Trends of the major porin gene (ompF) evolution

OmpF is one of the major general porins of Enterobacteriaceae that belongs to the first line of bacterial defense and interactions with the biotic as well as abiotic environments. Porins are surface exposed and their structures strongly reflect the history of multiple interactions with the environmental challenges. Unfortunately, little is known on diversity of porin genes of Enterobacteriaceae and the genus Yersinia especially. We analyzed the sequences of the ompF gene from 73 Yersinia strains covering 14 known species. The phylogenetic analysis placed most of the Yersinia strains in the same line assigned by 16S rDNA-gyrB tree. Very high congruence in the tree topologies was observed for Y. enterocolitica, Y. kristensenii, Y. ruckeri, indicating that intragenic recombination in these species had no effect on the ompF gene. A significant level of intra- and interspecies recombination was found for Y. aleksiciae, Y. intermedia and Y. mollaretii. Our analysis shows that the ompF gene of Yersinia has evolved with nonrandom mutational rate under purifying selection. However, several surface loops in the OmpF porin contain positively selected sites, which very likely reflect adaptive diversification Yersinia to their ecological niches. To our knowledge, this is a first investigation of diversity of the porin gene covering the whole genus of the family Enterobacteriaceae. This study demonstrates that recombination and positive selection both contribute to evolution of ompF, but the relative contribution of these evolutionary forces are different among Yersinia species

TRANSPORT AND ECONOMIC BALANCE AND ITS ROLE IN THE COORDINATION OF TRANSPORT PLANNING DURING THE DIGITALIZATION ERA

Econometrics tools in framework of Transport and Economic Balance (TEB) for transport planning and forecasting are aimed at improving transport links and transport connectivity via accounting the ratio between the volume of production and consumption of goods and the demand for transport services for their import and export. The TEB’s econometrics model includes the basic balance equations that define its structure and formation rules. The transport and economic balance of the Russian Federation aggregate the actual and forecast freight flows and their correspondence between the regions of the country (OD-matrix) by rail, road, inland water and maritime transport by type of commodities. The balance of actual freight traffic built for 2007-2016 based on statistics for industrial production, domestic and external trade, construction, agriculture and energy, as well as statistics for rail, maritime, inland water and road transport. The forecast of the cargo base and freight traffic is built for the period up to 2030 using the scenarios and forecast estimations by the Ministry of Economic Development of Russia, as well as the indices of regional economic development, considering the technological and transport connectivity of main cargo generating industries. The TEB will make it possible to calculate and substantiate the predicted impacts on the infrastructure considering various options for its reconstruction and development, changing routes, optimally distribute the forecasted flows over the network, considering the predicted characteristics of throughput, speeds and predictability of delivery time, workload of transport network and elimination of bottlenecks

Brominated Porous Nitrogen-Doped Carbon Materials for Sodium-Ion Storage

Chemical modification improves the performance of the carbon anode in sodium-ion batteries (SIBs). In this work, porous nitrogen-doped carbon (PNC) was obtained by removing template nanoparticles from the thermal decomposition products of calcium glutarate and acetonitrile vapor. The treatment of PNC with a KOH melt led to the etching of the carbon shells at the nitrogen sites, which caused the replacement of some nitrogen species by hydroxyl groups and the opening of pores. The attached hydroxyl groups interacted with Br2 molecules, resulting in a higher bromine content in the brominated pre-activated sample (5 at%) than in the brominated PNC (3 at%). Tests of the obtained materials in SIBs showed that KOH activation has little effect on the specific capacity of PNC, while bromination significantly improves the performance. The largest gain was achieved for brominated KOH-activated PNC, which was able to deliver 234 and 151 mAh g−1 at 0.05 and 1 A g−1, respectively, and demonstrated stable long-term operation at 0.25 and 0.5 A g−1. The improvement was related to the separation of graphitic layers due to Br2 intercalation and polarization of the carbon surface by covalently attached functional groups. Our results suggest a new two-stage modification strategy to improve the storage and high-rate capability of carbon materials in SIBs

Wavefront sets and polarizations on supermanifolds

In this paper we develop the foundations for microlocal analysis on supermanifolds. Making use of pseudodifferential operators on supermanifolds as introduced by Rempel and Schmitt, we define a suitable notion of super wavefront set for superdistributions which generalizes Dencker's polarization sets for vector-valued distributions to supergeometry. In particular, our super wavefront sets detect polarization information of the singularities of superdistributions. We prove a refined pullback theorem for superdistributions along supermanifold morphisms, which as a special case establishes criteria when two superdistributions may be multiplied. As an application of our framework, we study the singularities of distributional solutions of a supersymmetric field theory

Trends of the Major Porin Gene (ompF) Evolution: Insight from the Genus Yersinia

OmpF is one of the major general porins of Enterobacteriaceae that belongs to the first line of bacterial defense and interactions with the biotic as well as abiotic environments. Porins are surface exposed and their structures strongly reflect the history of multiple interactions with the environmental challenges. Unfortunately, little is known on diversity of porin genes of Enterobacteriaceae and the genus Yersinia especially. We analyzed the sequences of the ompF gene from 73 Yersinia strains covering 14 known species. The phylogenetic analysis placed most of the Yersinia strains in the same line assigned by 16S rDNA-gyrB tree. Very high congruence in the tree topologies was observed for Y. enterocolitica, Y. kristensenii, Y. ruckeri, indicating that intragenic recombination in these species had no effect on the ompF gene. A significant level of intra- and interspecies recombination was found for Y. aleksiciae, Y. intermedia and Y. mollaretii. Our analysis shows that the ompF gene of Yersinia has evolved with nonrandom mutational rate under purifying selection. However, several surface loops in the OmpF porin contain positively selected sites, which very likely reflect adaptive diversification Yersinia to their ecological niches. To our knowledge, this is a first investigation of diversity of the porin gene covering the whole genus of the family Enterobacteriaceae. This study demonstrates that recombination and positive selection both contribute to evolution of ompF, but the relative contribution of these evolutionary forces are different among Yersinia species

Phenological shifts of abiotic events, producers and consumers across a continent

Ongoing climate change can shift organism phenology in ways that vary depending on species, habitats and climate factors studied. To probe for large-scale patterns in associated phenological change, we use 70,709 observations from six decades of systematic monitoring across the former Union of Soviet Socialist Republics. Among 110 phenological events related to plants, birds, insects, amphibians and fungi, we find a mosaic of change, defying simple predictions of earlier springs, later autumns and stronger changes at higher latitudes and elevations. Site mean temperature emerged as a strong predictor of local phenology, but the magnitude and direction of change varied with trophic level and the relative timing of an event. Beyond temperature-associated variation, we uncover high variation among both sites and years, with some sites being characterized by disproportionately long seasons and others by short ones. Our findings emphasize concerns regarding ecosystem integrity and highlight the difficulty of predicting climate change outcomes. The authors use systematic monitoring across the former USSR to investigate phenological changes across taxa. The long-term mean temperature of a site emerged as a strong predictor of phenological change, with further imprints of trophic level, event timing, site, year and biotic interactions.Peer reviewe

Chronicles of nature calendar, a long-term and large-scale multitaxon database on phenology

We present an extensive, large-scale, long-term and multitaxon database on phenological and climatic variation, involving 506,186 observation dates acquired in 471 localities in Russian Federation, Ukraine, Uzbekistan, Belarus and Kyrgyzstan. The data cover the period 1890-2018, with 96% of the data being from 1960 onwards. The database is rich in plants, birds and climatic events, but also includes insects, amphibians, reptiles and fungi. The database includes multiple events per species, such as the onset days of leaf unfolding and leaf fall for plants, and the days for first spring and last autumn occurrences for birds. The data were acquired using standardized methods by permanent staff of national parks and nature reserves (87% of the data) and members of a phenological observation network (13% of the data). The database is valuable for exploring how species respond in their phenology to climate change. Large-scale analyses of spatial variation in phenological response can help to better predict the consequences of species and community responses to climate change.Peer reviewe