Protein A24 lyase activity in nucleoli of thioacetamide-treated rat liver releases histone 2A and ubiquitin from conjugated protein A24.

Isolated liver nucleoli from rats treated for 3 days with thioacetamide contained an enzyme activity which specifically degraded conjugate protein A24. Two-dimensional polyacrylamide gel electrophoresis indicated that the amount of protein A24 in chromatin decreased during incubation at 37 degrees C for 60 min with these nucleoli. Concomitantly, a marked increase was found in the content of free ubiquitin, the nonhistone component of protein A24. Incubation of 3H-labeled protein A24 with the thioacetamide-treated liver nucleoli resulted in the linear release of 3H-labeled histone 2A and 3H-free ubiquitin in the presence of phenylmethanesulfonyl fluoride (PMSF) for 2 h. Pretreatment of the nucleoli with trypsin or by heating at 80 degrees C for 10 min inhibited their ability to cleave protein A24. Protein A24 lyase catalyzes the reaction: protein A24 leads to histone 2A plus ubiquitin.

Chromatin conjugate protein A24 is cleaved and ubiquitin is lost during chicken erythropoiesis.

The content of protein A24, an adduct of histone 2A and ubiquitin, was studied during chicken erythropoiesis. The amount of protein A24 was negligible in transcriptionally inactive mature chicken erythrocyte nuclei and 6-fold higher in the transcriptionally active nuclei of erythroid cells from phenylhydrazine-treated chickens. The decreased amount of protein A24 in the mature cells was offset by the relatively increased amount of histone 2A. A loss of free ubiquitin was also noted. In contrast, the amounts of high mobility group proteins 1,2, and E were essentially constant. Inasmuch as cleavage of the ubiquitin---histone 2A bond of protein A24 and loss of ubiquitin accompanied transcriptional shutdown during erythropoiesis, the presence of protein A24 and ubiquitin in premature polychromatic erythrocytes may reflect the presence of potentially active and transcribing chromatin structures.

Characterization of a nucleolar residue fraction that specifically transcribes preribosomal RNA.

Treatment of isolated nucleoli with Sarkosyl (2%) dissociated 99.5% of the proteins. The residual DNA-protein complex contained the endogenous transcriptional activity which had a high fidelity of RNA synthesis. Electron microscopic analysis of this residue fraction showed the presence of 150-200A diameter protein globules present along the length of some of the DNA fibers. SDS-polyacrylamide gel electrophoretic analysis of the proteins of the complex indicated that the subunits of purified RNA polymerase I were only a minor component of this complex. Associated with the complex were the U3 and 5S RNA.

Initiation of transcription in permeabilized Novikoff hepatoma cells.

Novikoff hepatoma cells, grown in monolayer cultures, when permeabilized by treatment with lysolecithin, incorporated 3H-UTP at a high rate for 2 hours at 25 degrees. The incorporation was inhibited by initiation inhibitors such as rifampicin AF/013, heparin and aurintricarboxylic acid. About 75% of RNA polymerase II, and 45% of RNA polymerase I activities were inhibited by rifampicin AF/013. In contrast, transcription in isolated nuclei was not inhibited either by rifampicin AF/013 or heparin. The permeabilized cells apparently retain the mechanisms for reinitiation in vitro and may be a useful model for studies on the effects of proteins on gene transcription.

Studies on the specificity of preribosomal RNA transcription in nucleoli after selective deproteinization.

Fidelity of preribosomal RNA transcription in vitro was studied after selective deproteinization of nucleoli using either sequential salt extraction or sodium deoxycholate treatment. Homochromatography fingerprinting and identification of marker oligonucleotides from a T1 ribonuclease digest of the transcripts were used to evaluate the RNA products. These studies indicated that: (1) nucleoli retained their endogenous RNA polymerase I activity and the specificity of transcription up to 0.6 M NaCl extraction; (2) exogenous RNA polymerase I transcribed nucleolar chromatin only after 1.0 M NaCl extraction and the transcription pattern, like that of totally deproteinized DNA, was completely random; (3) extraction of nucleoli with deoxycholate resulted in a DNP complex in which the endogenous RNA polymerase I transcribed pre-rRNA specifically; however, it also initiated random transcription, producing a "mixed" fingerprint pattern on the homochromatogram. The random transcription was selectively inhibited either by deoxycholate or rifampicin AF/013. These studies indicate that the selectivity of pre-rRNA transcription is due both to the endogenous RNA polymerase I molecules that were involved in transcription in vivo and are tightly bound to the template and to factors in intact nucleoli which prevent random transcription by the released RNA polymerase I molecules.

Fidelity of synthesis of preribosomal RNA in isolated nucleoli and nucleolar chromatin.

Comparisons were made of the T1 ribonuclease digests of 32P-labeled nucleolar 45S RNA of intact Novikoff hepatoma cells and the RNA synthesized in vitro by isolated nucleoli. Approximately 200 oligonucleotide spots were found in the two-dimensional chromatogram of 45S nucleolar RNA labeled in vivo, which includes fragments of 18S and 28S rRNA and nonconserved spacer regions; four spots containing 2'-O-methyl nucleotides were not found in the corresponding pattern of RNA labeled in vitro. This high degree of fidelity was retained in the patterns of spots from the RNA produced with nucleolar chromatin as template. This specific expression of rDNA was lost when the nucleolar chromatin was completely deproteinized. Specific spots found in the control patterns were absent and many nonspecific oligonucleotides were found to be labeled. A similar nonspecific chromatogram pattern was found when nucleolar chromatin was transcribed with RNA polymerase (nucleosidetriphosphate:RNA nucleotidyltransferase, EC 2.7.7.6) of Escherichia coli. These results show that specificity of genetic expression in vitro of isolated chromatin of eukaryotic systems is dependent on the chromatin-associated proteins and the type of RNA polymerase present.

Homochromatographic and immunological analysis of controls of nucleolar gene function.

To compare regulation of nucleolar function of tumors and other tissues, it was necessary to develop assays of the fidelity of ribosomal DNA readouts. For this purpose, homochromatography analyses of complete T1 ribonuclease digestion products of the in vivo labeled 45 S preribosomal RNA were compared with those of 18S and of 28 S ribosomal RNA. Homochromatography analysis of the in vitro readout product of isolated nucleoli showed the presence of many large marker nucleotides of the in vivo 45 S preribosomal RNA. Moreover, no other large oligonucleotides were detected. The in vitro readout product of nucleolar chromatin had the same T1 ribonuclease digestion products, including the large marker of oligonucleotides. However, the in vitro readout product of nucleolar DNA contained no large marker T1 ribonuclease oligonucleotides. These results indicate that the fidelity of nucleolar readouts is controlled by regulatory proteins of the nucleolar chromatin. Differences were found in nucleolar proteins of normal rat liver and Novikoff hepatoma by immunological analyses. The possibility exists that differences in readout rates of tumor and other nucleoli are related to the protein difference detected by these immunological studies.

Changes in nucleolar proteins and their phosphorylation patterns during liver regeneration.

Two-dimensional polyacrylamide gel electrophoresis of nucleolar proteins of rat liver revealed marked changes at various times after partial hepatectomy. Some of the non-histone protein spots including A11, A24, A25, C13, and C14 decreased in size and density. Others, including A15, B13, B16, B18, B24-25, B27, B33, B34, C1, C2, C8, C11, C17, and C23-24 were markedly increased in size and density. In vitro labeling of the nucleoli using [gamma-32P]ATP and subsequent analysis of the proteins by two-dimensional gel electrophoresis and autoradiography indicated that the uptake of 32P into proteins increased greatly during regeneration. In addition, the relative labelling of various spots changed throughout the regeneration process. With spot B33 as a reference, there was increased labeling of spots A1P, B2, B5, B24-25, C2, and C23-24 at 8 hours after hepatectomy. On the other hand, the labeling of spots A8P, A16, A20, B9, and B13 decreased at 8 hours after hepatectomy. Since the primary role of the nucleolus is the snythesis of ribosomal precursors, these changes in protein content and phosphorylation are presumably primarily associated with the increased processing and transport of peribosomal ribonucleoproteins in regenerating liver.