An Upstream U-snRNA Gene-like Promoter is Required for Transcription of the Arabidopsis Thaliana 7SL RNA Gene

Overview

Journal Nucleic Acids Res

Publisher Oxford University Press

Specialty Biochemistry

Date 1995 Jun 11

PMID 7541131

Citations 8

Authors

D J Heard

W Filipowicz

J P Marques

K Palme

J M Gualberto

Affiliations

Soon will be listed here.

Abstract

The genes transcribed by RNA polymerase (pol) III can be placed into four distinct groups based on the nature and position of their promoter elements. In the higher eukaryotes equivalent genes usually belong to the same sub-type of pol III promoters and there are few examples of genes which have changed promoter type during evolution. In this work we demonstrate that the promoter of the Arabidopsis thaliana 7SL RNA gene is located upstream of the coding region and is identical to the promoters of pol III-specific plant U-small nuclear RNA (U-snRNA) genes. Sequence analysis of two different 7SL genes from A. thaliana revealed that both genes contain two sequence elements in their 5' flanking regions identical in sequence and position to the highly conserved USE and TATA elements of the pol III-transcribed plant U-snRNA genes. Mutational analysis of these elements in the At7SL-2 gene indicates that the USE and TATA elements are both necessary and account for > or = 90% of the transcriptional activity of this gene in transfected plant protoplasts. Within the coding region of both genes there is a sequence element which is a 10/11 nt match to the consensus B-box element of tRNA genes, however, this element is not important for gene activity. These findings distinguish the plant genes from the human 7SL gene, which has both internal and upstream promoter elements and its upstream elements are different from those found in the human U-snRNA genes.

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References

Krol A, Ebel J, Rinke J, Luhrmann R . U1, U2 and U5 small nuclear RNAs are found in plants cells. Complete nucleotide sequence of the U5 RNA family from pea nuclei. Nucleic Acids Res. 1983; 11(24):8583-94. PMC: 326609. DOI: 10.1093/nar/11.24.8583. View

Kiss T, Solymosy F . Molecular analysis of a U3 RNA gene locus in tomato: transcription signals, the coding region, expression in transgenic tobacco plants and tandemly repeated pseudogenes. Nucleic Acids Res. 1990; 18(8):1941-9. PMC: 330666. DOI: 10.1093/nar/18.8.1941. View

Myslinski E, Schuster C, Krol A, Carbon P . Promoter strength and structure dictate module composition in RNA polymerase III transcriptional activator elements. J Mol Biol. 1993; 234(2):311-8. DOI: 10.1006/jmbi.1993.1588. View

Burnol A, Margottin F, Schultz P, Marsolier M, Oudet P, Sentenac A . Basal promoter and enhancer element of yeast U6 snRNA gene. J Mol Biol. 1993; 233(4):644-58. DOI: 10.1006/jmbi.1993.1542. View

Shimomura S, Liu W, Inohara N, Watanabe S, Futai M . Structure of the gene for an auxin-binding protein and a gene for 7SL RNA from Arabidopsis thaliana. Plant Cell Physiol. 1993; 34(4):633-7. View

Connelly S, Filipowicz W . Activity of chimeric U small nuclear RNA (snRNA)/mRNA genes in transfected protoplasts of Nicotiana plumbaginifolia: U snRNA 3'-end formation and transcription initiation can occur independently in plants. Mol Cell Biol. 1993; 13(10):6403-15. PMC: 364699. DOI: 10.1128/mcb.13.10.6403-6415.1993. View

Marshallsay C, Kiss T, Filipowicz W . Amplification of plant U3 and U6 snRNA gene sequences using primers specific for an upstream promoter element and conserved intragenic regions. Nucleic Acids Res. 1990; 18(12):3459-66. PMC: 330997. DOI: 10.1093/nar/18.12.3459. View

Lee B, Kang S, HATFIELD D . Transcription of Xenopus selenocysteine tRNA Ser (formerly designated opal suppressor phosphoserine tRNA) gene is directed by multiple 5'-extragenic regulatory elements. J Biol Chem. 1989; 264(16):9696-702. View

Palida F, Hale C, Sprague K . Transcription of a silkworm tRNA(cAla) gene is directed by two AT-rich upstream sequence elements. Nucleic Acids Res. 1993; 21(25):5875-81. PMC: 310468. DOI: 10.1093/nar/21.25.5875. View

10.

Howe J, Shu M . Epstein-Barr virus small RNA (EBER) genes: unique transcription units that combine RNA polymerase II and III promoter elements. Cell. 1989; 57(5):825-34. DOI: 10.1016/0092-8674(89)90797-6. View

11.

Heard D, Kiss T, Filipowicz W . Both Arabidopsis TATA binding protein (TBP) isoforms are functionally identical in RNA polymerase II and III transcription in plant cells: evidence for gene-specific changes in DNA binding specificity of TBP. EMBO J. 1993; 12(9):3519-28. PMC: 413628. DOI: 10.1002/j.1460-2075.1993.tb06026.x. View

12.

Ribes V, Dehoux P, Tollervey D . 7SL RNA from Schizosaccharomyces pombe is encoded by a single copy essential gene. EMBO J. 1988; 7(1):231-7. PMC: 454262. DOI: 10.1002/j.1460-2075.1988.tb02804.x. View

13.

Marques J, Gualberto J, Palme K . Sequence of the Arabidopsis thaliana 7SL RNA gene. Nucleic Acids Res. 1993; 21(15):3581. PMC: 331467. DOI: 10.1093/nar/21.15.3581. View

14.

Haas B, Klanner A, Ramm K, Sanger H . The 7S RNA from tomato leaf tissue resembles a signal recognition particle RNA and exhibits a remarkable sequence complementarity to viroids. EMBO J. 1988; 7(13):4063-74. PMC: 455115. DOI: 10.1002/j.1460-2075.1988.tb03300.x. View

15.

Hernandez N . TBP, a universal eukaryotic transcription factor?. Genes Dev. 1993; 7(7B):1291-308. DOI: 10.1101/gad.7.7b.1291. View

16.

Campos N, Palau J, Zwieb C . Diversity of 7 SL RNA from the signal recognition particle of maize endosperm. Nucleic Acids Res. 1989; 17(4):1573-88. PMC: 331823. DOI: 10.1093/nar/17.4.1573. View

17.

Goodall G, Wiebauer K, Filipowicz W . Analysis of pre-mRNA processing in transfected plant protoplasts. Methods Enzymol. 1990; 181:148-61. DOI: 10.1016/0076-6879(90)81117-d. View

18.

Waibel F, Filipowicz W . RNA-polymerase specificity of transcription of Arabidopsis U snRNA genes determined by promoter element spacing. Nature. 1990; 346(6280):199-202. DOI: 10.1038/346199a0. View

19.

Carbon P, Krol A . Transcription of the Xenopus laevis selenocysteine tRNA(Ser)Sec gene: a system that combines an internal B box and upstream elements also found in U6 snRNA genes. EMBO J. 1991; 10(3):599-606. PMC: 452690. DOI: 10.1002/j.1460-2075.1991.tb07987.x. View

20.

Geiduschek E, Tocchini-Valentini G . Transcription by RNA polymerase III. Annu Rev Biochem. 1988; 57:873-914. DOI: 10.1146/annurev.bi.57.070188.004301. View