基于线粒体DNA部分片段探讨条石鲷与斑石鲷的亲缘关系

肖志忠; 肖永双; 马道远; 徐世宏; 刘清华; 李军

基于线粒体DNA部分片段探讨条石鲷与斑石鲷的亲缘关系

中国科学院海洋研究所海洋生物技术工程研究发展中心,山东青岛 266071

基金项目: 国家农业科技成果转化资金项目(05EFN2166000453);中国科学院创新前沿项目(KSCX2-YW-N-47-08)。

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- 收稿日期: 2010-12-21

Relationship between Oplegnathus fasciatus and O. punctatus revealed by mtDNA sequence characteristics

Marine Biotech R & D Center,Institute of Oceanology, Chinese Academy of Science, Qingdao 266071,China

摘要

摘要: 比较分析了条石鲷和斑石鲷线粒体基因组COI、Cyt b基因以及D-loop片段总长度为1 948 bp的核苷酸序列,探讨了条石鲷和斑石鲷的遗传分化程度。两种间共检测到314个多态位点,蛋白质编码基因上的核苷酸替代主要是发生在密码子第3位点上的同义替换。核苷酸组成分析结果表明:三个目的片段的鸟嘌呤(G)含量普遍较低,在两个蛋白质编码基因密码子第3位点上表现得尤为明显。基于线粒体COI,Cyt b 基因和D-loop片段序列分析结果显示条石鲷和斑石鲷间平均遗传距离分别为0.097,0.080和0.172,属于属内种间差异水平。两种石鲷科鱼类在线粒体基因组不同片段上存在明显的遗传差异,核苷酸替代速率由大到小依次为D-loop>COI>Cyt b。与以往的研究不同,条石鲷和斑石鲷线粒体COI基因片段上的核苷酸替代速率明显的高于Cyt b基因片段,呈现出较快的进化速率。基于Cyt b和ND5两个基因片段序列的分析结果表明:条石鲷和斑石鲷的分歧时间约为385万~530万a,分化事件发生于上新世早期(Early Pliocene)。
- 条石鲷 /
- 斑石鲷 /
- 线粒体DNA /
- 遗传距离 /
- 分化时间
Abstract: Oplegnathus fasciatus and O. punctatus, belonging to the family Oplegnathidae, are commercially important fisheries resources in China. To date, no researches have been carried out on the relationship between O. fasciatus and O. punctatus by mitochondrial DNA sequences characteristics. Partial nucleotide sequences of mitochondrial DNA COI gene, Cyt b gene and D-loop fragment were sequenced and analyzed to estimate the degree of genetic differentiation between O. fasciatus and O. punctatus. One hundred and three nucleotide substitutions were checked in the total 1 107 bp sequences analyzed, and most of them were synonymous transitions at the third codon positions in the two protein-coding genes. Nucleotide composition analysis indicated a strong bias against guanine (G) in the three fragments, especially in the third codon positions of COI and Cyt b genes. The mean genetic distances based on the COI, Cyt b and D-loop fragments between O. fasciatus and O. punctatus were 0.097, 0.080 and 0.172, respectively. The average genetic distances showed interspecific differentiation within genus. There were obvious differences in the rates of nucleotide substitution between the two species in the three mtDNA segments. In contrast with previous research, the rate of nucleotide substitution for COI gene fragment was higher than that of Cyt b fragment in the present study. The estimated divergence time between O. fasciatus and O. punctatus based on Cyt b and ND5 genes was about 3.85~5.3 million years ago, which indicated a Early Pliocene divergence of the two species.
- Oplegnathus fasciatus /
- O. punctatus /
- mitochondrial DNA /
- genetic distances /
- divergence time

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参考文献(39)

孟庆闻,苏锦祥,缪学祖.鱼类分类学[M]. 北京:中国农业出版社,1995:734-756.

肖志忠, 郑炯, 于道德,等. 条石鲷早期发育的形态特征[J]. 海洋科学, 2008, 32(3): 25-30.

全汉锋,肖志忠. 条石鲷人工繁育技术研究[J]. 台湾海峡,2007, 26(2): 295-300.

柳学周,徐永江,王妍妍, 等. 条石鲷的早期生长发育特征[J]. 动物学报, 2008, 54(2): 332-341.

孙鹏,尹飞,彭士明,等. 条石鲷线粒体COI和Cytb序列的遗传变异分析[J]. 水产学报, 2011, 35(3): 327-333.

SHIMADA Y, NOKUBI K, YAMAMOTO S, et al. Reproduction between Oplegnathus fasciatus and O.punctatus, and fertility of their interspecies [J]. Fish Sci, 2009, 75(2): 521-523.

AVISE J C. Phylogeography the History and Formation of Species[M]. Cambridge, Massachusetts London, England: Harvard University Press, 2000:1-20.

BROWN W M, PRAGER E M, WANG A, et al. Mitochondrial DNA sequences of primates: tempo and mode of evolution[J]. J Mol Evol, 1982, 18: 225-239.

WILSON A C, CANN R L, CARR S M. Mitochondrial DNA and two perspectives on evolutionary genetics[J]. Biol J Linn Soc, 1985, 26: 375-400.

张方,米志勇. 动物线粒体DNA 的分子学研究进展[J].生物工程进展, 1998, 18(3): 25-31.

HEBERT P D N, CYWINSKA A, BALL S L, et al. Biological identification through DNA barcodes[J]. Proc Roy Soc B: Biol Sci, 2003, 270: 313-321.

SAMBROOK J, FRITSCH E F, MANIATIS T, et al. Molecular Cloning: A Laboratory Manual[M]. New York: Cold Spring Harbor Laboratory Press, 1996. 464-468.

张岩,肖永双,高天翔, 等. 两种黄盖鲽线粒体DNA部分片段比较分析[J]. 水产学报,2009,33(2): 201-207.

THOMPSON J D, GIBSON T J, PLEWNIAK F, et al. The Clustal X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools[J]. Nucl Acids Res, 1997, 24: 4876-4882.

SWOFFORD D L. PAUP*. Phylogenetic Analysis Using Parsimony(*and other methods), version 4, Sinauer Associates .MA: Sunderland, 2002.

POSADA D, CRANDALL K A. Modeltest: testing the model of DNA substitution[J]. Bioinformatics, 1998, 14: 817-818.

KUMAR S, TAMURA K, JAKOBSEN I B, et al. MEGA2: molecular evolutionary genetics analysis software[J]. Bioinformatics, 2001, 17: 1244-1245.

SCHNEIDER S, ROESSLI D, EXCOFFIER L. ARLEQUIN, version 2,000: A Software of Population Genetic Data Analysis .Geneva: University of Geneva, 2000.

GAO T X, CHEN S Q, LIU J X, et al. Comparative analysis of mitochondrial DNA sequences between Verasper variegatus and V. moseri[J]. High Technology Letters, 2004,14: 329-334.

LI W S, GRAUR D. Fundamentals of Molecular Evolution[M]. Sinauer: Sunderland, 1991:284.

ZUCKERKANDL E, PAULING L. Evlutionary Divergence and Convergence in Proteins[M]//BRYSON V, VOGEL H J. Evolving Genes and Proteins. New York: Academic Press, 1965: 97-166.

BROWN W M, GEORGE M. Rapid evolution of animal mitochondrial DNA[J].Proc Natl Acad Sci USA, 1979, 76: 1967-1971.

BERMINGHAM E S, MCCAFFERTY A, MARTIN P. Fish biogeography and molecular colocks: perspectives from the Panamanian Isthmus. In: Kocher T, Stepien C. (Eds.), Molecular Systematics of Fishes[M]. Academic Press, New York, 1997:113-126.

BOWEN B W, BASS A L, ROCHA L A, et al. Phylogeography of the trumpetfishes(Aulostomus): ring species complex on a global scale[J]. Evolution, 2001, 55: 1029-1039.

KOCHER T D, CARLETON K L. Molecular Systematics of Fishes[M]. Academic Press, San Diego, 1997:13-24.

LIU J X, GAO T X, YOKOGAWA K, et al. Differential population structuring and demographic history of two closely related fish species, Japanese sea bass (Latolabrax japonicus) and spotted sea bass (Lateolabrax maculatus) in Northwestern Pacific[J]. Mol Phylo Evol, 2006, 39: 799-811.

郭新红,刘少军,刘巧, 等. 鱼类线粒体DNA研究新进展[J]. 遗传学报,2004,31(9): 983-1000.

BROWN W M. Evolution of animal mitochondrial DNA. Evolution of Genes and Proteins[M]. Sinauer, Sunderland, MA, 1983: 62-88.

ORRELL T M, CARPENTER K E. A phylogeny of the fish family Sparidae (porgies) inferred from mitochondrial sequence data[J]. Mol Phylo Evol, 2004, 32: 425-434.

WARD R D, ZEMLAK T S, INNES B H, et al. DNA barcoding Australia's fish species[J]. Phil Trans R Soc, 2005, 360: 1847-1857.

LIU S H, YEH W B, MOK H K. Phylogeny of Glaucosomatidae inferred from molecular evidence[J]. J Fish Biol, 2010, 76: 348-356.

FISH-BOL. http://www.fishbol.org, 2010.

MEYER A. Evolution of mitochondrial DNA in fishes. In: Biochemistry and Molecular Biology of Fishes[M]. Elsevier Press, Amsterdam, the Netherlands,1993:1-36.

SBIS E, TANZARIELLO F, REYES A, et al. Mammalian mitochondrial D-loop region structure analysis: identification of new conserved sequences and their functional and evolutionary implications[J]. Gene, 1997, 205: 125-140.

XIAO Y S, ZHANG Y, GAO T X. Study of the relationship between genera Kareius bicoloratus and Platichthys stellatus by mtDNA Sequence[J]. Period Ocean Univ Chin, 2010, 40(6): 69-76.

ELY B, VI AS J, BREMER J R A, et al. Consequences of the historical demography on the global population structure of two closely migratory cosmopolitan marine fishes: the yellow fin tuna (Thunnus albacares) and the skipjack tuna (Katsuwonus pelamis)[J]. Evol Biol, 2005, 5(19): 1-9.

HE A, LUO Y J, YANG H, et al. Complete mitochondrial DNA sequences of the Nile tilapia(Oreochromis niloticus) and Blue tilapia (Oreochromis aureus) genome characterization and phylogeny applications[J]. Mol Biol Rep, 2010, DOI 10.1007/s110330-010-0324-7.

唐文乔, 胡雪莲, 杨金权. 从线粒体控制区全序列变异看短颌鲚和湖鲚的物种有效性[J]. 生物多样性,2007, 15(3): 224-231.

HEWITT G M. Some genetic consequences of ice ages, and their role in divergence and speciation[J].Biol J Linn Soc, 1996, 58: 247-276.

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