Pathogens最新文献

Background: The circulation of Leptospira has been linked to various occupational activities globally. This study investigated the seroprevalence of Leptospira spp. in rodents and livestock (cattle and goats) in three settlements/villages involved in agriculture, livestock keeping, and mixed agriculture and livestock in the Kilombero district, Tanzania.

Methods: Data were collected during the wet and dry seasons. A total of 179 rodents were live-captured from selected habitats. Livestock samples were collected from 80 cattle in a livestock settlement and 120 goats from both livestock and mixed agricultural-livestock settlements. The microscopic agglutination test was utilized to identify Leptospira serovars.

Results: The seroprevalence of Leptospira spp. was 17.3% in rodents (21.7% in Mastomys natalensis and 3.9% in Rattus rattus) and 8.3% in livestock (13.5% in cattle and 12.6% in goats). The prevalence among rodents and livestock differed between settlements (p = 0.01). A higher prevalence was observed among rodents in the agricultural settlement relative to the other settlements. A higher prevalence of antibodies in livestock was observed in the livestock settlement compared with the mixed agricultural-livestock settlement. The Leptospira serovars Sokoine (serogroup Icterohaemorrhagiae) and Hebdomadis (serogroup Hebdomadis) were detected in both rodents and livestock. The serovars Hardjo (serogroup Sejroe) and Gripothyphosa (serogroup Gripothyphosa) were found exclusively in cattle, whereas the serovars Pomona (serogroup Pomona) and Lora (serogroup Australis) were identified in rodents. Leptospira antibodies were found to be elevated during the rainy season compared with the dry season (p = 0.05) in all settlements, with the exception of rodents in the mixed agricultural-livestock settlement.

Conclusions: This study demonstrates the presence of anti-Leptospira antibodies in rodents and livestock related to occupational activities in human settlements. It further demonstrates that wild animals (rodents) and livestock are reservoirs of Leptospira and are important in the epidemiology of leptospirosis. Management and control strategies should target both rodents and livestock.

Papillomaviruses (PVs) frequently infect humans as well as non-human species. While most PV infections are asymptomatic, PVs can also cause hyperplastic papillomas (warts) as well as pre-neoplastic and neoplastic lesions. In this review, the life cycle of PVs is discussed, along with the mechanisms by which PVs cause hyperplastic and neoplastic diseases. The humoral and cell-mediated immune responses to PVs are reviewed, giving context to the later discussion on the use of vaccines to reduce canine and feline PV-associated disease. Both dogs and cats are infected by numerous different PV types classified into multiple different PV genera. The taxonomic classification of PVs is reviewed, along with the significance of this classification. The PV-associated diseases of dogs and cats are then described. These descriptions include the clinical presentation of the disease, the causative PV types, the histological features that allow diagnosis, and, where appropriate, possible treatment options. The review is comprehensive and contains the latest information about PVs and the diseases they cause in dogs and cats.

Substances of organic origin are seeing increasing use in agriculture as rich sources of nutrients for plants. The aim of this study was to determine the microbiological contamination of sewage sludge and digestate to assess their safe use as fertilizers in Poland. The assessment of microbial soil, sewage sludge and digestate contamination was based on the total number of mesophilic bacteria and Gram-negative bacteria from the Enterobacteriaceae family. The presence of Escherichia coli and Salmonella spp. was identified via culture and the presence of Enterobacteriaceae species was determined via biochemical and molecular methods. In laboratory conditions, the survival of E. coli in soil fertilized with sewage sludge or digestate inoculated with a reference strain was determined. The average concentration of Enterobacteriaceae in soil, sewage sludge and digestate samples was 1.1 × 10⁴ CFU/g, 9.4 × 10⁵ CFU/g and 5.6 × 10⁶ CFU/g, respectively. Escherichia coli was detected in all sample types. From the soil samples, Serratia, Enterobacter, Pantoea, Citrobacter and Pseudomonas genera were identified the most frequently, while in sewage sludge and digestate, E. coli was predominant. Based on the results of our laboratory experiment, it can be concluded that after three weeks, fertilization with organic waste in acceptable doses does not significantly increase soil contamination with Enterobacteriaceae.

Background: This research article delves into the battle against the COVID-19 pandemic, focusing on the efficacy and, particularly, the safety of the combination of nirmatrelvir with ritonavir, which is found in the pharmaceutical product Paxlovid^®. This study aims to analyze the potential interactions of commonly prescribed medicinal products with Paxlovid^®, shedding light on its utilization in specific medical fields.

Methods: Prescription data from the Czech Republic's Institute of Health Information and Statistics (IHIS CR) was analyzed, covering 4 million COVID-19 patients and 87.5 million medication records from September 2019 to February 2022. This study focused on potential drug interactions with Paxlovid among the 50 most frequently prescribed medications, with particular attention to four specialties: general medicine, internal medicine, infectious diseases, and diabetology.

Results: In this study of the 50 most commonly prescribed drugs, 56% showed no interaction with Paxlovid, 30% had a potential for interaction, and 14% were not specifically mentioned in relation to Paxlovid, with no drugs found to be contraindicated overall. However, in specific medical fields, including diabetology, infectious diseases, internal medicine, and general medicine, certain drugs had potential interactions when co-administered with Paxlovid.

Conclusions: Paxlovid remains a valuable option for early COVID-19 treatment but requires a careful consideration of potential drug interactions, especially in high-risk specialties. A thorough assessment of concurrent medications is essential to optimize safety and efficacy in patients receiving Paxlovid.

Canine coronavirus (CCoV), canine respiratory coronavirus (CRCoV), canine adenovirus type 2 (CAV-2), and canine norovirus (CNV) are important pathogens for canine viral gastrointestinal and respiratory diseases. Especially, co-infections with these viruses exacerbate the damages of diseases. In this study, four pairs of primers and probes were designed to specifically amplify the conserved regions of the CCoV M gene, CRCoV N gene, CAV-2 hexon gene, and CNV RdRp gene. After optimizing different reaction conditions, a quadruplex RT-qPCR was established for the detection of CCoV, CRCoV, CAV-2, and CNV. The specificity, sensitivity, and repeatability of the established assay were evaluated. Then, the assay was used to test 1688 clinical samples from pet hospitals in Guangxi province of China during 2022-2024 to validate its clinical applicability. In addition, these samples were also assessed using the reported reference RT-qPCR assays, and the agreements between the developed and reference assays were determined. The results indicated that the quadruplex RT-qPCR could specifically test only CCoV, CRCoV, CAV-2, and CNV, without cross-reaction with other canine viruses. The assay had high sensitivity with limits of detection (LODs) of 1.0 × 10² copies/reaction for CCoV, CRCoV, CAV-2, and CNV. The repeatability was excellent, with intra-assay variability of 0.19-1.31% and inter-assay variability of 0.10-0.88%. The positivity rates of CCoV, CRCoV, CAV-2, and CNV using the developed assay were 8.59% (145/1688), 8.65% (146/1688), 2.84% (48/1688), and 1.30% (22/1688), respectively, while the positivity rates using the reference assays were 8.47% (143/1688), 8.53% (144/1688), 2.78% (47/1688), and 1.24% (21/1688), respectively, with agreements of more than 99.53% between two methods. In conclusion, a quadruplex RT-qPCR with high sensitivity, specificity, and repeatability was developed for rapid, and accurate detection of CCoV, CRCoV, CAV-2, and CNV.

Porcine astrovirus (PoAstV), porcine sapovirus (PoSaV), porcine norovirus (PoNoV), and porcine rotavirus A (PoRVA) are newly discovered important porcine diarrhea viruses with a wide range of hosts and zoonotic potential, and their co-infections are often found in pig herds. In this study, the specific primers and probes were designed targeting the ORF1 gene of PoAstV, PoSaV, and PoNoV, and the VP6 gene of PoRVA. The recombinant standard plasmids were constructed, the reaction conditions (concentration of primers and probes, annealing temperature, and reaction cycle) were optimized, and the specificity, sensitivity, and reproducibility were analyzed to establish a quadruplex real-time quantitative RT-PCR (RT-qPCR) assay for the detection of these four diarrheal viruses. The results demonstrated that the assay effectively tested PoAstV, PoSaV, PoNoV, and PoRVA without cross-reactivity with other swine viruses, and had limits of detection (LODs) of 138.001, 135.167, 140.732, and 132.199 (copies/reaction) for PoAstV, PoSaV, PoNoV, and PoRVA, respectively, exhibiting high specificity and sensitivity. Additionally, it displayed good reproducibility, with coefficients of variation (CVs) of 0.09-1.24% for intra-assay and 0.08-1.03% for inter-assay. The 1578 clinical fecal samples from 14 cities in Guangxi Province, China, were analyzed via the developed assay. The results indicated that the clinical samples from Guangxi Province exhibited the prevalence of PoAstV (35.93%, 567/1578), PoSaV (8.37%, 132/1578), PoNoV (2.98%, 47/1578), and PoRVA (14.32%, 226/1578), and had a notable incidence of mixed infections of 18.31% (289/1578). Simultaneously, the 1578 clinical samples were analyzed with the previously established assays, and the coincidence rates of these two approaches exceeded 99.43%. This study developed an efficient and precise diagnostic method for the detection and differentiation of PoAstV, PoSaV, PoNoV, and PoRVA, enabling the successful diagnosis of these four diseases.

The COVID-19 pandemic caused by the SARS-CoV-2 virus continues to circulate worldwide, causing the deaths of millions of people. The continuous circulation of the virus, its genetic diversity, the emergence of new variants with increased transmissibility, and/or the capacity of the virus to escape from the immune system constitute a major public health concern. In our study, we aimed to characterize SARS-CoV-2 strains in Iraq from the first introduction until the end of 2023, and to identify their variants, lineages, clades, and mutation patterns. All published Iraqi full genome sequences (2020-2023) were obtained from Global Initiative on Sharing All Influenza Data (GISAID) and subjected to molecular characterization along with 19 samples of full genome sequences that were collected during the fifth and sixth waves of the SARS-CoV-2 pandemic in this study. Next-generation sequencing was performed using an Illumina MiSeq system, and phylogenetic analysis was performed for all the Iraqi sequences. Three established global platforms, GISAID, Nextstrain, and PANGO, were used for the classification of isolates into distinct clades, variants, and lineages. Six wave peaks of COVID-19 cases have been identified in Iraq, resulting in approximately 2,400,000 cumulative confirmed cases and more than 25,000 deaths. Our study revealed patterns of circulation and dominance of SARS-CoV-2 clades and their lineages in the pandemic waves in the country.

The aim of this study was to evaluate the diagnostic accuracy of the IGRA, TST, and TBST by combining diagnostic test accuracy (DTA) analysis and network meta-analysis (NMA) to increase the reliability and accuracy of diagnostic methods and promote the eradication of TB. An electronic search of the PubMed, Embase, and Cochrane databases was conducted, from the date of establishment to September 30, 2024. Data were synthesized with frequentist random-effects network meta-analyses, a single-group rate meta-analysis algorithm, and a bivariate mixed-effects logistic regression model. Summarized receiver operating characteristic curves and Fagan nomograms were used to assess diagnostic accuracy and clinical utility. Deeks' funnel plots and the Quality Assessment of Diagnostic Accuracy Studies 2 tools were used to assess publication bias and risk of bias. Sources of heterogeneity were investigated using subgroup analyses. Forty-nine studies were identified. The diagnostic performance of the three diagnostic methods for TB infection is summarized as follows: the pooled sensitivity was 77.9% (95% confidence interval [CI], 0.69-0.856), and the pooled specificity was 80.3% (95% CI, 0.75-0.86). The sensitivity and specificity of the IGRA were 82.1% (95% CI, 0.78-0.86) and 81.1% (95% CI, 0.75-0.86), respectively, both higher than the TST. However, the TBST exhibited the highest specificity, at 98.5% (95% CI, 0.96-1.00), with a sensitivity of 78.7% (95% CI, 0.68-0.88), which was between that of the IGRA and TST. Subgroup analysis found that population categories and reference standards, among other factors, may be attributed to heterogeneity. In addition, the TST and IGRA add-on TBST can significantly improve diagnostic accuracy. In our study, the IGRA showed higher sensitivity, whereas the TBST showed higher specificity. Interestingly, under certain conditions, TST add-on TBST and IGRA add-on TBST showed better accuracy than TST and IGRA alone and could provide more effective guidance for clinical practice (PROSPERO CRD42023420136).

The quality of indoor air is dependent on a number of factors, including the presence of microorganisms that colonize the building materials. The potential for health risks associated with microbial contamination is a significant concern during the renovation of buildings. The aim of this study was to assess the impact of two reconstruction methods for historic buildings on air quality. The two reconstruction procedures were facadism, which preserves only the façade, demolishing the rest of the building and constructing a new building, and complete reconstruction, which involves internal renovation with a less intensive demolition. A total of 70 + 70 air samples, as well as surface and dust samples, were collected throughout the course of the reconstruction of the two buildings. In the case of facadism, total colony counts were found to be 2-4 times higher indoors than outdoors, even at the initial stage of the works. High concentrations of Aspergillus and Penicillium spp. were detected. During the less intensive reconstruction, the total colony count in the indoor air samples was initially lower at almost every sampling point than at the outdoor levels. With regard to fungi, Penicillium species were initially present at lower conidia concentrations, followed by Aspergillus species over time. In both buildings, elevated concentrations of airborne fungi were detected during the main reconstruction period. The fungal genera found in the indoor air were also detected on surfaces and in dust samples. Outdoor air samples collected from the vicinity of the buildings revealed elevated fungal counts at multiple sampling points, particularly in the case of facadism. Disinfection with dry fogging was implemented twice throughout the entire interior of the buildings. Following the first disinfection process, there was no notable decrease in colony-forming unit (CFU) counts in either building. However, the second disinfection resulted in a reduction in microbial concentration in the air. Our study confirms that the renovation of historical buildings can result in an elevated prevalence of fungal bioaerosols, which can be harmful to occupants. While the impact of the reconstruction remained within the range of urban background variability at distant (>1 km) locations, it caused local microbial contamination, often exceeding the detection limit in near-site samples.

Although the etiological relevance of the detection of microsporidia in human stool samples remains uncertain, the immunological status of patients has been posited as an important determinant of potential clinical impact of these parasites. To further assess the interplay between the epidemiology of microsporidia and immunological markers, we conducted a study utilizing real-time PCR targeting Enterocytozoon bieneusi, Encephalitozoon cuniculi, Encephalitozoon hellem, and Encephalitozoon intestinalis, combined in a single fluorescence channel. The study involved a cohort of 595 clinically and immunologically well-characterized Ghanaian HIV patients, alongside 82 HIV-negative control individuals from Ghana. While microsporidial DNA was absent in HIV-negative controls, among people living with HIV, its prevalence was inversely correlated with CD4+ lymphocyte counts: 6.0% in those with >500 cells/µL, 9.5% in those with 200-499 cells/µL, 13.8% in those with 50-199 cells/µL, and 27.5% in those with <50 cells/µL, respectively. Correspondingly, microsporidia were more frequently detected in HIV patients who were not receiving antiretroviral therapy. There were no associations with clinical symptoms including gastroenteritis with the exception of a non-significant trend towards weight loss. HLA-DR+CD38+ on CD4+ T lymphocytes, a marker of immune activation, as well as Ki67, a marker of cell proliferation, were increased on CD4+ T lymphocytes in HIV patients with microsporidia, suggesting an immune response may be triggered. In conclusion, our assessment indicates a higher prevalence of microsporidia in the stool of Ghanaian HIV patients, which varies with their immunological status. However, given the lack of clear associations with clinical symptoms, the detection of microsporidia in the stool of HIV patients needs to be cautiously interpreted in clinical settings.