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. 1985 Jul;5(7):1694–1706. doi: 10.1128/mcb.5.7.1694

Characterization of the functional gene and several processed pseudogenes in the human triosephosphate isomerase gene family.

J R Brown, I O Daar, J R Krug, L E Maquat
PMCID: PMC367288  PMID: 4022011

Abstract

The functional gene and three intronless pseudogenes for human triosephosphate isomerase were isolated from a recombinant DNA library and characterized in detail. The functional gene spans 3.5 kilobase pairs and is split into seven exons. Its promoter contains putative TATA and CCAAT boxes and is extremely rich in G and C residues (76%). The pseudogenes share a high degree of homology with the functional gene but contain mutations that preclude the synthesis of an active triosephosphate isomerase enzyme. Sequence divergence calculations indicate that these pseudogenes arose approximately 18 million years ago. We present evidence that there is a single functional gene in the human triosephosphate isomerase gene family.

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  1. Alber T., Kawasaki G. Nucleotide sequence of the triose phosphate isomerase gene of Saccharomyces cerevisiae. J Mol Appl Genet. 1982;1(5):419–434. [PubMed] [Google Scholar]
  2. Aviv H., Leder P. Purification of biologically active globin messenger RNA by chromatography on oligothymidylic acid-cellulose. Proc Natl Acad Sci U S A. 1972 Jun;69(6):1408–1412. doi: 10.1073/pnas.69.6.1408. [DOI] [PMC free article] [PubMed] [Google Scholar]
  3. Banerji J., Olson L., Schaffner W. A lymphocyte-specific cellular enhancer is located downstream of the joining region in immunoglobulin heavy chain genes. Cell. 1983 Jul;33(3):729–740. doi: 10.1016/0092-8674(83)90015-6. [DOI] [PubMed] [Google Scholar]
  4. Benoist C., Chambon P. In vivo sequence requirements of the SV40 early promotor region. Nature. 1981 Mar 26;290(5804):304–310. doi: 10.1038/290304a0. [DOI] [PubMed] [Google Scholar]
  5. Benoist C., O'Hare K., Breathnach R., Chambon P. The ovalbumin gene-sequence of putative control regions. Nucleic Acids Res. 1980 Jan 11;8(1):127–142. doi: 10.1093/nar/8.1.127. [DOI] [PMC free article] [PubMed] [Google Scholar]
  6. Benton W. D., Davis R. W. Screening lambdagt recombinant clones by hybridization to single plaques in situ. Science. 1977 Apr 8;196(4286):180–182. doi: 10.1126/science.322279. [DOI] [PubMed] [Google Scholar]
  7. Breathnach R., Chambon P. Organization and expression of eucaryotic split genes coding for proteins. Annu Rev Biochem. 1981;50:349–383. doi: 10.1146/annurev.bi.50.070181.002025. [DOI] [PubMed] [Google Scholar]
  8. Chan S. J., Episkopou V., Zeitlin S., Karathanasis S. K., MacKrell A., Steiner D. F., Efstratiadis A. Guinea pig preproinsulin gene: an evolutionary compromise? Proc Natl Acad Sci U S A. 1984 Aug;81(16):5046–5050. doi: 10.1073/pnas.81.16.5046. [DOI] [PMC free article] [PubMed] [Google Scholar]
  9. Charnay P., Treisman R., Mellon P., Chao M., Axel R., Maniatis T. Differences in human alpha- and beta-globin gene expression in mouse erythroleukemia cells: the role of intragenic sequences. Cell. 1984 Aug;38(1):251–263. doi: 10.1016/0092-8674(84)90547-6. [DOI] [PubMed] [Google Scholar]
  10. Conrad S. E., Botchan M. R. Isolation and characterization of human DNA fragments with nucleotide sequence homologies with the simian virus 40 regulatory region. Mol Cell Biol. 1982 Aug;2(8):949–965. doi: 10.1128/mcb.2.8.949. [DOI] [PMC free article] [PubMed] [Google Scholar]
  11. Corden J., Wasylyk B., Buchwalder A., Sassone-Corsi P., Kedinger C., Chambon P. Promoter sequences of eukaryotic protein-coding genes. Science. 1980 Sep 19;209(4463):1406–1414. doi: 10.1126/science.6251548. [DOI] [PubMed] [Google Scholar]
  12. Decker R. S., Mohrenweiser H. W. Origin of the triosephosphate isomerase isozymes in humans: genetic evidence for the expression of a single structural locus. Am J Hum Genet. 1981 Sep;33(5):683–691. [PMC free article] [PubMed] [Google Scholar]
  13. Eber S. W., Dünnwald M., Belohradsky B. H., Bidlingmaier F., Schievelbein H., Weinmann H. M., Krietsch K. G. Hereditary deficiency of triosephosphate isomerase in four unrelated families. Eur J Clin Invest. 1979 Jun;9(3):195–202. doi: 10.1111/j.1365-2362.1979.tb00923.x. [DOI] [PubMed] [Google Scholar]
  14. Efstratiadis A., Posakony J. W., Maniatis T., Lawn R. M., O'Connell C., Spritz R. A., DeRiel J. K., Forget B. G., Weissman S. M., Slightom J. L. The structure and evolution of the human beta-globin gene family. Cell. 1980 Oct;21(3):653–668. doi: 10.1016/0092-8674(80)90429-8. [DOI] [PubMed] [Google Scholar]
  15. Gracy R. W. Glucosephosphate and triosephosphate isomerases: significance of isozyme structural differences in evolution, physiology, and aging. Isozymes Curr Top Biol Med Res. 1982;6:169–205. [PubMed] [Google Scholar]
  16. Grosschedl R., Birnstiel M. L. Identification of regulatory sequences in the prelude sequences of an H2A histone gene by the study of specific deletion mutants in vivo. Proc Natl Acad Sci U S A. 1980 Mar;77(3):1432–1436. doi: 10.1073/pnas.77.3.1432. [DOI] [PMC free article] [PubMed] [Google Scholar]
  17. Hollis G. F., Hieter P. A., McBride O. W., Swan D., Leder P. Processed genes: a dispersed human immunoglobulin gene bearing evidence of RNA-type processing. Nature. 1982 Mar 25;296(5855):321–325. doi: 10.1038/296321a0. [DOI] [PubMed] [Google Scholar]
  18. Jongsma A. P., Hagemeijer A., Meera Khan P. Regional mapping of TPI, LDH-B, Pep-B on chromosome 12 of man. Birth Defects Orig Artic Ser. 1975;11(3):189–191. [PubMed] [Google Scholar]
  19. Junien C., Kaplan J. C., Serville F., Lenoir G. Triplex gene dosage effect of TPI and G3PD in a human lymphoblastoid cell line with partial trisomy 12p13 and 18p. Hum Genet. 1979 Jun 19;49(2):221–223. doi: 10.1007/BF00277646. [DOI] [PubMed] [Google Scholar]
  20. Lacy E., Maniatis T. The nucleotide sequence of a rabbit beta-globin pseudogene. Cell. 1980 Sep;21(2):545–553. doi: 10.1016/0092-8674(80)90492-4. [DOI] [PubMed] [Google Scholar]
  21. Law M. L., Kao F. T. Regional assignment of human genes TPI1, GAPDH, LDHB, SHMT, and PEPB on chromosome 12. Cytogenet Cell Genet. 1979;24(2):102–114. doi: 10.1159/000131363. [DOI] [PubMed] [Google Scholar]
  22. Lu H. S., Yuan P. M., Gracy R. W. Primary structure of human triosephosphate isomerase. J Biol Chem. 1984 Oct 10;259(19):11958–11968. [PubMed] [Google Scholar]
  23. Maniatis T., Hardison R. C., Lacy E., Lauer J., O'Connell C., Quon D., Sim G. K., Efstratiadis A. The isolation of structural genes from libraries of eucaryotic DNA. Cell. 1978 Oct;15(2):687–701. doi: 10.1016/0092-8674(78)90036-3. [DOI] [PubMed] [Google Scholar]
  24. Maquat L. E., Chilcote R., Ryan P. M. Human triosephosphate isomerase cDNA and protein structure. Studies of triosephosphate isomerase deficiency in man. J Biol Chem. 1985 Mar 25;260(6):3748–3753. [PubMed] [Google Scholar]
  25. 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]
  26. McKnight S. L., Kingsbury R. C., Spence A., Smith M. The distal transcription signals of the herpesvirus tk gene share a common hexanucleotide control sequence. Cell. 1984 May;37(1):253–262. doi: 10.1016/0092-8674(84)90321-0. [DOI] [PubMed] [Google Scholar]
  27. McKnight S. L., Kingsbury R. Transcriptional control signals of a eukaryotic protein-coding gene. Science. 1982 Jul 23;217(4557):316–324. doi: 10.1126/science.6283634. [DOI] [PubMed] [Google Scholar]
  28. McKnight S. L. The nucleotide sequence and transcript map of the herpes simplex virus thymidine kinase gene. Nucleic Acids Res. 1980 Dec 20;8(24):5949–5964. doi: 10.1093/nar/8.24.5949. [DOI] [PMC free article] [PubMed] [Google Scholar]
  29. Melton D. W., Konecki D. S., Brennand J., Caskey C. T. Structure, expression, and mutation of the hypoxanthine phosphoribosyltransferase gene. Proc Natl Acad Sci U S A. 1984 Apr;81(7):2147–2151. doi: 10.1073/pnas.81.7.2147. [DOI] [PMC free article] [PubMed] [Google Scholar]
  30. Merrill G. F., Harland R. M., Groudine M., McKnight S. L. Genetic and physical analysis of the chicken tk gene. Mol Cell Biol. 1984 Sep;4(9):1769–1776. doi: 10.1128/mcb.4.9.1769. [DOI] [PMC free article] [PubMed] [Google Scholar]
  31. Mohrenweiser H. W., Fielek S. Elevated frequency of carriers for triosephosphate isomerase deficiency in newborn infants. Pediatr Res. 1982 Nov;16(11):960–963. doi: 10.1203/00006450-198211000-00012. [DOI] [PubMed] [Google Scholar]
  32. Mohrenweiser H. W. Frequency of enzyme deficiency variants in erythrocytes of newborn infants. Proc Natl Acad Sci U S A. 1981 Aug;78(8):5046–5050. doi: 10.1073/pnas.78.8.5046. [DOI] [PMC free article] [PubMed] [Google Scholar]
  33. Moore G. W., Goodman M., Callahan C., Holmquist R., Moise H. Stochastic versus augmented maximum parsimony method for estimating superimposed mutations in the divergent evolution of protein sequences. Methods tested on cytochrome c amino acid sequences. J Mol Biol. 1976 Jul 25;105(1):15–37. doi: 10.1016/0022-2836(76)90193-5. [DOI] [PubMed] [Google Scholar]
  34. Mount S. M. A catalogue of splice junction sequences. Nucleic Acids Res. 1982 Jan 22;10(2):459–472. doi: 10.1093/nar/10.2.459. [DOI] [PMC free article] [PubMed] [Google Scholar]
  35. Nishioka Y., Leder A., Leder P. Unusual alpha-globin-like gene that has cleanly lost both globin intervening sequences. Proc Natl Acad Sci U S A. 1980 May;77(5):2806–2809. doi: 10.1073/pnas.77.5.2806. [DOI] [PMC free article] [PubMed] [Google Scholar]
  36. Perler F., Efstratiadis A., Lomedico P., Gilbert W., Kolodner R., Dodgson J. The evolution of genes: the chicken preproinsulin gene. Cell. 1980 Jun;20(2):555–566. doi: 10.1016/0092-8674(80)90641-8. [DOI] [PubMed] [Google Scholar]
  37. Peters J., Hopkinson D. A., Harris H. Genetic and non-genetic variation of triose phosphate isomerase isozymes in human tissues. Ann Hum Genet. 1973 Jan;36(3):297–312. doi: 10.1111/j.1469-1809.1973.tb00592.x. [DOI] [PubMed] [Google Scholar]
  38. Post L. E., Mackem S., Roizman B. Regulation of alpha genes of herpes simplex virus: expression of chimeric genes produced by fusion of thymidine kinase with alpha gene promoters. Cell. 1981 May;24(2):555–565. doi: 10.1016/0092-8674(81)90346-9. [DOI] [PubMed] [Google Scholar]
  39. Reynolds G. A., Basu S. K., Osborne T. F., Chin D. J., Gil G., Brown M. S., Goldstein J. L., Luskey K. L. HMG CoA reductase: a negatively regulated gene with unusual promoter and 5' untranslated regions. Cell. 1984 Aug;38(1):275–285. doi: 10.1016/0092-8674(84)90549-x. [DOI] [PubMed] [Google Scholar]
  40. Ross J. A precursor of globin messenger RNA. J Mol Biol. 1976 Sep 15;106(2):403–420. doi: 10.1016/0022-2836(76)90093-0. [DOI] [PubMed] [Google Scholar]
  41. SCHNEIDER A. S., VALENTINE W. N., HATTORI M., HEINS H. L., Jr HEREDITARY HEMOLYTIC ANEMIA WITH TRIOSEPHOSPHATE ISOMERASE DEFICIENCY. N Engl J Med. 1965 Feb 4;272:229–235. doi: 10.1056/NEJM196502042720503. [DOI] [PubMed] [Google Scholar]
  42. Sanger F., Nicklen S., Coulson A. R. DNA sequencing with chain-terminating inhibitors. Proc Natl Acad Sci U S A. 1977 Dec;74(12):5463–5467. doi: 10.1073/pnas.74.12.5463. [DOI] [PMC free article] [PubMed] [Google Scholar]
  43. Satoh C., Neel J. V., Yamashita A., Goriki K., Fujita M., Hamilton H. B. The frequency among Japanese of heterozygotes for deficiency variants of 11 enzymes. Am J Hum Genet. 1983 Jul;35(4):656–674. [PMC free article] [PubMed] [Google Scholar]
  44. Scarpulla R. C., Wu R. Nonallelic members of the cytochrome c multigene family of the rat may arise through different messenger RNAs. Cell. 1983 Feb;32(2):473–482. doi: 10.1016/0092-8674(83)90467-1. [DOI] [PubMed] [Google Scholar]
  45. Skala H., Dreyfus J. C., Vives-Corrons J. L., Matsumoto F., Beutler E. Triose phosphate isomerase deficiency. Biochem Med. 1977 Oct;18(2):226–234. doi: 10.1016/0006-2944(77)90094-1. [DOI] [PubMed] [Google Scholar]
  46. Snapka R. M., Sawyer T. H., Barton R. A., Gracy R. W. Comparison of the electrophoretic properties of triosephosphate isomerases of various tissues and species. Comp Biochem Physiol B. 1974 Dec 15;49(4):733–741. doi: 10.1016/0305-0491(74)90259-4. [DOI] [PubMed] [Google Scholar]
  47. Southern E. M. Detection of specific sequences among DNA fragments separated by gel electrophoresis. J Mol Biol. 1975 Nov 5;98(3):503–517. doi: 10.1016/s0022-2836(75)80083-0. [DOI] [PubMed] [Google Scholar]
  48. Thomas P. S. Hybridization of denatured RNA and small DNA fragments transferred to nitrocellulose. Proc Natl Acad Sci U S A. 1980 Sep;77(9):5201–5205. doi: 10.1073/pnas.77.9.5201. [DOI] [PMC free article] [PubMed] [Google Scholar]
  49. Vanin E. F., Goldberg G. I., Tucker P. W., Smithies O. A mouse alpha-globin-related pseudogene lacking intervening sequences. Nature. 1980 Jul 17;286(5770):222–226. doi: 10.1038/286222a0. [DOI] [PubMed] [Google Scholar]
  50. Vives-Corrons J. L., Rubinson-Skala H., Mateo M., Estella J., Feliu E., Dreyfus J. C. Triosephosphate isomerase deficiency with hemolytic anemia and severe neuromuscular disease: familial and biochemical studies of a case found in Spain. Hum Genet. 1978 Jun 9;42(2):171–180. doi: 10.1007/BF00283637. [DOI] [PubMed] [Google Scholar]
  51. Weiher H., König M., Gruss P. Multiple point mutations affecting the simian virus 40 enhancer. Science. 1983 Feb 11;219(4585):626–631. doi: 10.1126/science.6297005. [DOI] [PubMed] [Google Scholar]
  52. Wiedemann L. M., Perry R. P. Characterization of the expressed gene and several processed pseudogenes for the mouse ribosomal protein L30 gene family. Mol Cell Biol. 1984 Nov;4(11):2518–2528. doi: 10.1128/mcb.4.11.2518. [DOI] [PMC free article] [PubMed] [Google Scholar]
  53. 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]
  54. Woods D. E., Markham A. F., Ricker A. T., Goldberger G., Colten H. R. Isolation of cDNA clones for the human complement protein factor B, a class III major histocompatibility complex gene product. Proc Natl Acad Sci U S A. 1982 Sep;79(18):5661–5665. doi: 10.1073/pnas.79.18.5661. [DOI] [PMC free article] [PubMed] [Google Scholar]
  55. Wright S., Rosenthal A., Flavell R., Grosveld F. DNA sequences required for regulated expression of beta-globin genes in murine erythroleukemia cells. Cell. 1984 Aug;38(1):265–273. doi: 10.1016/0092-8674(84)90548-8. [DOI] [PubMed] [Google Scholar]

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