Specific features of RNA polymerases I and III:Structure and assembly

RNA polymerase I (RNAPI) and RNAPIII are multi-heterogenic protein complexes that specialize in the transcription of highly abundant non-coding RNAs, such as ribosomal RNA (rRNA) and transfer RNA (tRNA). In terms of subunit number and structure, RNAPI and RNAPIII are more complex than RNAPII that synthesizes thousands of different mRNAs. Specific subunits of the yeast RNAPI and RNAPIII form associated subcomplexes that are related to parts of the RNAPII initiation factors. Prior to their delivery to the nucleus where they function, RNAP complexes are assembled at least partially in the cytoplasm. Yeast RNAPI and RNAPIII share heterodimer Rpc40-Rpc19, a functional equivalent to the αα homodimer which initiates assembly of prokaryotic RNAP. In the process of yeast RNAPI and RNAPIII biogenesis, Rpc40 and Rpc19 form the assembly platform together with two small, bona fide eukaryotic subunits, Rpb10 and Rpb12. We propose that this assembly platform is co-translationally seeded while the Rpb10 subunit is synthesized by cytoplasmic ribosome machinery. The translation of Rpb10 is stimulated by Rbs1 protein, which binds to the 3′-untranslated region of RPB10 mRNA and hypothetically brings together Rpc19 and Rpc40 subunits to form the αα-like heterodimer. We suggest that such a co-translational mechanism is involved in the assembly of RNAPI and RNAPIII complexes

The expression of Rpb10, a small subunit common to RNA polymerases, is modulated by the R3H domain-containing Rbs1 protein and the Upf1 helicase

The biogenesis of eukaryotic RNA polymerases is poorly understood. The present study used a combination of genetic and molecular approaches to explore the assembly of RNA polymerase III (Pol III) in yeast. We identified a regulatory link between Rbs1, a Pol III assembly factor, and Rpb10, a small subunit that is common to three RNA polymerases. Overexpression of Rbs1 increased the abundance of both RPB10 mRNA and the Rpb10 protein, which correlated with suppression of Pol III assembly defects. Rbs1 is a poly(A)mRNA-binding protein and mutational analysis identified R3H domain to be required for mRNA interactions and genetic enhancement of Pol III biogenesis. Rbs1 also binds to Upf1 protein, a key component in nonsense-mediated mRNA decay (NMD) and levels of RPB10 mRNA were increased in a upf1Δ strain. Genome-wide RNA binding by Rbs1 was characterized by UV cross-linking based approach. We demonstrated that Rbs1 directly binds to the 3' untranslated regions (3'UTRs) of many mRNAs including transcripts encoding Pol III subunits, Rpb10 and Rpc19. We propose that Rbs1 functions by opposing mRNA degradation, at least in part mediated by NMD pathway. Orthologues of Rbs1 protein are present in other eukaryotes, including humans, suggesting that this is a conserved regulatory mechanism

Hadrons in Dense Resonance-Matter: A Chiral SU(3) Approach

A nonlinear chiral SU(3) approach including the spin 3/2 decuplet is developed to describe dense matter. The coupling constants of the baryon resonances to the scalar mesons are determined from the decuplet vacuum masses and SU(3) symmetry relations. Different methods of mass generation show significant differences in the properties of the spin-3/2 particles and in the nuclear equation of state.Comment: 28 pages, 9 figure

Reprogramming mRNA expression in response to defect in RNA polymerase III assembly in the yeast saccharomyces cerevisiae

The coordinated transcription of the genome is the fundamental mechanism in molecular biology. Transcription in eukaryotes is carried out by three main RNA polymerases: Pol I, II, and III. One basic problem is how a decrease in tRNA levels, by downregulating Pol III efficiency, influences the expression pattern of protein-coding genes. The purpose of this study was to determine the mRNA levels in the yeast mutant rpc128-1007 and its overdose suppressors, RBS1 and PRT1. The rpc128-1007 mutant prevents assembly of the Pol III complex and functionally mimics similar mutations in human Pol III, which cause hypomyelinating leukodystrophies. We applied RNAseq followed by the hierarchical clustering of our complete RNA-seq transcriptome and functional analysis of genes from the clusters. mRNA upregulation in rpc128-1007 cells was generally stronger than downregulation. The observed induction of mRNA expression was mostly indirect and resulted from the derepression of general transcription factor Gcn4, differently modulated by suppressor genes. rpc128-1007 mutation, regardless of the presence of suppressors, also resulted in a weak increase in the expression of ribosome biogenesis genes. mRNA genes that were downregulated by the reduction of Pol III assembly comprise the proteasome complex. In summary, our results provide the regulatory links affected by Pol III assembly that contribute differently to cellular fitness

Identical Bands in Superdeformed Nuclei: A Relativistic Description

Relativistic Mean Field Theory in the rotating frame is used to describe superdeformed nuclei. Nuclear currents and the resulting spatial components of the vector meson fields are fully taken into account. Identical bands in neighboring Rare Earth nuclei are investigated and excellent agreement with recent experimental data is observed.Comment: 11 pages (Latex) and 4 figures (available upon request) TUM-ITP-Ko93/

Relativistic Hartree-Bogoliubov description of ground-state properties of Ni and Sn isotopes

The Relativistic Hartree Bogoliubov (RHB) theory is applied in the description of ground-state properties of Ni and Sn isotopes. The NL3 parameter set is used for the effective mean-field Lagrangian, and pairing correlations are described by the pairing part of the finite range Gogny interaction D1S. Fully self-consistent RHB solutions are calculated for the Ni ($28\leq N\leq 50$) and Sn ($50\leq N\leq 82$) isotopes. Binding energies, neutron separation energies, and proton and neutron $rms$ radii are compared with experimental data. The model predicts a reduction of the spin-orbit potential with the increase of the number of neutrons. The resulting energy splittings between spin-orbit partners are discussed, as well as pairing properties calculated with the finite range effective interaction in the $pp$ channel.Comment: 11 pages, RevTex, 12 p.s figures, submitted to Phys. Rev.

Correlation between muonic levels and nuclear structure in muonic atoms

A method that deals with the nucleons and the muon unitedly is employed to investigate the muonic lead, with which the correlation between the muon and nucleus can be studied distinctly. A "kink" appears in the muonic isotope shift at a neutron magic number where the nuclear shell structure plays a key role. This behavior may have very important implications for the experimentally probing the shell structure of the nuclei far away from the $\beta$-stable line. We investigate the variations of the nuclear structure due to the interaction with the muon in the muonic atom and find that the nuclear structure remains basically unaltered. Therefore, the muon is a clean and reliable probe for studying the nuclear structure. In addition, a correction that the muon-induced slight change in the proton density distribution in turn shifts the muonic levels is investigated. This correction to muonic level is as important as the Lamb shift and high order vacuum polarization correction, but is larger than anomalous magnetic moment and electron shielding correction.Comment: 2 figure

Finite Nuclei in a Relativistic Mean-Field Model with Derivative Couplings

We study finite nuclei, at the mean-field level, using the Zimanyi-Moskowski model and one of its variations (the ZM3 model). We calculate energy levels and ground-state properties in nuclei where the mean-field approach is reliable. The role played by the spin-orbit potential in sorting out mean-field model descriptions is emphasized.Comment: 17 pages, 9 figures, 30 kbytes. Uses EPSF.TEX. To appear in Zeit. f. Phys. A (Hadrons and Nuclei

Chiral thermodynamics of dense hadronic matter

We discuss phases of hot and dense hadronic matter using chiral Lagrangians. A two-flavored parity doublet model constrained by the nuclear matter ground state predicts chiral symmetry restoration. The model thermodynamics is shown within the mean field approximation. A field-theoretical constraint on possible phases from the anomaly matching is also discussed.Comment: 8 pages, 2 figures, to appear in the proceedings of 6th International Workshop on Critical Point and Onset of Deconfinement (CPOD), 23-29 August 2010 at Joint Institute for Nuclear Research, Dubna, Russi

Neutron star properties in a chiral SU(3) model

We investigate various properties of neutron star matter within an effective chiral $SU(3)_L \times SU(3)_R$ model. The predictions of this model are compared with a Walecka-type model. It is demonstrated that the importance of hyperon degrees are strongly depending on the interaction used, even if the equation of state near saturation density is nearly the same in both models. While the Walecka-type model predicts a strange star core with strangeness fraction $f_S \approx 4/3$, the chiral model allows only for $f_S \approx 1/3$ and predicts that $\Sigma^0$, $\Sigma^+$ and $\Xi^0$ will not exist in star, in contrast to the Walecka-type model.Comment: 13 pages, Revtex, 5 figs include