Unique arrangement of coding sequences for 5 S, 5.8 S, 18 S and 25 S ribosomal RNA in Saccharomyces cerevisiae as determined by R-loop and hybridization analysis

Philippsen, Peter; Thomas, Marjorie; Kramer, Richard A.; Davis, Ronald W.

doi:10.1016/0022-2836(78)90086-4

Cited by 177 publications

(73 citation statements)

References 52 publications

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“…The 3'-end of the 5.8S rRNA gene has been mapped [19][20][21] on EcoRI fragment A at a position 80 base pairs downstream from the EcoRI site separating fragments D and A. The 5'-end of 26S rRNA has been mapped at about 300 to 400 base pairs downstream from the same EcoRI site, somewhere near the only KpnI site present in fragment A [3].…”

Section: Resultsmentioning

confidence: 99%

The nucleotide sequence of the intergenic region between the 5.8S and 26S rRNA genes of the yeast ribosomal RNA operon. Possible implications for the interaction between 5.8S and 26S rRNA and the processing of the primary transcript

et al. 1981

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The nucleotide sequence of the intergenic region between the 5.8S and 26S rRNA genes of the yeast ribosomal RNA operon. Possible implications for the interaction between 5.8S and 26S rRNA and the processing of the primary transcript We also describe the existence of a significant base complementarity between sequences in the 5'-terminal region of 26S rRNA and the 3'-terminal region of 5.8S rRNA. We suggest that base pairing between these sequences contributes to the binding between 5.8S and 26S rRNA. INTRODUCTION The RNA constituents of the ribosome in yeast are all encoded in a repeating unit of about 9000 base pairs [1]. This repeating unit contains two separate transcription units, one for 5S rRNA and one for 17S, 5.8S and 26S rRNA. The primary transcript of the latter is a common 37S precursor RNA which is processed in a number of steps into the respective mature rRNAs [1]. This processing is carried out on nucleoprotein (pre-ribosomal) particles rather than on the naked RNA and includes both modification and nucleolytic cleavage

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Section: Resultsmentioning

confidence: 99%

The nucleotide sequence of the intergenic region between the 5.8S and 26S rRNA genes of the yeast ribosomal RNA operon. Possible implications for the interaction between 5.8S and 26S rRNA and the processing of the primary transcript

et al. 1981

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“…In recent years restriction endonuclease fragment pattern polymorphisms (RFLPs) of several DNA regions have proven to be very useful for differentiation of yeast strains (2,10,13,16,18,19,20,27,30,35,39,40,41,42,43,44,45,48,55). In the present study four DNA regions have been screened, namely: RDN1 (7,15,47) on chromosome XII (46), HIS4 (21,26,27) and LEU2 (3,5,14,22,30,59) genes on chromosome III (38), and the Ty element regions homologous to Tyl from S. cerevisiae genetic standard strains (19,20,48). RDN1 encodes the 18S, 5.8S, 25S, and 5S cytosolic ribosomal RNA molecules (7,47,54).…”

Section: Introductionmentioning

confidence: 99%

DNA sequence polymorphisms in the genus saccharomyces III. Restriction endonuclease fragment patterns of chromosomal regions in brewing and other yeast strains

Pedersen

1986

Carlsberg Res. Commun.

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30 bottom fermenting strains, 13 hybrid lager strains, 11 top fermenting strains. In addition, 24 other yeast species and strains have been analysed in this study. Four DNA regions have been monitored by restriction endonuclease fragment pattern polymorphisms. The regions analysed are: RDN1 (encoding cytosolic ribosomal RNA molecules) located on chromosome XII in S. cerevisiae, HIS4 (histidine 4) and LEU2 (leucine 2) both located on chromosome III and the Ty elements which are distributed at different positions in the genome ofS. cerevisiae. Seven Ty fragment patterns have been detected in the bottom fermenting strains. Patterns I, II, IIa, lib, and llc are present in lager strains while pattern III and IV are found in S. carlsbergensis bottom fermenting strain No. I and in S. monacensis, respectively. Hybridization of the Tyl p14 probe from S. cerevisiae to OFAGE separated chromosomes from bottom fermenting strains show that at least five Ty elements are present in the genomes of the lager strains, at least five in S. carlsbergensis bottom fermenting strain No. I and at least three in S. monacensis. From the restriction fragment patterns and the karyotypes of the bottom fermenting strains it is suggested that these strains are closely related and different from the S. bayanus, S. pastorianus, and S. uvarum group as well as from the S. cerevisiae strains. In spite of their differences in Ty element patterns the lager strains are so homogenous that most likely they all originate from a single strain which is related to S. carlsbergensis and S. monacensis type strains. In contrast to the bottom fermenting strains there is a large variability among the top fermenting strains, especially with regard to the LEU2 gene and Ty elements. It seems that S. bayanus, S. inusitatus, S. pastorianus, S. validus, and S. uvarum are closely related, and none of the studied strains from these taxons contained DNA which hybridized to the Tyl probe from S. cerevisiae. This is a clear difference from the DNA of bottom fermenting strains which consistently hybridized strongly to the Tyl probe.Abbreviations: kb = kilo base pairs; OFAGE = orthogonal field alternation gel electrophoresis; SSC = 0.15 M-NaCI, 15 mM-Na citrate; TBE = 0.089 M-Tris-borate, 0.089 M-boric acid, 0.002 M-EDTA; Tris = tris-(hydroxymethyl)-amino methane Springer-Verlag

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“…The 5 S rDNA genes are located within the nontranscribed (by RNA polymerase I) spacer region and are situated between the rDNA enhancer region and the 35 S rRNA transcriptional start site (ELION and WARNER 1986). The 5 S rDNA gene is transcribed by RNA polymerase I11 from the opposite DNA strand (PHILIPPSEN et al 1978). Expression of 5 S RNA is independent of the region responsible for enhancement of 35 S RNA transcription, Strain 4377-8B; 'strain JD18-3C; strain 4377-8C; strain 2907; e strain EMS56;'strain 4378-5B; Rstrain 4378-9B.…”

Section: Discussionmentioning

confidence: 99%

5S rRNA is involved in fidelity of translational reading frame

1996

Trends in Genetics

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Chromosomal mutants (maintenance of frame = mof) in which the efficiency of -1 ribosomal frameshifting is increased can be isolated using constructs in which lacZ expression is dependent upon a -1 shift of reading frame. We isolate a new mof mutation, mop, in Saccharomyces cereuisiae and show that it is complemented by both single and multi-copy 5 S rDNA clones. Two independent insertion mutations in the rDNA locus (rDNA::LEUZ and rDNA::URA3) also display the Mof-phenotype and are also complemented by single and multicopy 5 S rDNA clones. Mutant 5 S rRNAs expressed from a plasmid as 20-50% of total 5 S rRNA in a wild-type host also induced the Mof-phenotype. The increase in frameshifting is greatest when the lac2 reporter gene is expressed on a high copy, episomal vector. No differences were found in 5 S rRNA copy number or electrophoretic mobilities in mopstrains. Both m o p and rDNA::LEUZincrease the efficiency of +1 frameshifting as well but have no effect on readthrough of UAG or UAA termination codons, indicating that not all translational specificity is affected. These data suggest a role for 5 S rRNA in the maintenance of frame in translation.A LTHOUGH correct maintenance of frame is critical to ribosome function, a growing number of cases of directed alterations in translational reading frame have been identified, mostly in viruses (e.g., retroviruses, coronaviruses BAUGH 1993). The study of these ribosomal frameshifts is important both because of their critical role in animal and plant pathogens and because of the information they provide about the mechanisms by which reading frame is normally maintained.Ribosomal frameshifting in the -1 direction in retroviruses, (+) sRNA viruses and dsRNA viruses generally requires a special sequence, X XXY W Z (the 0-frame is indicated by spaces) called the "slippery site" (JACKS et al. 1988). Here the simultaneous slippage of ribosome-bound A-and P-site tRNAs by one base in the 5' direction still leaves their nonwobble bases correctly paired in the new reading frame. A second promoting element (JACKS et al. 1988), usually an RNA pseudoknot, is located immediately 3' to the slippery site (BRIERLEY et , TEN DAM et al. 1992. The RNA pseudoknot makes the ribosome pause over the slippery site (TU et al. 1992, SOMOCYI et al. 1993, increasing the probability of 5' ribosomal movement. The efficiency of -1 ribosomal frameshifting can be affected by the ability of the ribosome-bound tRNAs (especially the Asite tRNA) to un-pair from the 0-frame (DINMAN et al. , BRIERLEY et al. 1992, the ability of these tRNAs to re-pair to the -1 frame (JACKS et al. 1988), and the relative position of the RNA pseudoknot from the slippery site and its thermodynamic stability (BRIERLEY et al. 1989,1991; DINMAN and WICKNER 1992). The efficiency of -1 ribosomal frameshifting can also be affected by mutations in cellular gene products that presumably interact with these tRNA and mRNA factors WICKNER 1992, 1994). Changes in any of these components can be observed as changes in the effici...

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Unique arrangement of coding sequences for 5 S, 5.8 S, 18 S and 25 S ribosomal RNA in Saccharomyces cerevisiae as determined by R-loop and hybridization analysis

Cited by 177 publications

References 52 publications

The nucleotide sequence of the intergenic region between the 5.8S and 26S rRNA genes of the yeast ribosomal RNA operon. Possible implications for the interaction between 5.8S and 26S rRNA and the processing of the primary transcript

The nucleotide sequence of the intergenic region between the 5.8S and 26S rRNA genes of the yeast ribosomal RNA operon. Possible implications for the interaction between 5.8S and 26S rRNA and the processing of the primary transcript

DNA sequence polymorphisms in the genus saccharomyces III. Restriction endonuclease fragment patterns of chromosomal regions in brewing and other yeast strains

5S rRNA is involved in fidelity of translational reading frame

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