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. 1988 Jul 11;16(13):5813–5826. doi: 10.1093/nar/16.13.5813

Heterogeneity of human U1 snRNAs.

E Lund 1
PMCID: PMC336831  PMID: 3135533

Abstract

I demonstrate that the U1 snRNAs of human cells are heterogeneous in sequence. Polyacrylamide gel and RNase T1 fingerprint analyses of U1 RNAs isolated from a variety of human cultured cells, including HeLa, 293, K562 and NT2/D1, show that minor variants of the human U1 RNA (hUla) comprise between 5% and 15% of the total U1 RNAs in these established cell lines. The patterns of variants are cell line specific, suggesting that expression of these minor species of hUla RNAs reflect polymorphisms of the hUla true genes rather than existence of an additional class of human embryonic U1 genes. Also, the hUla variants described here are not the products of previously identified human U1 Class I pseudogenes.

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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. W. Retinoic acid induces neuronal differentiation of a cloned human embryonal carcinoma cell line in vitro. Dev Biol. 1984 Jun;103(2):285–293. doi: 10.1016/0012-1606(84)90316-6. [DOI] [PubMed] [Google Scholar]
  2. Bernstein L. B., Manser T., Weiner A. M. Human U1 small nuclear RNA genes: extensive conservation of flanking sequences suggests cycles of gene amplification and transposition. Mol Cell Biol. 1985 Sep;5(9):2159–2171. doi: 10.1128/mcb.5.9.2159. [DOI] [PMC free article] [PubMed] [Google Scholar]
  3. Blatt C., Saxe D., Marzluff W. F., Lobo S., Nesbitt M. N., Simon M. I. Mapping and gene order of U1 small nuclear RNA, endogenous viral env sequence, amylase, and alcohol dehydrogenase-3 on mouse chromosome 3. Somat Cell Mol Genet. 1988 Mar;14(2):133–142. doi: 10.1007/BF01534398. [DOI] [PubMed] [Google Scholar]
  4. Branlant C., Krol A., Ebel J. P., Lazar E., Gallinaro H., Jacob M., Sri-Widada J., Jeanteur P. Nucleotide sequences of nuclear U1A RNAs from chicken, rat and man. Nucleic Acids Res. 1980 Sep 25;8(18):4143–4154. doi: 10.1093/nar/8.18.4143. [DOI] [PMC free article] [PubMed] [Google Scholar]
  5. Busch H., Reddy R., Rothblum L., Choi Y. C. SnRNAs, SnRNPs, and RNA processing. Annu Rev Biochem. 1982;51:617–654. doi: 10.1146/annurev.bi.51.070182.003153. [DOI] [PubMed] [Google Scholar]
  6. Cioe L., McNab A., Hubbell H. R., Meo P., Curtis P., Rovera G. Differential expression of the globin genes in human leukemia K562(S) cells induced to differentiate by hemin or butyric acid. Cancer Res. 1981 Jan;41(1):237–243. [PubMed] [Google Scholar]
  7. Denison R. A., Van Arsdell S. W., Bernstein L. B., Weiner A. M. Abundant pseudogenes for small nuclear RNAs are dispersed in the human genome. Proc Natl Acad Sci U S A. 1981 Feb;78(2):810–814. doi: 10.1073/pnas.78.2.810. [DOI] [PMC free article] [PubMed] [Google Scholar]
  8. Denison R. A., Weiner A. M. Human U1 RNA pseudogenes may be generated by both DNA- and RNA-mediated mechanisms. Mol Cell Biol. 1982 Jul;2(7):815–828. doi: 10.1128/mcb.2.7.815. [DOI] [PMC free article] [PubMed] [Google Scholar]
  9. Finaz C., Van Cong N., Cochet C., Frézal J., de Grouchy J. Fifty-million-year evolution of chromosome 1 in the primates. Evidence from banding and gene mapping. Cytogenet Cell Genet. 1977;18(3):160–164. doi: 10.1159/000130760. [DOI] [PubMed] [Google Scholar]
  10. Forbes D. J., Kirschner M. W., Caput D., Dahlberg J. E., Lund E. Differential expression of multiple U1 small nuclear RNAs in oocytes and embryos of Xenopus laevis. Cell. 1984 Oct;38(3):681–689. doi: 10.1016/0092-8674(84)90263-0. [DOI] [PubMed] [Google Scholar]
  11. Graham F. L., Smiley J., Russell W. C., Nairn R. Characteristics of a human cell line transformed by DNA from human adenovirus type 5. J Gen Virol. 1977 Jul;36(1):59–74. doi: 10.1099/0022-1317-36-1-59. [DOI] [PubMed] [Google Scholar]
  12. Hendriks W., Leunissen J., Nevo E., Bloemendal H., de Jong W. W. The lens protein alpha A-crystallin of the blind mole rat, Spalax ehrenbergi: evolutionary change and functional constraints. Proc Natl Acad Sci U S A. 1987 Aug;84(15):5320–5324. doi: 10.1073/pnas.84.15.5320. [DOI] [PMC free article] [PubMed] [Google Scholar]
  13. JENSEN F. C., GIRARDI A. J., GILDEN R. V., KOPROWSKI H. INFECTION OF HUMAN AND SIMIAN TISSUE CULTURES WITH ROUS SARCOMA VIRUS. Proc Natl Acad Sci U S A. 1964 Jul;52:53–59. doi: 10.1073/pnas.52.1.53. [DOI] [PMC free article] [PubMed] [Google Scholar]
  14. Kato N., Harada F. New U1 RNA species found in Friend SFFV (spleen focus forming virus)-transformed mouse cells. J Biol Chem. 1985 Jun 25;260(12):7775–7782. [PubMed] [Google Scholar]
  15. Krol A., Lund E., Dahlberg J. E. The two embryonic U1 RNA genes of Xenopus laevis have both common and gene-specific transcription signals. EMBO J. 1985 Jun;4(6):1529–1535. doi: 10.1002/j.1460-2075.1985.tb03813.x. [DOI] [PMC free article] [PubMed] [Google Scholar]
  16. Lalley P. A., Francke U., Minna J. D. Homologous genes for enolase, phosphogluconate dehydrogenase, phosphoglucomutase, and adenylate kinase are syntenic on mouse chromosome 4 and human chromosome 1p. Proc Natl Acad Sci U S A. 1978 May;75(5):2382–2386. doi: 10.1073/pnas.75.5.2382. [DOI] [PMC free article] [PubMed] [Google Scholar]
  17. Lerner M. R., Boyle J. A., Mount S. M., Wolin S. L., Steitz J. A. Are snRNPs involved in splicing? Nature. 1980 Jan 10;283(5743):220–224. doi: 10.1038/283220a0. [DOI] [PubMed] [Google Scholar]
  18. Lerner M. R., Steitz J. A. Antibodies to small nuclear RNAs complexed with proteins are produced by patients with systemic lupus erythematosus. Proc Natl Acad Sci U S A. 1979 Nov;76(11):5495–5499. doi: 10.1073/pnas.76.11.5495. [DOI] [PMC free article] [PubMed] [Google Scholar]
  19. Lindgren V., Bernstein L. B., Weiner A. M., Francke U. Human U1 small nuclear RNA pseudogenes do not map to the site of the U1 genes in 1p36 but are clustered in 1q12-q22. Mol Cell Biol. 1985 Sep;5(9):2172–2180. doi: 10.1128/mcb.5.9.2172. [DOI] [PMC free article] [PubMed] [Google Scholar]
  20. Lund E., Bostock C., Robertson M., Christie S., Mitchen J. L., Dahlberg J. E. U1 small nuclear RNA genes are located on human chromosome 1 and are expressed in mouse-human hybrid cells. Mol Cell Biol. 1983 Dec;3(12):2211–2220. doi: 10.1128/mcb.3.12.2211. [DOI] [PMC free article] [PubMed] [Google Scholar]
  21. Lund E., Dahlberg J. E. Differential accumulation of U1 and U4 small nuclear RNAs during Xenopus development. Genes Dev. 1987 Mar;1(1):39–46. doi: 10.1101/gad.1.1.39. [DOI] [PubMed] [Google Scholar]
  22. Lund E., Dahlberg J. E. Differential accumulation of U1 and U4 small nuclear RNAs during Xenopus development. Genes Dev. 1987 Mar;1(1):39–46. doi: 10.1101/gad.1.1.39. [DOI] [PubMed] [Google Scholar]
  23. Lund E., Dahlberg J. E. True genes for human U1 small nuclear RNA. Copy number, polymorphism, and methylation. J Biol Chem. 1984 Feb 10;259(3):2013–2021. [PubMed] [Google Scholar]
  24. Lund E., Nesbitt M. N. The embryonic and adult mouse U1 snRNA genes map to different chromosomal loci. Somat Cell Mol Genet. 1988 Mar;14(2):143–148. doi: 10.1007/BF01534399. [DOI] [PubMed] [Google Scholar]
  25. Manser T., Gesteland R. F. Human U1 loci: genes for human U1 RNA have dramatically similar genomic environments. Cell. 1982 May;29(1):257–264. doi: 10.1016/0092-8674(82)90110-6. [DOI] [PubMed] [Google Scholar]
  26. Martin G. R. Teratocarcinomas and mammalian embryogenesis. Science. 1980 Aug 15;209(4458):768–776. doi: 10.1126/science.6250214. [DOI] [PubMed] [Google Scholar]
  27. Marzluff W. F., Brown D. T., Lobo S., Wang S. S. Isolation and characterization of two linked mouse U1b small nuclear RNA genes. Nucleic Acids Res. 1983 Sep 24;11(18):6255–6270. doi: 10.1093/nar/11.18.6255. [DOI] [PMC free article] [PubMed] [Google Scholar]
  28. Michael S. K., Hilgers J., Kozak C., Whitney J. B., 3rd, Howard E. F. Characterization and mapping of DNA sequence homologous to mouse U1a1 snRNA: localization on chromosome 11 near the Dlb-1 and Re loci. Somat Cell Mol Genet. 1986 May;12(3):215–223. doi: 10.1007/BF01570780. [DOI] [PubMed] [Google Scholar]
  29. Monstein H. J., Hammarström K., Westin G., Zabielski J., Philipson L., Pettersson U. Loci for human U1 RNA: structural and evolutionary implications. J Mol Biol. 1983 Jun 25;167(2):245–257. doi: 10.1016/s0022-2836(83)80334-9. [DOI] [PubMed] [Google Scholar]
  30. Mount S. M., Steitz J. A. Sequence of U1 RNA from Drosophila melanogaster: implications for U1 secondary structure and possible involvement in splicing. Nucleic Acids Res. 1981 Dec 11;9(23):6351–6368. doi: 10.1093/nar/9.23.6351. [DOI] [PMC free article] [PubMed] [Google Scholar]
  31. Naylor S. L., Zabel B. U., Manser T., Gesteland R., Sakaguchi A. Y. Localization of human U1 small nuclear RNA genes to band p36.3 of chromosome 1 by in situ hybridization. Somat Cell Mol Genet. 1984 May;10(3):307–313. doi: 10.1007/BF01535252. [DOI] [PubMed] [Google Scholar]
  32. Nohga K., Reddy R., Busch H. Comparison of RNase T1 fingerprints of U1, U2, and U3 small nuclear RNA's of HeLa cells, human normal fibroblasts, and Novikoff hepatoma cells. Cancer Res. 1981 Jun;41(6):2215–2220. [PubMed] [Google Scholar]
  33. Patton J. G., Wieben E. D. U1 precursors: variant 3' flanking sequences are transcribed in human cells. J Cell Biol. 1987 Feb;104(2):175–182. doi: 10.1083/jcb.104.2.175. [DOI] [PMC free article] [PubMed] [Google Scholar]
  34. 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]
  35. Sanger F., Brownlee G. G., Barrell B. G. A two-dimensional fractionation procedure for radioactive nucleotides. J Mol Biol. 1965 Sep;13(2):373–398. doi: 10.1016/s0022-2836(65)80104-8. [DOI] [PubMed] [Google Scholar]

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