Interaction between glutathione and the endoplasmic reticulum in cyclic protein synthesis in sea urchin embryos.

Interaction between an oxidoreduction system and cyclic protein synthesis was studied in sea urchin embryos. When assayed enzymatically, in both in vivo and in vitro systems, the contents of GSH and GSSG varied inversely in a cyclic fashion. Diamide at 0.5 mM inhibited amino acid incorporation in not only the cyclic phase but also the basal phase, but 4-nitroquinoline-N-oxide at 1 μM inhibited only the cyclic phase. Sea urchin embryos contained membrane-bound ribosomes, and pulse-labeling with amino acids suggested that free ribosomes were responsible for the basal phase and membrane-bound ribosomes were responsible for the cyclic phase of amino acid incorporation. Thiol-disulfide interchanging enzyme was found in the endoplasmic reticulum fraction. An extract of the endoplasmic reticulm caused stimulation of binding of acetylphenylalanyl-tRNA to 40S ribosomes and polyphenylalanine synthesis in the presence of low GSH concentrations. An extract of the endoplasmic reticulum also catalyzed oxidoreduction from GSH to the KCl-soluble protein. Thus, the periodic stimulation of protein synthesis is interpreted to be the result of the periodic activation of membrane-bound ribosomes by the thiol-disulfide interchanging enzyme which accepts selectively the signal from the GSH cycle.     

Ribosome-associated protein that inhibits translation at the aminoacyl-tRNA binding stage

We have recently isolated and characterized a novel protein associated with Escherichia coli ribosomes and named protein Y (pY). Here we show that the ribosomes from bacterial cells growing at a normal physiological temperature contain no pY, whereas a temperature downshift results in the appearance of the protein in ribosomes. The protein also appears in the ribosomes of those cells that reached the stationary phase of growth at a physiological temperature. Our experiments with cell-free translation systems demonstrate that the protein inhibits translation at the elongation stage by blocking the binding of aminoacyl-tRNA to the ribosomal A site. The function of the protein in adaptation of cells to environmental stress is discussed.     

The Listeria monocytogenes Hibernation-Promoting Factor Is Required for the Formation of 100S Ribosomes,Optimal Fitness,and Pathogenesis

During exposure to certain stresses, bacteria dimerize pairs of 70S ribosomes into translationally silent 100S particles in a process called ribosome hibernation. Although the biological roles of ribosome hibernation are not completely understood, this process appears to represent a conserved and adaptive response that contributes to optimal survival during stress and post-exponential-phase growth. Hibernating ribosomes are formed by the activity of one or more highly conserved proteins; gammaproteobacteria produce two relevant proteins, ribosome modulation factor (RMF) and hibernation promoting factor (HPF), while most Gram-positive bacteria produce a single, longer HPF protein. Here, we report the formation of 100S ribosomes by an HPF homolog in Listeria monocytogenes. L. monocytogenes 100S ribosomes were observed by sucrose density gradient centrifugation of bacterial extracts during mid-logarithmic phase, peaked at the transition to stationary phase, and persisted at lower levels during post-exponential-phase growth. 100S ribosomes were undetectable in bacteria carrying an hpf::Himar1 transposon insertion, indicating that HPF is required for ribosome hibernation in L. monocytogenes. Additionally, epitope-tagged HPF cosedimented with 100S ribosomes, supporting its previously described direct role in 100S formation. We examined hpf mRNA by quantitative PCR (qPCR) and identified several conditions that upregulated its expression, including carbon starvation, heat shock, and exposure to high concentrations of salt or ethanol. Survival of HPF-deficient bacteria was impaired under certain conditions both in vitro and during animal infection, providing evidence for the biological relevance of 100S ribosome formation.     

Growth-dependent regulation in production and utilization of acetylated ribosomal protein L7.

The relative levels of protein L12 and its α-N-acetylated form L7 in ribosomes of Escherichia coli have previously been shown to markedly vary during the growth cycle. The present labeling study shows preferential utilization of L12 in early logarithmic phase and of L7 in late logarithmic phase. Both forms are, however, simultaneously used throughout the growth cycle. After assembly into ribosomes, L7 and L12 are conserved without net interconversion. It is therefore concluded that the variation in L12 to L7 ratio takes place through changes in the relative flow of L7 and L12 species into ribosome assembly rather than by modification in pre-existing ribosomes. During this study, we have also measured the surprisingly large difference in the binding of Coomassie Blue to these proteins.     

Multiple aminoacyl-tRNA synthetases (translases) in temperature acclimation of eurythermal fish

The temperature dependency of activity of the entire set of aminoacyl-tRNA synthetases (protein synthetic translases) has been studied in the laboratory rat and in toadfish (Opsanus tau) acclimated to 20 δC or to 10 δC. The complex temperature responses of these enzyme systems reveal the presence of multiple forms for the translases of most amino acids and show adaptive behavior of these systems with respect to body temperature of the animal. The phenylalanine translase system has been studied in detail, and adaptation of this system at low temperatures correlates with adaptation in the elongation factor system. All known protein synthetic components appear to be coordinated in adaptive responses with the exception of ribosomes. Our data indicate no rôle for ribosomes in adaptation of the protein synthetic system and apparently no rôle for ribosomes in protein synthesis at all in rat and fish. This finding may solve some long-standing paradoxes in the protein synthesis field concerning the mechanism by which ribosomes participate in protein synthesis.     

Temperature characteristics and adaptive potential of wheat ribosomes

The translational efficiency of wheat ribosomes was studied as a function of an in vivo temperature pretreatment of wheat seedlings (Triticum aestivum L.). Ribosomes were isolated from heat-pretreated (36°C) and reference (4°C, 20°C) wheat seedlings. The efficiency of the ribosomes in translating polyuridylic acid was assayed. Ribosomes from heat-pretreated seedlings exhibit a threefold enhanced incorporation rate of phenylalanine as compared to ribosomes from wheat seedlings adapted to 20 or 4°C. This difference develops within 24 hours after onset of the heat treatment of seedlings following a 3 hour lag phase. The temperature induced changes can be traced back to the cytoplasmic ribosomes, since cycloheximide inhibits translation almost completely. Thermal inactivation of ribosomes occurs at 45°C, irrespective of the temperature pretreatment of the wheat seedlings. Specific differences in the yield of ribosomes, in the polyribosomal profiles, and in the apparent Arrhenius' activation energy of protein synthesis were observed depending on the age and the temperature pretreatments. The results presented here are considered an important molecular correlation to phenotypical temperature adaptation of in vivo protein synthesis in wheat (M Weidner, C Mathée, FK Schmitz 1982 Plant Physiol 69: 1281-1288).     

Protein synthesis in Bacillus subtilis. II. Selective translation of natural mRNAs and its possible relation to the species-specific inhibition of protein synthesis by lincomycin and erythromycin.

Vacant ribosomal couples from Bacillus subtilis W168 incorporate only very small amounts of amino acids into polypeptides in response to Escherichia coli cellular RNA or bacteriophage f2 RNA, but are observed to form initiation complexes in the presence of f2 RNA. Vacant ribosomal couples from E. coli acquire pressure-resistance, but do not bind fMet-tRNA, when incubated with B. subtilis RNA in the absence of ribosomal wash fraction. The implied mRNA binding in the absence of salt wash fraction, taken with previously reported observations of salt wash-independent translation of mRNAs from Grampositive bacteria, suggests that mRNAs from Gram-positive bacteria have an active functional character which is masked or absent in mRNAs from Gram-negative sources. It is proposed that this property of B. subtilis mRNAs is required by B. subtilis ribosomes for some translational function subsequent to the formation of the 70 S initiation complex, and that f2 RNA, while it is bound by B. subtilis ribosomes in initiation complexes, is not translated because it lacks this feature.The antibiotic lincomycin has been found to inhibit translation of natural mRNAs in vitro in systems from Gram-positive bacteria at concentrations 10 to 100 times lower than those necessary to inhibit translation in systems from Gram-negative species. Lincomycin does not inhibit formation of initiation complexes by vacant couples from B. subtilis or E. coli. Taken with the published findings of other investigators, these results are interpreted as indicating that the first translocation step following assembly of the initiation complex may coincide with a transition between distinct “initiating” and “elongating” states of the ribosome, and that this transition may involve structural elements, and possibly mechanisms, which are different in Gram-positive systems than in Gram-negative systems.A comprehensive model is constructed to account for the results of these studies and for the published findings of other investigators. It is proposed that some feature of Gram-positive mRNA, perhaps a vestige of early protein synthetic systems, is required by the ribosomes of Gram-positive bacteria to facilitate the transition between initiating and elongating ribosomal states. Inhibition of protein synthesis by lincomycin and the similarly species-specific macrolide antibiotic erythromycin is interpreted as an allosteric effect on the transition between initiating and elongating ribosomal states, in which the different binding affinities of ribosomes from Gram-positive and Gram-negative bacteria for the drugs are related to the functional differences between the two types of systems at this critical step. The implications of this interpretation of interspecies translational specificity for mechanisms of translational control in the cell and for the nature of the divergence of bacterial protein synthesis systems into Gram-positive and Gram-negative types are discussed.     

The Effect of Light on the Synthesis of Mitochondrial Enzymes in Division-synchronized Euglena Cultures

The development of the mitochondrial enzymes fumarase and succinate dehydrogenase has been followed in Euglena cultures division-synchronized by 14-hour light periods alternating with 12-hour dark periods. The activity of both enzymes was unaltered over the light phase, doubled in early dark phase, and thereafter remained constant over the rest of the cycle. The increase in enzyme activity in early dark phase probably represented de novo enzyme synthesis because it was prevented by the addition of cycloheximide at a concentration known to inhibit protein synthesis on Euglena cytoplasmic ribosomes.     

Euglena gracilis chloroplast ribosomes: improved isolation procedure and comparison of elongation factor specificity with prokaryotic and eukaryotic ribosomes

An improved method for the isolation of Euglena chloroplast ribosomes is described which presents a number of advantages over past procedures. First, ribosomes are prepared from whole cell extracts, thus bypassing the need to isolate intact chloroplasts and resulting in a 10-fold improvement in yield. Second, the inclusion of 40 mm Mg²⁺ in the preparation buffers, while stabilizing the chloroplast ribosomes, precipitates and, thereby, virtually eliminates the cytoplasmic 89 S ribosomes. Third, greater than 95% of the chloroplast ribosomes sediment at 68 S rather than as the damaged 53 S particle frequently generated in other preparation procedures. Fourth, even with a high-salt wash to remove endogenous factors, the chloroplast ribosomes still sediment at 68 S and are just as active in in vitro protein synthesis as are E. coli ribosomes. These ribosomes have been tested for activity with elongation factors from prokaryotes, eukaryotes, and the chloroplast itself, and the results have been compared to those obtained with E. coli and wheat germ ribosomes. The data may be summarized as follows: (a) Chloroplast ribosomes use E. coli$\text{EF}\text{-}\text{Tu}\text{Ts}$ and EF-G with the same efficiency as do E. coli ribosomes in protein synthesis, (b) E. coli and chloroplast ribosomes can use Euglena chloroplast EF-G to catalyze translocation, but wheat germ ribosomes cannot, (c) Wheat germ EF-1_H and EF-2 are highly active in polymerization with wheat germ ribosomes, but ribosomes from neither E. coli nor the chloroplast are able to recognize these factors, (d) All three types of ribosomes accept Phe-tRNA from E. coli EF-Tu although to differing degrees. However, neither chloroplast nor E. coli ribosomes recognize wheat germ EF-1_H for the binding of Phe-tRNA.     

A highly efficient poly(U)-dependent poly(Phe) synthesis system for the extreme halophile archaebacterium Halobacterium halobium

A poly(Phe) synthesis system was optimized for the archaebacterium Halobacterium halobium. It is essential for maximal activity to isolate the ribosomes from cells in mid-log phase. The system is characterized by the presence of tRNA from brewer's yeast, 6.4 M monovalent cations, 60 mM magnesium, 2 M sulphate anions, a pH of 7.4, and an incubation temperature of 40°C; polycations such as spermidine are not required. Under these conditions one H. halobium ribosome synthesizes statistically more than 20 Phe per h, and the synthesis is not exhausted after 2 h (40 Phe/ribosome). The yield of poly (Phe) is one to two orders of magnitude larger than corresponding yields described for other archaebacterial ribosomes. The accuracy of tRNA selection was determined, and an error fraction of about 0.5% was found. More than 30% of the ribosomes participate in poly(Phe) synthesis.     

ArfA Recruits RF2 into Stalled Ribosomes

During translation in Escherichia coli, the ribosome rescue factor YaeJ and the alternative ribosome rescue factor (ArfA, previously called YhdL) can release stalled ribosomes from mRNA. Here, I used a reconstituted cell-free protein synthesis system to examine YaeJ- and ArfA-dependent recycling of stalled ribosomes, in which mRNA lacks in-frame stop codons. It is shown that YaeJ alone could recycle the ribosome but that ArfA required the presence of release factor 2 (RF2). Furthermore, I show that RF2 binds to stalled ribosomes only in the presence of ArfA, demonstrating that ArfA recruits RF2 into the A site of the ribosome to facilitate peptidyl-tRNA hydrolysis. It is also demonstrated that the efficiency of the ArfA-dependent process decreases rapidly with an increase in mRNA length downstream of the A site of the ribosome whereas YaeJ function is maintained on mRNA with sufficient length. From the results, I discuss differences of in vivo roles of these two systems in addition to the well-known tmRNA-dependent trans-translation system.     

Ribonucleic acid and protein content of eukaryotic ribosomes isolated from Artemia salina

We are studying the ribosomes from the cryptobiotic embryos of Artemia salina. Here we report on the relation between the optical density at 260 nm of a ribosome solution and its RNA and protein content. Using the original Lowry method or a modified version, it has been found that 1 A₂₆₀ unit contains 42.4 ± 1.6 μg of protein, and, from the phosphorus content, that the same solution contains 41.6 ± 1.0 μg of RNA. Analytical isodensity equilibrium centrifugation gives a value of 1.570 ± 0.005 g/cm³ for the buoyant density of these ribosomes in CsCl. This density can be related to a protein content of 51%, which is in accord with the chemical determinations. The relation between the optical density of ribosomes, RNA, and protein content and the optical density of rRNA of different systems, such as Escherichia coli, yeast, A. salina, and rat liver is discussed.     

RNA IN CYTOPLASMIC AND NUCLEAR FRACTIONS OF CELLULAR SLIME MOLD AMEBAS

A method is described for the rapid separation of cellular slime mold (Dictyostelium discoideum) cells into nuclear and cytoplasmic fractions. Sucrose density sedimentation profiles of radioactivity from cells that had been grown for long or short periods in the presence of uridine-³H indicate very low levels of cross-contamination between the fractions. The nuclear fraction contains few, if any, ribosomes. In exponentially growing cells, at least 80% of the ribosomes were associated in polysomal complexes. No loss of counts from pre-labeled rRNA was observed during 2 generations (24 hr) of logarithmic growth and, within the polysomal complexes, the distributions of the preformed material and of rRNA synthesized during the 2 generations were identical. In stationary phase cells that had entered the developmental program leading to fruiting body construction, the rRNA turned over rapidly so that by the end of development at least 75% of the ribosomes fabricated during exponential growth had disappeared and had been replaced by new ones synthesized during the morphogenetic sequence. The preformed ribosomes disappeared preferentially from the monosomal contingent; the newly synthesized ribosomes appeared exclusively in the polysomal contingent and did not appear as monosomes in appreciable numbers for at least 6 hr. The possible significance of this wholesale replacement of ribosomes is discussed.     

A Role for Zinc in the Structural Integrity of the Cytoplasmic Ribosomes of Euglena gacilis

Zinc deficiency in dark-grown Euglena gracilis Klebs, Z strain Pringsheim, results in the disappearance of cytoplasmic ribosomes. In contrast, ribosomes in zinc-sufficient Euglena are conserved, do not undergo turnover, and can be demonstrated at any stage of growth. The zinc content of ribosomes from zinc-deficient Euglena just prior to ribosomal disappearance is 300 to 380 micrograms of zinc per gram rRNA as compared to 650 to 1280 micrograms of zinc per gram rRNA in ribosomes from zinc-sufficient cells. Ribosomal disappearance is believed to involve a generalized disintegration process related to the lower content of zinc in the ribosomes. Reappearance of ribosomes requires the addition of zinc. It is proposed that adequate zinc may be essential for normal tertiary and quaternary structure of the cytoplasmic ribosomes of Euglena.     

The core oligosaccharide in LPS of the Ter-15 mutant after the transformation of F'-lac episome

Ribosomes from stationary phase $\text{Bacillus stearothermophilus}$ have a diminished activity in protein synthesis due to the presence of a bound protein (association factor I, AF_I). This factor inhibits the binding of fmet-tRNA to ribosomes. The inhibition of protein synthesis can be reversed in systems directed by viral mRNA by the addition of an excess of high salt ribosomal wash obtained from mid-log cells. Under this condition AF_I is released from ribosomes.     

Visualizing Compaction of Polysomes in Bacteria

During protein synthesis, many translating ribosomes are bound together with an mRNA molecule to form polysomes (or polyribosomes). While the spatial organization of bacterial polysomes has been well studied in vitro, little is known about how they cluster when cellular conditions are highly constrained. To better understand this, we used electron tomography, template matching, and three-dimensional modeling to analyze the supramolecular network of ribosomes after induction of translational pauses. In Escherichia coli, we overexpressed an mRNA carrying a polyproline motif known to induce pausing during translation. When working with a strain lacking transfer-messenger RNA, the principle actor in the “trans-translation” rescuing system, the cells survived the hijacking of the translation machinery but this resulted in a sharp modification of the ribosomal network. The results of our experiments demonstrate that single ribosomes are replaced with large amounts of compacted polysomes. These polysomes are highly organized, principally forming hairpins and dimers of hairpins that stack together. We propose that these spatial arrangements help maintain translation efficiency when the rescue systems are absent or overwhelmed.     

Control of macromolecular synthesis in proliferating and resting Syrian hamster cells in monolayer culture. I. Ribosome function

The rate of protein synthesis per cell in cultured hamster embryo fibroblasts in the stationary growth phase falls to about one third of the rate in the exponential growth phase. This reduction can be entirely accounted for by the following observations: (1) the average cell in stationary phase contains about one-half the number of ribosomes per cell compared to the average cell in exponential phase; (2) only two thirds of the ribosomes are bound to polysomes in stationary phase, while nearly all of the ribosomes are polysome-bound in exponential phase. In stationary phase, ribosomes which are polysome-bound function with the same efficiency and produce proteins of approximately the same average length as in exponential phase. Experimental findings are presented which suggest that the generation of a higher proportion of free ribosomes in stationary phase in not due to a limitation in messenger RNA, but to a decreased attachment probability of ribosomes to messenger RNA.     

Dissociation of mitochondrial ribosomes of neurospora crassa by a bacterial dissociation factor

From ribosomes of Escherichia coli a protein factor can be obtained that promotes dissociation of bacterial ribosomes into subunits. Incubation of mitochondrial ribosomes from Neurospora crassa with the bacterial dissociation factor also leads to the formation of subunits. Under the same conditions no dissociation of cytoplasmic ribosomes from Neurospora crassa was observed.