Mapping the amino acid properties of constituent nucleoporins onto the yeast nuclear pore complex

Visualization of molecular structures aids in the understanding of structural and functional roles of biological macromolecules. Macromolecular transport between the cell nucleus and cytoplasm is facilitated by the nuclear pore complex (NPC). The ring structure of the NPC is large and contains several distinct proteins (nucleoporins) which function as a selective gate for the passage of certain molecules into and out of the nucleus. In this note we demonstrate the utility of a python code that allows direct mapping of the physiochemical properties of the constituent nucleoporins on the scaffold of the yeast NPC׳s cytoplasmic view. We expect this tool to be useful for researchers to visualize the NPC based on their physiochemical properties and how it alters when specific mutations are introduced in one or more of the nucleoporins. The code developed using Python is available freely from the authors.     

Detection of new two-membrane structures in native mitochondria by the method of small-angle scattering of neutrons

The structure of mitochondrial cristas has been studied for the first time by the method of small-angle scattering of thermal neutrons. Experiments were performed on intact functioning rat liver mitochondria. Mitochondrial cristas are usually considered as folds of the internal membrane with arbitrary nonfixed intermembrane distances. It was shown that, under particular conditions, during low-amplitude swelling of mitochondria, cristas are transformed to bimembrane structures, with the distance between the central planes of membranes of 190 E. It was found that the formation of bimembrane structures and their structural parameters do not depend on the method of induction of swelling, by placing the mitochondria into a hypotonic medium or by the opening of nonspecific pores.     

Pigmented basidiomycete yeasts are a promising source of carotenoids and ubiquinone Q10

Strains of basidiomycete yeasts isolated from different sources were studied in order to determine the content of carotenoid pigments and ubiquinone Q10 for subsequent selection work to obtain producers of these substances. High specific productivity of carotenoids (600-700 mg/g) was revealed in the representatives of the following species: Cystofilobasidium capitatum. Rhodosporidium diobovatum, R. sphaerocarpum. Rhodotorula glutinis, Rh. minuta, and Sporobolomyces roseus. The ratio of the major pigments (torulene, torularhodine, and beta-carotene) in the representatives of different species was studied. Certain specific features of pigment formation in relation to the taxonomic position of the yeasts were determined. Eurybiont species with substantial ecological lability are the most active producers of carotenoids and ubiquinone Q10 among the epiphytes. It is the first time a comparative analysis of the coenzyme Q10 content in different taxa has been performed using several strains of the same species. The maximal coenzyme Q10 production (1.84 mg/g of dry biomass) was found in the yeast species R. sphaerocarpum.     

Influence of Lumbricus terrestris earthworms on the structure of the yeast community of forest litter

The taxonomic structure of yeast communities was studied in forest litter and soil, as well as in substrates transformed by the activity of Lumbricus terrestris earthworms (tree waste from the hole mouths, the gut contents, and coproliths). The activity of L. terrestris has a weak effect on the total yeast abundance but results in substantial changes in their taxonomic composition. The share of ascomycetous yeasts is significantly higher in the substrates associated with the activity of earthworms. The teleomorphic ascomycetes Williopsis saturnus were isolated from the gut contents. The effect of earthworms on the composition of the yeast community in the process of forest litter destruction is more markedly pronounced than seasonal changes.     

Geographical races of certain species of ascomycetous yeasts in the Moscow and Novosibirsk regions

Strains of three species of the ascomycetous yeasts Hanseniaspora guilliermondii, Torulaspora delbrueckii, and Debaryomyces hansenii, isolated from the above-ground parts of plants in similar biocenoses of distant geographic regions (Moscow and Novosibirsk regions), have been investigated. The strains in each species were indistinguishable with respect to phenotypic features and general DNA characteristics as determined by restriction analysis. However, comparison of the strains using PCR analysis with nonspecific primers revealed considerable intraspecific variability. From their electrophoretic patterns, the strains of the three species studied were found to cluster in accordance with the region of isolation. This phenomenon is interpreted as an example of the existence of geographical races in the major eurytopic species of yeasts.     

The treatment of isolated genera

Problems presented by genera, or small groups of genera, which have been given family rank are reviewed, and the genera are divided into a number of categories according to the closeness of their affinity to other genera or families. Satellite genera that stand in close relation to families should be united with them. Binary families, that have been divided into two (or more) related families, should be re–united. Families connected by linking genera, should, logically, be united but practical considerations usually prevent this. Clusters of diverse but more or less distantly related genera present unusual problems, being treated either as several, often monogeneric families or as a loosely structured family. Truly isolated genera must be given family and often ordinal rank.     

Thrombolytic activity of terrilytin and its effect on the coagulating system of the blood]

The preliminary incubation of fibrinogen with terrilytin in vitro delayed the formation of the clot and accelerated the subsequent lysis. Terrylitin (in vitro) prolonged the recalcification time, lowered the thromboplastic activity and that of fibrinase, and also enhanced the fibrinolytic activity of the blood plasma. In experiments on dogs roentgenovasography revealed a considerable thrombolytic activity of terrilytin following its intravenous infusion to the animals with experimental thrombosis of the femoral veins.     

Characteristics of cyclic nucleotide phosphodiesterase and calmodulin in the small intestinal mucosa of rabbits

Some aspects of the functioning of phosphodiesterase of cyclic nucleotides and calmoduline of the small intestinal mucosa were examined. It was shown that Ca2+ ions virtually have no effect on phosphodiesterase activity of the mucosal homogenate. Cytosol chromatography on a DEAE-cellulose column makes it possible to find an activating effect of calmoduline on phosphodiesterase. Minor quantities of this form of the enzyme might activate the total rate of cAMP hydrolysis with Ca2+ ions for not more than 10%. The author describes calmoduline from the intestinal mucosa as a low-molecular, thermostable protein of acid nature, whose effect can be detected only in the presence of Ca2+ ions.     

Effect of hypoxia on the concentration of nicotinamide coenzymes in the tissues of newborn rats]

The content of nicotinamide coenzymes (NAD, NAD-H, NADP, NADP-H) was studied in the brain, heart and liver tissue of the newborn rats kept in hypoxic gaseous medium with a 4% oxygen content for 2 1/2 hours. There was a marked reduction of NAD content, an accumulation of NAD-H and a more than two-fold fall of the NAD/NAD-H ratio particularly marked in the brain and heart. A reduction of the NADP-H values chiefly in the liver and of the general pool of NAD-phosphates in the tissues of the newborn rats under study occurred under the same conditions. The data obtained led to the conclusion that oxygen deficiency had a significant influence on the concentration and the ratio of the nicotinamide coenzymes in the tissues of newborn rats, that in its turn led to the changes in the level and the direction of the redox processes under the conditions of hypoxia.