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. 1999 Feb 22;266(1417):339–345. doi: 10.1098/rspb.1999.0643

The mitochondrial DNA molecule of the aardvark, Orycteropus afer, and the position of the Tubulidentata in the eutherian tree.

U Arnason 1, A Gullberg 1, A Janke 1
PMCID: PMC1689691  PMID: 10097395

Abstract

An outstanding problem in mammal phylogeny is the relationship of the aardvark (Orycteropus afer), the only living species of the order Tubulidentata, to the extant eutherian lineages. In order to examine this problem the complete mitochondrial DNA (mtDNA) molecule of the aardvark was sequenced and analysed. The aardvark tRNA-Ser (UCN) differs from that of other mammalian mtDNAs reported and appears to have reversed to the ancestral secondary structure of non-mammalian vertebrates and mitochondrial tRNAs in general. Phylogenetic analysis of 12 concatenated protein-coding genes (3325 amino acids) included the aardvark and 15 additional eutherians, two marsupials and a monotreme. The most strongly supported tree identified the aardvark as a sister group of a clade including the armadillo (Xenarthra) and the Cetferungulata (carnivores, perissodactyls, artiodactyls and cetaceans). By applying three molecular calibration points the divergence between the aardvark and armadillo-cetferungulates was estimated at ca. 90 million years before present.

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Selected References

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  1. Adachi J., Hasegawa M. Model of amino acid substitution in proteins encoded by mitochondrial DNA. J Mol Evol. 1996 Apr;42(4):459–468. doi: 10.1007/BF02498640. [DOI] [PubMed] [Google Scholar]
  2. Anderson S., de Bruijn M. H., Coulson A. R., Eperon I. C., Sanger F., Young I. G. Complete sequence of bovine mitochondrial DNA. Conserved features of the mammalian mitochondrial genome. J Mol Biol. 1982 Apr 25;156(4):683–717. doi: 10.1016/0022-2836(82)90137-1. [DOI] [PubMed] [Google Scholar]
  3. 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 Mol Evol. 1993 Oct;37(4):312–322. doi: 10.1007/BF00178861. [DOI] [PubMed] [Google Scholar]
  4. Arnason U., Gullberg A. Cytochrome b nucleotide sequences and the identification of five primary lineages of extant cetaceans. Mol Biol Evol. 1996 Feb;13(2):407–417. doi: 10.1093/oxfordjournals.molbev.a025599. [DOI] [PubMed] [Google Scholar]
  5. Arnason U., Gullberg A., Janke A. Molecular timing of primate divergences as estimated by two nonprimate calibration points. J Mol Evol. 1998 Dec;47(6):718–727. doi: 10.1007/pl00006431. [DOI] [PubMed] [Google Scholar]
  6. Arnason U., Gullberg A., Janke A. Phylogenetic analyses of mitochondrial DNA suggest a sister group relationship between Xenarthra (Edentata) and Ferungulates. Mol Biol Evol. 1997 Jul;14(7):762–768. doi: 10.1093/oxfordjournals.molbev.a025816. [DOI] [PubMed] [Google Scholar]
  7. Arnason U., Gullberg A., Janke A., Xu X. Pattern and timing of evolutionary divergences among hominoids based on analyses of complete mtDNAs. J Mol Evol. 1996 Dec;43(6):650–661. doi: 10.1007/BF02202113. [DOI] [PubMed] [Google Scholar]
  8. Arnason U., Gullberg A., Widegren B. The complete nucleotide sequence of the mitochondrial DNA of the fin whale, Balaenoptera physalus. J Mol Evol. 1991 Dec;33(6):556–568. doi: 10.1007/BF02102808. [DOI] [PubMed] [Google Scholar]
  9. Arnason U., Johnsson E. The complete mitochondrial DNA sequence of the harbor seal, Phoca vitulina. J Mol Evol. 1992 Jun;34(6):493–505. doi: 10.1007/BF00160463. [DOI] [PubMed] [Google Scholar]
  10. Arnason U., Xu X., Gullberg A. Comparison between the complete mitochondrial DNA sequences of Homo and the common chimpanzee based on nonchimeric sequences. J Mol Evol. 1996 Feb;42(2):145–152. doi: 10.1007/BF02198840. [DOI] [PubMed] [Google Scholar]
  11. Bibb M. J., Van Etten R. A., Wright C. T., Walberg M. W., Clayton D. A. Sequence and gene organization of mouse mitochondrial DNA. Cell. 1981 Oct;26(2 Pt 2):167–180. doi: 10.1016/0092-8674(81)90300-7. [DOI] [PubMed] [Google Scholar]
  12. Börner G. V., Yokobori S., Mörl M., Dörner M., Päbo S. RNA editing in metazoan mitochondria: staying fit without sex. FEBS Lett. 1997 Jun 16;409(3):320–324. doi: 10.1016/s0014-5793(97)00357-8. [DOI] [PubMed] [Google Scholar]
  13. Cao Y., Adachi J., Janke A., Päbo S., Hasegawa M. Phylogenetic relationships among eutherian orders estimated from inferred sequences of mitochondrial proteins: instability of a tree based on a single gene. J Mol Evol. 1994 Nov;39(5):519–527. doi: 10.1007/BF00173421. [DOI] [PubMed] [Google Scholar]
  14. D'Erchia A. M., Gissi C., Pesole G., Saccone C., Arnason U. The guinea-pig is not a rodent. Nature. 1996 Jun 13;381(6583):597–600. doi: 10.1038/381597a0. [DOI] [PubMed] [Google Scholar]
  15. Fearnley I. M., Walker J. E. Initiation codons in mammalian mitochondria: differences in genetic code in the organelle. Biochemistry. 1987 Dec 15;26(25):8247–8251. doi: 10.1021/bi00399a034. [DOI] [PubMed] [Google Scholar]
  16. Felsenstein J. Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol. 1981;17(6):368–376. doi: 10.1007/BF01734359. [DOI] [PubMed] [Google Scholar]
  17. Gadaleta G., Pepe G., De Candia G., Quagliariello C., Sbisà E., Saccone C. The complete nucleotide sequence of the Rattus norvegicus mitochondrial genome: cryptic signals revealed by comparative analysis between vertebrates. J Mol Evol. 1989 Jun;28(6):497–516. doi: 10.1007/BF02602930. [DOI] [PubMed] [Google Scholar]
  18. Gissi C., Gullberg A., Arnason U. The complete mitochondrial DNA sequence of the rabbit, Oryctolagus cuniculus. Genomics. 1998 Jun 1;50(2):161–169. doi: 10.1006/geno.1998.5282. [DOI] [PubMed] [Google Scholar]
  19. Hasegawa M., Kishino H., Yano T. Dating of the human-ape splitting by a molecular clock of mitochondrial DNA. J Mol Evol. 1985;22(2):160–174. doi: 10.1007/BF02101694. [DOI] [PubMed] [Google Scholar]
  20. Holmes E. C. Different rates of substitution may produce different phylogenies of the eutherian mammals. J Mol Evol. 1991 Sep;33(3):209–215. doi: 10.1007/BF02100671. [DOI] [PubMed] [Google Scholar]
  21. Janke A., Feldmaier-Fuchs G., Thomas W. K., von Haeseler A., Päbo S. The marsupial mitochondrial genome and the evolution of placental mammals. Genetics. 1994 May;137(1):243–256. doi: 10.1093/genetics/137.1.243. [DOI] [PMC free article] [PubMed] [Google Scholar]
  22. Janke A., Gemmell N. J., Feldmaier-Fuchs G., von Haeseler A., Päbo S. The mitochondrial genome of a monotreme--the platypus (Ornithorhynchus anatinus). J Mol Evol. 1996 Feb;42(2):153–159. doi: 10.1007/BF02198841. [DOI] [PubMed] [Google Scholar]
  23. Janke A., Xu X., Arnason U. The complete mitochondrial genome of the wallaroo (Macropus robustus) and the phylogenetic relationship among Monotremata, Marsupialia, and Eutheria. Proc Natl Acad Sci U S A. 1997 Feb 18;94(4):1276–1281. doi: 10.1073/pnas.94.4.1276. [DOI] [PMC free article] [PubMed] [Google Scholar]
  24. Kishino H., Hasegawa M. Evaluation of the maximum likelihood estimate of the evolutionary tree topologies from DNA sequence data, and the branching order in hominoidea. J Mol Evol. 1989 Aug;29(2):170–179. doi: 10.1007/BF02100115. [DOI] [PubMed] [Google Scholar]
  25. Krettek A., Gullberg A., Arnason U. Sequence analysis of the complete mitochondrial DNA molecule of the hedgehog, Erinaceus europaeus, and the phylogenetic position of the Lipotyphla. J Mol Evol. 1995 Dec;41(6):952–957. doi: 10.1007/BF00173175. [DOI] [PubMed] [Google Scholar]
  26. Lavergne A., Douzery E., Stichler T., Catzeflis F. M., Springer M. S. Interordinal mammalian relationships: evidence for paenungulate monophyly is provided by complete mitochondrial 12S rRNA sequences. Mol Phylogenet Evol. 1996 Oct;6(2):245–258. doi: 10.1006/mpev.1996.0074. [DOI] [PubMed] [Google Scholar]
  27. Lopez J. V., Cevario S., O'Brien S. J. Complete nucleotide sequences of the domestic cat (Felis catus) mitochondrial genome and a transposed mtDNA tandem repeat (Numt) in the nuclear genome. Genomics. 1996 Apr 15;33(2):229–246. doi: 10.1006/geno.1996.0188. [DOI] [PubMed] [Google Scholar]
  28. Lynch M. Mutation accumulation in transfer RNAs: molecular evidence for Muller's ratchet in mitochondrial genomes. Mol Biol Evol. 1996 Jan;13(1):209–220. doi: 10.1093/oxfordjournals.molbev.a025557. [DOI] [PubMed] [Google Scholar]
  29. Madsen O., Deen P. M., Pesole G., Saccone C., de Jong W. W. Molecular evolution of mammalian aquaporin-2: further evidence that elephant shrew and aardvark join the paenungulate clade. Mol Biol Evol. 1997 Apr;14(4):363–371. doi: 10.1093/oxfordjournals.molbev.a025772. [DOI] [PubMed] [Google Scholar]
  30. Ojala D., Montoya J., Attardi G. tRNA punctuation model of RNA processing in human mitochondria. Nature. 1981 Apr 9;290(5806):470–474. doi: 10.1038/290470a0. [DOI] [PubMed] [Google Scholar]
  31. Penny D., Hasegawa M. Molecular systematics. The platypus put in its place. Nature. 1997 Jun 5;387(6633):549–550. doi: 10.1038/42352. [DOI] [PubMed] [Google Scholar]
  32. Rainey W. E., Lowenstein J. M., Sarich V. M., Magor D. M. Sirenian molecular systematics--including the extinct Steller's sea cow (Hydrodamalis gigas). Naturwissenschaften. 1984 Nov;71(11):586–588. doi: 10.1007/BF01189187. [DOI] [PubMed] [Google Scholar]
  33. Saitou N., Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol. 1987 Jul;4(4):406–425. doi: 10.1093/oxfordjournals.molbev.a040454. [DOI] [PubMed] [Google Scholar]
  34. Sanger F. Determination of nucleotide sequences in DNA. Science. 1981 Dec 11;214(4526):1205–1210. doi: 10.1126/science.7302589. [DOI] [PubMed] [Google Scholar]
  35. Springer M. S., Burk A., Kavanagh J. R., Waddell V. G., Stanhope M. J. The interphotoreceptor retinoid binding protein gene in therian mammals: implications for higher level relationships and evidence for loss of function in the marsupial mole. Proc Natl Acad Sci U S A. 1997 Dec 9;94(25):13754–13759. doi: 10.1073/pnas.94.25.13754. [DOI] [PMC free article] [PubMed] [Google Scholar]
  36. Springer M. S., Cleven G. C., Madsen O., de Jong W. W., Waddell V. G., Amrine H. M., Stanhope M. J. Endemic African mammals shake the phylogenetic tree. Nature. 1997 Jul 3;388(6637):61–64. doi: 10.1038/40386. [DOI] [PubMed] [Google Scholar]
  37. Stanhope M. J., Smith M. R., Waddell V. G., Porter C. A., Shivji M. S., Goodman M. Mammalian evolution and the interphotoreceptor retinoid binding protein (IRBP) gene: convincing evidence for several superordinal clades. J Mol Evol. 1996 Aug;43(2):83–92. doi: 10.1007/BF02337352. [DOI] [PubMed] [Google Scholar]
  38. Steinberg S., Cedergren R. Structural compensation in atypical mitochondrial tRNAs. Nat Struct Biol. 1994 Aug;1(8):507–510. doi: 10.1038/nsb0894-507. [DOI] [PubMed] [Google Scholar]
  39. Wilson A. C., Carlson S. S., White T. J. Biochemical evolution. Annu Rev Biochem. 1977;46:573–639. doi: 10.1146/annurev.bi.46.070177.003041. [DOI] [PubMed] [Google Scholar]
  40. Xu X., Arnason U. The complete mitochondrial DNA sequence of the horse, Equus caballus: extensive heteroplasmy of the control region. Gene. 1994 Oct 21;148(2):357–362. doi: 10.1016/0378-1119(94)90713-7. [DOI] [PubMed] [Google Scholar]
  41. Xu X., Arnason U. The complete mitochondrial DNA sequence of the white rhinoceros, Ceratotherium simum, and comparison with the mtDNA sequence of the Indian rhinoceros, Rhinoceros unicornis. Mol Phylogenet Evol. 1997 Apr;7(2):189–194. doi: 10.1006/mpev.1996.0385. [DOI] [PubMed] [Google Scholar]
  42. Xu X., Janke A., Arnason U. The complete mitochondrial DNA sequence of the greater Indian rhinoceros, Rhinoceros unicornis, and the Phylogenetic relationship among Carnivora, Perissodactyla, and Artiodactyla (+ Cetacea). Mol Biol Evol. 1996 Nov;13(9):1167–1173. doi: 10.1093/oxfordjournals.molbev.a025681. [DOI] [PubMed] [Google Scholar]
  43. de Jong W. W., Zweers A., Goodman M. Relationship of aardvark to elephants, hyraxes and sea cows from alpha-crystallin sequences. Nature. 1981 Aug 6;292(5823):538–540. doi: 10.1038/292538a0. [DOI] [PubMed] [Google Scholar]

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