32S pre-rRNA processing: a dynamic model for interaction with U3RNA and structural rearrangements of spacer regions

Kupriyanova, N. S.; Timofeeva, M. Ya.

doi:10.1007/bf00539056

Cited by 10 publications

(8 citation statements)

References 20 publications

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“…Unlike interactions proposed previously (Bachellerie et al, 1983;Crouch et al, 1983;Kupriyanova & Timofeeva, 1988;Parker et al, 1988;Parker & Steitz, 1987;Potter et al, 1995;Prestayko et al, 1970), this base-pairing is phylogenetically consistent: it is maintained not only among eukaryotes but even extends to archaea. Compelling evidence that the interaction is real and has been conserved through evolution is provided by the several canonical base-pair substitutions which have occurred between distantly related organisms.…”

Section: Discussionmentioning

confidence: 78%

Functional Base-pairing Interaction Between Highly Conserved Elements of U3 Small Nucleolar RNA and the Small Ribosomal Subunit RNA

Hughes

1996

Journal of Molecular Biology

139

150

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Section: Discussionmentioning

confidence: 78%

Functional Base-pairing Interaction Between Highly Conserved Elements of U3 Small Nucleolar RNA and the Small Ribosomal Subunit RNA

Hughes

1996

Journal of Molecular Biology

139

150

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“…These results suggest that RFLP analysis on the ITS region only effectively reveals polymorphism between isolates where high genetic distances are expected, based either on the results of preliminary mycological analysis or on the geographical distance between the collection localities. This can be explained by the results of recent studies showing that only the ITS1 region accumulates numerous SNPs in its sequence, compared to the other spacer region ITS2, while the 5.8S rDNA gene includes no polymorphism in Macrophomina [39,[45][46][47]. This is not surprising because ITS1 has a higher mutation rate than ITS2, since this region plays a role in the ribosomal maturation process and proved to be more conserved in its sequence [48].…”

Section: Discussionmentioning

confidence: 98%

Genetic diversity and effect of temperature and pH on the growth of Macrophomina phaseolina isolates from sunflower fields in Hungary

et al. 2011

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The effects of temperature and pH on the growth of 45 Hungarian Macrophomina phaseolina isolates from different locations and hosts were compared on the basis of their genetic diversity. One Spanish and two Serbian isolates were also included in the experiment. The most favourable temperature regimes for the development of the isolates ranged between 25 and 35°C. The optimal pH for the pathogen varied between 4.0 and 6.0, but growth was observed on potato dextrose agar even at pH values of 3.0, 7.0 and 8.0. RAPD analysis with 13 different primer pairs generated 148 unambiguous bands. RFLP analysis involving 8 different restriction endonucleases was performed on a 1550 bp fragment of the rDNA region containing internal transcribed spacers (ITS1, ITS2), the 5.8S rDNA and part of the 25S rDNA. The greatest genetic distance values were obtained for three isolates, two from Hungary and one from Spain, which had similar values, but were quite distinct from all the others. A strong positive correlation was observed between the genetic distances and the growth parameters measured at various temperatures, and between the geographical data and the growth data sets at different pH values, but the correlation was less strong in the latter case. While Hungarian M. phaseolina populations are thought to reproduce clonally, the present results indicate the coexistence of different haplotypes in this area, and besides the geographical dominance of a given haplotype it was found that a closer genetic relationship might exist between spatially distinct haplotypes.

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“…1). One set of models (5)(6)(7)(8)(9) involves base pairing between U3 RNA and sequences (b and c in Fig. 1) within the second internal transcribed spacer (ITS2) of the 32S rRNA precursor.…”

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confidence: 99%

U3 small nuclear RNA can be psoralen-cross-linked in vivo to the 5' external transcribed spacer of pre-ribosomal-RNA.

Maser

Calvet

1989

Proc. Natl. Acad. Sci. U.S.A.

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U3 small nuclear RNA is hydrogen-bonded to high molecular weight nucleolar RNA and can be isolated from >60S pre-ribosomal ribonucleoprotein particles, suggesting that it is involved in processing of ribosomal RNA precursors (pre-rRNA) or in ribosome biogenesis. Here we have used in vivo psoralen cross-linking to identify the region of pre-rRNA interacting with U3 RNA. Quantitative hybridization selection/depletion experiments with clones of rRNA-encoding DNA (rDNA) and cross-linked nuclear RNA showed that all of the cross-linked U3 RNA was associated with a region that includes the external transcribed spacer (ETS) at the 5' end of the human rRNA precursor. To further identify the site of interaction within the -3.7-kilobase ETS, Southern blots of rDNA clones were sandwich-hybridized with cross-linked RNA and then probed for cross-linked U3 RNA. These experiments showed that U3 RNA was cross-linked to a 258-base sequence between nucleotides +438 and +695, just downstream of the ETS early cleavage site (+414). The localization of U3 to this region of the rRNA precursor was not expected from previous models for a base-paired U3-rRNA interaction and suggests that U3 plays a role in the initial pre-rRNA processing event.U3 is the only major small nuclear RNA (snRNA) whose role in the cell has not yet been determined. Based on observations that U3 is hydrogen-bonded to 28S-35S nucleolar RNA in mammalian cells (1, 2) and associates with >60S ribonucleoprotein particles within the nucleolus (3), it has been proposed that U3 functions in some aspect of the processing of the ribosomal RNA precursor (pre-rRNA) or in ribosome biogenesis.The 28S-35S nucleolar RNA to which U3 is hydrogenbonded has not been identified. Nonetheless, several models have been proposed for interactions between U3 and different regions of pre-rRNA (Fig. 1). One set of models (5-9) involves base pairing between U3 RNA and sequences (b and c in Fig. 1) within the second internal transcribed spacer (ITS2) of the 32S rRNA precursor. Other models (10, 11) propose a base-paired interaction between a conserved single-stranded sequence within U3 RNA and either a putative termination/processing signal downstream of 28S rRNA (e in Fig. 1) or the 3' domain of 28S rRNA itself (d in Fig. 1). All of the models involve what appear to be reasonably stable base-pairing interactions. However, most of these regions within pre-rRNA do not appear to be evolutionarily conserved, and as yet none of the proposed interactions has been supported by experimental data showing a direct base-paired interaction between U3 and pre-rRNA.An in vivo interaction between HeLa cell U3 RNA and nucleolar RNA has been shown by using the nucleic acid cross-linking reagent psoralen (ref. paired interactions between Ul and U2 snRNAs and heterogeneous nuclear RNA (12, 13). In the present study, we have utilized psoralen cross-linking together with hybridization selection/depletion and sandwich hybridization techniques to test the proposed models for the U3-rRNA interactions. In cont...

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32S pre-rRNA processing: a dynamic model for interaction with U3RNA and structural rearrangements of spacer regions

Cited by 10 publications

References 20 publications

Functional Base-pairing Interaction Between Highly Conserved Elements of U3 Small Nucleolar RNA and the Small Ribosomal Subunit RNA

Functional Base-pairing Interaction Between Highly Conserved Elements of U3 Small Nucleolar RNA and the Small Ribosomal Subunit RNA

Genetic diversity and effect of temperature and pH on the growth of Macrophomina phaseolina isolates from sunflower fields in Hungary

U3 small nuclear RNA can be psoralen-cross-linked in vivo to the 5' external transcribed spacer of pre-ribosomal-RNA.

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