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RNA tumor viruses as causative agents of chronic neurological disease.

These studies were designed to determine if RIDP was present in a particulate fraction of brains from patients with ALS and PD. Evidence that we have detected RIDP is as follows: (a) DNA polymerase activity persists in the presence of concentrations of actinomycin D and distamycin that inhibit most DNA-directed DNA synthesis (25); (b) the majority of endogenous DNA polymerase activity is sensitive to prior treatment with RNase; (c) the early reaction product is a 4-5 S DNA heteropolymer joined by hydrogen bonds to an RNA molecule; and (d) the purified [3H]DNA product anneals to RNA extracted from the enzyme-containing pellet more extensively than to normal brain RNA or poly(rA). The enzyme activity is in a cytoplasmic particle that can be sedimented at high speed and has the buoyant density of RNA tumor viruses (1.16-1.18 gm/ml). This particulate fraction is not disrupted by physical manipulation and maintains its characteristic density with repeated centrifugations. Treatment with the nonionic surfactant Sterox changes the buoyant density of the enzyme-containing particle to 1.24 gm/ml, the density of the onconavirus virion core. Synthesis of RNA-DNA hybrids by an endogenous reverse transcriptase reaction was found only in normal and diseased Chamorro brains. Examination of a limited number of normal and diseased brains from individuals who lived in the United States produced negative results (39). Definitive characterization of this polymerase activity and identification as a true viral polymerase will depend on purification of biochemically active quantities of this polymerase to determine its template specificities, its cation preference, the fidelity of its transcription product, as well as its antigenic relationship to animal virus and human leukemic RIDP. Of critical importance in these studies will be differentiation of this activity from normal brain DNA polymerase gamma and terminal deoxynucleotidyltransferase.

Amyotrophic Lateral Sclerosis↗

Tumor necrosis factor-alpha in human milk.

We previously demonstrated that certain biologic activities in human milk were partially blocked by antibodies directed against human tumor necrosis factor-alpha (TNF-alpha). In this study, immunochemical methods were used to verify the presence of TNF-alpha in human milk obtained during the first few days of lactation. Gel filtration revealed the presence of TNF-alpha by RIA in molecular weight fractions between 80 and 195 kD. TNF-alpha could not be detected consistently by conventional Western blotting or cytotoxic assays. Although immunoreactive bands were detected by a Western blot-125I protein A technique in TNF-alpha-positive fractions from gel filtration, those bands proved to be nonspecific. TNF-alpha in milk was reliably quantified by the competitive RIA. Those studies revealed that the concentrations of TNF-alpha in milk were 620 +/- 183 pg/mL. Although RNA to TNF-alpha was detected in milk leukocytes by Northern blotting, little TNF-alpha was found in those cells before or after stimulation with N-formyl-l-methionyl-l-leucyl-l-phenylalanine or 4 beta-phorbol-12 beta-myristate-13 alpha-acetate. The origin of this cytokine in human milk remains unclear. Nevertheless, this study suggests that TNF-alpha is present in early human milk in sufficient quantities to exert possible biologic effects upon the mammary gland of the mother or the immune system of the infant.

Adolescent↗

Transcriptional behavior of silkmoth chorion genes in vivo and in injected Xenopus laevis oocytes.

A cloned fragment of Bombyx mori genomic DNA containing a pair of chorion genes was injected into Xenopus laevis oocytes. The RNA transcribed from the injected template was examined by primer extension analysis for the presence of transcripts initiated correctly from the two chorion genes. Using as primers a number of fragments derived from various parts of the injected DNA, we have found that transcription initiation around the cap sites of the chorion genes was considerably more frequent than that at other, seemingly random sites of the template. Injection of different quantities of template into the oocytes revealed that at high DNA concentrations, most transcripts were randomly initiated. However, when reduced amounts of DNA were injected into the oocytes, the extent of specific transcription increased dramatically while the proportion of nonspecific transcripts correspondingly decreased. The relative rates of specific initiation from the two chorion genes in injected oocytes resembled closely those observed in choriogenic follicles. Finally, the primer extension analysis revealed the presence of chorion antisense transcripts not only in injected oocytes but also in total RNA derived from follicular cells. The possible origin of these transcripts is discussed.

Animals↗

Specificity of dot hybridization assay in the presence of rRNA for detection of rotaviruses in clinical specimens.

Nucleic acid hybridization is used to identify viral genomic sequences in clinical and environmental samples. However, RNA virus genomes have been reported to hybridize to mammalian rRNA from uninfected cells under stringent conditions, and caution has therefore been advised in the use of nucleic acid probes for detection of RNA viruses. To evaluate the effect of rRNA on a diagnostic assay for an RNA virus, we tested the specificity of a rotavirus dot hybridization assay with clinical specimens which contained eucaryotic rRNA. The cDNA probe used in this assay contained sequences complementary to all 11 rotavirus genes. Preliminary experiments indicated that hybridization between rRNA and the cDNA probe occurred only with greater than 50 ng of rRNA, and this interaction was easily distinguished from the hybridization of the rotavirus probe with homologous or heterologous strains of the same rotavirus group. When 95 clinical specimens were tested, the rotavirus dot hybridization assay had a specificity of 98.8%. The predictive value of a negative test was 94.2%, although nearly all of the specimens contained rRNA and also reacted with an rRNA probe. Although the specificity of all dot hybridization assays should be individually evaluated, we conclude that our dot hybridization assay for rotaviruses is highly specific even in the presence of quantities of rRNA that may be anticipated in extracts of fecal specimens.

DNA, Viral↗

Molecular cloning, expression, and purification of SARS-CoV nsp13.

The SARS-nsp13 protein was identified as an mRNA cap1 methyltransferase. In this study, the nsp13 gene was cloned from the SARS-CoV PUMC02 strain viral RNA by RT-PCR, and inserted into the expression plasmid pET30a(+). The recombinant plasmid pET30a(+)-nsp13 was confirmed by restriction enzymes and sequencing analysis, and transformed into Escherichia coli BL21(DE3). The His-tag-fused protein was expressed by induction of 0.5mM IPTG and purified by a single Ni(2+) affinity chromatography. The protein was validated by western blot and MS analysis. A large quantity of the nsp13 protein obtained with this method may be useful for further study of its structure and function.

Amino Acid Sequence↗

Effects of anti-inflammatory therapies on recurrent and low-grade respiratory syncytial virus infections in a murine model of asthma.

BACKGROUND: Recurrent and subclinical viral respiratory tract infections could immunologically exacerbate allergic airway inflammation. However, the most appropriate treatment for virus-induced asthma exacerbation is yet to be established. The effects of glucocorticoids in virus-induced acute asthma are controversial. OBJECTIVE: To determine the effects of representative anti-inflammatory therapies for asthma--glucocorticoids and leukotriene receptor antagonists (LTRAs)--in mite allergen-sensitized and repeatedly low-grade respiratory syncytial virus (RSV)--infected mice. METHODS: Dermatophagoides farinae-sensitized mice were inoculated twice with low-grade RSV and subcutaneously injected with either a glucocorticoid or an LTRA for 4 consecutive days. Lung inflammation, cytokine profiles, LT production, and viral RNA in lung tissues were compared in 5 groups of 8 mice each: controls, D farinae allergen sensitized, D farinae sensitized and RSV infected, D farinae sensitized and RSV infected with dexamethasone, and D farinae sensitized and RSV infected with pranlukast, an LTRA. RESULTS: Allergic airway inflammation in D farinae mice was significantly enhanced by recurrent and low-grade RSV infections (RLRIs). The glucocorticoid attenuated allergic airway inflammation, which was associated with interleukin 5 (IL-5) and interferon-gamma (IFN-gamma) suppression in lung-draining lymph nodes without affecting viral quantity. The LTRA also attenuated allergic airway inflammation in D farinae-RSV mice with concomitant inhibition of IL-5 but not IFN-gamma. Dermatophagoides farinae allergen sensitization significantly increased LTs in the airway, whereas RLRIs did not further enhance LT production. CONCLUSIONS: Glucocorticoids and LTRAs significantly inhibit RLRI-induced exacerbation of allergic airway inflammation by distinct pathways. Dexamethasone suppressed nonspecific cytokines, whereas viral RNA did not increase via suppression of immunity. In contrast, pranlukast specifically inhibited IL-5 but not IFN-gamma.

Acute Disease↗

A method for quantitative determination of deuterium content in biological material.

A method was developed for quantitative determination of deuterium incorporated into live organisms or biological macromolecules. The deuterated biological material was mixed with a bovine serum albumin (BSA) supporter to make a homogeneous sample for which the deltaD value (vs. VSMOW) was analyzed using a dual-inlet gas isotope mass spectrometer. The method is described in detail, and the equation for calculation of deuterium content is presented, i.e., CbioD=1/500 x k x RVSMOW x CBSAH x 10(6) ppm. Deuterated hepatitis A virus (HAV) RNA and BSA were systematically investigated. The results demonstrate that the method is capable of direct measurement of deuterium content, and is highly repeatable and reliable with a standard deviation of +/-3 per thousand. It is stressed that the quantity of deuterated sample required is extremely small as a result of using BSA as supporter. The method may be applied in many fields, and has the strengths of simplicity, relative cheapness, and robustness.

Biopolymers↗

Evidence for major differences in ribosomal subunit proteins from Plasmodium berghei and rat liver.

Purified polysomes were isolated in high yield from the erythrocytic stages of the rodent malaria parasite, Plasmodium berghei, and from rat liver. Proteins extracted from the ribosomal subunits derived from these polysomes were fractionated and their number and molecular weights were estimated by two-dimensional polyacrylamide gel electrophoresis. Plasmodial small ribosomal subunits contained 30 proteins ranging in apparent molecular size from 11.7 to 40.7 kDa, while large subunits contained 35-36 proteins ranging from 12.1 to 42.6 kDa. None of these parasite proteins was shared by the two subunits nor altered in electrophoretic mobility by radioiodination. Rat liver 40 S ribosomal subunit proteins numbered 30 and ranged from 9.2 to 37.5 kDa, while liver 60 S subunits contained 41-43 proteins with apparent molecular sizes of 10.3-45.2 kDa. Coelectrophoresis of trace amounts of radioiodinated P. berghei ribosomal subunit proteins and stainable quantities of liver proteins demonstrated that most of these 139 parasite and host ribosomal proteins possessed different two-dimensional electrophoretic mobilities under the conditions of this study. Based upon a comparative analysis of P. berghei and rodent ribosomal RNA and these data, it was concluded that parasite and host ribosomes contain distinct ribosomal RNAs and ribosomal proteins.

Animals↗

Large-scale oligoribonucleotide production.

Growing interest in RNAs for biomedical, agricultural, and other applications has necessitated the development of methods for producing oligoribonucleotides in milligram, or larger, quantities. Recent research on in vitro transcription has focused on optimizing solution conditions and the use of immobilized templates. In the alternative area of organic chemical synthesis, significant effort has been channeled into improving coupling efficiencies and producing modified RNA analogs which retain activity but have higher stability than unmodified RNAs.

Enzymes↗

Diazaborine treatment of Baker's yeast results in stabilization of aberrant mRNAs.

Upon Northern blotting, Saccharomyces cerevisiae that was treated with diazaborine showed aberrant mRNAs that were extended at the 3'-end and terminated at secondary processing sites. These bands were also detected in untreated Deltaupf1, Deltaxrn1, and rat7-1 mutants. This finding demonstrates that the aberrant mRNAs also occur in untreated strains in small quantities and can reach the cytoplasm, where they are normally degraded by Xrn1p. Diazaborine treatment stabilizes these mRNAs. The detection of the aberrant bands in the untreated rat7-1 strain indicates that Rat7 is involved in quality control of RNA. The aberrant mRNAs were not detected after diazaborine treatment of a DRG1-1 mutant. Drg1p, a member of the family of AAA (ATPases associated with a variety of cellular activities) proteins, which are thought to represent specific chaperones, may be involved in the process of unfolding the mRNA-ribonucleoprotein complex or in the recognition of aberrant mRNA molecules in the cytoplasm.

Alleles↗

The Coding Properties of Lysine-accepting Transfer Ribonucleic Acids from Black-eyed Peas.

Lysine-accepting transfer RNA from ungerminated and germinated embryo axes of black-eyed peas (Vigna sinensis L. Savi) was fractionated on benzoylated diethylaminoethyl cellulose and reverse phase Freon columns. Cochromatography indicated the presence of two similar lysyl transfer RNA fractions in each tissue. Ribosome binding studies revealed that the larger of the two fractions in each case is specific for the AAG codon, while the smaller one recognizes AAA and AAG. Possible implications of this difference in quantities of isoacceptors in translation of genetic information are discussed.

Journal Article↗

Ethylene-forming Systems in Etiolated Pea Seedling and Apple Tissue.

Auxin-induced ethylene formation in etiolated pea (Pisum sativum L. var. Alaska) stem segments was inhibited by inhibitors of RNA and protein synthesis. Kinetics of the inhibitions is described for actinomycin D, cordycepin, alpha-amanitin, and cycloheximide. alpha-Amanitin was the most potent and fast-acting inhibitor, when added before induction or 6 hours after induction of the ethylene-forming system. The ethylene-forming system of postclimacteric apple (Malus sylvestris L.) tissue, which is already massively induced, was not further stimulated by auxin. Ethylene production in apples was inhibited least by alpha-amanitin and most by actinomycin D. The relative responses of the ethylene system in apples to RNA inhibitors were different from the ethylene system of pea stems. However, the protein synthesis inhibitor, cycloheximide, appeared to act equally in both tissue systems. The effect of cycloheximide on ethylene production in postclimacteric apple tissue, already producing large quantities of ethylene, suggests a dynamic regulating system for the synthesis and degradation of the ethylene-forming system.

Journal Article↗

Use of phosphorus-32 in microassay for nucleic acid synthesis in Escherichia coli.

A method was developed to facilitate studies of ribonucleic acid and deoxyribonucleic acid synthesis in growing bacterial cultures of small volume. The nucleic acid fractions were separated by means of a modified Schmidt-Thannhauser procedure applied to micro quantities of P(32)-labeled cells collected on membrane filters. The validity and usefulness of the method are discussed.

Escherichia coli↗

Study of the interaction between bacteriophage T4 asiA and Escherichia coli sigma(70), using the yeast two-hybrid system: neutralization of asiA toxicity to E. coli cells by coexpression of a truncated sigma(70) fragment.

The interaction of T4 phage-encoded anti-sigma factor, asiA, and Escherichia coli sigma(70) was studied by using the yeast two-hybrid system. Truncation of sigma(70) to identify the minimum region involved in the interaction showed that the fragment containing amino acid residues proximal to the C terminus (residues 547 to 603) was sufficient for complexing to asiA. Studies also indicated that some of the truncated C-terminal fragments (residues 493 to 613) had higher affinity for asiA as judged by the increased beta-galactosidase activity. It is proposed that the observed higher affinity may be due to the unmasking of the binding region of asiA on the sigma protein. Advantage was taken of the increased affinity of truncated sigma(70) fragments to asiA in designing a coexpression system wherein the toxicity of asiA expression in E. coli could be neutralized and the complex of truncated sigma(70) and asiA could be expressed in large quantities and purified.

Bacterial Proteins↗

An optimised protocol for the extraction of non-viral mRNA from human plasma frozen for three years.

AIMS: To detect non-viral mRNA in human plasma that has been frozen for three years using a new protocol. METHODS: Plasma from 15 patients with colorectal cancer and 10 normal subjects was separated and frozen with Trizol at -80 degrees C for three years. As a control measure, plasma from 10 of the 15 patients was separated using the same protocol but no Trizol during storage. After three years, all samples were extracted using Trizol and RNeasy before the reverse transcriptase polymerase chain reaction was performed to detect non-viral beta catenin mRNA. In addition, extraction of three plasma samples by Trizol or RNeasy independently was carried out for comparison. RESULTS: beta Catenin mRNA was detected in all 15 patient plasma samples and only one of the 10 normal subjects. In contrast, no beta catenin mRNA was found in the control and patient samples that were independently extracted by Trizol and RNeasy kit. CONCLUSIONS: This new protocol is a reliable method for extracting non-viral mRNA from the plasma of patients with cancer after longterm storage for three years. Extractions using Trizol and RNeasy kits independently could not isolate mRNA with sufficient quantity and quality for detection.

Biomarkers, Tumor↗

Growth hormone-releasing hormone-like messenger ribonucleic acid and immunoreactive peptide are present in human testis and placenta.

Although the sequence of human GH-releasing hormone (GHRH) has been determined, all of the information concerning gene expression has been based on pathological sources of ectopic GHRH, since the only established physiological source of GHRH in humans is the hypothalamus. We recently reported the presence of extrahypothalamic GHRH-like mRNA and immunoreactive material in rat testis and placenta. To determine if human testis and placenta also contain immunoreactive GHRH-like peptides, tissue extracts were analyzed using enzyme-linked immunosorbent assay methodology. Both tissues had detectable quantities of immunoreactive peptide recognized by a monoclonal antibody to synthetic human GHRH-(1-44) (testis, 2.4 ng/g tissue, 0.68 ng/mg protein; placenta, 2.6 ng/g tissue, 0.36 ng/mg protein). The origin of these peptides was confirmed by extracting total RNA from human testis and placenta, with analysis on Northern blots probed with riboprobes for rat hypothalamic GHRH cDNA and human pancreatic tumor GHRH cDNA. Human testis and placenta total RNA both contain an approximately 790-nucleotide RNA species similar in size to that reported in ectopic GHRH-producing human tumors. In addition, two larger hybridization signals were seen at 3000 and 4900 nucleotides. These data suggest that testis and placenta are extrahypothalamic sites of expression of the human GHRH gene. Normal expression of the GHRH gene in extrahypothalamic sites may include transcription of larger mRNA species than those observed in ectopic pathological sources of GHRH expression.

Animals↗

Tachycardia-induced heart failure does not alter myocardial P-glycoprotein expression.

STUDY OBJECTIVE: To determine the effects of tachycardia-induced heart failure on myocardial P-glycoprotein (P-gp) expression. DESIGN: Nonblinded, parallel, sham-controlled, animal model study. SETTING: University laboratory. ANIMALS: Thirty mongrel dogs. INTERVENTION: Heart failure was induced by rapid ventricular pacing over 4 weeks; sham procedures were performed for the control group. MEASUREMENTS AND MAIN RESULTS: Myocardial biopsies were taken from the left ventricular lateral wall and prepared for P-gp quantification by laser-induced fluorescence. The relative amount of P-gp messenger RNA (mRNA) was assessed by reverse transcriptase polymerase chain reaction. Rapid ventricular pacing produced heart failure and reduced the area ejection fraction from 48% +/- 6% to 21% +/- 6% (p<0.05 vs baseline). However, heart failure did not alter the quantity of myocardial P-gp (0.20 +/- 0.02 microg/ml for the control group vs 0.23 +/- 0.02 microg/ml for the intervention group, p=0.4). Furthermore, heart failure did not alter P-gp expression significantly. CONCLUSION: Myocardial P-gp does not change in response to tachycardia-induced heart failure. Thus, there is a low likelihood for P-gp-related drug resistance during a syndrome similar to tachycardia-induced heart failure.

Animals↗