Microwave-mediated enzymatic modifications of DNA.

Here we report microwave-induced specific cleavage, ligation, dephosphorylation, and phosphorylation of nucleic acids catalyzed by restriction endonucleases, T4 DNA ligase, T4 polynucleotide kinase, and calf intestinal alkaline phosphatase. The microwave-mediated method has dramatically reduced the reaction time to 20 to 50s. In control experiments, the same reactions failed to give the desired reaction products when carried out in the same time periods but without microwave irradiation. Because the microwave method is rapid, it could be a useful alternative to the time-consuming conventional procedure for enzymatic modification of DNA.

Characterization of a eukaryotic type serine/threonine kinase in Spodoptera litura nucleopolyhedrovirus-I (SpltNPV-I).

An open reading frame (ORF) of 819nt coding for a predicted protein of 272 amino acids was identified in the genome of Spodoptera litura nucleopolyhedrovirus (SpltNPV-I). Sequence derived amino acid sequence analysis of this ORF suggested it to be a eukaryotic type protein kinase having conserved I-XI subdomains of Hanks kinase. In addition to kinase catalytic domains, this hypothetical protein had two bromodomains which could play regulatory roles in transcription. The ORF was expressed as approximately 31 kDa apoprotein in E. coli and approximately 33 kDa glycoprotein in Sf9 cells, and was called SpltNPV-I pk1 or pk1. The protein was localized in the nuclei of infected cells of the SpltNPV-I permissive cell line, NIV-HA-197. The recombinant protein had autophosphorylation and substrate phosphorylation activities in presence of Mn(2+) or Mg(2+), and these activities were inhibited by staurosporine. Mutation of Lys-50 to Met but not Lys-44 to Gln abolished pk1 kinase activity. Kinetics of pk1 showed that the rate of phosphorylation of SpltNPV-I pk1>MBP>histone H1, and both MBP and histone H1 had the K(m)s of 3muM. Analysis of phosphorylated protein showed the phosphorylation of serine and threonine residues, but not tyrosine. All these results suggested that identified SpltNPV-I ORF codes for a serine/threonine kinase.

Tumor necrosis factor-alpha microsatellite polymorphism association with rheumatoid arthritis in Indian patients.

BACKGROUND: Level of TNF-alpha increases significantly in synovial fluid of rheumatoid arthritis (RA) patients. It is proposed that tumor necrosis factor (TNF) microsatellite alleles may influence its expression and presumably can contribute to the disease severity. However, there is a lack of such study to predict any such association with RA in an Indian population. METHODS: In this study, we investigated the differential pattern of distribution of TNF microsatellite alleles in an Indian population and its association with RA. One hundred eighteen RA patients and 120 healthy individuals were genotyped for TNF microsatellite alleles using Genescan. Odds ratio was calculated to demonstrate the correlation between allelic distribution and clinical severity. RESULTS: The study shows that distribution of TNF microsatellite alleles in an Indian population is very different from other Asian Oriental and Western populations, except for some similarities with an Italian population. Frequency of microsatellite TNFd3 allele (9.24 vs. 3.85%, chi(2)=5.6, p < or =0.0179, OR=0.393, 95% CI=0.177-0.87) and more interestingly TNFd3 containing haplotypes has been found significantly reduced in patients. On the contrary, TNFb5 allele frequency increased in the patients (22.3 vs. 30.8%, chi(2)=4.4, p < or =0.036, OR=1.55, 95% CI=1.027-2.344) as compared to controls. Furthermore, significant increase in frequency of this allele in severe patients (22.3 vs. 33.8%, chi(2)=6.22, p < or =0.013, OR=1.78, 95% CI=1.132-2.798) along with the significant increase in haplotypes containing this allele supports the association of TNFb5 with disease severity. CONCLUSIONS: In an Indian population, TNFb5 may be considered as a risk factor, whereas TNFd3, unlike others, may be protective for RA.

Anti-MBL autoantibodies in patients with rheumatoid arthritis: prevalence and clinical significance.

Occurrence of autoantibodies in patients' sera is the characteristic feature of autoimmune disorders. We assessed the presence of anti-mannose binding lectin (MBL) autoantibodies in the sera of 107 rheumatoid arthritis (RA) patients and 121 control subjects by enzyme immunoassay. Elevated levels of anti-MBL autoantibodies in the sera of RA patients (P<0.0001) was detected for the first time. The ratios of anti-MBL positive in RA patients and controls were respectively 60.7% and 1.65%. Experiments were then designed to understand the functional relevance of these autoantibodies. An inverse correlation of anti-MBL autoantibodies with serum MBL levels (P=0.001) and MBL complex activity (P=0.02) was observed without genetic association between MBL polymorphisms and anti-MBL autoantibody secretion. A significant increase (P=0.038) in the level of anti-MBL autoantibodies was observed in 23 synovial fluid samples in comparison to the serum samples. Moreover, the anti-MBL autoantibodies were found to be more often present in the sera of RA patients (60.75% sensitivity, 98.35% specificity and 0.913 area under the ROC curve) in comparison to the IgM and IgG isotypes of rheumatoid factors (RF). Anti-MBL autoantibodies were still positive in 25.23% RA patients when both the RF isotypes were negative. Also, in RA patients, at all stages of disease activity and joint deformity, anti-MBL autoantibodies were more often present than both the RF isotypes. Therefore, the significant presence of anti-MBL autoantibodies enunciates that anti-MBL autoantibodies might have a diagnostic value; however, more studies are needed to confirm the role of anti-MBL autoantibodies in the diagnosis of rheumatoid arthritis.

Nucleotide sequence and molecular characterization of the structural glycoprotein gp41 gene homologue of Spodoptera litura nucleopolyhedrosis virus (spltNPV-I).

The structural glycoprotein gene gp41 homologue of Spodoptera litura nucleopolyhedrosis virus (SpltNPV-I *) was identified in the 4.0 kb EcoRI-L fragment of the viral genome. The nucleotide sequence of 2063 bp of this fragment revealed an open reading frame of 1014 nucleotides to encode a polypeptide of 337 amino acids. Analysis of nucleotide and deduced amino acid sequences of the putative ORF indicated its identity with gp41 protein of other baculoviruses sharing maximum homology with that of Spodoptera frugiperda nucleopolyhedrosis virus (SfNPV). The coding sequence was preceded by an AT-rich region containing the consensus baculoviral late promoter motif RTAAG. The putative SpltNPV gp41 ORF was abundantly expressed as a 37 kDa apoprotein in E. coli and as a 50 kDa glycoprotein in Sf9 cells. The recombinant protein expressed in insect cells was glycosylated (20%) and has GlcNAc as the terminal sugar. The gene is conserved among baculoviruses and places SpltNPV-I close to Spodoptera frugiperda and Spodoptera exigua NPVs in phylogenetic tree.

Identification and expression of a conserved ubiquitin gene homologue of Spodoptera litura nucleopolyhedrovirus (spltNPV-I).

An ORF having a potential to code for a polypeptide of 79 amino acids has been identified within 993 nt sequence of 2 kb EcoRI-W fragment of Spodoptera litura nucleopolyhedrovirus (SpltNPV-I). Nucleotide and deduced amino acid sequence analyses showed its identity with the ubiquitin homologue of eukaryotes (79-80%), Melanoplus sanguinipes entomopoxvirus (76%) and other baculoviruses (72-89%). The ORF is under baculovirus late promoter motif RTAAG but unlike other baculoviruses, three such motifs at -6, -10 and -27 position are present in SpltNPV. The ORF expresses as a 10 kDa proteinin E. coli and the purified recombinant protein showed crossreactivity with the rabbit anti-ubiquitin antibodies.