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Abstract Background Lawsonia intracellularis is the causative agent of Porcine Proliferative Enteropathy (PPE), one of the most prevalent pig enteric diseases worldwide, but with sparse information about early infections in suckling piglets in the epidemiology of PPE. With that aim, this study evaluates the prevalence of L. intracellularis in 3-week-old piglets by analysing ileal digesta content and mucosal scrapings from 383 pigs from 16 farms (aprox., 25 pigs/batch) by real-time qPCR and droplet digital PCR (ddPCR). Results Forty-nine samples yielded a qPCR positive result. Eleven samples from eight farms were confirmed as positive with concentrations of L. intracellularis from 3.5 log10 to 4.5 log10 bacteria/g of sample. Another 16 samples, eight farms, were classified as low positive (2.07–2.38 log10 bacteria/g) and 22 provided an uncertain result. Finally, 334 samples tested negative for L. intracellularis. At batch level, half of the farms included in the study had at least one positive sample and in 10 farms (62.5%) there was at least one low positive sample. The ddPCR was run in 50 of the 383 samples based on their PCR output (including low positive, uncertain and negative samples). Correlation analyses revealed a strong association between qPCR and the ddPCR results (ρ = 0.75; p

Abstract Background Accurate identification of the etiology of lower respiratory tract infections (LRTI) is crucial, particularly for immunocompromised patients with more complex etiologies. The advent of next-generation sequencing (NGS) has enhanced the effectiveness of pathogen detection. However, assessments of the clinical diagnostic value of targeted NGS (tNGS) in immunocompromised patients with LRTI are limited. Methods To evaluate the diagnostic value of tNGS in immunocompromised patients with LRTI, a total of 88 patients, of whom 54 were immunocompromised, were enrolled. These patients underwent tNGS testing of bronchoalveolar lavage fluid (BALF). Results from both metagenomic next-generation sequencing (mNGS) and conventional microbiological tests (CMT) were also available for all participants. The performance of tNGS was assessed by comparing its findings against mNGS, CMT, and the clinical composite diagnosis. Results In the cohort of 88 patients, tNGS showed comparable diagnostic value to mNGS and was significantly superior to CMT. Compared to CMT and composite reference standard, tNGS showed sensitivity of 94.55% and 90.48%, respectively. In immunocompromised patients, despite a more diverse pathogen variety, tNGS maintained similar sensitivity to mNGS and outperformed CMT. tNGS positively influenced etiologic diagnosis and antibiotic decision-making in 72.72% of cases, leading to a change in antibiotic regimen in 17.05% of cases. We also compared the detection of microbial nucleic acids by tNGS with mNGS and found that tNGS could identify 87.99% of the microbial nucleic acids identified by mNGS. Conclusion In summary, our study demonstrated that tNGS offers promising clinical diagnostic accuracy in immunocompromised patients, as evidenced by its favorable comparison with CMT, the composite reference standard, and mNGS.

The emergence of infectious disease outbreaks and ‘superbugs’ related to pollution combined with climate change is a current problem, not just a future threat. In May 2024, an extreme flood hit the Rio Grando Sul State, southern Brazil, triggering an important leptospirosis outbreak in urban settings with deficient sanitation systems. This and other cases discussed in this article exemplify how extreme weather events exacerbate the consequences of environmental pollution by multiple classes of pathogens in the global scenario of increasing anthropogenic pressures on the environment. A combination of actions to combat climate change and improvements in sanitation systems is essential to mitigate this problem.

Jie Chi, Heng Tang, Fang Wang, Yuxuan Wang, Zhifeng Chen Department of Pharmacy, Tongling Municipal Hospital, Tongling, Anhui, People’s Republic of ChinaCorrespondence: Zhifeng Chen, Department of Pharmacy, Tongling Municipal Hospital, Tongling, Anhui, People’s Republic of China, Tel +8613856231378, Email 47986687@qq.comPurpose: During the COVID-19 pandemic, multifaceted non-pharmaceutical interventions have not only reduced the transmission of SARS-CoV2 but also affected the prevalence of other respiratory pathogens. With the lifting of many restrictions, a surge in cases of pneumonia in children has been reported in many hospitals in China. The study assessed the changes in pathogen and symptoms of children with community-acquired pneumonia (CAP) before and after the adjustments of prevention and control measures of epidemic and provided recommendations for CAP in children.Patients and methods: Children diagnosed with CAP were enrolled in the study from 2022 to 2023. A cross-sectional retrospective study was conducted in a general hospital. We analyzed the data about demographic data, clinical symptoms, pathogens, and medical treatments. The Chi-square and Mann–Whitney U-test were used to assess the statistical significance of groups.Results: We studied 1103 children, 339 in 2022 and 764 in 2023. Compared with children in 2022, more children were diagnosed with CAP in 2023 and these children had a higher body temperature and levels of CRP and PCT, which indicated these children got severe inflammation. The positive rate of the pathogen was also higher in 2023, especially the detective rate of Mycoplasma pneumoniae. The number of children infected with more than two pathogens was higher in 2023, especially those co-infected with the virus and M. Pneumoniae. Concerning the medicine therapy, the usage of β-lactam antibiotics, Macrolide antibiotics, and antiviral drugs kept rapid growth.Conclusion: After the adjustment of epidemic prevention and control policies in 2023, more children got CAP with severe clinical symptoms, and more antibiotics and antiviral drugs were used. Further study is needed to explore the reasons for the increase in children with CAP and to explore the rationality of treatment.Keywords: community-acquired pneumonia, children, post-pandemic, pathogen

Gasdermins (GSDMs) share a common functional domain structure and are best known for their capacity to form membrane pores. These pores are hallmarks of a specific form of cell death called pyroptosis and mediate the secretion of pro-inflammatory cytokines such as interleukin 1β (IL1β) and interleukin 18 (IL18). Thereby, Gasdermins have been implicated in various immune responses against cancer and infectious diseases such as acute Salmonella Typhimurium (S.Tm) gut infection. However, to date, we lack a comprehensive functional assessment of the different Gasdermins (GSDMA-E) during S.Tm infection in vivo. Here, we used epithelium-specific ablation, bone marrow chimeras, and mouse lines lacking individual Gasdermins, combinations of Gasdermins or even all Gasdermins (GSDMA1-3C1-4DE) at once and performed littermate-controlled oral S.Tm infections in streptomycin-pretreated mice to investigate the impact of all murine Gasdermins. While GSDMA, C, and E appear dispensable, we show that GSDMD i) restricts S.Tm loads in the gut tissue and systemic organs, ii) controls gut inflammation kinetics, and iii) prevents epithelium disruption by 72 h of the infection. Full protection requires GSDMD expression by both bone-marrow-derived lamina propria cells and intestinal epithelial cells (IECs). In vivo experiments as well as 3D-, 2D-, and chimeric enteroid infections further show that infected IEC extrusion proceeds also without GSDMD, but that GSDMD controls the permeabilization and morphology of the extruding IECs, affects extrusion kinetics, and promotes overall mucosal barrier capacity. As such, this work identifies a unique multipronged role of GSDMD among the Gasdermins for mucosal tissue defense against a common enteric pathogen.

ABSTRACTOne of the main challenges in aquaculture is pathogenic bacterial control. Streptococcus iniae stands out for its ability to cause high mortality rates in populations of commercially important fish populations and its recent recognition as an emerging zoonotic pathogen. The rise in identifying over 80 strains some displaying antibiotic resistance coupled with the emerging occurrence of infections in marine mammal species and wild fish underscores the urgent need of understanding pathogenesis, virulence and drug resistance mechanisms of this bacterium. This understanding is crucial to ensure effective control strategies. In this context, the present review conducts a bibliometric analysis to examine research trends related to S. iniae, extending into the mechanisms of infection, virulence, drug resistance and control strategies, whose relevance is highlighted on vaccines and probiotics to strengthen the host immune system. Despite the advances in this field, the need for developing more efficient identification methods is evident, since they constitute the basis for accurate diagnosis and treatment.

There is a paucity of information about milk composition and quality at the quarter level from complete milking of the udder, mainly because of the difficulties of sampling procedures which imply the adoption of a vacuum system connected to four independent buckets. The objective of this study was to evaluate the effect of quarter position, intramammary infection status, and somatic cells on milk yield and composition at the mammary quarter level of Simmental cows. Milk samples were collected during three consecutive days, after milking individual mammary quarters of 10 lactating cows separately, for a total of 120 quarter milk samples. Samples were analysed for composition, somatic cell count (SCC), differential SCC, and bacterial culture. Somatic cell count was log-transformed to somatic cell score (SCS) to achieve normality of distribution. Sources of variation of milk yield and quality traits were investigated using a linear mixed model which included the fixed effects of quarter position (1 to 4), pathogen presence (positive or negative), and SCS class (low, medium-low, medium-high, and high). The interaction between cow and quarter position was included as random effect. Quarter position significantly affected milk yield, with rear udder quarters yielding more milk compared to their front counterparts, but with negligible effects on milk composition. Classes of SCS influenced milk composition, in a way that quarters with high SCS had lower lactose content and higher differential SCC. This study is a contribution towards the possibility to better understand physiological processes at cow udder quarter level.

The current research explored the biocontrol ability of two strains of Trichoderma fungi on infected Freesia corm by Fusarium disease. Enhancements in plant growth and performance were evaluated in response to the Trichoderma fungi in laboratory and greenhouse conditions. Laboratory experiments included five Trichoderma strains, i.e., T1, T20, and Th4, related to T. harzianum species, T2 related to T. atroviride species, and Tvi related to T. virens species. A dual culture test and investigation of the inhibition and colonization rate were carried out with 11 treatments in three replications. Results revealed that strains T1 and T2 completely covered the pathogen in 96 h of culture by 70.02% and 68.98% and successfully inhibited the colonization of the disease agent by 84.53% and 82.72%, respectively, compared to the other strains. Then, a greenhouse experiment was performed with eight treatments, using suspensions of Trichoderma strains separately or combined with the presence of Fusarium fungus isolate on Freesia cultivation. The results showed that the strains at different levels were able to increase the growth and yield of Freesia plants and control Fusarium disease. In general, the T2 strain was more effective in increasing plant growth and flower stem height in Freesia. The T1 strain specifically improved the corm diameter. Both T1 and T2 strains demonstrated effectiveness in controlling and reducing the severity of Fusarium disease and enhancing the growth quality of Freesia. [ABSTRACT FROM AUTHOR]

The ever-evolving procedures of the practice of in vitro production (IVP) of embryos has well outpaced the ability of governments and institutions to create standardized rules and regulations around the global trade of these reproductive products. There are several challenges related to identifying and quantifying disease transmission risk in IVP embryos, not the least of which is a lack of published information. The International Embryo Technology Society (IETS) Health and Safety Advisory Committee (HASAC) has identified and addressed several of the challenges related to the potential for disease transmission via IVP embryos. This review will outline the current sanitation practices recommended by the IETS for in vivo derived (IVD) embryos, as well as the current practices at most in vitro fertilization (IVF) labs and will present the case that IVP embryos are not only just as safe as IVD embryos from a disease transmission risk standpoint, but perhaps may even be safer than IVD embryos, as the oocyte, zygote, and embryo in the in vitro production system has no contact with the downstream reproductive anatomy (fimbria, isthmus, oviduct, or uterus) of the donor female. • IVP embryo production and transfer has expanded with no reports of disease transmission. • Most cattle embryos are produced from live donor females of known health status. • Trade of IVP embryos is hampered by concerns of sanitary safety in importing countries. • There is a lack of fiscal investment in specific pathogen research. • Current IVP embryo production practices ensure sanitary safety of embryos. [ABSTRACT FROM AUTHOR]

The present study tested the symbiotic effects of dietary multi-strain Bacillus probiotics (MSB) (Bacillus licheniformis, B. pumilus, and B. subtilis) in Nile tilapia (Oreochromis niloticus) exposed to Aspergillus flavus infection. Furthermore, this study investigated water quality, growth performance, blood metabolites, histological morphology, immune regulatory genes, and resistance to A. flavus infection. For 70 days, fish (n = 240) were divided into four groups in triplicate: T0 (control group; MSB0), T1 (1 g/kg, MSB1), T2 (2 g/kg, MSB2), and T3 (3 g/kg, MSB3). The immune response was then assessed by challenging all fish groups with the A. flavus pathogen. The results showed that the rearing water quality, fish growth, and blood parameters, as well as total proteins, albumin, globulins, and amylase activity were significantly (P < 0.05) increased in all MSB-treated groups with the best results in MSB2 and MSB3 groups. Meanwhile, the activities of aspartate aminotransferase (AST), alanine aminotransferase (ALT), cholesterol, and glucose levels were significantly (P < 0.05) modulated, particularly at higher concentrations of the probiotic mixture (MSB3 group). Fish fed with various levels of MSB showed a maintained histological structure of the hepatopancreas, intestine, and spleen tissues. The mRNA expression of growth hormone (GH), insulin-like growth factor-1 (IGF-1), insulin-like growth factor receptor-1 (IGF-1R), and interleukin-8 (IL-8) were increased in a dose-dependent manner due to MSB dietary inclusion (P < 0.05). Conversely, the mRNA expression of interleukin-1β (IL-1β) gene was significantly decreased in MSB groups compared to untreated group (P < 0.05). Surprisingly, supplemented groups in Bacillus spp. probiotics exhibited significant modulations in all computed parameters. MSB supplementation improved the pathogenic tolerance of tilapia after change with A. flavus. The integration of growth performance, biochemical, and transcriptomic results confirms that the dietary intervention of multi-strain Bacillus spp. is symbiotic and enhances the benefits for the maintenance of O. niloticus' health, growth, and digestion. This is achieved by supporting growth genes, reducing inflammatory genes, and enhancing immune-antioxidant resistance to combat A. flavus infection. [ABSTRACT FROM AUTHOR]

The purpose of the current work was to search for sources of winter wheat varieties’ resistance to the most common pathogens of the area under artificial infectious backgrounds and recommend them for inclusion in the breeding process. The study was carried out on the experimental plots of the laboratory for plant immunity and protection of the FSBSI Agricultural Research Center “Donskoy” in 2021–2023. In order to expand the genetic diversity in immunity of newly developed varieties, it is necessary to use new sources of resistance. The objects of study were 78 winter wheat varieties from interstation variety testing, representing various breeding institutions in Russia and some foreign varieties. The study material was presented by the North Caucasian populations of pathogens of such wheat leaf diseases as powdery mildew, brown and yellow rust, and leaf spot (Septoria). Infectious backgrounds were formed according to generally accepted methods, using spore material of pathogens both stored and collected from crops in the previous year (types of rust) and collected from overwintered plants in the spring (powdery mildew, leaf spot). Weather conditions varied across the years of study (mainly in the autumn), but the damage to susceptible test varieties in the experiments was maximum. As a result of the study of the varieties on their resistance to one pathogen, there have been identified 23 varieties resistant to powdery mildew, 56 ones to leaf rust, 47 ones to yellow rust, 8 varieties to leaf spot. There has been given a characteristic of varieties according to various degree of resistance or susceptibility to each pathogen. On the resistance to two pathogens, there have been identified 17 varieties resistant to brown and yellow rust, 2 varieties resistant to brown rust and powdery mildew, 2 varieties resistant to yellow rust and powdery mildew, 1 variety resistant to brown rust and leaf spot. Ten varieties have shown resistance to no one pathogen, but they have had moderate resistance or moderate susceptibility to several other pathogens. 20 varieties were resistant to three diseases in various combinations, and 16 of them were resistant to brown, yellow rust, and powdery mildew. One variety ‘MV Nador’ from Hungary showed resistance to all 4 pathogens. All resistant varieties identified in the study can replenish the supply of winter wheat sources to the complex of leaf diseases for breeding purposes or be used in integrated crop protection against leaf diseases.

ObjectiveTo analyze the epidemiological characteristics of pathogens in foodborne disease cases in Haining City, Zhejiang Province, and to provide a basis for the prevention and investigation of foodborne diseases and outbreak events.MethodsInformation on foodborne disease patients from 2014 to 2023 was collected, and stool or anal swab samples were tested for relevant pathogens. The χ2 test was used to compare the differences in pathogen detection rates among different groups, and multivariate logistic regression analysis was used to analyze the risk factors for pathogen detection.ResultsA total of 5 814 samples were tested, with a positive detection rate of 15.36%. The detection rates were 4.95% for norovirus, 4.49% for Escherichia coli, 3.59% for Salmonella, 2.22% for Vibrio parahaemolyticus, and 0.11% for Shigella. The positive detection rates showed seasonal characteristics, with a minor peak in March-April dominated by norovirus and a major peak in July-September dominated by bacteria. The three groups with the highest detection rates were workers, white-collar workers and other groups. Multivariate logistic regression analysis showed that age, season, and antibiotic use before consultation were significant influencing factors for pathogen detection (P

Abstract Background Data on pyogenic liver abscess (PLA) of children in China have been limited. We aimed to summarize the clinical feather, microbiological characteristics, management, and outcome of PLA in children. Method We retrospectively reviewed PLA cases from January 2008 to June 2023 at Beijing Children’s Hospital. Clinical characteristics, pathogens and management were analyzed. Results We diagnosed 57 PLA patients in our center. The median onset age was 4.5 years and the male-to-female ratio was 1.6:1. The median diagnostic time was nine days and the median length of stay was 22 days. Twenty-eight patients (49.1%) had predisposing factors, around 71.4% of the patients had malignant hematology and primary immunodeficiency disease. Patients with underlying factors were more likely to have extrahepatic organ involvement (p = 0.024), anemia (p

Linqi Li,1 Jing Cao,2 Jiao Qin,2 Xiangxiang Chen,2 Feng Yuan,2 Ping Deng,2,&ast; Hebin Xie1,2,&ast; 1School of Public Health, University of South China, Heng Yang, Hunan, People’s Republic of China; 2The Affiliated Changsha Central Hospital, University of South China, Changsha, Hunan, People’s Republic of China&ast;These authors contributed equally to this workCorrespondence: Hebin Xie, The Affiliated Changsha Central Hospital, University of South China, Changsha, Hunan, People’s Republic of China, Tel +86 15173132201, Email 2018050642@usc.edu.cnPurpose: To analyze the factors affecting patients’ prognoses based on the community acquired-bloodstream infection patient data from 2017 to 2021.Patients and Methods: The data of 940 patients were retrieved, having at least one positive bilateral blood culture within 48 hours of hospitalization, and grouped into survivor and non-survivor groups. The clinical characteristics, laboratory results, causative pathogen and other indicators were collected and compared, and risk factors were identified by applying Cox proportional hazard regression model to the data.Results: Community acquired-bloodstream infection is most commonly caused by Escherichia coli, Klebsiella species and Staphylococcus hominis. Among the total of 940 selected patients, 52 (5.5%) died during hospitalization. The demographic parameters like age and gender, clinical protocols like maintenance hemodialysis, glucocorticoid use during hospitalization, catheter placement, procaicitonin, total protein, albumin, creatinine, uric acid contents and Sequential Organ Failure Assessment scores were significantly different between the survivor and non-survivor groups. The survival analysis results revealed that age (HR=1.02, 95% CI: 1.00– 1.05, P=0.002), glucocorticoid use during hospitalization (HR=3.69, 95% CI: 1.62– 8.37, P=0.021) and Sequential Organ Failure Assessment score (HR=1.10, 95% CI: 1.03– 1.18, P=0.004) might be the risk factors affecting 30-day mortality in patients with community acquired-bloodstream infection.Conclusion: The identified risk factors may help guide clinical treatment protocol for patients with community acquired-bloodstream infection, providing more effective treatment strategy selection with improved clinical outcomes.Keywords: prognosis, pathogen, clinical characteristics, treatment

Abstract In Argentina, migratory activity in search of floral diversity has become a common approach to maximizing honey production. The Entre Ríos province possesses a floral diversity that allows beekeepers to perform migratory or stationary management. Beyond the impact caused by transhumance, migratory colonies in this province start and end the season in monoculture areas. To study the effect of these practices on viral infection, we assayed for the presence, abundance and genetic characterization of the Deformed Wing Virus (DWV) in honey bees from apiaries with both types of management. In migratory apiaries, DWV was detectable in 86.2% of the colonies at the beginning of the season (September 2018), and 66% at the end of the season (March 2019). On the other hand, DWV was detected in 44.11% and 53.12% of stationary samples, at the beginning and the end of the season, respectively. Sequence analysis from migratory and stationary colonies revealed that all samples belonged to DWV-A type. The highest viral loads were detected in migratory samples collected in September. Higher DWV presence and abundance were associated with migratory management and the sampling time. Based on our findings we propose that the benefit of migration to wild flowering areas can be dissipated when the bee colonies end the season with monoculture.

The study was carried out during the 2022 agricultural season in the greenhouses belonging to the - College of Agricultural - Al-Ramadi, the study aimed to investigate the efficacy of alcoholic extract of Solanum eleaegnifolium, potassium silicate and ungicide Previcur Energy in normal and nano formula to control downy mildew disease on cucumber crops caused by the fungus Pseudoperonospora cubensis. The results showed that the normal potassium silicate treatment completely prevented the disease during the length of the season, with an infection severity rate of 0.00%, compared to infection with artificial contamination of 45.90%, followed by the treatment of nano fungicide 4.60%. While the treatments of alcoholic extract and nano of nightshade wild gave an infection severity of 7.12% and 8.67%, respectively, then the treatment of nano potassium silicate was 10.48%. In general, we find that the field experiment results have involved all treatments in increasing some growth characteristics such as plant height, fresh and dry weight, and the number of leaves.

Abstract The escalation of antibiotic resistance, pandemics, and nosocomial infections underscores the importance of research in both animal and human infectious diseases. Recent advancements in three-dimensional tissue cultures, or “organoids”, have revolutionized the development of in vitro models for infectious diseases. Our study conducts a bibliometric analysis on the use of organoids in modeling infectious diseases, offering an in-depth overview of this field’s current landscape. We examined scientific contributions from 2009 onward that focused on organoids in host‒pathogen interactions using the Web of Science Core Collection and OpenAlex database. Our analysis included temporal trends, reference aging, author, and institutional productivity, collaborative networks, citation metrics, keyword cluster dynamics, and disruptiveness of organoid models. VOSviewer, CiteSpace, and Python facilitated this analytical assessment. The findings reveal significant growth and advancements in organoid-based infectious disease research. Analysis of keywords and impactful publications identified three distinct developmental phases in this area that were significantly influenced by outbreaks of Zika and SARS-CoV-2 viruses. The research also highlights the synergistic efforts between academia and publishers in tackling global pandemic challenges. Through mostly consolidating research efforts, organoids are proving to be a promising tool in infectious disease research for both human and animal infectious disease. Their integration into the field necessitates methodological refinements for better physiological emulation and the establishment of extensive organoid biobanks. These improvements are crucial for fully harnessing the potential of organoids in understanding infectious diseases and advancing the development of targeted treatments and vaccines.

Abstract Background Infectious meningitis/encephalitis (IM) is a severe neurological disease that can be caused by bacterial, viral, and fungal pathogens. IM suffers high morbidity, mortality, and sequelae in childhood. Metagenomic next-generation sequencing (mNGS) can potentially improve IM outcomes by sequencing both pathogen and host responses and increasing the diagnosis accuracy. Methods Here we developed an optimized mNGS pipeline named comprehensive mNGS (c-mNGS) to monitor DNA/RNA pathogens and host responses simultaneously and applied it to 142 cerebrospinal fluid samples. According to retrospective diagnosis, these samples were classified into three categories: confirmed infectious meningitis/encephalitis (CIM), suspected infectious meningitis/encephalitis (SIM), and noninfectious controls (CTRL). Results Our pipeline outperformed conventional methods and identified RNA viruses such as Echovirus E30 and etiologic pathogens such as HHV-7, which would not be clinically identified via conventional methods. Based on the results of the c-mNGS pipeline, we successfully detected antibiotic resistance genes related to common antibiotics for treating Escherichia coli, Acinetobacter baumannii, and Group B Streptococcus. Further, we identified differentially expressed genes in hosts of bacterial meningitis (BM) and viral meningitis/encephalitis (VM). We used these genes to build a machine-learning model to pinpoint sample contaminations. Similarly, we also built a model to predict poor prognosis in BM. Conclusions This study developed an mNGS-based pipeline for IM which measures both DNA/RNA pathogens and host gene expression in a single assay. The pipeline allows detecting more viruses, predicting antibiotic resistance, pinpointing contaminations, and evaluating prognosis. Given the comparable cost to conventional mNGS, our pipeline can become a routine test for IM.

Despite the major role that insect pollinators play in crop production, agricultural intensification drives them into decline. Various conservation measures have been developed to mitigate the negative effects of agriculture on insect pollinators. In a novel comparison of the efficacy of three conservation measures on honeybee colony growth, we monitored experimental honeybee colonies in 16 landscapes that comprised orthogonal gradients of organic agriculture, annual flower strips and perennial semi‐natural habitats. Using structural equation modelling, we assessed the effects of conservation measures on the prevalence of 11 parasites, Varroa destructor loads and their collective impact on colony growth. Increasing area coverage of perennial semi‐natural habitat related to higher V. destructor load and indirectly to lower colony growth. Increasing area of annual flower strips was associated with lower V. destructor load and indirectly with higher colony growth. Increasing area of organic farming related to lower parasite richness and also directly to improved colony growth. Synthesis and applications: Landscape features can affect pollinators directly through the provision of food resources and indirectly through modulation of parasite prevalence. To promote honeybee colony health in agro‐ecosystems, our results suggest that organic agriculture and annual flower strips should be prioritized conservation measures. Landscape management should consider the merits and demerits of different measures to sustain healthy populations of pollinators in agro‐ecosystems. [ABSTRACT FROM AUTHOR]

Exosomes, a cutting-edge focal point in current research on plant-microbe interactions, are vesicles that encompass diverse biomolecular information including proteins, nucleic acids, lipids, and small molecules. They assume significant roles in the progression of plant-microbe interactions. The composition of exosomes plays a crucial role in determining their function as carriers of various biological information molecules. Therefore, the functional roles of exosomes in the interactions between plants and microorganisms can be revealed by analyzing their protein composition using proteomic techniques. This paper provides a comprehensive overview of the current research advancements in exosome proteomics within the context of plant-fungi and plant-bacteria interactions. The primary focus is on analyzing the protein composition of exosome and exploring their significance in plant disease resistance signaling and pathogen virulence. Additionally, this article suggests potential future directions for the development of exosomal proteomics, with the aim of shedding light on the underlying mechanisms involved in plant-microorganism interactions. [ABSTRACT FROM AUTHOR]

Airborne pathogens, though a minor fraction of airborne particles, can cause infections, intoxications, or allergic reactions through respiration, dermal contact, or ingestion. The SARS-CoV-2 pandemic has underscored the significance of mitigating airborne microbial threats. Traditional air ionization methods, such as dielectric barrier discharge and metal tip corona discharge, produce ozone, a reactive and potentially harmful byproduct. However, carbon-fiber ionizers (CFIs) generate high concentrations of ions with minimal ozone production, making them a safer alternative. Operating at voltages below 5 kV, CFIs are more efficient than their metallic counterparts. This review focuses on the antimicrobial efficacy of CFIs, which produce unipolar ions that can disrupt microbial membranes, leading to cell death. Compared to ultraviolet light sterilization, CFIs are cost-effective and suitable for small spaces. The literature review highlights the need for comprehensive studies to evaluate the real-world application and effectiveness of CFIs. Many existing studies are limited by small-scale testing and insufficient data reporting, complicating comparative analyses. Our work aims to provide a detailed perspective on CFIs, examining their impact on various microorganisms, ion efficacy, ionization outcomes, and ozone generation levels. By addressing these aspects, the review seeks to offer an updated understanding of CFIs' antimicrobial capabilities and to identify limitations in current research, paving the way for more informed and effective air purification strategies. [ABSTRACT FROM AUTHOR]

Redox reactions are fundamental to energy conversion in living cells, and also determine and tune responses to the environment. Within this context, the tripeptide glutathione plays numerous roles. As an important antioxidant, glutathione confers redox stability on the cell and also acts as an interface between signalling pathways and metabolic reactions that fuel growth and development. It also contributes to the assembly of cell components, biosynthesis of sulfur-containing metabolites, inactivation of potentially deleterious compounds, and control of hormonal signalling intensity. The multiplicity of these roles probably explains why glutathione status has been implicated in influencing plant responses to many different conditions. In particular, there is now a considerable body of evidence showing that glutathione is a crucial player in governing the outcome of biotic stresses. This review provides an overview of glutathione synthesis, transport, degradation, and redox turnover in plants. It examines the expression of genes associated with these processes during pathogen challenge and related conditions, and considers the diversity of mechanisms by which glutathione can influence protein function and gene expression. [ABSTRACT FROM AUTHOR]

Introduction: Vibrio alginolyticus is a Gram-negative, rod-shaped bacterium belonging to the family of Vibrionaceae, a common pathogen in aquaculture animals, However, studies on its impact on Scylla serrata (mud crabs) are limited. In this study, we isolated V. alginolyticus SWS from dead mud crab during a disease outbreak in a Hong Kong aquaculture farm, which caused up to 70% mortality during summer. Methods: Experimental infection and histopathology were used to investigate the pathogenicity of V. alginolyticus SWS in S. serrata and validate Koch's postulates. Comprehensive whole-genome analysis and phylogenetic analysis antimicrobial susceptibility testing, and biochemical characterization were also performed. Results: Our findings showed that V. alginolyticus SWS caused high mortality (75%) in S. serrata with infected individuals exhibiting inactivity, loss of appetite, decolored and darkened hepatopancreas, gills, and opaque muscle in the claw. Histopathological analysis revealed tissue damage and degeneration in the hepatopancreas, gills, and claw muscle suggesting direct and indirect impacts of V. alginolyticus SWS infection. Conclusions: This study provides a comprehensive characterization of V. alginolyticus SWS as an emerging pathogen in S. serrata aquaculture. Our findings underscore the importance of ongoing surveillance, early detection, and the development of targeted disease management strategies to mitigate the economic impact of vibriosis outbreaks in mud crab aquaculture. [ABSTRACT FROM AUTHOR]

Aquaculture is expanding globally, but intensive rearing conditions can cause diseases due to microbial infections leading to financial losses. Probiotics can be used in tilapia farming instead of antibiotics to improve fish health, growth and are environmentally friendly. We provide a synthesis (meta-analysis) of empirical findings to increase statistical power and produce strong evidence for well-informed decision-making with respect to the use of pro, pre, and synbiotics in tilapia culture. In this meta-analysis, we investigated the effects of dietary probiotics on the immune response modulation and resistance of tilapia against common diseases. A systematic search was performed, and the data from 67 studies were included for review and meta-analysis. Pre-challenge, dietary probiotics led to a significant increase (p < 0.001) in the weight gain and specific growth rate, a significant decrease (p < 0.001) in the feed conversion ratio, but a non-significant increase in survival (p > 0.05). However, probiotics significantly (p < 0.001) enhanced innate immunity based on serum lysozyme, phagocytotic activity, and phagocytotic index, while disease resistance (survival) of tilapia against pathogenic challenge was also significantly (p < 0.001) enhanced. From this study, three categories of probiotics were identified such as single-strain probiotics (SSP), multi-strain probiotics (MSP), and symbiotics (S). The use of synbiotics (probiotics + prebiotics) showed the best effect compared to other probiotic categories, however, more research is needed to ascertain the superiority of synbiotics over other categories. This study concluded that probiotics generally contribute significantly to the growth, immunity, and disease resistance of tilapia. [ABSTRACT FROM AUTHOR]

Aim: Plant herbivory and disease, which are often associated with each other but subject to different processes, are pivotal in biodiversity maintenance and ecosystem function. Although drivers of plant herbivory and disease have been widely studied separately, their relationships, patterns and determinants remain unclear in fragmented landscapes. Methods: We surveyed incidence and severity of foliar herbivory and disease of 2,027 adult trees within 30 sites in 17 tropical forest fragments in Xishuangbanna, southwestern China. We aim to explore the relationship of plant herbivory and disease, and effects of local environmental variables (forest type, plant richness, elevation, slope, soil properties) and landscape environmental variables (patch size, edge distance, isolation). Results: We found that incidence, but not severity of disease was positively correlated with that of herbivory. Herbivory severity and incidence were more associated with local variables; both increased with plant richness but decreased with soil nutrients and pH. In contrast, the landscape variable isolation was the dominant driver of disease, with lower severity and incidence in contiguous forests than forest fragments. Conclusion: In summary, we show that herbivory and disease are associated with drivers at different scales in fragmented landscapes. Herbivory is mainly driven by local-scale variables, while disease is mainly driven by landscape-scale variables. To control plant herbivory and disease in fragmented landscapes, increasing landscape connectivity and conserving different forest types are urgently required to maintain ecosystem functions under global land use change. [ABSTRACT FROM AUTHOR]

Background: Pneumonia is typically caused by a variety of pathogenic microorganisms. Traditional research often focuses on the infection of a few microorganisms, whereas metagenomic studies focus on the impact of the bacteriome and mycobiome on respiratory diseases. Reports on the virome characteristics of pediatric pneumonia remain relatively scarce. Methods: We employed de novo assembly and combined homology‐ and feature‐based methods to characterize the respiratory virome in whole‐genome DNA sequencing samples from oropharynx (OP) swabs, nasopharynx (NP) swabs, and bronchoalveolar lavage fluids (BALF) of children with pneumonia. Results: Significant differences were observed in the alpha and beta diversity indexes, as well as in the composition of the oropharyngeal virome, between pneumonia cases and controls. We identified 1137 viral operational taxonomic units (vOTUs) with significant differences, indicating a preference of pneumonia‐reduced vOTUs for infecting Prevotella, Neisseria, and Veillonella, whereas pneumonia‐enriched vOTUs included polyomavirus, human adenovirus, and phages targeting Staphylococcus, Streptococcus, Granulicatella, and Actinomyces. Comparative analysis revealed higher relative abundances and prevalence rates of pneumonia‐enriched OP vOTUs in NP and BALF samples compared to pneumonia‐reduced vOTUs. Additionally, virome analysis identified six pediatric patients with severe human adenovirus or polyomavirus infections, five of whom might have been undetected by targeted polymerase chain reaction (PCR)‐based testing. Conclusions: This study offers insights into pediatric pneumonia respiratory viromes, highlighting frequent transmission of potentially pathogenic viruses and demonstrating virome analysis as a valuable adjunct for pathogen detection. [ABSTRACT FROM AUTHOR]

The spread of infectious diseases such as COVID-19 depends on complex fluid dynamics interactions between pathogens and fluid phases, including individual droplets and multiphase clouds. Understanding these interactions is crucial for predicting and controlling disease spread. This applies to human and animal exhalations, such as coughs and sneezes, as well as bursting bubbles that create micron-sized droplets in various indoor and outdoor environments. By exploring case studies in this regard, this study examines the emerging field of fluid dynamics in disease transmission, focusing on multiphase flows, interfacial flows, turbulence, pathogens, human traffic, aerosol transmission, ventilation, and breathing microenvironments. These results indicate that increased ventilation rates and local ventilation methods can effectively reduce the concentration of SARS-CoV-2-laden aerosols in the immediate breathing spaces between individuals. In a displacement-ventilated room, both neutral and unstable conditions were more effective in removing breathed SARS-CoV-2-laden aerosols from the air, regardless of the presence of test subjects. However, stable conditions may increase the risk of infection in individuals living in confined spaces. Thus, the findings of this study are useful for providing practical guidance for managing the spread of airborne infections. [ABSTRACT FROM AUTHOR]

Microbial infections caused by bacteria, viruses, and fungi pose significant global health threats in diverse environments. While conventional disinfection methods are effective, their reliance on frequent chemical applications raises concerns about resistance and environmental impact. Photodynamic self-disinfecting surfaces have emerged as a promising alternative. These surfaces incorporate photosensitizers that, when exposed to light, produce reactive oxygen species to target and eliminate microbial pathogens. This review explores the concept and mechanism of photodynamic self-disinfecting surfaces, highlighting the variety and characteristics of photosensitizers integrated into surfaces and the range of light sources used across different applications. It also highlights the effectiveness of these surfaces against a broad spectrum of pathogens, including bacteria, viruses, and fungi, while also discussing their potential for providing continuous antimicrobial protection without frequent reapplication. Additionally, the review addresses both the advantages and limitations associated with photodynamic self-disinfecting surfaces and concludes with future perspectives on advancing this technology to meet ongoing challenges in infection control. [ABSTRACT FROM AUTHOR]

Both prokaryotic and eukaryotic organisms use the nucleotide-binding domain/leucine-rich repeat (NBD/LRR)-triggered immunity (NLR-triggered immunity) signaling pathway to defend against pathogens. Plant NLRs are intracellular immune receptors that can bind to effector proteins secreted by pathogens. Dicotyledonous plants express a type of NLR known as TIR domain-containing NLRs (TNLs). TIR domains are enzymes that catalyze the production of small molecules that are essential for immune signaling and lead to plant cell death. The activation of downstream TNL signaling components, such as enhanced disease susceptibility 1 (EDS1), phytoalexin deficient 4 (PAD4), and senescence-associated gene 101 (SAG101), is facilitated by these small molecules. Helper NLRs (hNLRs) and the EDS1-PAD4/SAG101 complex associate after activation, causing the hNLRs to oligomerize, translocate to the plasma membrane (PM), and produce cation-selective channels. According to a recent theory, cations enter cells through pores created by oligomeric hNLRs and trigger cell death. Occasionally, TNLs can self-associate to create higher-order oligomers. Here, we categorized soybean TNLs based on the protein domains that they possess. We believe that TNLs may help soybean plants effectively fight pathogens by acting as a source of genetic resistance. In summary, the purpose of this review is to elucidate the range of TNLs that are expressed in soybean.Key message: Proteins with Toll and interleukin-1 receptor (TIR) domains could be essential for soybean immune signaling pathways in response to biotic stresses. [ABSTRACT FROM AUTHOR]

Background: This study aimed to analyze the distribution of pathogens and antimicrobial resistance in bone and joint infections (BJIs) among children under four years old. Methods: A retrospective analysis was conducted on the clinical data of children under four years old who received inpatient treatment for BJIs at the Children's Hospital of Soochow University between January 2016 and December 2022. Results of bacterial culture and antimicrobial resistance were analyzed. Results: Among the 131 patients, 52 (39.7%) showed positive bacterial culture results. There were Gram-positive (G+) bacteria detected in 38 strains (73.07%), Gram-negative (G-) bacteria in 12 strains (23.08%), and fungi in 2 strains (3.85%). Thirty-one strains of Staphylococcus aureus (S. aureus) were detected (59.62%), including 7 MRSA strains (22.58%). The resistance rate of G+ bacteria to penicillin was 72.97%, while resistance to erythromycin and clindamycin was approximately 50%. No resistance was found against linezolid, vancomycin, and teicoplanin. G- bacteria showed a sensitivity of 100% to carbapenems, including meropenem, ertapenem, and imipenem, a resistance rate of 91.67% to ampicillin-sulbactam, and relatively high resistance rates to compound sulfamethoxazole, ampicillin/sulbactam, and piperacillin. Conclusions: Regional variations existed in the distribution of pathogens and antimicrobial resistance in children under four years old with BJIs. In our hospital, the most common pathogen is S. aureus, with MRSA accounting for approximately one-fourth of all S. aureus patients. Additionally, extended-spectrum β-lactamase (ESBL)-producing G- bacteria have been identified, underscoring the importance of careful consideration during empirical antibiotic therapy. [ABSTRACT FROM AUTHOR]

Simple Summary: Bovine tuberculosis is caused by Mycobacterium bovis, which causes tuberculosis in humans and animals. Diagnosis of bovine tuberculosis has relied on examination of immune responses to M. bovis; however, using these methods, disease detection during the earliest phases of infection has been difficult, allowing a window for cattle-to-cattle transmission to occur within a herd. Alternative means of diagnosis could include methods to detect M. bovis or M. bovis DNA in bodily fluids such as nasal secretions, saliva, or blood rather than the animal's response to infection. DNA-from M. bovis was detected in nasal swabs and saliva from a small number of experimentally infected calves during the first 8 weeks after experimental infection. Although DNA from M. bovis could be detected, no culturable M. bovis was recovered from nasal swabs or saliva. Moreover, M. bovis DNA was not found in blood samples collected weekly. Successful infection of all calves was demonstrated using an interferon gamma release assay. Identification of infected animals through the detection of M. bovis will require the use of alternative samples or alternative assays. Bovine tuberculosis is caused by Mycobacterium bovis, a member of the M. tuberculosis complex of mycobacterial species that cause tuberculosis in humans and animals. Diagnosis of bovine tuberculosis has relied on examinations of cell-mediated immune responses to M. bovis proteins using tuberculin skin testing and/or interferon gamma release assays. Even when using these methods, disease detection during the earliest phases of infection has been difficult, allowing a window for cattle-to-cattle transmission to occur within a herd. Alternative means of diagnosis could include methods to detect M. bovis or M. bovis DNA in bodily fluids such as nasal secretions, saliva, or blood. During the first 8 weeks after experimental aerosol infection of 18 calves, M. bovis DNA was detected in nasal swabs from a small number of calves 5, 6, and 8 weeks after infection and in samples of saliva at 1, 7, and 8 weeks after infection. However, at no time could culturable M. bovis be recovered from nasal swabs or saliva. M. bovis DNA was not found in blood samples collected weekly and examined by real-time PCR. Interferon gamma release assays demonstrated successful infection of all calves, while examination of humoral responses using a commercial ELISA identified a low number of infected animals at weeks 4–8 after infection. Examination of disease severity through gross lesion scoring did not correlate with shedding in nasal secretions or saliva, and calves with positive antibody ELISA results did not have more severe disease than other calves. [ABSTRACT FROM AUTHOR]

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Introduction: This study aimed to elucidate the bacterial profile of chronic rhinosinusitis (CRS) in patients with end‐stage renal disease (ESRD) and chronic kidney disease (CKD) compared with nonrenal patients, guiding antibiotic selection for clinicians. Methods: We retrospectively analyzed 13,906 inpatients from the Chang Gung Research Database who underwent sinus surgery (2004–2018). Patients were categorized into ESRD‐CRS, CKD‐CRS, and non‐CKD‐CRS based on the estimated glomerular filtration rate. Bacterial cultures from surgical samples were classified as facultative anaerobes or aerobes (e.g., Klebsiella pneumoniae [KP], Pseudomonas aeruginosa [Ps.a]), anaerobes, and fungi and ranked by prevalence. Results: Data from 47 ESRD‐CRS, 230 CKD‐CRS, and 13,123 non‐CKD‐CRS patients were analyzed. In ESRD‐CRS, the predominant species were KP (31.6%), Ps.a (21.1%), and Coagulase‐negative Staphylococcus (CoNS, 15.8%). CKD‐CRS showed Staphylococcus epidermidis (27.7%), CoNS (20.5%), and Ps.a (20.5%). Non‐CKD‐CRS had Staphylococcus epidermidis (29.8%), CoNS (25.0%), and Staphylococcus aureus (15.5%). For anaerobes, ESRD‐CRS was dominated by Fusobacterium nucleatum (10.5%) and Peptostreptococcus micros (10.5%), whereas CKD‐CRS and non‐CKD‐CRS showed Propionibacterium acnes as a primary strain (14.5% and 28.7%, respectively). Conclusion: For CRS in ESRD, antibiotics targeting KP and Fusobacterium nucleatum are recommended. In CKD‐CRS, a focus on Staphylococcus epidermidis and Propionibacterium acnes is suggested. Level of Evidence: 4 Laryngoscope, 134:3499–3507, 2024 [ABSTRACT FROM AUTHOR]

Background: Data on pyogenic liver abscess (PLA) of children in China have been limited. We aimed to summarize the clinical feather, microbiological characteristics, management, and outcome of PLA in children. Method: We retrospectively reviewed PLA cases from January 2008 to June 2023 at Beijing Children's Hospital. Clinical characteristics, pathogens and management were analyzed. Results: We diagnosed 57 PLA patients in our center. The median onset age was 4.5 years and the male-to-female ratio was 1.6:1. The median diagnostic time was nine days and the median length of stay was 22 days. Twenty-eight patients (49.1%) had predisposing factors, around 71.4% of the patients had malignant hematology and primary immunodeficiency disease. Patients with underlying factors were more likely to have extrahepatic organ involvement (p = 0.024), anemia (p < 0.001), single abscess (p = 0.042), unilateral involvement (p = 0.039), and small size of the abscess (p = 0.008). Twenty-four patients (42.1%) had extrahepatic organ involvement. Pathogens were identified in 17 patients (29.8%), the most common pathogens were Klebsiella pneumoniae and Staphylococcus aureus. The positive rate of metagenomic next-generation sequencing (mNGS) was 87.5% (7/8). On multivariable analysis, the extrahepatic organ involved (p = 0.029) and hepatomegaly (p = 0.025) were two independent factors associated with poor outcomes. Conclusions: PLA is usually seen in children with predisposing factors. Malignant hematology and primary immunodeficiency disease were the most common underlying diseases. Extrahepatic organ involvement and hepatomegaly are associated with poor prognosis. Increased use of mNGS could be beneficial for identifying pathogens. [ABSTRACT FROM AUTHOR]

Bloodstream infections (BSIs) are a critical medical concern, characterized by elevated morbidity, mortality, extended hospital stays, substantial healthcare costs, and diagnostic challenges. The clinical outcomes for patients with BSI can be markedly improved through the prompt identification of the causative pathogens and their susceptibility to antibiotics and antimicrobial agents. Traditional BSI diagnosis via blood culture is often hindered by its lengthy incubation period and its limitations in detecting pathogenic bacteria and their resistance profiles. Surface-enhanced Raman scattering (SERS) has recently gained prominence as a rapid and effective technique for identifying pathogenic bacteria and assessing drug resistance. This method offers molecular fingerprinting with benefits such as rapidity, sensitivity, and nondestructiveness. The objective of this study was to integrate deep learning (DL) with SERS for the rapid identification of common pathogens and their resistance to drugs in BSIs. To assess the feasibility of combining DL with SERS for direct detection, erythrocyte lysis and differential centrifugation were employed to isolate bacteria from blood samples with positive blood cultures. A total of 12,046 and 11,968 SERS spectra were collected from the two methods using Raman spectroscopy and subsequently analyzed using DL algorithms. The findings reveal that convolutional neural networks (CNNs) exhibit considerable potential in identifying prevalent pathogens and their drug-resistant strains. The differential centrifugation technique outperformed erythrocyte lysis in bacterial isolation from blood, achieving a detection accuracy of 98.68% for pathogenic bacteria and an impressive 99.85% accuracy in identifying carbapenem-resistant Klebsiella pneumoniae. In summary, this research successfully developed an innovative approach by combining DL with SERS for the swift identification of pathogenic bacteria and their drug resistance in BSIs. This novel method holds the promise of significantly improving patient prognoses and optimizing healthcare efficiency. Its potential impact could be profound, potentially transforming the diagnostic and therapeutic landscape of BSIs. [ABSTRACT FROM AUTHOR]

Objective: Metagenomic next-generation sequencing (mNGS) was used to analyze the etiological distribution of refractory pneumonia in children. We compared its efficacy in pathogen diagnosis against traditional methods to provide a basis for clinical adjustment and treatment. Methods: A total of 60 children with refractory pneumonia treated at the Department of Respiratory Medicine, Children's Hospital Affiliated with the Capital Institute of Paediatrics, from September 2019 to December 2021 were enrolled in this study. Clinical data (including sex, age, laboratory tests, complications, and discharge diagnosis) and lower respiratory tract specimens were collected, including bronchoalveolar lavage fluid (BALF), deep sputum, pleural effusion, lung abscess puncture fluid, traditional respiratory pathogens (culture, acid-fast staining, polymerase chain reaction, serological testing, etc.), and mNGS detection methods were used to determine the distribution of pathogens in children with refractory pneumonia and to compare the positive rate and diagnostic efficiency of mNGS and traditional pathogen detection for different types of pathogens. Results: Among the 60 children with refractory pneumonia, 43 specimens were positive by mNGS, and 67 strains of pathogens were detected, including 20.90% (14 strains) of which were Mycoplasma pneumoniae, 11.94% (8 strains) were Streptococcus pneumoniae, 7.46% (5 strains) were cytomegalovirus, and 5.97% (4 strains) were Candida albicans. Thirty-nine strains of Mycoplasma pneumoniae (41.03%, 16 strains), Streptococcus pneumoniae (10.26%, 4 strains), Candida albicans (7.69%, 3 strains), and Aspergillus (5.13%, 2 strains) were detected using traditional methods. The positive rate of mNGS detection was 90.48%, and the positive rate of the traditional method was 61.90% (p = 0.050), especially for G+ bacteria. The positive rate of mNGS was greater than that of traditional methods (p < 0.05), but they had no significant difference in detecting G-bacteria, viruses, fungi, or Mycoplasma/Chlamydia. Among the 60 patients, 21 had mixed infections, 25 had single infections, and the other 14 had unknown pathogens. Mycoplasma pneumoniae was most common in both mixed infections and single infections. The sensitivity, specificity, positive predictive value, and negative predictive value of mNGS were 95.45, 37.50, 80.77, and 75.00%, respectively. The sensitivity, specificity, positive predictive value, and negative predictive value of the traditional methods were 72.72, 62.50, 84.21, and 45.45%, respectively. The clinical compliance of mNGS was 80.00%, and that of the traditional method was 70.00%. The sensitivity and negative predictive value of mNGS were high, and the difference in the sensitivity for detecting G+ bacteria was statistically significant (p < 0.05). However, the differences in G-bacteria, fungi, and Mycoplasma/Chlamydia were not statistically significant (p > 0.05). Due to the small sample size, statistical analysis could not be conducted on viral infections. Conclusion: mNGS has higher overall efficacy than traditional methods for the etiological diagnosis of refractory pneumonia in children. The application of mNGS can significantly improve the detection rate of pathogens in children with refractory pneumonia. The sensitivity and negative predictive value of mNGS for detecting G+ bacteria are greater than those of other methods, and it can exclude the original suspected pathogenic bacteria. Unnecessary antibiotic use was reduced, but there was no statistically significant difference in G-bacteria, fungi, or Mycoplasma/Chlamydia. [ABSTRACT FROM AUTHOR]

The emergence of new infectious diseases poses a major threat to humans, animals, and broader ecosystems. Defining factors that govern the ability of pathogens to adapt to new host species is therefore a crucial research imperative. Pathogenic bacteria are of particular concern, given dwindling treatment options amid the continued expansion of antimicrobial resistance. In this review, we summarize recent advancements in the understanding of bacterial host species adaptation, with an emphasis on pathogens of humans and related mammals. We focus particularly on molecular mechanisms underlying key steps of bacterial host adaptation including colonization, nutrient acquisition, and immune evasion, as well as suggest key areas for future investigation. By developing a greater understanding of the mechanisms of host adaptation in pathogenic bacteria, we may uncover new strategies to target these microbes for the treatment and prevention of infectious diseases in humans, animals, and the broader environment. [ABSTRACT FROM AUTHOR]

Banana wilt diseases are among the most important banana production constraints worldwide. The narrow genetic diversity of cultivated bananas, coupled with the high variability of pathogens, has led to decimation of susceptible cultivars. Strict quarantine measures to exclude pathogens from disease-free areas and the use of resistant cultivars in already affected areas are the most effective control practices. Significant research efforts have been directed towards breeding additional resistant hybrids. Current research strategies for management of banana wilts have explored use of conventional breeding, somaclonal variation and genetic engineering. This review describes the recent spread, economic losses, management strategies and future research directions of the major banana wilts. [ABSTRACT FROM AUTHOR]

Plant enemies can influence plant community assembly and structure. However, it is unclear how insect herbivores and fungal pathogens affect seedling recruitment. Complex interactions with competition and resource availability make it difficult to isolate the effect of enemies. This uncertainty can impede understanding of community assembly drivers, species coexistence and trophic interactions; and limits hypothesis testing such as of the enemy release hypothesis, a key hypothesis in invasion biology. Using a novel species‐specific approach, we examine how enemies affect seedling survival and recruitment of 16 grassland species.We planted seedlings of 16 native species from two functional groups (C4 grasses and non‐legume forbs) into two grassland sites (early and mid‐succession). We hand‐painted 1512 individual seedlings with pesticides (insecticide and fungicide) over the course of one growing season to enforce aboveground species‐specific release from enemies and tested whether it enhanced survival relative to untreated controls. Applying treatments to individuals allowed us to test for the effect of enemies on plant performance while controlling for contexts such as competition from the resident community and resource levels.Release from insects increased seedling survival by 56% on average, with no additional benefit of release from fungal pathogens. This effect was observed for both forbs and C4 grasses across both sites and was strongest in resource‐acquisitive species. There was no effect of the mean phylogenetic distance between our target species and the resident plant community, or of light availability or soil moisture.Synthesis. The significant positive effect of release from insect herbivores on survival early in colonisation—a trend that held across functional groups and types of resident community—suggests insects play an important regulatory role in community assembly, especially for resource‐acquisitive species. As variation between species could be explained by traits but not by phylogeny, we emphasise the importance of trait‐based approaches to plant community ecology. Our results also support the key mechanism (increased performance following release from enemies) underlying the enemy release hypothesis. Enemy release may therefore aid initial recruitment of plants during the invasion process. [ABSTRACT FROM AUTHOR]

Growing evidence suggests a close relationship between gut microbiota and infectious diseases. However, the specific role of gut microbiota in host-pathogen interactions during aquaculture-related infections remains poorly understood. This study investigated the diversity and composition of gut microbiota communities in Aeromonas veronii-infected Lateolabrax maculatus using high-throughput sequencing. The results revealed significant changes in the structure and composition of L. maculatus gut microbiota after A. veronii infection. Over time, Bacteroidetes and Firmicutes decreased significantly, while Proteobacteria increased significantly after A. veronii infection. Most intestinal bacteria showed a decline in abundance over time, with probiotics (such as Lactobacillus) experiencing a significant decrease and pathogens (such as Aeromonas) showing a significant increase. Conversely, no differences were observed in the structure and composition of gut microbiota between healthy L. maculatus and those infected with A. veronii after treatment with Lactobacillus plantarum; no changes in relative abundances of other bacterial phyla or genera except for Aeromonas. Furthermore, intestinal flora's structural diversity and composition differed significantly from untreated L. maculatus infected with A. veronii. These findings suggest alterations in the structure and composition of gut microbiota following A. veronii infection. L. plantarum can maintain a dynamic balance within the intestinal flora, reducing the potential risk of pathogen infections. [ABSTRACT FROM AUTHOR]

This review encapsulates the roles of microRNAs (miRNAs), small endogenous noncoding RNAs, in mediating information exchange within plant organisms and between plants and diverse biological organisms. The mobility of miRNAs is focused upon various contexts, such as intraplant and interplant communication, grafting, and within parasitic plant complexes. Furthermore, the movement of miRNAs between plants and pathogens, as well as their transfer from plants to insects, is explored, underlining their broader biological significance. The possible mechanisms of miRNA mobility are summarized, including plasmodesmata (PD)-mediated, vesicle-mediated, and phloem-based transport, which are thoroughly examined. Finally, we discuss and summarize the biotechnological and agricultural applications of mobile miRNAs in crop improvement and disease resistance, pointing out future research directions and unresolved questions in the field. [ABSTRACT FROM AUTHOR]

Endocytosis represents a category of regulated active transport mechanisms. These encompass clathrin-dependent and -independent mechanisms, as well as fluid phase micropinocytosis and macropinocytosis, each demonstrating varying degrees of specificity and capacity. Collectively, these mechanisms facilitate the internalization of cargo into cellular vesicles. Pregnancy is one such physiological state during which endocytosis may play critical roles. A successful pregnancy necessitates ongoing communication between maternal and fetal cells at the maternal-fetal interface to ensure immunologic tolerance for the semi-allogenic fetus whilst providing adequate protection against infection from pathogens, such as viruses and bacteria. It also requires transport of nutrients across the maternal-fetal interface, but restriction of potentially harmful chemicals and drugs to allow fetal development. In this context, trogocytosis, a specific form of endocytosis, plays a crucial role in immunological tolerance and infection prevention. Endocytosis is also thought to play a significant role in nutrient and toxin handling at the maternal-fetal interface, though its mechanisms remain less understood. A comprehensive understanding of endocytosis and its mechanisms not only enhances our knowledge of maternal-fetal interactions but is also essential for identifying the pathogenesis of pregnancy pathologies and providing new avenues for therapeutic intervention. [ABSTRACT FROM AUTHOR]

Introduction: Due to the high-density farming of Larimichthys crocea over the years, diseases caused by pathogens such as bacteria, viruses, and parasites frequently occur in Ningbo, posing a huge threat and challenge to the sustainable and healthy development of the L. crocea's bay farming industry. In order to understand the diseases occurrence in L. crocea farming in Ningbo area, an epidemiological investigation of L. crocea diseases was carried out through regular sampling in 2023. Methods: From April to October 2023, routine sampling of L. crocea was conducted monthly in various farming areas in Ningbo. Each time, live or dying L. crocea with obvious clinical symptoms were sampled, with a total number of 55 L. crocea collected. The samples were preserved in ice bags and transported to the laboratory for pathogen detection(including bacterial isolation and identification, virus identification, and parasites detection). Results: A total of fifty-five fish dying L. crocea with obvious clinical symptoms were collected in this study, of which 78.18% (43/55) were detected with symptoms caused by pathogenic infection, while 21.82% (12/55) did not have identified pathogens, which were presumed to be breeding abrasions, nutritional metabolic disorders, unconventional pathogens infection or other reasons. A total of twenty-five pathogenic bacteria strains were isolated, which mainly were Pseudomonas plecoglossicida and Vibrio harveyi, accounting for 52% (13/25) and 32% (8/25) of the pathogenic bacteria strains, respectively. Among them, both V. harveyi and Streptococcus. iniae co-infected one fish. Additionally, three other bacterial strains including Nocardia seriolae, Staphylococcus Saprophyticus, and Photobacterium damselae subsp.damselae were isolated. Microscopic examination mainly observed two parasites, Cryptocaryon irritans and Neobenedenia girellae. In virus detection, the red sea bream iridovirus (RSIV) was mainly detected in L. crocea. Statistical analysis showed that among the fish with detected pathogens, 55.81% (24/43) had bacterial infections, 37.21% (16/43) had parasitic infections, and 37.21% (16/43) had RSIV infections. Among them, five fish had mixed infections of bacteria and parasites, three had mixed infections of bacteria and viruses, three had mixed infections of parasites and viruses, and one L. crocea had mixed infections of viruses, bacteria, and parasites. Discussion: These findings indicate that these three major types of diseases are very common in the L. crocea farming area in Ningbo, implying the complexity of mixed infections of multiple diseases. [ABSTRACT FROM AUTHOR]

In this study, we explore how transformer models, which are known for their attention mechanisms, can improve pathogen prediction in pastured poultry farming. By combining farm management practices with microbiome data, our model outperforms traditional prediction methods in terms of the F1 score—an evaluation metric for model performance—thus fulfilling an essential need in predictive microbiology. Additionally, the emphasis is on making our model's predictions explainable. We introduce a novel approach for identifying feature importance using the model's attention matrix and the PageRank algorithm, offering insights that enhance our comprehension of established techniques such as DeepLIFT. Our results showcase the efficacy of transformer models in pathogen prediction for food safety and mark a noteworthy contribution to the progress of explainable AI within the biomedical sciences. This study sheds light on the impact of effective farm management practices and highlights the importance of technological advancements in ensuring food safety. [ABSTRACT FROM AUTHOR]

Coconut (Cocos nucifera L.) is an important palm species that serves as the mainstay of several industries and contributes to the livelihoods of millions of smallholder farmers. International exchange of coconut germplasm has been undertaken for several decades to facilitate the conservation of selected varieties within global genebanks and for the distribution to farmers and scientists. In vitro systems are a convenient and an efficient method for the exchange of coconut germplasm. However, it is possible that these tissue culture systems can transfer lethal pathogens causing a threat to the importing countries. In this review, the following topics are discussed: the major disease-causing agents of concern, the various tissues that could be used for coconut germplasm exchange, and the techniques available for the detection and elimination of disease-causing agents from various transmission systems. Additionally, the lack of clear, science-backed guidelines to facilitate the exchange of in vitro coconut materials is raised, along with recommendations for future studies to ensure the safe movement of coconut germplasm without biosecurity risks. [ABSTRACT FROM AUTHOR]

Most species can be coinfected by multiple pathogens that may interact through shared resources (i.e., resource competition) or the host immune system (i.e., apparent competition). Community theory developed for free‐living organisms suggests that coinfecting pathogens can persist if they satisfy the mutual invasion criterion of coexistence, establishing infections in hosts that are already infected. Furthermore, the likelihood of coexistence may depend on host nutrition which can affect shared resources and host immunity. Here, we apply the novel approach of combining a dynamical model and experimental mutual invasibility trials to explore the effects of host nutrient supply on the coexistence of two viral plant pathogens. We focus on among‐pathogen interactions mediated by shared resources. First, we used a model to generate hypotheses about how nitrogen (N) and phosphorus (P) supply rates affect the ability of two plant viruses to invade established infections of the other virus. Then, we experimentally manipulated the N and P supplied to oats (Avena sativa) in a growth chamber experiment and tested mutual invasion of two RNA viral pathogens, BYDV‐PAV and CYDV‐RPV. Nutrient supplies ranged from rates that barely kept hosts alive up to high, but sub‐toxic, rates. Model simulations suggested that the viruses were more likely to invade established infections either when they could replicate at lower N and P concentrations or when plant N and P concentrations increased due to a combination of nutrient supply rates and resident virus nutrient use. In the experiment, each virus successfully invaded hosts infected by the other and had consistent growth rates across N and P supply rates. Our results suggest that BYDV‐PAV and CYDV‐RPV can coexist across a wide range environmental nutrient supply, which is consistent with the high levels of co‐occurrence of these two viruses in field populations. [ABSTRACT FROM AUTHOR]

Torreya taxifolia Arn. (Florida torreya) is a critically endangered (International Union for Conservation of Nature 3.1) conifer with a very limited native range in the USA, occurring in two counties in Florida and one in Georgia where it persists in ravines along the Apalachicola River. The species suffered a major decline, ∼ 99% loss, beginning in the 1930s, with a total population estimated at 357,500 in the early 1900s decreasing to 1,000 individuals currently remaining in the wild. The initial decline was attributed to an unknown fungal disease with Fusarium torreyae (T. Aoki, J. A. Smith, L. Mount, Geiser and O'Donnell), identified in 2011 as the causal agent of a canker disease. The objectives of this work were to develop genetic markers to uniquely identify individuals, examine the structure of the in situ population, and use an ex situ germplasm resource to determine if reproduction without fertilization (apomixis) occurs. We developed a panel of microsatellite markers, sampled individuals from three natural in situ populations, and found population structure at all levels tested. The markers were next applied to ex situ mothers, potential fathers, and progeny to investigate the occurrence of apomixis. One of 29 progeny seedlings tested and its mother had identical multilocus genotypes. The probability of observing this genotype by chance, given the mother and the two possible fathers' genotypes, is approximately one in ten. Based on these data, we cannot reject the hypothesis that apomixis occurs. Our finding of population structure suggests genotypes from as wide an area as possible are required to capture the diversity of the species in conservation efforts. The multiplexed marker panel can be used to identify individual accessions and assist with managing ex situ collections; however, they are not informative enough to clearly differentiate closely related individuals in the ex situ population. [ABSTRACT FROM AUTHOR]

Bacterial panicle blight (BPB) is an emerging rice disease in Nigeria, causing up to 75% yield loss and widespread globally. In the 2019 season, rice farmers in Zamfara State's Gusau, Talata Mafara, Maradun, and Bakura communities reported significant yield declines due to an unidentified disease. Infected samples suggested BPB as the cause, yet the pathogen had not been identified in Nigeria. A trial was conducted to identify and characterize BPB pathogens in Zamfara State, aiming to screen rice germplasm and find resistant sources. Infected rice grains from the region were collected and cultured on King's B medium at 37°C for 48 hours in the microbiology lab of Federal University Gusau. The bacteria were purified to single colonies and analyzed morphologically and via polymerase chain reaction (PCR), identifying the strain as Burkholderia glumae. This strain produced toxoflavin, a compound linked to its pathogenicity. PCR amplification of a 1079- bp fragment using gyrB-specific primers confirmed B. glumae as the BPB agent in Nigeria. A pathogenicity test was performed on three commercial rice varieties (Faro 44, FARO 56, and FARO 59) using the syringe inoculation method at the Biological Garden, Department of Biological Sciences, Federal University Gusau. All inoculated rice varieties exhibited typical BPB symptoms within three days, similar to those seen in naturally infected rice panicles. This confirmed B. glumae as the causative pathogen and highlighted the urgent need for resistant rice varieties. [ABSTRACT FROM AUTHOR]

Wild birds as source of pathogenic microorganisms infecting livestock and humans are an interesting topic that has received increased attention in recent years. Here we study occurrence of pathogenic bacteria in birds in north-east Iran with focus on to identifying virulence gene in wild and domestic birds. Wild birds were trapped and sampled in different localities in northeast Iran from April to September in 2018 and 2019. From 184 birds representing 32 species of wild passerine birds, potentially pathogenic bacteria were isolated from 171 samples (92.9). Escherichia coli was the most frequently isolated bacterium with a prevalence of 70.1%, followed by Enterobacter spp. (53.8%) and Salmonella spp (3.2%) isolated from 129, 99 and 6 wild birds, respectively. In total 79.6% of the isolates carried virulence factors. A higher frequency of virulence genes was detected in domestic birds (88.6%) than in wild birds (76%). The results showed that birds in north-east Iran can serve as a potential source of bacterial pathogens and virulence factors that may cause disease in both humans and birds. Furthermore, our results introduce new host birds as source of pathogenic microorganisms that can carry and disseminate them in the environment. [ABSTRACT FROM AUTHOR]