Characterization of 3''----5'' exonuclease associated with DNA polymerase of silkworm nuclear polyhedrosis virus.

3'----5' Exonuclease specific for single-stranded DNA copurified with DNA polymerase of nuclear polyhedrosis virus of silkworm Bombyx mori (BmNPV Pol). BmNPV Pol has no detectable 5'----3' exonuclease activity on single-stranded or duplex DNA. Analysis of the products of 3'----5' exonucleolytic reaction showed that deoxynucleoside monophosphates were released during the hydrolysis of single-stranded DNA. The exonuclease activity cosedimented with the polymerase activity during ultracentrifugation of BmNPV Pol in glycerol gradient. The polymerase and the exonuclease activities of BmNPV Pol were inactivated by heat with nearly identical kinetics. The mode of the hydrolysis of single-stranded DNA by BmNPV Pol-associated exonuclease was strictly distributive. The enzyme dissociated from single-stranded DNA after the release of a single dNMP and then reassociated with a next polynucleotide being degradated.     

Antiviral and Antimicrobial Nucleoside Derivatives: Structural Features and Mechanisms of Action

Molecular Biology - The emergence of new viruses and resistant strains of pathogenic microorganisms has become a powerful stimulus in the search for new drugs. Nucleosides are a promising class of...     

Effects of 3′-C-Methylation on the Hydrolytic Stability and Hydroxyl pK a Values of Dinucleoside 2′,5′- and 3′,5′-Monophosphates

Abstract

The first-order rate constants for hydrolysis of 3′-C-methyluridylyl(2′,5′)- and -(3′,5′)adenosine and the corresponding native dinucleoside monophosphates (2′,5′- and 3′,5′-UpA) have been determined as a function of hydroxide-ion concentration (0.025 - 7 M) at 25°C. In addition to the effects on the hydrolytic stability of the compounds, the effects of the 3′-C-methyl substitution on the kinetically determined pK _a values for the sugar hydroxyls of the undine moiety are discussed.     

Synthesis of O-β-D-Ribofuranosyl-(1″-2′)-adenosine-5″-O-phosphate

Abstract

The first synthesis of O-β-D-ribofuranosyl-(1″-2′)-adenosine-5″-O-phosphate starting from protected 2′-O-β-D-ribofuranosyladenosine has been performed.     

Ribosylation of Pyrimidine 2′-Deoxynucleosides

Abstract

The previously developed method for the preparation of 2′-O-D-ribofuranosyl-nucleosides is extended to ribosylation of 2′-deoxynucleosides. The scope and limitations of this reaction are discussed.     

Structure of Neuroglobin from Cold-Water Sponge Halisarca dujardinii

Molecular Biology - The iron-containing protein neuroglobin (Ngb) involved in the transport of oxygen is generally considered the precursor of all animal globins. In this report, we studied the...     

An embryonic enantiornithine bird and associated eggs from the cretaceous of Mongolia

Enantiornithes is the most speciose clade of Cretaceous birds, but many taxa are known from isolated postcranial skeletons. Two embryonic enantiornithine bird skeletons of Gobipipus reshetovi gen. et sp. nov. from the Upper Cretaceous (Campanian) Barun Goyot Formation of the Gobi Desert in Mongolia provide new insights into the anatomy, radiation, and mode of development of early avialans. In recent times, both enantiornithine and ornithuromorph birds are known from the Barun Goyot Formation as well as from the Djadokhta and Nemegt Formations. The 80-million-year-old Gobipipus skeletons encased within eggshells shows several features characteristic of enantiornithine birds. The wing skeleton and shoulder girdle show morphological features indicating that Gobipipus achieved sophisticated powered flight. Gobipipus reshetovi gen. et sp. nov. is quite distinct from the sympatric enantiornithine species Gobipteryx minuta from the same strata in many anatomical features. Phylogenetic analysis of 26 avialan ingroup taxa based on distribution of 202 characters indicate that Gobipipus is a basal member of enantiornithine birds along with Confuciusornis and shares more characters with ornithuromorphs than previously recognized. The embryonic nature of Gobipipus specimens sheds new light on the developmental history of enantiornithine birds. The well-ossified bones of the fore- and hind limbs, and fusion of many skeletal elements indicate a precocial mode of development in Gobipipus. Apparently Gobipipus hatchlings could walk away from the ground nests as soon as they emerged from their eggs. The asymmetry of egg poles are unique features of Gobipipus eggs (oogenus Gobioolithus) among Cretaceous avialans. The microstructure of the shell in Gobioolithus eggs with the embryos of Gobipipus is typical avian (of ornithoid basic type) and less ratite-like in morphology of the spongy layer than is that in the other possible egg-remains of enantiornitine birds (oofamily Laevisoolithidae).     

Antimicrobial potential of deep surface sediment associated bacteria from the Sea of Japan

The aim of this study was to survey microorganisms from the deep surface sediment samples collected from the Sea of Japan and to screen them for antimicrobial and antagonistic effects. Phylogenetic analysis revealed most isolates sharing 98–100 % sequence similarity to recognized species, including those recovered previously from marine or saline environments. Alteromonas, Halomonas, Marinobacter, Pseudoalteromonas, Salinicola, within the class Gammaproteobacteria, Sulfitobacter (Alphaproteobacteria), Bacillus, Paenibacillus and Paenisporosarcina (Firmicutes), Nocardiopsis and Streptomyces (Actinobacteria) occurred abundantly in all sediment samples. Antimicrobial screening revealed twenty three strains (13 %) capable to inhibit growth of one to eight test cultures and deep sediment isolates. Based on phylogenetic analysis mostly active strains belonged to the genera Bacillus, Brevibacillus, Nocardiopsis, Paenibacillus and Streptomyces. Antimicrobial substances (1–3) were isolated from strain Paenibacillus sp. Sl 79w showing a high inhibitory activity. On the basis of combined spectral analyses (IR, UV, ¹H and ¹³C NMR) the compounds 1, 2 and 3 with [M + H]⁺ at 409.1 and 409.2 m/z, and with [M + Na]⁺ at 822.5 m/z were found to have a carbon skeleton of isocoumarin and peptide antibiotics, respectively. Our findings demonstrated that the deep surface sediments of the Sea of Japan represent an untapped source of diverse microorganisms capable of antimicrobial metabolite production.     

Role of proteasomes in non-specific immune response of marine annelids

We investigated functioning of proteasomes and chaperones in Arenicola marina coelomocytes in conditions of lipopolysaccharide-induced inflammation. We observed the increase of chymotrypsin-like proteasome activity in coelomocytes 1 h after induction. Amount of proteasome subunits alpha- and beta-5 types increased as well. We also detected appearance of a new form of Hsp70 chaperone in infected coelomocytes. Our results allow us to consider the changes in proteasome structure and induction of chaperones as principle mechanisms in stress adaptation and defensive reactions development in annelids.     

Photosynthetic carbon metabolism in potato leaves under changes in light intensity

Photosynthetic assimilation of ¹⁴CO₂ was examined in leaves of potato (Solanum tuberosum L.) plants that were grown under direct sunlight and then transferred to 50% irradiance for various periods. The rate of ¹⁴CO₂ assimilation correlated with light intensity: the photosynthetic rate reduced by 52% after 5-day shading and by 70% after 30-min shading. In all shaded and shade-adapted plants, the sucrose/hexose ratio decreased by a factor of 3.5–4.1; furthermore, the radioactivity of glycolate cycle metabolites and the serine/glycine ratio were lowered. In plants shaded for 5 days or 30 min, the radioactivity of aspartate and malate was higher than at continuous high irradiance, especially in plants shaded for 30 min, whereas a sudden illumination of the shaded plants reduced the radioactivity of these substances. We suppose that low irradiance averted the reentry of glycolate path carbon into the Calvin cycle and redirected this carbon source for the production of four-carbon acids that acidified the apoplast. This acidification activated the apoplastic invertase, which enhanced sucrose hydrolysis and hindered the sucrose export from the leaf. Hydrolysis of sucrose promoted the increase in osmolarity of the apoplastic solution, this increase being stronger at close distances to the stomatal pores where water is intensely evaporated. The increase in osmolarity of extracellular medium led to closing of stomata and the suppression of photosynthesis.