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Subfamilies of serine tRNA genes in the bovine genome

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Summary

A bovine tRNA gene cluster has been characterized and the sequences of four tDNAs determined. Two of the tDNAs could encode tRNASer IGA, one tDNASer UGA, and the fourth tRNAGln CUG. The three serine tDNAs representing the UCN codon isoacceptor family are almost identical. However, the sequence of the tDNASer TGA differs from a previously sequenced bovine tDNASer TGA at 12 positions (ca. 14%). This finding suggests that in the bovine genome, two subfamilies of genes might encode tRNASer UGA. It also raises the possibility that new genes for a specific UCN isoacceptor might arise from the genes of a different isoacceptor, and could explain previously observed differences between species in the anticodons of coevolving pairs of tRNAsSer UCN. The gene cluster also contains complete and partial copies, and fragments, of the BCS (bovine consensus sequence) SINE (short interspersed nuclear element) family, six examples of which were sequenced. Some of these elements occur in close proximity to two of the serine tDNAs.

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References

  • Amstutz H, Munz P, Heyer W, Leupold U, Kohli J (1985) Concerted evolution of tRNA genes: intergenic conversion among three unlinked serine tRNA genes in S. pombe. Cell 40:879–886

    Google Scholar 

  • Bankier AT, Weston KM, Barrell BG (1987) Random cloning and sequencing by the M13/dideoxynucleotide chain termination method. Methods Enzymol 155:51–93

    Google Scholar 

  • Beckmann JS, Johnson PF, Abelson J (1977) Cloning of yeast transfer RNA genes in Escherichia coli. Science 196:205–208

    Google Scholar 

  • Bruce AG, Uhlenbeck OC (1978) Reactions at the termini of tRNA with T4 RNA ligase. Nucleic Acids Res 5:3665–3677

    Google Scholar 

  • Carlson J, Messing J (1984) J Biotechnol 1:253–264

    Google Scholar 

  • Craig LC, Wang LP, Lee MM, Pirtle IL, Pirtle RM (1989) A human tRNA gene cluster encoding the major and minor valine tRNAs and a lysine tRNA. DNA 8:457–471

    Google Scholar 

  • Cribbs DL, Leung J, Newton CH, Hayashi S, Miller RC Jr, Tener GM (1987a) Extensive microheterogeneity of serine tRNA genes from Drosophila melanogaster. J Mol Biol 197:397–404

    Google Scholar 

  • Cribbs DL, Gilliam IC, Tener GM (1987b) Nucleotide sequences of three tRNASer from Drosophila melanogaster reading the six serine codons. J Mol Biol 197:389–395

    Google Scholar 

  • Daniels GR, Deininger PL (1985) Integration site preferences of the Alu family and similar repetitive DNA sequences. Nucleic Acids Res 13:8939–8954

    Google Scholar 

  • Doran JL, Wei X, Roy KL (1987) Analysis of a human gene cluster coding for tRNA PheGAA and tRNA LysUUU . Gene 56:231–243

    Google Scholar 

  • Dover G (1982) Molecular drive: a cohesive mode of species evolution. Nature 299:111–117

    Google Scholar 

  • Etcheverry T, Colby D, Guthrie C (1979) A precursor to a minor species of yeast tRNASer contains an intervening sequence. Cell 18:11–26

    Google Scholar 

  • Geiduschek EP, Tocchini-Valentini GP (1988) Transcription by RNA polymerase III. Annu Rev Biochem 57:873–914

    Google Scholar 

  • Hauber J, Stucka R, Krieg R, Feldmann H (1988) Analysis of yeast chromosomal regions carrying members of the glutamate tRNA gene family: various transposable elements are associated with them. Nucleic Acids Res 16:10623–10634

    Google Scholar 

  • Heyer W, Munz P, Amstutz H, Aebi R, Gysler C, Schuchert P, Szankasi P, Leupold U, Kohli J, Gamulin V, Soll D (1986) Inactivation of nonsense suppressor transfer RNA genes in Schizosaccharomyces pombe. J Mol Biol 188:343–353

    Google Scholar 

  • Hoe KL, Hong HJ, Yoo SH, Yoo OJ (1987) The nucleotide sequence of a gene coding for human serine tRNA. Nucleic Acids Res 15:10045

    Google Scholar 

  • Hong HJ, Yoo SH, Yoo OJ (1987) The nucleotide sequence of a human serine tRNA gene. Nucleic Acids Res 15:4987

    Google Scholar 

  • Hutchison CA III, Hardies SC, Loeb DD, Shehee WR, Edgell MH (1989) Lines and related retroposons: long interspersed repeated sequences in the eukaryotic genome. In: Berg DE, Howe MM (eds) Mobile DNA. American Society for Microbiology, Washington, DC, pp 593–617

    Google Scholar 

  • Krupp JL, Shu HH, Martin NC (1988) Human tRNASer gene organization and a tRNASer gene sequence. Nucleic Acids Res 16:770

    Google Scholar 

  • Lawrence CB, McDonnell DP, Ramsey WJ (1985) Analysis of repetitive sequence elements containing tRNA-like sequences. Nucleic Acids Res 13:4239–4251

    Google Scholar 

  • Maniatis T, Fritsch EF, Sambrook J (1982) Molecular cloning: A laboratory manual. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, New York

    Google Scholar 

  • Marschalek R, Brechner T, Amon-Bohm E, Dingermann T (1989) Transfer RNA genes: landmarks for integration of mobile genetic elements in Dictyostelium discoideum. Science 244:1493–1496

    Google Scholar 

  • Moyzis RK, Torney DC, Meyne J, Buckingham JM, Wu J, Burks C, Sirotkin KM, Goad WB (1989) The distribution of interspersed repetitive DNA sequences in the human genome. Genomics 4:273–289

    Google Scholar 

  • Munz P, Amstutz H, Kohli J, Leupold U (1982) Recombination between dispersed serine tRNA genes in Schizosaccharomyces pombe. Nature 300:225–231

    Google Scholar 

  • Murray NE, Brammar WJ, Murray K (1977) Lambdoid phages that simplify the recovery of in vitro recombinants. Mol Gen Genet 150:53–61

    Google Scholar 

  • Nelbock P, Stucka R, Feldmann H (1985) Different patterns of transposable elements in the vicinity of tRNA genes in yeast: a possible clue to transcriptional modulation. Biol Chem Hoppe Seyler 366:1041–1051

    Google Scholar 

  • Olson MV, Page GS, Sentenac A, Piper PW, Worthington M, Weiss RB, Hall BD (1981) Only one of two closely related yeast suppressor tRNA genes contains an intervening sequence. Nature 291:464–469

    Google Scholar 

  • O'Neill VA, Eden FC, Pratt K, Hatfield DL (1985) A human opal suppressor tRNA gene and pseudogene. J Biol Chem 260:2501–2508

    Google Scholar 

  • Osawa S, Muto A, Jukes TH, Ohama T (1990) Evolutionary changes in the genetic code. Proc R See Lond [Biol] 241:19–28

    Google Scholar 

  • Owens GP, Chaudhari N, Hahn WE (1985) Brain ‘identifier sequence’ is not restricted to brain. Science 229:1263–1265

    Google Scholar 

  • Rizos H, Lawrence GL, Stewart TS (1989) The nucleotide sequence of bovine tRNASer UGA gene and its flanking sequences. Nucleic Acids Res 17:2139–2139

    Google Scholar 

  • Rosen A, Daniel V (1988) Nucleotide sequence and transcription of a rat tRNAPhe gene and a neighbouring Alu-like element. Gene 69:275–285

    Google Scholar 

  • Ruppert S, Scherer G, Schutz G (1984) Recent gene conversion involving bovine vasopressin and oxytocin precursor genes suggested by nucleotide sequence. Nature 308:554–557

    Google Scholar 

  • Sandmeyer SB, Bilanchone VW, Clark DJ, Morcos P, Carle GF, Brodeur GM (1988) Sigma elements are position-specific for many different yeast tRNA genes. Nucleic Acids Res 16:1499–1515

    Google Scholar 

  • Sanger F, Nicklen S, Coulson AR (1977) DNA sequencing with chain-terminating inhibitors. Proc Nat Acad Sci USA 74:5463–5467

    Google Scholar 

  • Schmutzler C, Gross HJ (1990) Genes, variant genes, and pseudogenes of the human tRNAVal gene family are differentially expressed in HeLa cells and in human placenta. Nucleic Acids Res 18:5001–5008

    Google Scholar 

  • Sharp SJ, Schaack J, Cooley L, Burke DJ, Sell D (1985) Structure and transcription of eukaryotic tRNA genes. CRC Crit Rev Biochem 19:107–144

    Google Scholar 

  • Shortridge RD, Johnson GD, Craig LC, Pirtle IL, Pirtle RM (1989) A human tRNA gene heterocluster encoding threonine, proline and valine tRNAs. Gene 79:309–324

    Google Scholar 

  • Spence SE, Young RM, Garner KJ, Lingrel JB (1985) Localization and characterization of members of a family of repetitive sequences in the goat beta globin locus. Nucleic Acids Res 13:2171–2186

    Google Scholar 

  • Sprinzl M, Hartmann T, Weber J, Blank J, Zeidler R (1989) Compilation of tRNA sequences and sequences of tRNA genes. Nucleic Acids Res 17:r1-rl72

    Google Scholar 

  • Thomann H, Schmutzler C, Hudepohl U, Blow M, Gross HJ (1989) Genes, variant genes and pseudogenes of the human tRNAVal gene family. J Mol Biol 209:505–523

    Google Scholar 

  • Tsao S, Brunk C, Pearlman R (1983) Hybridization of nucleic acids directly in agarose gels. Anal Biochem 131:365–372

    Google Scholar 

  • Tsukada T, Watanabe Y, Nakai Y, Imura H, Nakanishi S, Numa S (1982) Repetitive DNA sequences in the human corticotropin-β-lipotropin precursor gene region: Alu family members. Nucleic Acids Res 10:1471–1479

    Google Scholar 

  • Watanabe Y, Tsukada T, Notake M, Nakanishi S, Numa S (1982) Structural analysis of repetitive DNA sequences in the bovine corticotropin-β-lipotropin precursor gene region. Nucleic Acids Res 10:1459–1469

    Google Scholar 

  • Weiner AM, Deininger PL, Efstratiadis A (1986) Nonviral retroposons: genes, pseudogenes, and transposable elements generated by the reverse flow of genetic information. Annu Rev Biochem 55:631–661

    Google Scholar 

  • Yanisch-Perron C, Vieira J, Messing J (1985) Improved M13 phage cloning vectors and host strains: nucleotide sequences of the M13mp18 and pUC19 vectors. Gene 33:103–119

    Google Scholar 

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Authors and Affiliations

  1. MRC Laboratory of Molecular Biology, Hills Road, CB2 2QH, Cambridge, UK

    Mark S. Chee & Helen Rims

  2. School of Biochemistry, University of New South Wales, 2033, Kensington, Australia

    Beric R. Henderson, Rohan Baker & Tom S. Stewart

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  1. Mark S. Chee
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  2. Helen Rims
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  3. Beric R. Henderson
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  4. Rohan Baker
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  5. Tom S. Stewart
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Communicated by G.P. Georgiev

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Chee, M.S., Rims, H., Henderson, B.R. et al. Subfamilies of serine tRNA genes in the bovine genome. Molec. Gen. Genet. 231, 106–112 (1991). https://doi.org/10.1007/BF00293828

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  • DOI: https://doi.org/10.1007/BF00293828

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