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Opportunities and threats in the post-antibiotic era

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The following article reviews the issue of antibiotic resistance of microorganisms to meropenem in intensive care units in Ukraine. An increase in meropenem inefficiency against microorganisms in intensive care units has been observed in the last years. The data analysis suggests a significant predominance of gram-negative flora: A. baumannii, Р. aeruginosa, Antimicrobial resistance happens when microorganisms change when they are exposed to antibiotics. Then, treatment becomes ineffective and infections persist in the body, increasing the risk of spreading to other persons. The new resistance mechanisms that are emerging and spreading globally cause that the so far applied methods of treatment do not work, threatening the human ability to resist common infectious diseases, which in turn results in prolonged infections or even death. Antimicrobial resistance occurs naturally over time, usually through genetic changes. However, the misuse and overuse of antimicrobials are accelerating this process. It has become common to overuse and misuse antibiotics both in people and animals, which are often prescribed without professional oversight. Antimicrobial resistance is a complex problem that affects all of society and is driven by many interconnected factors. Single, isolated interventions have limited impact. Coordinated action is required to minimise the emergence and spread of antimicrobial resistance.
The aim of the study was to develop multiplex PCR (mPCR) assays which allow identification of shigatoxigenic Escherichia coli (STEC) strains and a characterization of their virulence properties. As an internal control, a fragment of 16S rRNA gene - two amplicons of 230 bp (stx gene) and 401 bp (16S rRNA) were obtained in the test, designated as mPCR-1 for the amplification of the stx gene, characteristic for all known Shiga toxin variants. The mPCR-2 assay was developed to characterize the stx-positive bacterial colonies, which allowed the detection of Shiga toxin 1 and/or 2, the affiliation of STEC O157:H7 serotype (rfbO157 and fliCн₇ genes), and internal control, resulting in amplicons of 348 bp (stx1), 584 (stx2), 420 bp (rfbO157), 247 bp (fliCн₇) and 798 bp (16S rRNA). The detection of markers O26wzx, rfbO111 and rfbO113, typical for E. coli O26, O111 and O113, respectively, was performed with mPCR-3. The products of molecular masses 153, 406 and 593 bp were observed. All STEC’s were also tested using mPCR-4, for the presence of enterohemolysin (ehlyA) and intimin (eaeA) markers generating specific bands of 837 bp (eaeA gene), 534 bp (ehlyA) and 401 (16S rRNA). The mPCR assays developed allow STEC to be identified and characterized and may be used in routine diagnosis of these bacteria.
The aim of the study was the characterization of selected virulence markers of Shiga toxin-producing Escherichia coli originated from raw beef by the use of PCR. The identification of Stx variants (stx₂c, stx₂d, stx₂e and stx₂f) was done with the stx2 -positive E. coli strains, resulting in the detection of the stx2d gene in 13 STEC isolates out of which 3 strains also had the stx₂c gene. None of the isolates possessed the stx2f or stx2e genes. The intimin marker (γ variant) was observed in all E. coli O157:H7, whereas β variant in E. coli O26 isolates. The genotypic factors such as katP, toxB and efa1 were detected in all O157:H7 as well as in one O26 isolate. Fifteen STEC were iha-positive and five saa-positive. None of the saa-positive isolates belonged to the O157 or O26 groups. The simultaneous presence of the lpfAO₁₅₇/OI₋₁₄₁ and lpfAO₁₅₇/OI₋₁₅₄ genes was noted in 8 O157:H7 and in one O26 STEC. The lpfAO₁₅₇/OI₋₁₄₁ gene alone was present in 4 other STEC tested, including one E. coli O26. None of E. coli O157:H7 had the lpfAO113 marker that was observed in the all remaining STEC. In one isolate belonging to the E. coli O26 group, for the first time a simultaneous presence of the lpfAO₁₅₇/OI₋₁₄₁, lpfAO₁₅₇/OI₋₁₅₄ and lpfAO₁₁₃ was noted.
The paper presents the results of genotypie differentiation and antimicrobial susceptibility of Y. enterocolitica O:9 isolates that originated from cows and pigs positive in serological reactions for brucellosis, and also from the animals, which were serologically negative. The genetic relationship between Y. enterocolitica O:9 isolates originating from different sources was determined by the use of ERIC-PCR, and resulted in detection of 6 to 13 DNA amplicons of different size. The clonal analysis was based on dendrogram created by Unweighted Pair Group Method with arithmetic mean and Jaccard's coefficient, which enabled to divide Y. enterocolitica O:9 isolates into 16 different clonal groups. Among all Y. enterocolitica O:9, MIC value was >32 mg/L for the ampicillin, ≤0.008 mg/L for ciprofloxacin, ≤8 mg/L for sulphametoxazole, ≤2 mg/L for colistin, and ≤1 mg/L for tetracycline. The wide range of MIC for ceftazidime (≤0.25-2 mg/L) and cefotaxime (≤0.06-1 mg/L) among Y. enterocolitica O:9 isolates was also observed. No significant differences were observed between MIC values of Y. enterocolitica O:9 isolates originating from animals serologically positive for brucellosis, and the isolates from cows and pigs, which provided serologically negative reactions.
Shiga toxin-producing E. coli (STEC) are a serious cause of human diseases. The infections are mainly associated with strains belonging to serogroups O157, O26, O103, O111 and O113, while the main source of infection is contaminated food of animal origin (especially beef). In this study the molecular identification methods for STEC were used which enabled detection of STEC in raw beef using multiplex PCR (mPCR) assays, isolation of individual bacterial colonies with digoxigenin (DIG)-labeled DNA probe and characterization of the virulence markers by the use of mPCR. The molecular method was used to examine 272 raw beef samples obtained from slaughterhouses. After the mPCR-1 analysis 16 stx-positive samples (5.88%) were detected. The STEC isolates were then tested using the mPCR and PCR assays. Eight of them belonged to O157:H7 serotype by the presence of the rfbO157 and fliCн₇ genes. The stx₁ marker was observed in all E. coli O157:H7 and in four of the non-O157:H7 isolates tested. Moreover, the stx₂ gene was detected in all E. coli O157:H7 and in seven of the non-O157:H7, three of them also possessed the stx₁ marker. Eight of the rfbO157-negative STEC were examined with the mPCR-3 assay to detect the rfbO111, rfbO113 and O26wzx markers, three of them produced the characteristic amplicon for the O26 group. These isolates also carried the stx₁ (one strain) or stx₂ genes (two isolates). Among the STEC tested, none belonged to the O111 or O113 groups. The amplification with the mPCR-4 assay showed that all isolates harbored the enterohemolysin (ehlyA) gene whereas the intimin marker (eaeA) was observed in all E. coli O157:H7 and O26 isolates.
The study of Collembola communities of banks of the Dniester River revealed 54 species of Collembola belonging to 35 genera and 13 families. Five species were common for all studied sites: Mesaphorura critica, Metaphorura affinis, Hemisotoma thermophila, Isotomodes productus and Parisotoma notabilis. The whole list of Collembola is included, three species are new for Moldova. The study revealed three new species for the science of the genera Micraphorura, Agraphorura and Mesaphorura. Description of Micraphorura gamae sp. nov. the most similar to Micraphorura pieninesis Weiner, 1988 is provided.
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Tularemia – serious zoonotic disease

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Tularemia is an acute, infectious zoonotic disease caused by a smal. aerobic, intracellular, gram-negative bacillus Francisella tularensis. Tularemia was firstly described towards the end of nineteenth century in Japan, however, the name Francisella comes from Edward Francis, an American researcher who in 1911 detected this bacterium in squirrels in Tulare County, California. In Poland tularemia in humans was recognized for the first time in 1949. In the years 1949 to 2009, over 600 tularemia cases were recorded in Poland, with one fatality in 1983. Initial work on the use of F. tularensis as a biological weapon was carried out in the 30s of the twentieth century simultaneously in the United States, Soviet Union and Japan. The natural reservoirs of the micro-organism are rodents and lagomorphs, which can be a source of infection for other animals and humans. Human infection occurs through direct contact with sick animal. inhalation of dust contaminated with feces of sick animals and it takes place mainly in the farms involved in the animal production, to a lesser extent as a result of contaminated food and water.
The study aims at characterising four bacterial infectious agents listed on the CDC A list, i.e. Anthrax (Bacillus anthracis), plague (Yersinia pestis), botulism (Clostridium botulinum) and tularemia (Francisella tularensis) as potential tools used in a bioterrorist attack causing diseases. The paper also includes information on their occurrence in Poland and the EU. Despite the real threat of terrorism in the 21st century and large-scale activities aimed at limiting the occurrence of this phenomenon, it should be borne in mind that pathogens listed on the CDC list A, although spotted primarily in animals, can be a real threat to people’s health and life. Among the discussed microorganisms, only Francisella tularensis and Clostridium botulinum cause sporadic diseases in Poland; however, it should be remembered that both Bacillus anthracis, occurring in Europe, and Yersinia pestis, occurring in Asia and Africa, can pose real threats to human health and life not only in natural infections, but when used as a biological weapon.
Human body is a complex system that is affected by a significant number of microscopic organisms called the microbiomes. The dynamic development of science has led to innovative discoveries in the field of microbiology. This in turn has extracted new field, metagenomics, thanks to which it became possible to perform detailed analysis of individual groups of bacteria and to determine their effects on preserving a good health. One of the biggest scientific projects that would investigate the influence of microbiomes on humans is HMP (Human Microbiome Project). As part of it the research is being conducted leading to characterize human microbiome at the level of nucleotide sequence of the entire genomic DNA. The microflora of the skin, oral cavity, respiratory tract, digestive tract (intestines), genitourinary system has an essential role in the homeostasis. In the last year the carried research proved that it is a vital part of the human organism in preserving a good health. Any changes in its composition may lead to systemic diseases. Pathological changes affect the outcome of the interaction within the microflora that includes species of commensal and pathogenic bacteria, as well as immunology and genetics of the host. Metagenomics research will contribute not only to the recognition of new, so far unidentified by the bacteriological methods microorganisms, but most of all they will serve as a basis to understand the relationships between the human organism and in-dwelling microorganisms. Thanks to the development of the metagenomics or the NGS (Next Generation Sequencing) it will be possible to discover new metabolic pathways and bidirectional links of bacteria with human metabolism. This will help in finding new therapeutic methods in the treatment of many noninfectious diseases so far considered as civilization diseases or genetically conditioned.
For the last 25 years, Shiga toxin-producing E. coli (STEC) has been a serious cause of human diseases, responsible for the progression of hemorrhagic colitis (HC), hemolytic uremic syndrome (HUS) and thrombotic thrombocytopenic purpura (TTP). Cattle and other ruminants are the main reservoirs of these bacteria. The infections are mainly associated with strains belonging to serogroups O157, O26, O103, O111 and O113. The main source of the bacteria is contaminated food of animal origin (especially beef) but water and person-to-person transmission may play a significant role in human infections. Large outbreaks connected to STEC can affect many people causing serious morbidity and mortality, making this bacteria one of the most significant food-borne pathogens. In this paper several plasmid and chromosomal genes responsible for the expression of important virulence determinants of STEC have been described. Among them, Shiga toxin (Stx) encoded by the stx genes is the best characterized pathogenic marker. This review should improve the knowledge of STEC and the function of the virulence markers described, but further studies are needed to evaluate the role of STEC genes in e.g. apoptosis or quorum sensing processes.
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