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At least 1,171 records · Page 65Linked to original sources
PubMed1978

Specific representation of cloned repetitive DNA sequences in sea urchin RNAs.

Nine cloned repetitive sequences were labeled, strands-separated and individually hybridized with RNA extracted from the nuclei of gastrula stage sea urchin embryos and of adult sea urchin intestine cells. The concentration of transcripts complementary to each cloned sequence was measured by RNA excess hybridization kinetics and by a DNA excess titration method. Transcripts of certain of the repeat families are present at over 100 times the concentration of transcripts of other families in each RNA. The set of repetitive sequence families highly represented in intestine nuclear RNA is different from that highly represented in gastrula nuclear RNA. Together with the results obtained with mature oocyte RNA and presented in the accompanying paper by Costantini et al. (1978), these findings show that quantitative patterns of repetitive sequence representation in RNA are specific to each cell type. Both strands of all of the nine cloned repeats are represented at some level in all the RNAs studied. Usually, though not always, the concentration of transcripts complementary to the two strands of each repeat do not differ by more than a factor of two. The cloned tracers do not react with polysomal messenger RNA, and the nuclear RNA molecules with which they hybridize are many times larger than the repetitive sequences themselves.

Animals↗
PubMed1979

Sequence complexity of bovine pituitary poly(A)RNA.

Poly(A)RNA extracted from the anterior lobe of bovine-pituitary tissue was transcribed into its complementary DNA with reverse transcriptase. This 3H-labeled cDNA was hybridized with its template RNA. Hybridization kinetics revealed at least 3 abundance classes with the highest abundance class consisting of only a few different sequences. Bovine-liver poly(A)RNA did not contain this highest abundance class when hybridized to the cDNA probe complementary to pituitary poly(A)RNA. This result suggested that the highest abundance class found in bovine-pituitary poly(A)RNA was specific for that tissue and most likely contained the mRNA sequences for the major pituitary hormones.

Animals↗
PubMed1973

Cell-free translation of maternal messenger RNA from sea urchin eggs.

The template activity of RNA extracted from unfertilized sea urchin eggs was demonstrated in a cell-free translation system, and, for the first time, specific proteins were identified among the products. All messenger RNA activity is recovered, under the conditions used, from the postribosomal supernatant. Histones, among many other proteins, were identified specifically as products of this "maternal" messenger RNA.

Animals↗
PubMed1992

Ontogeny of the secretory immune system: maturation of a functional polymeric immunoglobulin receptor regulated by gene expression.

In the rat, secretion of polymeric IgA from serum into bile is dependent upon the presence of a functional polymeric immunoglobulin receptor (pIgR) that acts as a hepatocyte plasma membrane receptor for ligand binding and as a transcellular transport molecule. The objective of this study was to document the developmental maturation and regulation of functionally intact rat liver pIgR. An adult pattern of IgA secretion was not detected until after day 23 postpartum (dPP), by using intravenously injected 125I-labeled dimeric IgA. Radioactive dimeric IgA was not detectable in hepatocyte transport vesicles until 21 dPP by electron microscopy autoradiographic analysis. By using a rabbit polyclonal antibody against the rat secretory component domain of the pIgR, Western blot analysis demonstrated that the plasma-membrane-bound pIgR levels in hepatocytes from rats aged 19-22 dPP increased 10-fold during this period. To determine whether or not this increase in membrane-bound pIgR reflected increased pIgR gene expression, we probed Northern blots of total cellular RNA extracted from neonatal rat liver with pIgR cDNA [GORF-1; Banting, G., Brake, B., Braghetta, P., Luzio, J.P. & Stanley, K. K. (1989) FEBS Lett. 254, 177-183]. The pIgR RNA levels between 19 and 22 dPP rose more than 20-fold and paralleled the increased membrane-bound pIgR protein during this same interval. These data demonstrate a developmentally regulated process that controls the ontogeny of biliary dimeric IgA secretion at the termination of the third week postpartum. The process appears to depend on the up-regulation of pIgR gene expression.

Aging↗
PubMed1995

The A2b adenosine receptor mediates cAMP responses to adenosine receptor agonists in human intestinal epithelia.

Adenosine is thought to be a major effector in immunological stimulation of Cl- secretion in intestinal epithelia. Previous studies indicate that both apical and basolateral domains of intestinal epithelial cells possess functionally defined adenosine receptors. However, it is unclear whether the same receptor subclass is expressed, what the receptor subclass(es) is, or how the receptors signal the Cl- secretory response. We now characterize the intestinal epithelial adenosine receptor subtype using the model epithelium, T84. Both apical and basolateral adenosine receptor agonist response profiles revealed a hierarchy (ED50) of 5'-(N-ethylcarboxamido)adenosine > adenosine > CGS-21680. Similarly inhibition studies revealed identical ID50 hierarchies for apical and basolateral antagonism by xanthine amine congener > 1,3-diethyl-8-phenylxanthine > aminophylline. Analyses of both agonist and antagonist pharmacological hierarchies in Chinese hamster ovary cells stably expressing the A2b receptor revealed these same hierarchies. Northern blots performed on RNA extracted from polarized T84 monolayers demonstrated no detectable message for A1 or A2a adenosine receptor, but strong hybridization was detected for the A2b adenosine receptor. Subsequent Northern blots of RNA prepared from human alimentary tract revealed that A2b adenosine receptor message was heavily expressed throughout the colon, in the appendix, and more modestly expressed in the small intestine (ileum). Analyses of cAMP generation in T84 cells in response to adenosine indicated that the basolateral A2b receptor elicits Cl- secretion through this signaling pathway. Stimulation of Cl- secretion through the apical A2b receptor exhibited relatively small but significant increases in cAMP compared with basolateral stimulation. The protein kinase A inhibitor H-89, used at concentrations that did not affect short circuit current responses to the Ca(2+)-mediated agonist carbachol, effectively inhibited short circuit current elicited by either apical or basolateral adenosine. These data suggest that the major intestinal epithelial adenosine receptor is the A2b subclass, which is positively coupled to adenylate cyclase. Such observations have potentially important implications for the treatment of diarrheal diseases.

Adenylyl Cyclases↗
PubMed1979

Genetic modulation of RNA metabolism in Drosophila. III. Requirement for an rDNA-deficient X chromosome in YbbSuVar-3-mediated increases in RNA synthesis.

Males of the genotype car bb/YbbSuVar-5 have an approximately two-fold increase in the rate of accumulation of 4S, 5S, 18S plus 28S and poly-A+ RNA molecules when compared to males of the genotype car bb/Ybb- (CLARK, STRAUSBAUGH AND KIEFER 1977; CLARK and KIEFER 1977). Experiments were designed to determine if the modulation of RNA metabolism by YbbSuVar-5 requires an rDNA deficiency on the X chromosome. Synthetic rates for 4S, 5S, and 18S plus 28S RNA's were measured in the genotypes Sam + iso/Ybb- and Sam + iso/YbbSuVar-5 by injecting adult males with 3H-uridine, allowing them to incorporate label for two hours, fractionating extracted RNA by polyacrylamide gel electrophoresis and determining the specific activities of RNA's (dpm/microgram RNA). The results of these determination showed that the synthetic rates for 4S, 5S, and 18S plus 28S RNA's are the same in these two genotypes, demonstrating that the YbbSuVar-5 chromosome does not increase transcription when paired with an X chromosome that is wild type for rDNA. Saturation hybridization was used to measure the rDNA content in several genotypes. These results showed that Sam + iso/YbbSuVar-5 males and Sam + iso/Ybb- males have equivalent amounts of rDNA.--These results are consistent with the suggestion that the Ybb- and YbbSuVar-5 chromosomes have similar amounts of rDNA. The nature of compensatory strategies in rDNA-deficient genotypes is discussed.

Animals↗
PubMed1992

Resistance of hepatitis delta virus replication to interferon-alpha treatment in transfected human cells.

Interferon-alpha (IFN-alpha) is known to inhibit both DNA and RNA viruses, including hepatitis B virus (HBV). In humans the antiviral effect, if any, of IFN-alpha on hepatitis delta virus (HDV) is complicated by the fact that HDV is spread only to patients already infected with HBV. An in vitro model system was used to assay for an antiviral effect of IFN-alpha on HDV genome replication. Hep G2 cells were transfected with a plasmid containing a trimer of HDV and treated with IFN (20 or 100 units/mL) starting 1-7 days after transfection. RNA extracted from treated and nontreated cells was assayed by both slot blot and Northern analyses. The IFN-alpha treatment as expected increased the 2'-5' oligo A synthetase RNA activity, but it did not affect HDV genome replication. Thus, in the absence of HBV, it appears that HDV is resistant to IFN-alpha.

2',5'-Oligoadenylate Synthetase↗
PubMed1989

Detection of herpes simplex virus type 1 gene expression in latently and productively infected mouse ganglia using the polymerase chain reaction.

The polymerase chain reaction (PCR) was employed to detect herpes simplex virus (HSV) sequences in the DNA, and HSV gene expression in total cell RNA, extracted from cervical and trigeminal ganglia of mice during productive and latent infection with HSV-1, strain SC16. Such gene expression was detected in 1 microgram or less of RNA, the quantity anticipated to be present in one or two cervical ganglia. Within the limits of the primers available, gene expression during latency appeared to be restricted to the latency-associated transcript (LAT). The 195 base portion of the LAT amplified by the PCR was sequenced and found to contain several base changes and deletions with respect to published sequences for different HSV strains. These mutations, within the putative open reading frame 2 of the LAT, formed stop or terminator signals, which suggests that the LAT does not act to establish or maintain latency through translation to a protein. The primers for the LAT also amplified a 300 bp fragment from any murine and some other mammalian RNAs. Apart from the oligonucleotide primers, this fragment did not show any homology with HSV.

Animals↗
PubMed1974

Control of simian virus 40 gene expression in adenovirus-simian virus 40 hybrid viruses. Synthesis of hybrid adenovirus 2-simian virus 40 RNA molecules in cells infected with a nondefective adenovirus 2-simian virus 40 hybrid virus.

The effect of interferon on simian virus 40 (SV40) and adenovirus 2 (Ad2) T antigen synthesis has been examined in cells infected with SV40, with Ad2, and with a nondefective Ad2-SV40 hybrid virus, Ad2(+)ND(4). The induction of SV40 T antigen by SV40 was highly sensitive to interferon, whereas the induction of Ad2 T-antigen by Ad2 was resistant. This difference in interferon sensitivity was also noted in cells simultaneously infected with both viruses. However, the induction of SV40 T antigen by Ad2(+)ND(4), which contains covalently linked SV40 and Ad2 DNAs, was as resistant to interferon as the induction of Ad2 T antigen. This change in the interferon sensitivity of SV40 T antigen synthesis suggests that the expression of at least this portion of the SV40 genetic information in Ad2(+)ND(4) is under Ad2 genetic control. When RNA extracted from Ad2(+)ND(4)-infected cells was examined by means of sequential hybridization with Ad2 DNA, elution, and rehybridization with SV40 DNA, 27% of the SV40-specific RNA was found to be linked to Ad2 RNA. No such linkage was detected in control mixtures of Ad2 and SV40 RNAs. The presence of Ad2 and SV40 nucleotide sequences in the same RNA molecule implies that, in Ad2(+)ND(4) infection, transcription is initiated in the DNA of one virus (Ad2 or SV40) and continues without interruption across the point of junction into the DNA of the other virus. Furthermore, the interferon resistance of Ad2(+)ND(4)-induced SV40 T antigen synthesis suggests that transcription of the genetic information for SV40 T antigen is initiated in a region of Ad2 DNA.

Adenoviridae↗
PubMed2004

Chronic administration of bumetanide upregulates calbindin D28k mRNA and protein abundance in rat distal convoluted tubules.

BACKGROUND/AIMS: Calbindin D28k has been reported to be involved in transcellular calcium transport along the rat distal convoluted tubule (DCT). It has also been shown that administration of bumetanide is associated with hypercalciuria. The experiments reported here were designed to verify whether chronic infusion of this diuretic affects the gene expression and protein abundance of calbindin D28k along rat kidney DCT. METHODS: Bumetanide was subcutaneously infused by an osmotic minipump for 7 days at a rate of 1.5 mg x h(-1) x kg(-1). cDNA was synthesized from total RNA extracted from DCT microdissected from collagenase-treated kidneys. RESULTS: Calbindin D28k mRNA abundance, quantified by competitive PCR, was found to be 13.7 +/- 1.9 amol x ng(-1) total RNA in DCT of control rats (n = 4) as compared to 24.2 +/- 2.4 amol x ng(-1) total RNA in DCT of bumetanide- treated rats (n = 5) (p < 0.01). This effect was associated with a 52% increase (p < 0.005) in calbindin D28k protein abundance, as detected by Western blot performed on tissue slices from renal cortex (n = 4). CONCLUSION: These data not only demonstrate that bumetanide upregulates the mRNA and protein abundance of calbindin D28k in rat DCT, but also suggest that DCT calcium reabsorption is increased following the administration of this loop diuretic.

Animals↗
PubMed1993

Differences in the ratio of RNA encoding two isoforms of the insulin receptor between control and NIDDM patients. The RNA variant without Exon 11 predominates in both groups.

Two alternative forms of the insulin receptor with different affinities for insulin are expressed as a result of alternative splicing of RNA corresponding to exon 11 of the IR gene. The percentage of IR-RNA molecules without exon 11, encoding the high-affinity isoform, was determined by cDNA-mediated PCR amplification of RNA extracts from the quadriceps femoris muscle of healthy control subjects (n = 9) and NIDDM patients (n = 7). In both patients and control individuals, a majority of the IR-RNA molecules contained exon 11. In addition, the proportion of IR-RNA molecules without exon 11 was decreased in patients (21 +/- 1%) compared with control subjects (31 +/- 3%) (P = 0.018). Careful investigation of the kinetics of the PCR-based assay system, as well as the conditions for separation of the PCR products, allowed us to suggest a possible explanation of the discrepant results concerning the alternative splicing presented in previous reports. The diabetic subjects as a group had higher fasting insulin levels and lower insulin-mediated glucose uptake during a euglycemic-hyperinsulinemic clamp (P = 0.042). However, identification of the regulatory pathways leading to the splicing alteration in NIDDM patients requires further investigation.

Alternative Splicing↗
PubMed2006

Differentiating pancreatic lesions by microarray and QPCR analysis of pancreatic juice RNAs.

BACKGROUND: The gene expression profile of pancreatic cancer is significantly different from that of normal pancreas. Differences in gene expression are detectable using microarrays, but microarrays have traditionally been applied to pancreatic cancer tissue obtained from surgical resection. We hypothesized that gene expression alterations indicative of pancreatic cancer can be detected by profiling the RNA of pancreatic juice. METHODS: We performed oligonucleotide microarray analysis on RNA isolated from pancreatic juice obtained endoscopically after secretin stimulation from six patients with pancreatic cancer and ten patients with nonneoplastic diseases of the pancreas or upper gastrointestinal tract. Extracted RNA was subjected to two rounds of linear RNA amplification, and then hybridized with U133A or X3P gene chips (Affymetrix). RESULTS: Using the U133A or X3P chips, 37 and 133 gene fragments respectively, were identified as being at least 3-fold more abundant in the pancreatic juice of patients with pancreatic cancer compared to the noncancer controls (p<0.05, Mann-Whitney test). For example, pancreatic juice from patients with pancreatic cancer contained increased levels of IL8, IFITM1, fibrinogen, osteopontin, CXCR4, DAF and NNMT RNA, genes that have been previously reported as overexpressed in primary pancreatic cancers or pancreatic cancer cell lines relative to control tissues. CONCLUSIONS: These results demonstrate that RNA analysis of pancreatic juice can reveal some of the same RNA alterations found in invasive pancreatic cancers. RNA analysis of pancreatic juice deserves further investigation to determine its utility as a tool for the evaluation of pancreatic lesions.

Chronic Disease↗
PubMed1975

Nucleotide sequence homology between a virus-specific 6S RNA and various RNA species from adenovirus-2-infected KB cells.

To investigate the metabolic fate of a 6S RNA (VA-RNA), which appears in human cell lines only after infection with adenovirus, various species of RNA from the cells at different stages of infection were tested for the presence of nucleotide sequence homologous to this RNA. RNA extracted from subvellular fractions of the cells was further fractionated by sucrose gradient centrifugation and analysed by acrylamide gel electrophoresis or by competition against 32P-labeled VA-RNA in hybridization with adenovirus DNA. The results pointed to the following conclusions. (1) VA-RNA is synthesized in the cells throughout the entire period after infections, starting before the onset of viral DNA synthesis. (2) VA-RNA does not participate in protein synthesis as a messenger RNA or a precursor of transfer RNA. (3) The nucleotide sequence homologous to VA-RNA exists as a part of certain species of nuclear high molecular weight RNA in the infected cells.

Adenoviridae↗
PubMed1989

RNA-mediated genetic transformation in Aspergillus nidulans.

We developed a model-system for correcting genetic alterations of an Aspergillus nidulans strain (ribo, paba, bio, w, Acr) by treating protoplasts with total RNA extracted from another A. nidulans strain bearing wild type alleles for the same genetic markers. The results revealed the occurrence of a true genetic transformation. The phenomenon was RNA-dependent since it was abolished by pancreatic ribonuclease treatment. The term retrotransformation is proposed since the RNA messages artificially inserted into the mutant protoplast cells restore the wild type chromosomal information.

Aspergillus nidulans↗
PubMed1990

Human neutrophil collagenase. A distinct gene product with homology to other matrix metalloproteinases.

We have identified and sequenced a cDNA encoding human neutrophil collagenase from a lambda gt11 cDNA library constructed from mRNA extracted from the peripheral leukocytes of a patient with chronic granulocytic leukemia. The library was screened with an oligonucleotide probe constructed from the putative zinc-binding region of fibroblast collagenase. Eleven positive clones were identified, of which the one bearing the largest insert (2.2 kilobases (kb)) was sequenced. From the nucleotide sequence of the 2.2-kb cDNA clone we have deduced a 467-amino acid sequence representing the entire coding sequence of the enzyme. The deduced protein was confirmed as neutrophil collagenase by conformity with the amino-terminal sequence analyses of three tryptic peptides of purified neutrophil collagenase. The cDNA clone hybridizes to a 3.3-kb mRNA present in RNA extracted from human bone marrow but did not hybridize with RNA isolated from U937 cells induced to differentiate with phorbol myristate acetate. Neutrophil collagenase was found to possess 57% identity with the deduced protein sequence for fibroblast collagenase with 72% chemical similarity. Certain regions of the molecule, including the putative zinc-binding region, are highly conserved. When compared with the published sequence for fibroblast collagenase, neutrophil collagenase contains four additional sites for glycosylation. Medium from COS-7 cells transfected with a pcDNA1 eucaryotic expression vector containing cDNA for neutrophil collagenase degraded type I collagen into the three-quarter, one-quarter fragments characteristic of mammalian interstitial collagenase activity. Thus, definitive evidence based on the cDNA sequence confirms the neutrophil collagenase is a distinct gene product and a member of the family of matrix metalloproteinases.

Amino Acid Sequence↗
PubMed1977

Interferon messenger RNA content of human fibroblasts during induction, shutoff, and superinduction of interferon production.

Translation of injected mRNA in oocytes of Xenopus laevis has been used as a highly sensitive and quantitative assay for interferon mRNA. Injection into oocytes of polyadenylylated RNA extracted from poly(I).poly(C)-induced human diploid fibroblasts (FS-4) leads to the synthesis of biologically active human fibroblast interferon over a period of 24-32 hr. There is a linear relationship between the amount of mRNA injected and the interferon yield obtained over a range of 1-20 ng of injected RNA. Injection of 40-80 ng of mRNA into each of 15 oocytes, homogenized in 0.3 ml of incubation medium, gave a titer of 128-256 interferon reference units/ml of homogenate.FS-4 cells at the peak of interferon production-i.e., approximately 2.5 hr after the beginning of induction with poly(I).poly(C)-gave mRNA that yielded 24-48 interferon reference units/ml in the oocyte assay (30 ng of RNA injected per oocyte). An equivalent amount of mRNA from FS-4 cells in the shutoff phase, approximately 6 hr after induction, gave </=4 interferon reference units/ml. In contrast, mRNA extracted from FS-4 cells that had been induced and maintained in the presence of 40 muM 5,6-dichloro-1-beta-D-ribofuranosylbenzimidazole for 6 hr produced 64-128 interferon reference units/ml. Polyadenylylated RNA obtained from uninduced FS-4 cells did not lead to detectable interferon synthesis (<4 interferon reference units/ml). These data provide a direct verification of the hypothesis that the shutoff of interferon production in FS-4 cells involves a regulatory event leading to the posttranscriptional inactivation or degradation of interferon mRNA. Because the inactivating mechanism is sensitive to inhibition by 5,6-dichloro-1-beta-D-ribofuranosylbenzimidazole, a selective inhibitor of nuclear heterogeneous RNA and mRNA synthesis, it is likely that synthesis of an RNA molecule is necessary for the shutoff of interferon production.

Animals↗
PubMed2002

Highly sensitive and specific detection of viable Escherichia coli in drinking water.

A highly sensitive and specific assay method was developed for the detection of viable Escherichia coli as an indicator organism in water, using nucleic acid sequence-based amplification (NASBA) and electrochemiluminescence (ECL) analysis. Viable E. coli were identified via a 200-nt-long target sequence from mRNA (clpB) coding for a heat shock protein. In the detection assay, a heat shock was applied to the cells prior to disruption to induce the synthesis of clpB mRNA and the mRNA was extracted, purified, and finally amplified using NASBA. The amplified mRNA was quantified with an ECL detection system after hybridization with specific DNA probes. Several disruption methods were investigated to maximize total RNA extracted from viable cells. Optimization was also carried out regarding the design of NASBA primer pairs and detection probes, as well as reaction and detection conditions. Finally, the assay was tested regarding sensitivity and specificity. Analysis of samples revealed that as few as 40 E. coli cells/mL can be detected, with no false positive signals resulting from other microorganisms or nonviable E. coli cells. Also, it was shown that a quantification of E. coli cells was possible with our assay method.

DNA Primers↗
PubMed1980

Raman spectra and conformational properties of ribosomes during various stages of disassembly.

Raman spectra have been obtained on aqueous solutions of ribosomes, ribosomal subunits, ribosomal proteins, and ribosomal RNA extracted from both rat liver (RL) and Escherichia coli cells. The species examined from RL ribosomes are total ribosomes (80 S), large subunits (60 S), small subunits (40 S), EDTA-treated ribosomes, total rRNA, 28S RNA, 18S RNA, total protein, RNP particles from 80S ribosomes, and RNP particles from 60S subunits. The species examined from E. coli ribosomes are total ribosomes (70 S), large subunits (50 S), small subunits (30 S), mixtures of 50S and 30S subunits, total rRNA, 23S RNA, and 16S RNA. All rRNA molecules are shown by Raman spectroscopy to contain highly ordered secondary structures in which the backbone conformations are predominantly of the A-helix type. The present Raman spectra do not contain sufficient detail, however, to reach firm conclusions about the conformations of ribosomal proteins or their mutual interactions. RNA molecules within ribosomal particles remain highly ordered during various stages of ribosome disassembly, and their conformations are generally invariant to perturbations of ribosome structure, including dissociation into subunits, EDTA treatment, and partial deproteinization in a CsCl density gradient. However, when total protein extraction is carried out on ribosomes and subunits, small but significant changes in rRNA secondary structure are detected. The kind and magnitude of secondary structural change are different for different ribosomal particles. The Raman spectra of the ribosomes are compared also with spectra of a model ribonucleoprotein, the complex formed by poly(riboadenylic acid) and poly(L-arginine).

Animals↗