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. 1987 Feb;84(4):1080–1084. doi: 10.1073/pnas.84.4.1080

Nucleotide sequences of immunoglobulin epsilon genes of chimpanzee and orangutan: DNA molecular clock and hominoid evolution.

Y Sakoyama, K J Hong, S M Byun, H Hisajima, S Ueda, Y Yaoita, H Hayashida, T Miyata, T Honjo
PMCID: PMC304365  PMID: 3103123

Abstract

To determine the phylogenetic relationships among hominoids and the dates of their divergence, the complete nucleotide sequences of the constant region of the immunoglobulin epsilon-chain (C epsilon 1) genes from chimpanzee and orangutan have been determined. These sequences were compared with the human epsilon-chain constant-region sequence. A molecular clock (silent molecular clock), measured by the degree of sequence divergence at the synonymous (silent) positions of protein-encoding regions, was introduced for the present study. From the comparison of nucleotide sequences of alpha1-antitrypsin and beta- and delta-globin genes between humans and Old World monkeys, the silent molecular clock was calibrated: the mean evolutionary rate of silent substitution was determined to be 1.56 X 10(-9) substitutions per site per year. Using the silent molecular clock, the mean divergence dates of chimpanzee and orangutan from the human lineage were estimated as 6.4 +/- 2.6 million years and 17.3 +/- 4.5 million years, respectively. It was also shown that the evolutionary rate of primate genes is considerably slower than those of other mammalian genes.

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Selected References

These references are in PubMed. This may not be the complete list of references from this article.

  1. Andrews P., Cronin J. E. The relationships of Sivapithecus and Ramapithecus and the evolution of the orang-utan. Nature. 1982 Jun 17;297(5867):541–546. doi: 10.1038/297541a0. [DOI] [PubMed] [Google Scholar]
  2. Andrews P. Improved timing of hominoid evolution with a DNA clock. Nature. 1985 Apr 11;314(6011):498–499. doi: 10.1038/314498a0. [DOI] [PubMed] [Google Scholar]
  3. Battey J., Max E. E., McBride W. O., Swan D., Leder P. A processed human immunoglobulin epsilon gene has moved to chromosome 9. Proc Natl Acad Sci U S A. 1982 Oct;79(19):5956–5960. doi: 10.1073/pnas.79.19.5956. [DOI] [PMC free article] [PubMed] [Google Scholar]
  4. Brown W. M., George M., Jr, Wilson A. C. Rapid evolution of animal mitochondrial DNA. Proc Natl Acad Sci U S A. 1979 Apr;76(4):1967–1971. doi: 10.1073/pnas.76.4.1967. [DOI] [PMC free article] [PubMed] [Google Scholar]
  5. Brown W. M., Prager E. M., Wang A., Wilson A. C. Mitochondrial DNA sequences of primates: tempo and mode of evolution. J Mol Evol. 1982;18(4):225–239. doi: 10.1007/BF01734101. [DOI] [PubMed] [Google Scholar]
  6. Busslinger M., Rusconi S., Birnstiel M. L. An unusual evolutionary behaviour of a sea urchin histone gene cluster. EMBO J. 1982;1(1):27–33. doi: 10.1002/j.1460-2075.1982.tb01119.x. [DOI] [PMC free article] [PubMed] [Google Scholar]
  7. Dickerson R. E. The structures of cytochrome c and the rates of molecular evolution. J Mol Evol. 1971;1(1):26–45. doi: 10.1007/BF01659392. [DOI] [PubMed] [Google Scholar]
  8. Goodman M., Koop B. F., Czelusniak J., Weiss M. L. The eta-globin gene. Its long evolutionary history in the beta-globin gene family of mammals. J Mol Biol. 1984 Dec 25;180(4):803–823. doi: 10.1016/0022-2836(84)90258-4. [DOI] [PubMed] [Google Scholar]
  9. Koop B. F., Goodman M., Xu P., Chan K., Slightom J. L. Primate eta-globin DNA sequences and man's place among the great apes. Nature. 1986 Jan 16;319(6050):234–238. doi: 10.1038/319234a0. [DOI] [PubMed] [Google Scholar]
  10. Kurachi K., Chandra T., Degen S. J., White T. T., Marchioro T. L., Woo S. L., Davie E. W. Cloning and sequence of cDNA coding for alpha 1-antitrypsin. Proc Natl Acad Sci U S A. 1981 Nov;78(11):6826–6830. doi: 10.1073/pnas.78.11.6826. [DOI] [PMC free article] [PubMed] [Google Scholar]
  11. Lawn R. M., Efstratiadis A., O'Connell C., Maniatis T. The nucleotide sequence of the human beta-globin gene. Cell. 1980 Oct;21(3):647–651. doi: 10.1016/0092-8674(80)90428-6. [DOI] [PubMed] [Google Scholar]
  12. Martin S. L., Vincent K. A., Wilson A. C. Rise and fall of the delta globin gene. J Mol Biol. 1983 Mar 15;164(4):513–528. doi: 10.1016/0022-2836(83)90048-7. [DOI] [PubMed] [Google Scholar]
  13. Max E. E., Battey J., Ney R., Kirsch I. R., Leder P. Duplication and deletion in the human immunoglobulin epsilon genes. Cell. 1982 Jun;29(2):691–699. doi: 10.1016/0092-8674(82)90185-4. [DOI] [PubMed] [Google Scholar]
  14. Maxam A. M., Gilbert W. Sequencing end-labeled DNA with base-specific chemical cleavages. Methods Enzymol. 1980;65(1):499–560. doi: 10.1016/s0076-6879(80)65059-9. [DOI] [PubMed] [Google Scholar]
  15. Messing J. New M13 vectors for cloning. Methods Enzymol. 1983;101:20–78. doi: 10.1016/0076-6879(83)01005-8. [DOI] [PubMed] [Google Scholar]
  16. Miyata T., Hayashida H., Kikuno R., Toh H., Kawade Y. Evolution of interferon genes. Interferon. 1985;6:1–30. [PubMed] [Google Scholar]
  17. Miyata T., Yasunaga T. Molecular evolution of mRNA: a method for estimating evolutionary rates of synonymous and amino acid substitutions from homologous nucleotide sequences and its application. J Mol Evol. 1980 Sep;16(1):23–36. doi: 10.1007/BF01732067. [DOI] [PubMed] [Google Scholar]
  18. Miyata T., Yasunaga T., Nishida T. Nucleotide sequence divergence and functional constraint in mRNA evolution. Proc Natl Acad Sci U S A. 1980 Dec;77(12):7328–7332. doi: 10.1073/pnas.77.12.7328. [DOI] [PMC free article] [PubMed] [Google Scholar]
  19. Nikaido T., Yamawaki-Kataoka Y., Honjo T. Nucleotide sequences of switch regions of immunoglobulin C epsilon and C gamma genes and their comparison. J Biol Chem. 1982 Jul 10;257(13):7322–7329. [PubMed] [Google Scholar]
  20. Rosenberg S., Barr P. J., Najarian R. C., Hallewell R. A. Synthesis in yeast of a functional oxidation-resistant mutant of human alpha-antitrypsin. Nature. 1984 Nov 1;312(5989):77–80. doi: 10.1038/312077a0. [DOI] [PubMed] [Google Scholar]
  21. Sarich V. M., Wilson A. C. Immunological time scale for hominid evolution. Science. 1967 Dec 1;158(3805):1200–1203. doi: 10.1126/science.158.3805.1200. [DOI] [PubMed] [Google Scholar]
  22. Sarich V. M., Wilson A. C. Rates of albumin evolution in primates. Proc Natl Acad Sci U S A. 1967 Jul;58(1):142–148. doi: 10.1073/pnas.58.1.142. [DOI] [PMC free article] [PubMed] [Google Scholar]
  23. Sibley C. G., Ahlquist J. E. The phylogeny of the hominoid primates, as indicated by DNA-DNA hybridization. J Mol Evol. 1984;20(1):2–15. doi: 10.1007/BF02101980. [DOI] [PubMed] [Google Scholar]
  24. Spritz R. A., DeRiel J. K., Forget B. G., Weissman S. M. Complete nucleotide sequence of the human delta-globin gene. Cell. 1980 Oct;21(3):639–646. doi: 10.1016/0092-8674(80)90427-4. [DOI] [PubMed] [Google Scholar]
  25. Ueda S., Nakai S., Nishida Y., Hisajima H., Honjo T. Long terminal repeat-like elements flank a human immunoglobulin epsilon pseudogene that lacks introns. EMBO J. 1982;1(12):1539–1544. doi: 10.1002/j.1460-2075.1982.tb01352.x. [DOI] [PMC free article] [PubMed] [Google Scholar]
  26. Ueda S., Takenaka O., Honjo T. A truncated immunoglobulin epsilon pseudogene is found in gorilla and man but not in chimpanzee. Proc Natl Acad Sci U S A. 1985 Jun;82(11):3712–3715. doi: 10.1073/pnas.82.11.3712. [DOI] [PMC free article] [PubMed] [Google Scholar]
  27. 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]
  28. Wu C. I., Li W. H. Evidence for higher rates of nucleotide substitution in rodents than in man. Proc Natl Acad Sci U S A. 1985 Mar;82(6):1741–1745. doi: 10.1073/pnas.82.6.1741. [DOI] [PMC free article] [PubMed] [Google Scholar]

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