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The causative agents of leptospirosis are responsible for an emerging zoonotic disease worldwide. One of the major routes of transmission for leptospirosis is the natural environment contaminated with the urine of a wide range of reservoir animals. Soils and surface waters also host a high diversity of non-pathogenic Leptospira and species for which the virulence status is not clearly established. The genus Leptospira is currently divided into 35 species classified into three phylogenetic clusters, which supposedly correlate with the virulence of the bacteria. In this study, a total of 90 Leptospira strains isolated from different environments worldwide including Japan, Malaysia, New Caledonia, Algeria, mainland France, and the island of Mayotte in the Indian Ocean were sequenced. A comparison of average nucleotide identity (ANI) values of genomes of the 90 isolates and representative genomes of known species revealed 30 new Leptospira species. These data also supported the existence of two clades and 4 subclades. To avoid classification that strongly implies assumption on the virulence status of the lineages, we called them P1, P2, S1, S2. One of these subclades has not yet been described and is composed of Leptospira idonii and 4 novel species that are phylogenetically related to the saprophytes. We then investigated genome diversity and evolutionary relationships among members of the genus Leptospira by studying the pangenome and core gene sets. Our data enable the identification of genome features, genes and domains that are important for each subclade, thereby laying the foundation for refining the classification of this complex bacterial genus. We also shed light on atypical genomic features of a group of species that includes the species often associated with human infection, suggesting a specific and ongoing evolution of this group of species that will require more attention. In conclusion, we have uncovered a massive species diversity and revealed a novel subclade in environmental samples collected worldwide and we have redefined the classification of species in the genus. The implication of several new potentially infectious Leptospira species for human and animal health remains to be determined but our data also provide new insights into the emergence of virulence in the pathogenic species.

Monkeypox is a vesicular-pustular illness that carries a secondary attack rate in the order of 10% in contacts unvaccinated against smallpox. Case fatality rates range from 1 to 11%, but scarring and other sequelae are common in survivors. It continues to cause outbreaks in remote populations in Central and West Africa, in areas with poor access and weakened or disrupted surveillance capacity and information networks. Recent outbreaks in Nigeria (2017-18) and Cameroon (2018) have occurred where monkeypox has not been reported for over 20 years. This has prompted concerns over whether there have been changes in the biology and epidemiology of the disease that may in turn have implications for how outbreaks and cases should best be managed. A systematic review was carried out to examine reported data on human monkeypox outbreaks over time, and to identify if and how epidemiology has changed. Published and grey literature were critically analysed, and data extracted to inform recommendations on outbreak response, use of case definitions and public health advice. The level of detail, validity of data, geographical coverage and consistency of reporting varied considerably across the 71 monkeypox outbreak documents obtained. An increase in cases reported over time was supported by literature from the Democratic Republic of Congo (DRC). Data were insufficient to measure trends in secondary attack rates and case fatality rates. Phylogenetic analyses consistently identify two strains of the virus without evidence of emergence of a new strain. Understanding of monkeypox virulence with regard to clinical presentation by strain is minimal, with infrequent sample collection and laboratory analysis. A variety of clinical and surveillance case definitions are described in the literature: two definitions have been formally evaluated and showed high sensitivity but low specificity. These were specific to a Congo-Basin (CB) strain-affected area of the DRC where they were used. Evidence on use of antibiotics for prophylaxis against secondary cutaneous infection is anecdotal and limited. Current evidence suggests there has been an increase in total monkeypox cases reported by year in the DRC irrespective of advancements in the national Integrated Disease Surveillance and Response (IDSR) system. There has been a marked increase in number of individual monkeypox outbreak reports, from outside the DRC in between 2010 and 2018, particularly in the Central African Republic (CAR) although this does not necessarily indicate an increase in annual cases over time in these areas. The geographical pattern reported in the Nigeria outbreak suggests a possible new and widespread zoonotic reservoir requiring further investigation and research. With regards to outbreak response, increased attention is warranted for high-risk patient groups, and nosocomial transmission risks. The animal reservoir remains unknown and there is a dearth of literature informing case management and successful outbreak response strategies. Up-to-date complete, consistent and longer-term research is sorely needed to inform and guide evidence-based response and management of monkeypox outbreaks.

Microalgae represent a potential source of renewable nutrition and there is growing interest in algae-based dietary supplements in the form of whole biomass, e.g., Chlorella and Arthrospira, or purified extracts containing omega-3 fatty acids and carotenoids. The commercial production of bioactive compounds from microalgae is currently challenged by the biorefinery process. This review focuses on the biochemical composition of microalgae, the complexities of mass cultivation, as well as potential therapeutic applications. The advantages of open and closed growth systems are discussed, including common problems encountered with large-scale growth systems. Several methods are used for the purification and isolation of bioactive compounds, and many products from microalgae have shown potential as antioxidants and treatments for hypertension, among other health conditions. However, there are many unknown algal metabolites and potential impurities that could cause harm, so more research is needed to characterize strains of interest, improve overall operation, and generate safe, functional products.

Globally, aquaculture has faced serious economic problems due to bacterial, viral, and various other infectious diseases of different origins. Even though such diseases are being detected and simultaneously treated with several therapeutic and prophylactic methods, the broad-spectrum activity of vaccines plays a vital role as a preventive measure in aquaculture. However, treatments like use of antibiotics and probiotics seem to be less effective when new mutant strains develop and disease causing pathogens become resistant to commonly used antibiotics. Therefore, vaccines developed by using recent advanced molecular techniques can be considered as an effective way of treating disease causing pathogens in aquatic organisms. The present review emphasizes on the current advances in technology and future outlook with reference to different types of vaccines used in the aquaculture industries. Beginning with traditional killed/inactivated and live attenuated vaccines, this work culminates in the review of modern new generation ones including recombinant, synthetic peptides, mucosal and DNA, subunit, nanoparticle-based and plant-based edible vaccines, reverse vaccinology, and monovalent and polyvalent vaccines.

As the human population increases there is an increasing reliance on aquaculture to supply a safe, reliable, and economic supply of food. Although food production is essential for a healthy population, an increasing threat to global human health is antimicrobial resistance. Extensive antibiotic resistant strains are now being detected; the spread of these strains could greatly reduce medical treatment options available and increase deaths from previously curable infections. Antibiotic resistance is widespread due in part to clinical overuse and misuse; however, the natural processes of horizontal gene transfer and mutation events that allow genetic exchange within microbial populations have been ongoing since ancient times. By their nature, aquaculture systems contain high numbers of diverse bacteria, which exist in combination with the current and past use of antibiotics, probiotics, prebiotics, and other treatment regimens—singularly or in combination. These systems have been designated as “genetic hotspots” for gene transfer. As our reliance on aquaculture grows, it is essential that we identify the sources and sinks of antimicrobial resistance, and monitor and analyse the transfer of antimicrobial resistance between the microbial community, the environment, and the farmed product, in order to better understand the implications to human and environmental health.

Soil stabilization technology based on microbial-induced carbonate precipitation (MICP) has gained widespread interest in geotechnical engineering. MICP has been found to be able to improve soil strength, stiffness, liquefaction resistance, erosion resistance, while maintaining a good permeability simultaneously. MICP processes involves a series of biochemical reactions that are affected by many factors, both intrinsically and externally. This paper reviews various influential factors for MICP process, including bacterial species, concentration of bacteria, temperature, pH, composition and concentration of cementation solution, grouting strategies, and soil properties. Through this comprehensive review, we find that: (1) the species and strains of bacteria, concentration of bacteria solution, temperature, pH value, and the cementation solution properties all affect the characteristics of formed calcium carbonate, such as crystal type, appearance and size, which consequently affect the cementation degree and distribution in geomaterials; (2) the condition with temperature between 20 and 40 °C, pH between 7 and 9.5, the concentration of the cementation solution within 1 mol/L, and high bacteria concentration is optimal for applying MICP in soil. Under the optimal condition, relatively low temperature, high pH value, and low concentration of cementation solution could help retain permeability and vice versa; (3) the effective grain size ranging from 10 to 1000 µm. MICP treatment works most effectively for larger size, well-graded sand; (4) the multi-phase, multi-concentration or electroosmotic grouting method can improve the MICP treatment efficiency. The grouting velocity below 0.042 mol/L/h is beneficial for improving the utilization ratio of cementation solution. The recommended grouting pressure is generally between 0.1 and 0.3 bar for MICP applications in sand and should not exceed 1.1 bar for silty and clayey soils.

Avian influenza viruses (AIVs) are globally challenging due to widespread circulation and high mortality rates. Highly pathogenic avian influenza (HPAI) strains like H5N1 have caused significant outbreaks in birds. Since 2003 to 14 July 2023, the World Health Organization (WHO) has documented 878 cases of HPAI H5N1 infection in humans and 458 (52.16%) fatalities in 23 countries. Recent outbreaks in wild birds, domestic birds, sea lions, minks, and etc., and the occurrence of genetic variations among HPAI H5N1 strains raise concerns about potential transmission and public health risks. This paper aims to provide a comprehensive overview of the current understanding and new insights into HPAI H5N1. It begins with an introduction to the significance of studying this virus and highlighting the need for updated knowledge. The origin and evaluation of HPAI H5N1 are examined, shedding light on its emergence, and spread across different geographic regions. The genome organization and structural biology of the H5N1 virus are explored, providing insights into its molecular composition and key structural features. This manuscript also delves into the phylogeny, evolution, mutational trends, reservoirs, and transmission routes of HPAI H5N1. The immune response against HPAI H5N1 and its implications for vaccine development are analyzed, along with an exploration of the pathogenesis and clinical manifestations of HPAI H5N1 in human cases. Furthermore, diagnostic tools and preventive and therapeutic strategies are discussed, highlighting the current approaches and potential future directions for better management of the potential pandemic.

• Although it is well known that miRNAs play crucial roles in multiple biological processes, there is currently no evidence indicating that milRNAs from Fusarium oxysporum f. sp. lycopersici (Fol) interfere with tomato resistance during infection. • Here, using sRNA-seq, we demonstrate that Fol-milR1, a trans-kingdom small RNA, is exported into tomato cells after infection. • The knockout strain ΔFol-milR1 displays attenuated pathogenicity to the susceptible tomato cultivar ‘Moneymaker’. On the other hand, Fol-milR1 overexpression strains exhibit enhanced virulence against the resistant cultivar ‘Motelle’. Several tomato mRNAs are predicted targets of Fol-milR1. Among these genes, Solyc06g007430 (encoding the CBL-interacting protein kinase, SlyFRG4) is regulated at the posttranscriptional level by Fol-milR1. Furthermore, SlyFRG4 loss-of-function alleles created using CRISPR/Cas9 in tomato (‘Motelle’) exhibit enhanced disease susceptibility to Fol, further supporting the idea that SlyFRG4 is essential for tomato wilt disease resistance. Notably, our results using immunoprecipitation with specific antiserum suggest that Fol-milR1 interferes with the host immunity machinery by binding to tomato ARGONAUTE 4a (SlyAGO4a). Furthermore, virus-induced gene silenced (VIGS) knock-down SlyAGO4a plants exhibit reduced susceptibility to Fol. • Together, our findings support a model in which Fol-milR1 is an sRNA fungal effector that suppresses host immunity by silencing a disease resistance gene, thus providing a novel virulence strategy to achieve infection.

Mycogenic synthesis of medically applied zinc oxide (ZnO) and copper oxide (CuO) nanoparticles (NPs) were exploited using Penicillium chrysogenum. The biogenesis and capping processes of the produced nano-metals were conducted by functional fungal extracellular enzymes and proteins. The obtained ZnO-NPs and CuO-NPs were characterized. Also, the antibacterial activity and minimum inhibitory concentration (MIC) values of ZnO-NPs and CuO-NPs were determined. Also, antibiofilm and antifungal activities were investigated. Results have demonstrated the ability of the bio-secreted proteins to cape and reduce ZnO and CuO to hexagonal and spherical ZnO-NPs and CuO-NPs with particle size at 9.0–35.0 nm and 10.5–59.7 nm, respectively. Both ZnO-NPs and CuO-NPs showed high antimicrobial activities not only against Gram-positive and Gram-negative bacteria but also against some phytopathogenic fungal strains. Besides this, those NPs showed varied antibiofilm effects against different microorganisms. Quantitative and qualitative analyses indicated that CuO-NPs had an effective antibiofilm activity against Staphylococcus aureus and therefore can be applied in diverse medical devices. Thus, the mycogenic green synthesized ZnO-NPs and CuO-NPs have the potential as smart nano-materials to be used in the medical field to limit the spread of some pathogenic microbes.

The world is experiencing an energy crisis and environmental issues due to the depletion of fossil fuels and the continuous increase in carbon dioxide concentrations. Microalgal biofuels are produced using sunlight, water, and simple salt minerals. Their high growth rate, photosynthesis, and carbon dioxide sequestration capacity make them one of the most important biorefinery platforms. Furthermore, microalgae's ability to alter their metabolism in response to environmental stresses to produce relatively high levels of high-value compounds makes them a promising alternative to fossil fuels. As a result, microalgae can significantly contribute to long-term solutions to critical global issues such as the energy crisis and climate change. The environmental benefits of algal biofuel have been demonstrated by significant reductions in carbon dioxide, nitrogen oxide, and sulfur oxide emissions. Microalgae-derived biomass has the potential to generate a wide range of commercially important high-value compounds, novel materials, and feedstock for a variety of industries, including cosmetics, food, and feed. This review evaluates the potential of using microalgal biomass to produce a variety of bioenergy carriers, including biodiesel from stored lipids, alcohols from reserved carbohydrate fermentation, and hydrogen, syngas, methane, biochar and bio-oils via anaerobic digestion, pyrolysis, and gasification. Furthermore, the potential use of microalgal biomass in carbon sequestration routes as an atmospheric carbon removal approach is being evaluated. The cost of algal biofuel production is primarily determined by culturing (77%), harvesting (12%), and lipid extraction (7.9%). As a result, the choice of microalgal species and cultivation mode (autotrophic, heterotrophic, and mixotrophic) are important factors in controlling biomass and bioenergy production, as well as fuel properties. The simultaneous production of microalgal biomass in agricultural, municipal, or industrial wastewater is a low-cost option that could significantly reduce economic and environmental costs while also providing a valuable remediation service. Microalgae have also been proposed as a viable candidate for carbon dioxide capture from the atmosphere or an industrial point source. Microalgae can sequester 1.3 kg of carbon dioxide to produce 1 kg of biomass. Using potent microalgal strains in efficient design bioreactors for carbon dioxide sequestration is thus a challenge. Microalgae can theoretically use up to 9% of light energy to capture and convert 513 tons of carbon dioxide into 280 tons of dry biomass per hectare per year in open and closed cultures. Using an integrated microalgal bio-refinery to recover high-value-added products could reduce waste and create efficient biomass processing into bioenergy. To design an efficient atmospheric carbon removal system, algal biomass cultivation should be coupled with thermochemical technologies, such as pyrolysis.