Development of polyresistance in microorganisms during antibiotic therapy in a multidisciplinary hospital during a pandemic COVID-19

Background. Irrational and excessive use of antimicrobials drugs (AMD) creates conditions for the development of a global crisis of health systems around the world associated with antibiotic resistance. Aim. To conduct a retrospective study of the impact of the use of AMD on the change in the microbiological landscape and the sensitivity of microorganisms in the conditions of pandemic of the new coronavirus infection (COVID-19) in 2020–2021 in intensive care departments (ICD) of a multidisciplinary hospital. Materials and methods. In the course of the work, strains of microorganisms isolated from patients and from the surfaces of the hospital environment and changes in their sensitivity to significant groups of AMD in ICD for somatic and infectious patients with COVID-19 were compared. The sensitivity of the isolates was evaluated in accordance with the criteria of requirements of European Committee on Antimicrobial Susceptibility Testing – EUCAST, version 10.0, 2020. Results. A total of 1,394 isolates were studied, including 1,379 clinical and 15 isolates from the surfaces of the hospital environment. It was found that in all ICD in 2020–2021, gram-negative microorganisms prevailed in infectious loci in 70% of cases or more. In 2021, in the ICD in infectious patients with COVID-19, the persistent dominance of the Acinetobacter baumannii microorganism was revealed with an increase in the number of poly- and pan-resistant strains – 48.7%. While in the ICD for somatic patients Klebsiella Pneumoniae prevailed among gram-negative microorganisms – 37.5% in 2020 and 43.7% in 2021. It has been shown that in one department or in adjacent departments of the same medical institution, various nosocomial microorganisms with an unequal set of resistance genes and sensitivity to AMD may appear over time. Conclusion. The necessity of conducting constant microbiological monitoring and a passport of the medical department with mandatory registration of not only isolated strains of microorganisms, but also resistance genes in order to optimize the appointment of timely adequate empirical antimicrobial therapy is substantiated. The period of the latter should be as short as possible, and confirmed by convincing clinical signs of bacterial infection, and subsequently by the isolation of nosocomial flora from the biomaterial of critical loci from patients

Molecular epidemiological study of clinical cases of acute hepatitis E in Belarus

Relevance. The frequency of occurrence of anamnestic antibodies to the hepatitis E virus (HEV) in the general population of the Republic of Belarus is 7.3%, which is clearly not consistent with the low incidence of hepatitis E (HE). Most of primary HEV infections remain undiagnosed. The intensive epidemic process of HEV in the Belarusian population is hidden. Conducting epidemiological studies, including genotyping of HEV sequences isolated on the territory of the republic, makes it possible to more accurately characterize the sources of HEV infection and the mechanisms of its transmission. Aim molecular epidemiological study of two cases of acute hepatitis E detected in patients from Belarus. Materials and methods. During 20212022, samples of biological material were obtained from two patients undergoing treatment with an established diagnosis of acute hepatitis E. Serum samples were tested to detect antibodies to HEV using enzyme immunoassay, HEV RNA was detected in fecal samples using nested RT-PCR. The nucleotide sequence was determined by an automatic sequencer using the Sanger method. Analysis of nucleotide sequences, their genotyping, and calculation of evolutionary distances were performed using MEGA X software. Results. The HEV sequence isolated from a pregnant woman who had an epidemiological episode of alimentary contact with raw pork meat is clustered into a common phylogenetic clade with HEV sequence obtained from the patient from Belarus with a history of kidney transplantation and HEV sequences isolated from a domestic pigs. The HEV sequence isolated from a patient with a history of travel to Pakistan belongs to the HEV genotype 1 and joins a clade of HEV sequences isolated in Pakistan, India, Nepal and Mongolia

Species-specific responses of Late Quaternary megafauna to climate and humans

Despite decades of research, the roles of climate and humans in driving the dramatic extinctions of large-bodied mammals during the Late Quaternary remain contentious. We use ancient DNA, species distribution models and the human fossil record to elucidate how climate and humans shaped the demographic history of woolly rhinoceros, woolly mammoth, wild horse, reindeer, bison and musk ox. We show that climate has been a major driver of population change over the past 50,000 years. However, each species responds differently to the effects of climatic shifts, habitat redistribution and human encroachment. Although climate change alone can explain the extinction of some species, such as Eurasian musk ox and woolly rhinoceros, a combination of climatic and anthropogenic effects appears to be responsible for the extinction of others, including Eurasian steppe bison and wild horse. We find no genetic signature or any distinctive range dynamics distinguishing extinct from surviving species, underscoring the challenges associated with predicting future responses of extant mammals to climate and human-mediated habitat change.This paper is in the memory of our friend and colleague Dr. Andrei Sher, who was a major contributor of this study. Dr Sher died unexpectedly, but his major contributions to the field of Quaternary science will be remembered and appreciated for many years to come. We are grateful to Dr. Adrian Lister and Dr. Tony Stuart for guides and discussions. Thanks to Tina B. Brandt, Dr. Bryan Hockett and Alice Telka for laboratory help and samples and to L. Malik R. Thrane for his work on the megafauna locality database. Data taken from the Stage 3 project was partly funded by Grant #F/757/A from the Leverhulme Trust, together with a grant from the McDonald Grants and Awards Fund. We acknowledge the Danish National Research Foundation, the Lundbeck Foundation, the Danish Council for Independent Research and the US National Science Foundation for financial suppor

Global patterns in endemicity and vulnerability of soil fungi

Fungi are highly diverse organisms, which provide multiple ecosystem services. However, compared with charismatic animals and plants, the distribution patterns and conservation needs of fungi have been little explored. Here, we examined endemicity patterns, global change vulnerability and conservation priority areas for functional groups of soil fungi based on six global surveys using a high-resolution, long-read metabarcoding approach. We found that the endemicity of all fungi and most functional groups peaks in tropical habitats, including Amazonia, Yucatan, West-Central Africa, Sri Lanka, and New Caledonia, with a negligible island effect compared with plants and animals. We also found that fungi are predominantly vulnerable to drought, heat and land-cover change, particularly in dry tropical regions with high human population density. Fungal conservation areas of highest priority include herbaceous wetlands, tropical forests, and woodlands. We stress that more attention should be focused on the conservation of fungi, especially root symbiotic arbuscular mycorrhizal and ectomycorrhizal fungi in tropical regions as well as unicellular early-diverging groups and macrofungi in general. Given the low overlap between the endemicity of fungi and macroorganisms, but high conservation needs in both groups, detailed analyses on distribution and conservation requirements are warranted for other microorganisms and soil organisms

Global patterns in endemicity and vulnerability of soil fungi

Fungi are highly diverse organisms, which provide multiple ecosystem services. However, compared with charismatic animals and plants, the distribution patterns and conservation needs of fungi have been little explored. Here, we examined endemicity patterns, global change vulnerability and conservation priority areas for functional groups of soil fungi based on six global surveys using a high-resolution, long-read metabarcoding approach. We found that the endemicity of all fungi and most functional groups peaks in tropical habitats, including Amazonia, Yucatan, West-Central Africa, Sri Lanka, and New Caledonia, with a negligible island effect compared with plants and animals. We also found that fungi are predominantly vulnerable to drought, heat and land-cover change, particularly in dry tropical regions with high human population density. Fungal conservation areas of highest priority include herbaceous wetlands, tropical forests, and woodlands. We stress that more attention should be focused on the conservation of fungi, especially root symbiotic arbuscular mycorrhizal and ectomycorrhizal fungi in tropical regions as well as unicellular early-diverging groups and macrofungi in general. Given the low overlap between the endemicity of fungi and macroorganisms, but high conservation needs in both groups, detailed analyses on distribution and conservation requirements are warranted for other microorganisms and soil organisms

Development and Application of the Method for Positioning Drainage Devices in the Head Fairing

It is important to minimize the maximum possible pressure gradients in the location of the spacecraft placement. A new engineering method was proposed for an operational estimation of the absolute pressure and its gradient on the outer surface of the cone-cylinder assembly and in the transonic flow around it. The essence of the method lies in the possibility of analyzing dynamics of pressure thru the dynamic factor. This makes it possible to carry out analysis for carrier rockets with various power-to-weight ratios which affects the speed of passing the transonic section. Application of this method enables choosing of locations for installation of drainage devices taking into account minimization of the pressure gradient in the zone of the spacecraft placement. This method, unlike the existing ones, features its independence from the necessity of ballistic calculations. The mathematical model of this method is based on the use of the starting power-to-weight ratio of the carrier rocket. It is defined as the ratio of the carrier rocket weight to the thrust of its engines at the moment of its detachment from the launching table. The boundary conditions for application of the mathematical model were given. The possibility of linear interpolation between all coefficients of the mathematical model was taken into account. The developed method is based on experimental data and can be used for other types of the head fairing assemblies. The method is also intended for design and engineering works

Vegetation Indices Do Not Capture Forest Cover Variation in Upland Siberian Larch Forests

Boreal forests are changing in response to climate, with potentially important feedbacks to regional and global climate through altered carbon cycle and albedo dynamics. These feedback processes will be affected by vegetation changes, and feedback strengths will largely rely on the spatial extent and timing of vegetation change. Satellite remote sensing is widely used to monitor vegetation dynamics, and vegetation indices (VIs) are frequently used to characterize spatial and temporal trends in vegetation productivity. In this study we combine field observations of larch forest cover across a 25 km2 upland landscape in northeastern Siberia with high-resolution satellite observations to determine how the Normalized Difference Vegetation Index (NDVI) and the Enhanced Vegetation Index (EVI) are related to forest cover. Across 46 forest stands ranging from 0% to 90% larch canopy cover, we find either no change, or declines in NDVI and EVI derived from PlanetScope CubeSat and Landsat data with increasing forest cover. In conjunction with field observations of NDVI, these results indicate that understory vegetation likely exerts a strong influence on vegetation indices in these ecosystems. This suggests that positive decadal trends in NDVI in Siberian larch forests may correspond primarily to increases in understory productivity, or even to declines in forest cover. Consequently, positive NDVI trends may be associated with declines in terrestrial carbon storage and increases in albedo, rather than increases in carbon storage and decreases in albedo that are commonly assumed. Moreover, it is also likely that important ecological changes such as large changes in forest density or variable forest regrowth after fire are not captured by long-term NDVI trends

Variable respiration rates of incubated permafrost soil extracts from the Kolyma River lowlands, north-east Siberia

Thawing permafrost supplies dissolved organic carbon (DOC) to aquatic systems; however, the magnitude, variability and fate of this DOC is not well constrained. Our objective was to examine DOC respiration from seasonally thawed and near-surface (<1.5 m) permafrost soils collected from five locations in the Kolyma River Basin, north-east Russia. We measured soil organic carbon (OC) content, water-soluble macronutrients (DOC, NH4, PO4) and the heterotrophic respiration potentials of soil extract DOC in five-day laboratory incubations. DOC concentrations ranged from 2.8 to 27.9 mg L−1 (n = 14). Carbon respiration was 0.03–0.47 mg C (n = 16) and 8.7–31.4%, total DOC (n = 14). While DOC concentration was a function of soil OC concentration, we did not find a relationship between C respiration and soil OC or DOC concentrations. Respiration was highest in the top active layer, but varied widely among sites, and lowest at the bottom of the active layer. Respiration from yedoma varied across sites (0.04–0.47 mg C respired, 8.7–31.4% total DOC). Despite the small sample size, our study indicates near-surface soils and permafrost are spatially variable in terms of both soil OC content and C respiration rates, and also that OC contents do not predict C respiration rates. While a larger sample size would be useful to confirm these results at broader geographic scales, these initial results suggest that soil OC heterogeneity should be considered in efforts to determine the fate of soil OC released from permafrost-dominated terrestrial ecosystems to aquatic ecosystems following permafrost thaw