Dizon. Molecular characterization of a cloned dolphin mitochondrial genome [J]. J Mol Evol, 1992,28:32-42[21] Walberg M W, Clayton D A. Sequence and properties of the human K B cell and mouse L cell D-loop regions of mitochondrial DNA [J]. Nucleic Acids Res, 1981, 9:5411-5421[22] Yang Z H. On the best evolutionary rate for phylogenetic analysis [J]. Syst Biol, 1998,47:125-133[23] Matthew A. Saunders, Scott V. Edwards. Dynamics and phylogenetic implicationsof mtDNA control region sequences in new world jays (Aves:Corvidae) [J]. J Mol Evol, 2000, 51:97-109 Mo T. Anatomy, relationship and systematics of the Bagridae (Teleostei:Siluridei)-with a hypothesis of siluroid phylogeny[M]. Konigstein: Koeltz Scientific Books. 1991[2] Chu X L, Zheng B S, Dai D Y. Fauna Sinica*Osteichthyes*Siluriformes[M]Beijing: Science Press. 1999.[褚新洛等. 中国动物志*硬骨鱼纲*鲇形目. 北京:科学出版社. 1999][3] Alexander R M. Structure and function in catfish [J]. J. Zool, 1965,148:88-152[4] Tilak R. The osteocranium and the Webrian apparatus of the fishes of the family Bagridae (Pisces:Siluroidei)[J]. Morphologisches Jahrbuch, 1965, 107(4):415-443[5] Zhang Y G, Wang D S. Studies on the osteology of the bagrid catfishes from Jialing River(IV):an approach to the phylogenetic relationship [J]. Journal of Southwest China Normal University, 1995, 20(4):432-439[6] Zhang Y G,Wang D S. Studies on the taxonomical position of Pseudobagrus brevicaudatus)(Bagridae, Siluriforme)[J]. Acta Hydrobiologica Sinica, 1996,20(4):379-382. 张耀光,王德寿. 短尾拟NFDA4分类地位的探讨[J]. 水生生物学报,1996,20(4):379-382[7] Dai F T, Su J X, Studies on isozymes, skeleton characters of eight bagrid catifishes and comments on phylogenetic relationship [J]. Acta Zootaxonomica Sinica, 1998,23(4):432-439.[戴凤田,苏锦祥. NFDA4科八种鱼类同工酶和骨骼特征分析及系统演化的探讨(鲇形目:NFDA4科)[J].动物分类学报,1998,23(4):432-439][8] Peng Z G, He S P, Zhang Y G, Mitochondrial cytochrome b sequence variation and phylogeny of the East Asian bagrid catfishes [J]. Prog. Nat. Sci, 2002,12(6):37-41. [彭作刚,何舜平,张耀光. 细胞色素b基因序列变异与东亚NFDA4科鱼类系统发育[J].自然科学进展,2002, 12(6):37-41][9] Xiao W H, Zhang Y P, Genetics and evolution of mitochondrial DNA in fish, Wuhan [J]. Acta Hydrobiologica Sinica, 2000, 24(4):384-391.[肖武汉,张亚平.鱼类线粒体DNA的遗传与进化[J]. 水生生物学报,2000,24(4):384-391][10] Alessandra Larizza, Graziano P esole, Aurelio Reyes, et al. Lineage specificity of the evolutionary dynamics of the mtDNA D-loop region in rodents [J]. J Mol Evol,2002,54:145-155[11] Clayton D A. Replication of animal mitochondrial DNA [J]. Cell, 1982,28:693-705[12] Ettore Randi, Vittorio lucchini. organization and evolution of the mlitochondrial DNA control region in the avian genus alectoris[J]. J Mol Evol, 1998, 47:449-462[13] Lee W-J, Conroy J, Howell W H, et al. Structure and evolution of teleost mitochondrial control region[J]. J Mol Evol, 1995, 41:54-66[14] Myer A. Evolution of mitochondrial DNA in fishes. In: Hochachka and Mommsen eds Biochemistry and molecular biology of fishes [M]. Amsterdam:Elsevier Science Publishers. 1993,1-38[15] Liu H Z. The structure and evolution of mitochondrial DNA control region of fish:a case study to bitterlings [J]. Prog. Nat. Sci, 2002, 12(3):266-271. [刘焕章.鱼类线粒体DNA控制区的结构和进化:以NFDE1NFDE2鱼类为例[J]. 自然科学进展,2002,12(3):266-271[16] Liu H Z, Tzeng C S, Teng H Y. Sequence variations in the mitochondrial DNA control region and their implications for the phylogeny of the Cypriniformes[J]. Can, J, Zool, 2002,80:569-581[17] Ausubel F M. Short Protocols in Molecular Biology [M]. 2nd ed. New York: John Wiley Sons, 1992[18] Thompson J D, The Clustal X windows interface: Flexible strategies for multiple sequences alignment aided by quality analysis tools [J]. Nucleic Acids Res, 1997,25(24):4876[19] Wolstenholme D R. Animal mitochondrial DNA: Structure and evolution in: Mitochondrial genomes[M]. 173-372. San Diego:Academic press.[20] Sàrka O Southern, Peter J.Southern, and Andrew E. Dizon. Molecular characterization of a cloned dolphin mitochondrial genome [J]. J Mol Evol, 1992,28:32-42[21] Walberg M W, Clayton D A. Sequence and properties of the human K B cell and mouse L cell D-loop regions of mitochondrial DNA [J]. Nucleic Acids Res, 1981, 9:5411-5421[22] Yang Z H. On the best evolutionary rate for phylogenetic analysis [J]. Syst Biol, 1998,47:125-133[23] Matthew A. Saunders, Scott V. Edwards. Dynamics and phylogenetic implicationsof mtDNA control region sequences in new world jays (Aves:Corvidae) [J]. J Mol Evol, 2000, 51:97-109
计量
- 文章访问数:
- HTML全文浏览量: 0
- PDF下载量:
下载: