鳍足类线粒体基因的选择压力比较及进化关系探讨

申欣; 田美; 孟学平; 程汉良; 阎斌伦

鳍足类线粒体基因的选择压力比较及进化关系探讨

1.
淮海工学院海洋学院江苏省海洋生物技术重点实验室, 江苏连云港 222005;中国科学院北京生命科学研究院, 北京 100101
2.
淮海工学院海洋学院江苏省海洋生物技术重点实验室, 江苏连云港 222005

基金项目: 国家自然科学基金（40906067）；香江学者计划（XJ2012056）；中国博士后科学基金（2012M510054，2012T50218）；中央财政支持地方高校发展专项资金（CXTD04）；江苏省“青蓝工程”人才基金资助项目（苏教师[2010]27号）；江苏高校优势学科建设工程资助项目。

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出版历程
- 收稿日期: 2013-07-01

Selection pressure comparison and evolutionary relationships exploration of pinnipeds mitochondrial genes

1.
Jiangsu Key Laboratory of Marine Biotechnology, College of Marine Science, Huaihai Institute of Technology, Lianyungang 222005, China;Beijing Institutes of Life Science, Chinese Academy of Sciences, Beijing 100101, China
2.
Jiangsu Key Laboratory of Marine Biotechnology, College of Marine Science, Huaihai Institute of Technology, Lianyungang 222005, China

摘要

摘要: 鳍足类Pinnipeds是海洋哺乳动物的重要类群，现存种类包括海象科Odobenidae、海狮科Otariidae和海豹科Phocidae的所有物种。在海豹属Phoca中，atp8基因的Ka/Ks最高，仅为0.084 7（远小于1），因而海豹属所有线粒体蛋白质编码基因的选择压力均非常高。对于群海豹属Pusa， cox1、cox2和nad3 基因的Ka/Ks均为0，表明在这3个基因中，所有的核苷酸的替换均为同义替换，没有出现氨基酸的改变。科内、属内基因变异位点的分析表明， nad5、nad4和nad2基因可以作为cox1和cob基因辅助的分子标记。线粒体基因组的系统发育结果，强烈支持食肉目所有12个科均为单系群，并且鳍足类（海狮科、海象科和海豹科）为食肉目Carnivora内部的一个单系群（BPM=100，BPP=100）。在鳍足类内部，海狮科与海象科亲缘关系最近，聚类为海狮总科Otarioidea，然后与海豹科聚类：（海狮科＋海象科）＋海豹科。在海豹科内部，线粒体基因组的证据支持将海豹科划分为2个亚科，即僧海豹亚科Monachinae和海豹亚科Phocinae。线粒体基因组的证据，强烈支持鼬科Mustelidae与浣熊科Procyonidae关系最近，臭鼬科Mephitidae与熊猫科Ailuridae近缘，同时，鳍足类与为姊妹群，而与熊科Ursidae较远。犬科Canidae在犬型亚目Caniformia中分化较早，位于犬型亚目的基部。
- 海狮科 /
- 海豹科 /
- 海象科 /
- 鳍足类 /
- 系统发育 /
- 线粒体基因组
Abstract: Current pinnipeds is one important group of marine mammals,which including all species in three families (Odobenidae,Otariidae and Phocidae). In the genus Phoca,the Ka/Ks rate of atp8 gene is highest and only 0.084 7 (much less than 1),so all Phoca mitochondrial protein-coding genes bear very high selection pressure. In Pusa,Ka/Ks rates of three genes (cox1,cox2 and nad3) are equal to 0,indicating that replacement of all nucleotides in these three genes are synonymous substitutions and none amino acid change. Analyses of genetic variations within family and genus indicted that nad5,nad4,and nad2 genes can be used as molecular markers assisted to cox1 and cob gene. Phylogenetic results based on mitochondrial genomes strongly support that all 12 families from Carnivora are monophyletic group,and pinnipeds (Otariidae,Odobenidae and Phocidae) are one monophyletic group within Carnivora (BPM=100,BPP=100). Within the pinnipeds,the relationship between Otariidae and Odobenidae is close (Otarioidea),then cluster with Phocidae: (Otariidae+Odobenidae)+Phocidae. Evidences of mitochondrial genomes support that Phocidae are divided into two subfamilies (Monachinae and Phocinae). Mitochondrial genomic evidence strongly supports close relationship between Mustelidae and Procyonidae. Meanwhile,Mephitidae clustering with Ailuridae is supported powerfully. Pinnipeds as a sister group to,then cluster with the family Ursidae. Canidae is differentiation earliest and is located in base position of the suborder Caniformia.
- Otariidae /
- Phocidae /
- Odobenidae /
- Pinnipeds /
- phylogeny /
- mitochondrial genome

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参考文献(25)

Reeves R R,Stewart B S,Clapham P J,et al. Guide to marine mammals of the world[M]. New York: Knopf,2002.

Berta A,Sumich J L,Kovacs K M. Marine mammals: evolutionary biology[M]. Boston,London: Elsevier/Academic Press,2006.

McClenachan L,Cooper A B. Extinction rate,historical population structure and ecological role of the Caribbean monk seal[J]. Proc Biol Sci,2008,275(1641):1351-1358.

Debrot A O. A review of records of the extinct west indian monk seal,Monachus tropicalis(carnivora: phocidae),for the netherlands antilles[J]. Marine Mammal Science,2000,16(4):834-837.

Rybczynski N,Dawson M R,Tedford R H. A semi-aquatic Arctic mammalian carnivore from the Miocene epoch and origin of Pinnipedia[J]. Nature,2009,458(7241):1021-1024.

Delisle I, Strobeck C. A phylogeny of the Caniformia (order Carnivora) based on 12 complete protein-coding mitochondrial genes[J]. Mol Phylog enet Evol, 2005, 37(1):192-201.

Arnason U,Gullberg A,Janke A,et al. Mitogenomic analyses of caniform relationships[J]. Mol Phylogenet Evol,2007,45(3):863-874.

Yu L,Peng D,Liu J,et al. On the phylogeny of Mustelidae subfamilies: analysis of seventeen nuclear non-coding loci and mitochondrial complete genomes[J]. BMC Evol Biol,2011,11:92-107.

Boore J L,Macey J R,Medina M. Sequencing and comparing whole mitochondrial genomes of animals[J]. Methods Enzymol,2005,395:311-348.

Curole J P,Kocher T D. Mitogenomics: digging deeper with complete mitochondrial genomes[J]. Trends Ecol Evol,1999,14(10):394-398.

Boore J L. Animal mitochondrial genomes[J]. Nucleic Acids Res,1999,27(8):1767-1780.

Arnason U,Adegoke J A,Bodin K,et al. Mammalian mitogenomic relationships and the root of the eutherian tree[J]. Proc Natl Acad Sci U S A,2002,99(12):8151-8156.

Lin Y H,McLenachan P A,Gore A R,et al. Four new mitochondrial genomes and the increased stability of evolutionary trees of mammals from improved taxon sampling[J]. Mol Biol Evol,2002,19(12):2060-2070.

Arnason U,Gullberg A,Janke A,et al. Pinniped phylogeny and a new hypothesis for their origin and dispersal[J]. Mol Phylogenet Evol,2006,41(2):345-354.

Arnason U,Gullberg A. Comparison between the complete mtDNA sequences of the blue and the fin whale,two species that can hybridize in nature[J]. J Mol Evol,1993,37(4):312-322.

Arnason U,Johnsson E. The complete mitochondrial DNA sequence of the harbor seal,Phoca vitulina[J]. J Mol Evol,1992,34(6):493-505.

Larkin M A,Blackshields G,Brown N P,et al. Clustal W and Clustal X version 2.0[J]. Bioinformatics,2007,23(21):2947-2948.

Rozas J,Sanchez-DelBarrio J C,Messeguer X,et al. DnaSP,DNA polymorphism analyses by the coalescent and other methods[J]. Bioinformatics,2003,19(18):2496-2497.

Darriba D,Taboada G L,Doallo R,et al. jModelTest 2: more models,new heuristics and parallel computing[J]. Nat Methods,2012,9(8):772.

Guindon S,Dufayard J F,Lefort V,et al. New algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0[J]. Syst Biol,2010,59(3):307-321.

Ronquist F,Teslenko M,van der Mark P,et al. MrBayes 3.2: efficient Bayesian phylogenetic inference and model choice across a large model space[J]. Syst Biol,2012,61(3):539-542.

Yonezawa T,Kohno N,Hasegawa M. The monophyletic origin of sea lions and fur seals (Carnivora; Otariidae) in the Southern Hemisphere[J]. Gene,2009,441(1/2):89-99.

Higdon J W,Bininda-Emonds O R,Beck R M,et al. Phylogeny and divergence of the pinnipeds (Carnivora: Mammalia) assessed using a multigene dataset[J]. BMC Evol Biol,2007,7:216-234.

Flynn J J,Finarelli J A,Zehr S,et al. Molecular phylogeny of the carnivora (mammalia): assessing the impact of increased sampling on resolving enigmatic relationships[J]. Syst Biol,2005,54(2):317-337.

Yu L,Luan P T,Jin W,et al. Phylogenetic utility of nuclear introns in interfamilial relationships of Caniformia (order Carnivora) [J]. Syst Biol,2011,60(2):175-187.

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