Capsular profiling of the Cronobacter genus and the association of specific Cronobacter sakazakii and C. malonaticus capsule types with neonatal meningitis and necrotizing enterocolitis

Background: Cronobacter sakazakii and C. malonaticus can cause serious diseases especially in infants where they are associated with rare but fatal neonatal infections such as meningitis and necrotising enterocolitis. Methods: This study used 104 whole genome sequenced strains, covering all seven species in the genus, to analyse capsule associated clusters of genes involved in the biosynthesis of the O-antigen, colanic acid, bacterial cellulose, enterobacterial common antigen (ECA), and a previously uncharacterised K-antigen. Results: Phylogeny of the gnd and galF genes flanking the O-antigen region enabled the defining of 38 subgroups which are potential serotypes. Two variants of the colanic acid synthesis gene cluster (CA1 and CA2) were found which differed with the absence of galE in CA2. Cellulose (bcs genes) were present in all species, but were absent in C. sakazakii sequence type (ST) 13 and clonal complex (CC) 100 strains. The ECA locus was found in all strains. The K-antigen capsular polysaccharide Region 1 (kpsEDCS) and Region 3 (kpsMT) genes were found in all Cronobacter strains. The highly variable Region 2 genes were assigned to 2 homology groups (K1 and K2). C. sakazakii and C. malonaticus isolates with capsular type [K2:CA2:Cell+] were associated with neonatal meningitis and necrotizing enterocolitis. Other capsular types were less associated with clinical infections. Conclusion: This study proposes a new capsular typing scheme which identifies a possible important virulence trait associated with severe neonatal infections. The various capsular polysaccharide structures warrant further investigation as they could be relevant to macrophage survival, desiccation resistance, environmental survival, and biofilm formation in the hospital environment, including neonatal enteral feeding tubes

Production of the K16 capsular polysaccharide by Acinetobacter baumannii ST25 isolate D4 involves a novel glycosyltransferase encoded in the KL16 gene cluster

A new capsular polysaccharide (CPS) biosynthesis gene cluster, KL16, was found in the genome sequence of a clinical Acinetobacter baumannii ST25 isolate, D4. The variable part of KL16 contains a module of genes for synthesis of 5,7-diacetamido-3,5,7,9-tetradeoxy-l-glycero-l-manno-non-2-ulosonic acid (5,7-di-N-acetylpseudaminic acid, Pse5Ac7Ac), a gene encoding ItrA3 that initiates the CPS synthesis with d-GlcpNAc, and two glycosyltransferase (Gtr) genes. The K16 CPS was studied by sugar analysis and Smith degradation along with 1D and 2D H and C NMR spectroscopy, and shown to be built up of linear trisaccharide repeats containing d-galactose (d-Gal), N-acetyl-d-glucosamine (d-GlcNAc), and Pse5Ac7Ac. The d-Galp residue is linked to the d-GlcpNAc initiating sugar via a β-(1 → 3) linkage evidently formed by a Gtr5 variant, Gtr5, encoded in KL16. This reveals an altered or relaxed substrate specificity of this variant as the majority of Gtr5-type glycosyltransferases have previously been shown to form a β-d-Galp-(1 → 3)-d-GalpNAc linkage. The β-Psep5Ac7Ac-(2 → 4)-d-Galp linkage is predicted to be formed by the other glycosyltransferase, Gtr37, which does not match members of any known glycosyltransferase family

Genetic diversity of the Aporrectodea caliginosa complex in Russia

Earthworms of the Aporrectodea caliginosa species complex are abundant in many anthropogenic and natural habitats and often predominate in earthworm communities. In Russia, there are two subspecies of the complex, A. c. caliginosa and A. c. trapezoides; Aporrectodea longa was also recently mentioned as a putative member of the complex. In this study, we made an attempt to review available data on the species complex studied based on our collection from Russia, Belarus, and Kazakhstan. The subspecies A. c. caliginosa is represented in Russia by two genetic lineages, 2 and 3, the former being the prevalent (about 73 % of the total sample). Additionally, these lineages have different distributions: while lineage 2 was found in almost all locations studied, lineage 3 was detected only in a few samples from the periphery of the region studied. The genetic diversity of lineage 2 significantly exceeded that of lineage 3, and its estimated divergence time was almost three times as high. A subset of individuals with pigmentation characteristic of A. c. caliginosa contained cox1 haplotypes of A. c. trapezoides; analysis of nuclear gene sequences confirmed this diagnosis. Thus, pigmentation intensity in this subspecies was demonstrated to vary to a significant degree. In addition, we analyzed two A. longa individuals from West Siberia and the Urals; their cox1 sequences were identical to those from the lineage 1 of this species from the north of Western Europe. These are the first reports of A. c. trapezoides and A. longa from West Siberia. On the whole, both genetic diversity and abundance was shown to decrease in the following series: A. c. caliginosa lineage 2 – A. c. caliginosa lineage 3 – A. c. trapezoides and A. longa

Pectobacterium atrosepticum exopolysaccharides: Identification, molecular structure, formation under stress and in planta conditions

© The Author 2017. Published by Oxford University Press. All rights reserved. In the present study, we identified exopolysaccharides of the harmful phytopathogenic bacterium Pectobacterium atrosepticum SCRI1043 and characterized the molecular structure of these polymers. The synthesis of the target polysaccharides was shown to be induced under starvation conditions. Moreover, intensive accumulation of exopolysaccharides occurred during the colonization by bacteria of the xylem vessels of infected plants, where microorganisms formed specific 3D "multicellular" structures-bacterial emboli. Thus, the identified polymers are likely to be involved in the adaptation and virulence of bacteria of Pectobacterium genus

Vibro-Injection Pile Installation in Sand: Part I—Interpretation as Multi-material Flow

The installation of vibro-injection piles into saturated sand has a significant impact on the surrounding soil and neighboring buildings. It is generally characterized by a multi-material flow with large material deformations, non-stationary and new material interfaces, and by the interaction of the grain skeleton and the pore water. Part 1 in this series of papers is concerned with the mathematical and physical modeling of the multi-material flow associated with vibro-injection pile installation. This model is the backbone of a new multi-material arbitrary Lagrangian-Eulerian (MMALE) numerical method presented in Part 2.DFG, 76838227, Numerische Modellierung der Herstellung von Rüttelinjektionspfähle

Ozone observations and a model of marine boundary layer photochemistry during SAGA 3

A major purpose of the third joint Soviet‐American Gases and Aerosols (SAGA 3) oceanographic cruise was to examine remote tropical marine O3 and photochemical cycles in detail. On leg 1, which took place between Hilo, Hawaii, and Pago‐Pago, American Samoa, in February and March 1990, shipboard measurements were made of O3, CO, CH4, nonmethane hydrocarbons (NMHC), NO, dimethyl sulfide (DMS), H2S, H2O2, organic peroxides, and total column O3. Postcruise analysis was performed for alkyl nitrates and a second set of nonmethane hydrocarbons. A latitudinal gradient in O3 was observed on SAGA 3, with O3 north of the intertropical convergence zone (ITCZ) at 15–20 parts per billion by volume (ppbv) and less than 12 ppbv south of the ITCZ but never ≤3 ppbv as observed on some previous equatorial Pacific cruises (Piotrowicz et al., 1986; Johnson et al., 1990). Total column O3 (230–250 Dobson units (DU)) measured from the Akademik Korolev was within 8% of the corresponding total ozone mapping spectrometer (TOMS) satellite observations and confirmed the equatorial Pacific as a low O3 region. In terms of number of constituents measured, SAGA 3 may be the most photochemically complete at‐sea experiment to date. A one‐dimensional photochemical model gives a self‐consistent picture of O3‐NO‐CO‐hydrocarbon interactions taking place during SAGA 3. At typical equatorial conditions, mean O3 is 10 ppbv with a 10–15% diurnal variation and maximum near sunrise. Measurements of O3, CO, CH4, NMHC, and H2O constrain model‐calculated OH to 9 × 105 cm−3 for 10 ppbv O3 at the equator. For DMS (300–400 parts per trillion by volume (pptv)) this OH abundance requires a sea‐to‐air flux of 6–8 × 109 cm−2 s−1, which is within the uncertainty range of the flux deduced from SAGA 3 measurements of DMS in seawater (Bates et al., this issue). The concentrations of alkyl nitrates on SAGA 3 (5–15 pptv total alkyl nitrates) were up to 6 times higher than expected from currently accepted kinetics, suggesting a largely continental source for these species. However, maxima in isopropyl nitrate and bromoform near the equator (Atlas et al., this issue) as well as for nitric oxide (Torres and Thompson, this issue) may signify photochemical and biological sources of these species

Высокотеплопроводная карбидокремниевая керамика для крупногабаритной космической оптики

The paper describes the important aspects of the developed technology for manufacturing silicon-carbide substrates for optical mirrors intended for future use in space applications. It is shown that the material with the best combination of thermophysical and mechanical properties (Maksutov’s criterion) among the known analogs used for making astronomical mirrors is obtained. The characteristics of a mirror made of a lightweight mirror substrate with a diameter of 205 mm are described, compared with the parameters of most known mirrors made of silicon carbide for various space missions and as proto types. It is shown that the produced substrate is characterized by a rather low specific gravity – 16.5 kg/m2, which is comparable with the indicators of the best world analogues.Описаны важные аспекты разработанной технологии изготовления карбидокремниевых подложек для оптических зеркал, предназначенных для перспективного использования в космических приложениях. Показано, что получен материал с лучшим сочетанием теплофизических и механических свойств (критерий Максутова) среди известных аналогов, применяемых при создании астрономических зеркал. Описаны характеристики изготовленной из него облегченной подложки зеркала диаметром 205 мм, проведено сравнение с параметрами большинства известных зеркал, изготовленных из карбида кремния для различных космических миссий и в качестве опытных образцов. Показано, что изготовленная подложка характеризуется низкой удельной массой – 16,5 кг/м2, что сопоставимо с показателями лучших мировых аналогов

Global data on earthworm abundance, biomass, diversity and corresponding environmental properties

14 p.Earthworms are an important soil taxon as ecosystem engineers, providing a variety of crucial ecosystem functions and services. Little is known about their diversity and distribution at large spatial scales, despite the availability of considerable amounts of local-scale data. Earthworm diversity data, obtained from the primary literature or provided directly by authors, were collated with information on site locations, including coordinates, habitat cover, and soil properties. Datasets were required, at a minimum, to include abundance or biomass of earthworms at a site. Where possible, site-level species lists were included, as well as the abundance and biomass of individual species and ecological groups. This global dataset contains 10,840 sites, with 184 species, from 60 countries and all continents except Antarctica. The data were obtained from 182 published articles, published between 1973 and 2017, and 17 unpublished datasets. Amalgamating data into a single global database will assist researchers in investigating and answering a wide variety of pressing questions, for example, jointly assessing aboveground and belowground biodiversity distributions and drivers of biodiversity change

Global data on earthworm abundance, biomass, diversity and corresponding environmental properties

Earthworms are an important soil taxon as ecosystem engineers, providing a variety of crucial ecosystem functions and services. Little is known about their diversity and distribution at large spatial scales, despite the availability of considerable amounts of local-scale data. Earthworm diversity data, obtained from the primary literature or provided directly by authors, were collated with information on site locations, including coordinates, habitat cover, and soil properties. Datasets were required, at a minimum, to include abundance or biomass of earthworms at a site. Where possible, site-level species lists were included, as well as the abundance and biomass of individual species and ecological groups. This global dataset contains 10,840 sites, with 184 species, from 60 countries and all continents except Antarctica. The data were obtained from 182 published articles, published between 1973 and 2017, and 17 unpublished datasets. Amalgamating data into a single global database will assist researchers in investigating and answering a wide variety of pressing questions, for example, jointly assessing aboveground and belowground biodiversity distributions and drivers of biodiversity change