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Biomedical subjects

R Padmanabhan

Publications and source records attributed to R Padmanabhan.

At least 109 records · Page 6Linked to original sources
PubMed1989

Sequence analysis of cloned dengue virus type 2 genome (New Guinea-C strain).

Sequences totalling 5472 nucleotides (nt) from four complementary DNA (cDNA) clones of the dengue virus type 2 (DEN-2) RNA (New Guinea strain, NGS-C) have been reported previously [Yaegashi et al., Gene 46 (1986) 257-267; Putnak et al., Virology 163 (1988) 93-103]. This report describes the complete nucleotide sequence, with the exception of about 7 nt at the 5'-noncoding region, of this RNA genome derived from several cDNA clones. It is 10,723 nt in length and contains a single long open reading frame of 10,173 nt, encoding a polyprotein of 3391 amino acids. The genomic organization is similar to that of other flaviviruses that have recently been reported. Among the three DEN-2 strains - the Jamaica genotype (DEN-2JAM), the DEN-2NGS-C, and the S1 candidate vaccine strain derived from Puerto Rico (PR)-159 isolate (DEN-2S1) - which have been sequenced to date, the amino acid sequences of the polyproteins bear 94%-99% similarity. When the amino acid sequences of DEN-2NGS-C are compared with those of the other two strains, the variations are greater in the DEN-2S1 than in the DEN-2JAM. When DEN-2 and DEN-4 are compared, the overall amino acid identities range from 30% to 80% in both the structural and nonstructural proteins; whereas between DEN-2 and DEN-1, they range from 68% to 79% in the region encoding the structural proteins and the nonstructural protein NS1.

Amino Acid Sequence↗
PubMed1989

Pathogenesis of exencephaly and cranioschisis induced in the rat after neural tube closure: role of the mesenchyme.

Exencephaly was induced after neural tube closure by administration of a single dose of 15 mg/kg cyclophosphamide (CPA) to pregnant Wistar rats. Embryos were collected at 6, 8, and 10 hr and then at 24-hr intervals until day 17 of gestation and processed for electronmicroscopy. Sections cut at the level of foramen of Monro and at the otic vesicle level were examined and compared with similarly processed and age-matched control embryonic tissues. The earliest changes in the CPA-treated embryonic mesenchyme (ME) included a relative reduction in polyribosomes and an accumulation of cellular debris in apparently normal cells and in the extracellular space (ECS). While dead cells were disintegrating in the ECS, numerous cells were engaged in phagocytosis and digestion of fragments of dead cells. Continued cell loss and inhibition of cell proliferation lead to a marked increase in ECS and loss of intercellular contacts. At 10 hr postinjection, these changes were accentuated. By day 13, the capillaries in the ME were found to have their endothelium attenuated; they also had no pericyte association. Unlike in controls, the CPA embryos never developed a proper primordium of the skull vault. Differentiation of the poorly organised ME cells was slow, and glycogen appeared in them late and persisted until day 17. The endoplasmic reticulum was dilated; lipid and lysosomes accumulated, and matrix secretion was inhibited. Macrophages were numerous. The capillaries proliferated and possessed intraluminal cytoplasmic flaps resembling capillaries in the controls at earlier stages of development. The ECS in the ME became edematous while blebs developed subcutaneously. The weak neuroepithelium had several cavities that communicated internally with the ventricle and externally with the blebs. Cell death, inhibition of cell proliferation, and failure of the appearance of skull vault primordium resulted in poor support to the NE. The mounting intraventricular pressure possibly lead to a breakdown of the unsupported NE, resulting in reopening of the neural tube.

Abnormalities, Drug-Induced↗
PubMed1988

Nuclear transport of adenovirus DNA polymerase is facilitated by interaction with preterminal protein.

The mRNAs for the 80 kd adenovirus preterminal protein (pTP) and the 140 kd DNA polymerase (AdPol) contain several exons spliced to the main open reading frames (m-ORFs) located in the early transcription unit E2B. These proteins were transiently expressed in monkey kidney cells (CV1) utilizing the first ATG (pTP1 and AdPol1) or the ATG of a linker inserted at the beginning of the m-ORFs (pTP2 and AdPol2). Only pTP2 and AdPol2 were functionally active in an in vitro replication initiation assay. Both pTP1 and pTP2 were transported to the nucleus. The sequence RLPV(R)6VP, which is present in both pTPs, is identified as their nuclear localization signal. In contrast, AdPol1 was cytoplasmically localized, whereas AdPol2 was distributed in both compartments, suggesting that the nuclear localization signal for AdPol is within the first 139 amino acids. Interestingly, when AdPol1 and pTP1 or AdPol2 and pTP2 were coexpressed in the transfected cells, the nuclear distribution of AdPol1 or AdPol2 was significantly increased. We demonstrate that the nuclear transport of AdPol is facilitated, irrespective of the presence of its nuclear localization signal, by interaction with pTP.

Adenoviridae↗
PubMed1988

Purification of transiently transfected cells by magnetic affinity cell sorting.

A method was developed to purify transiently transfected HeLa cells or African green monkey kidney CV-1 cells by magnetic affinity cell sorting. Monolayer cultures were transfected with mammalian expression vectors coding for either of two novel cell surface antigens, the Tac subunit of the human IL-2 receptor or vesicular stomatitis virus G protein. During the transient expression phase, cell populations were placed in suspension and mixed with monoclonal-antibody-coated magnetic particles in the presence of a sorting solution designed to minimize nonspecific cell/cell and cell/particle interactions. Transfected cells expressing the vector-encoded cell surface antigen were then isolated by application of a magnetic field. Reconstruction experiments indicated that IL-2 receptor-positive cells were bound about 100-fold more efficiently than receptor-negative cells. In transient transfection experiments, populations of greater than 90% antigen-positive cells were reproducibly obtained.

Animals↗
PubMed1988

Light microscopic studies on the pathogenesis of exencephaly and cranioschisis induced in the rat after neural tube closure.

Administration of a single dose of cyclophosphamide (20 mg/kg) to Charles Foster (CF) rats on day 12 of gestation (i.e., well after neural tube closure) results in exencephaly in almost 100% of living fetuses at term (Padmanabhan, '84). Following the same treatment, embryos/fetuses were collected at various intervals of time (from 8 hr to day 19 of gestation) and studied histologically. At 10 hr after treatment, the neuroepithelium (NE) of the brain vesicles and the neural crest-derived ganglia exhibited pronounced cell death. By day 13, cell death appeared to be more intense and extensive in the NE; the mesenchyme (ME) was less proliferative and was loosely organized. In the following days, the NE presented vacuolizations which coalesced into cavities; these cavities were often bilaterally symmetrical, contained free neuroblasts and erythrocytes, and subsequently opened into the ventricles. The choroid plexus hypertrophied, the ventricles distended, and the NE gradually became very thin. The hypertrophied capillaries of the ME cleaved through the NE, thus delaminating an outer stratum. Subcutaneous blebs developed over the brain vesicles and communicated with the cavities in the brain. Thus the ventricles and the blebs came into direct communication. The ME dorsal and lateral to the brain was loose, and at no site was it organized into the skull primordium. By day 19, there were clear and multiple discontinuities in the walls of the brain. Initial cell death and vacuolization in the NE, inhibition of ME proliferation followed by hypertrophy of the choroid plexus, and possibly enhanced intraventricular pressure and hemorrhage and edema of the ME seem to underlie this process of reopening of the closed neural tube.(ABSTRACT TRUNCATED AT 250 WORDS)

Animals↗
PubMed1988

Functional and antigenic domains of the dengue-2 virus nonstructural glycoprotein NS-1.

The gene coding for the nonstructural glycoprotein of dengue-2 virus was cloned, sequenced, and expressed in Escherichia coli. There was about 70% conservation at the amino acid level with dengue serotypes 1 and 4 suggesting an important common function for this protein. Conserved hydrophobic domains were found both before the amino-terminus and at the carboxy-terminus, consistent with transmembrane roles. Evidence for at least partial translocation of NS-1 through the inner membrane of E. coli was found. Also conserved were two signals for N-linked glycosylation located near the middle of NS-1. Various regions of NS-1 were tested for antigenicity with mouse and rabbit polyclonal and mouse monoclonal antibodies. The mouse polyclonal antibodies, made against a crude dengue-infected mouse brain immunogen, reacted most strongly with N-terminal regions of NS-1, whereas, the rabbit antiserum, made against purified NS-1 protein, reacted strongest with C-terminal regions. These findings suggest that immunogen presentation or species differences could be important. Although most of the monoclonals appeared to be unreactive in Western blots with expressed NS-1 proteins, two appeared to react strongly; the region from amino acid (a.a.) 273 to a.a. 346 was required for antibody binding. This region, located adjacent to the two conserved C-terminal hydrophobic domains, is highly charged and contains 5 of the 10 conserved cysteine residues of NS-1.

Amino Acid Sequence↗
PubMed1988

Effects of acute doses of ethanol administered at pre-implantation stages on fetal development in the mouse.

The objective of the present study was to investigate the effects of maternal administration of acute doses of alcohol at preimplantation stages of pregnancy on the fetus and fetal membranes. Single doses of 0.02 ml and 0.03 ml/g body wt. of 25% v/v of absolute alcohol in saline were administered to groups of MF1 mice on one of days 1-6 of gestation. Controls were either pair-fed and pair-watered or saline-treated. Fetuses and placentae were collected on day 15. Resorption and fetal death were increased in most of the alcohol treatment groups. The reduction in fetal body weight was significant in the 0.03 ml group. Compared to the saline controls, most experimental groups exhibited a rise in placental weight. The reduction in cord length was significant in comparison to untreated controls. Craniofacial and systemic abnormalities appeared to correlate with retardation of fetal growth. Hence, following treatment of 0.03 ml/g body wt. of alcohol solution on days 2 and 6, fetuses were collected on days 14, 16 and 18. Most fetuses were found to recover gradually from anomalies associated with growth retardation but the 'catch up' growth was not adequate enough to compensate for the reduction in body weight. These observations indicate that the pre-implantation stage of mouse embryo development is susceptible to the deleterious effects (fetal death and intrauterine growth retardation) of acute doses of alcohol.

Animals↗
PubMed1987

Abnormalities of the ear associated with exencephaly in mouse fetuses induced by maternal exposure to cadmium.

Exencephaly was induced in mouse fetuses by maternal injection of cadmium chloride (CdCl2) on day 7 of gestation. The heads of exencephalic, nonexencephalic experimental, and control fetuses were embedded in paraffin and sections were stained with hematoxylin and eosin. Compared to those of controls, the ears of the exencephalic fetuses were smaller (microtia) and low set. The meatal plug representing the external auditory canal was thick, variously branched, and often directed inferiorly. Usually, there were just two ossicles. The stapedial artery, facial nerve, and stapedius muscle were hypoplastic; the tensor tympani was small or absent. There were 1.0 to 2.0 turns of the cochlea in contrast to 2.5 turns in the controls. The organ of Corti was underdifferentiated; the spiral ganglion had fewer cells. In the control, the long axes of the anterior and posterior semicircular ducts were at right angles to each other and in vertical planes, but in the exencephalics, they tended more laterally towards the horizontal plane. The differentiation of the cristae ampullares and maculae was also severely affected. In several specimens, the entire membranous labyrinth had been distended; these labyrinths also had unusual epithelial infoldings. In cadmium-treated nonexencephalic fetuses, the external ears were normal and appropriate to the body size; five of them were examined histologically; in all, the five middle ear contents were hypoplastic; in three, the cochlea had a maximum of two turns and the organ of Corti, crista ampullaris, and macula were hypoplastic. By an analogy to abnormalities of mutants with neural tube defects, it is suggested that the exencephaly induced by cadmium might affect the differentiation of the ear. Partial involvement of the ear in nonexencephalic experimental embryos may be the result of direct action of cadmium during critical stages of development.

Abnormalities, Drug-Induced↗
PubMed1987

Immunological analysis of 140-kDa adenovirus-encoded DNA polymerase in adenovirus type 2-infected HeLa cells using antibodies raised against the protein expressed in Escherichia coli.

The E2B region of adenovirus genome contains a long open reading frame (ORF) extending from 24 to 14.2 map units which encodes most of the 140-kDa DNA polymerase. It was cloned at the polylinker region of pUC18 vector with Escherichia coli JM109 as the host. A clone was serendipitously isolated that expressed in E. coli a protein of approximately 120 kDa in size at high levels. DNA sequence analysis of this clone showed the presence of an in-frame fusion of a region, encoding 13 amino acids located upstream, to the first ATG of the ORF. Polyclonal antibodies raised against this protein purified from E. coli were used for immunological analysis. The antibodies were able to detect a 140- and a 66-kDa polypeptide from the adenovirus type 2-infected HeLa cells on Western blots. In addition, the antibodies showed evidence of cross-reactivity with partially purified DNA polymerase alpha from uninfected HeLa cells. The subcellular localization of the viral polymerase in the infected HeLa cells by using indirect immunofluorescence showed that the viral protein is associated with globular structures in the nucleus. The replicating viral DNA and the polymerase were colocalized in these globular sites. Furthermore, HeLa cells infected with Ad5ts149, a temperature-sensitive mutant defective in DNA replication, showed the presence of these globular sites only at the permissive temperature, suggesting that these sites are probably involved in viral DNA replication.

Adenoviruses, Human↗
PubMed1987

Detection of dengue virus RNA using nucleic acid hybridization.

Conditions for using slot-blot nucleic acid hybridization to quantitatively detect dengue-2 virus using a radiolabelled cDNA probe, pVV17, were determined. As little as 11 plaque-forming units of virus were detected using a hybridization mixture without formamide and performing the test at 70 degrees C. While predominantly serotype-specific using stringent (65 degrees C) washing conditions, the probe detected all four dengue virus serotypes using astringent (28 degrees C) washing conditions. No significant qualitative differences were detected using Thai dengue-2 viruses isolated over a 10-year period. High titered, anti-flavivirus antibodies blocked virus detection by an antigen capture, enzyme-linked, immunosorbent assay or by intrathoracic inoculation of Toxorhyncites mosquitoes, but not by nucleic acid hybridization. The appearance of virus-specified RNA coincided with the detection of antigen in infected C6/36 (Aedes albopictus) cells by immunofluorescence, or in cell culture supernatants by the antigen capture method. The method has potential as a diagnostic tool for identifying dengue viruses in clinical and field specimens.

Animals↗
PubMed1987

Specific growth inhibitory sequences in genomic DNA from quiescent human embryo fibroblasts.

We used HeLa cells as recipients in a gene transfer assay to characterize DNA sequences that negatively regulate mammalian cell growth. In this assay, genomic DNA from quiescent human embryo fibroblasts was more inhibitory for HeLa replication than was DNA from either Escherichia coli or HeLa cells. Surprisingly, growth inhibitory activity depended on the growth state of the cells from which genomic DNA was prepared; it was strongest in DNA prepared from serum-deprived, quiescent embryo fibroblasts. This latter observation implies a role for DNA modification(s) in regulating the activity of the inhibitory sequences detected in our assay. The level of the observed growth inhibitory activity was sometimes high, suggesting that the relevant sequences may be abundantly represented in the mammalian genome. We speculate that these findings may provide new insights into the molecular mechanisms involved in cellular quiescence and in vitro senescence.

Cell Differentiation↗
PubMed1986

Primary rat embryo cells transformed by one or two oncogenes show different metastatic potentials.

Second-passage rat embryo cells were transfected with a neomycin resistance gene and the activated form of the c-Ha-ras I gene, or with these two genes plus the adenovirus type 2 E1a gene. Foci of morphologically transformed cells were observed in both cases; however, the frequency of transformation was at least ten times higher with two oncogenes than with the ras gene alone. All the transformed cell lines gave rise to rapidly growing tumors when injected subcutaneously into nude mice. All but one of the cell lines transformed by the ras oncogene alone formed metastatic nodules in the lungs of animals that had been injected subcutaneously with transformed cells. When transformed cells were injected intravenously, all the ras single-gene transformants gave rise to many metastatic lung nodules. In contrast, cell lines transformed with ras and E1a did not generate metastases after subcutaneous injection and gave rise to very few metastatic lung nodules after intravenous injection. These data demonstrate that a fully malignant cell with metastatic potential, as measured in an immunodeficient animal, can be obtained from early passage embryo cells by the transfection of the ras oncogene alone.

Animals↗
PubMed1986

The 5'-flanking sequences of human globin genes contribute to tissue specific expression.

The specificity of expression of the isolated 5'-flanking sequences of the human beta- and epsilon-globin genes was examined in the K562 human erythroleukemia cell line, the murine erythroleukemia (MEL) cell, and in nonerythroid cell lines CV-1, HeLa-S3, and WI-38. Globin flanking sequences were active only in the erythroid K562 and MEL cell lines. Furthermore, the upstream sequence of the adult, beta-globin gene was active in MEL cells which express adult globin and not in K562 cells which express embryonic and fetal globins suggesting that tissue specificity resides in these upstream sequences. No expression was observed in K562 cells which have an embryonic-fetal hemoglobin phenotype.

Acetyltransferases↗
PubMed1986

Generation of packaging-defective DNA molecules of equine adenovirus.

Equine adenovirus (EAd) DNA prepared from infected bovine kidney (MDBK) cells contained additional sequences of about 100 to 700 bp at the left-hand end of the genome. These aberrant viral genomes were produced even after the first passage of the wild type EAd in MDBK cells and their relative amounts did not change significantly during serial passage. The left terminal fragments of two defective viral DNAs were cloned into the plasmid vector pBR322 and the nucleotide sequences of their terminal regions were analyzed. The data indicate that one viral DNA contained a duplication of the inverted terminal repetition (ITR) and the other contained 270 bp of additional sequences derived from the right-terminal region of EAd genome added to the left-terminal, ITR. While the former DNA was packaged into virions, the latter was not, presumable due to the alteration of the distance from the left terminus to the putative DNA packaging signal, reported to be located between 290 and 390 bp (Hammarskjold and Winberg, 1980). The possible mechanism for the generation of these defective DNAs is discussed.

Adenoviridae↗
PubMed1986

Sequence analysis in the E1 region of adenovirus type 4 DNA.

Adenovirus type 4 (Ad4) is the sole member of adenovirus group E based on overall DNA sequence homology, restriction endonuclease cleavage patterns, and the size of capsid proteins. We cloned the BamHI-F fragment from the left end of Ad4 in pUC13-1 between the SalI and BamHI sites in order to carry out the structural analysis of the E1A region of Ad4. The complete sequence of the BamHI-F fragment (2042 bp) has been determined. From the DNA sequence, the splice sites for the putative 12 S and 13 S mRNAs, encoded by the E1A region of Ad4 were deduced. If protein synthesis initiates at the first available AUG triplet (position 575), these 12 S and 13 S mRNAs would code for polypeptides containing 226 and 257 amino acids, respectively. Comparison of Ad4- and Ad7-13 S mRNA-coded polypeptides indicates that there is 57% homology, whereas the homology is only 38% with Ad12 and 31% with Ad2-13 S mRNA-coded polypeptides. The structural analysis in the E1 region of Ad4 also includes the coding region for the E1B 19-kDa protein. Ad4 and Ad7 shows 65% homology in the coding regions for E1B 19-kDa protein. Comparison of the DNA sequence of Ad4 with those of Ad2, Ad7, and Ad12 by using a dot matrix computer program and by Southern hybridization revealed that Ad4 bears a stronger homology with Ad7 than with Ad2 and Ad12 in this region. Hydropathy plots and alignments of the putative polypeptides coded by this region in Ad4 with those from the corresponding regions of different serotypes to reveal the highly conserved domains also support the above conclusion.

Adenovirus Early Proteins↗
PubMed1986

Partial sequence analysis of cloned dengue virus type 2 genome.

Dengue virus (DEN) is a member of flaviviruses and contains a single, (+)-strand RNA of approx. 11 kb. Complementary DNA copy of the RNA was synthesized using reverse transcriptase and oligo(dT) as primer. The double-stranded DNA copy was cloned at the PstI site of pUC13'-1 vector and was used to transform Escherichia coli JM83. Eleven transfomants were found to contain DEN insert as screened by colony hybridization. Three clones were chosen for further characterization by nucleotide (nt), sequence analysis. Two of these clones overlapped by 470 bp. Sequences of these three clones totalling about 4.6 kb were obtained. Translation of this DNA in all possible reading frames revealed the presence of long open reading frames spanning the entire length of the cDNA clones. The putative polypeptides derived from the nt sequence are 885 and 643 amino acids in length and show homology to the region of polyprotein coded by the yellow fever virus genome corresponding to the non-structural proteins [Rice et al., Science 229 (1985) 726-733]. The significant homology between these two viruses in the regions coding for the non-structural proteins NS3 and NS5 suggests an important role for these two proteins in the life cycle of these viruses.

Amino Acid Sequence↗