Comparison of standardised versus non-standardised methods for testing the in vitro potency of oxytetracycline against mannheimia haemolytica and pasteurella multocida

The in vitro pharmacodynamics of oxytetracycline was established for six isolates of each of the calf pneumonia pathogens Mannheimia haemolytica and Pasteurella multocida. Minimum inhibitory concentration (MIC), minimum bactericidal concentration (MBC) and bacterial time-kill curves were determined in two matrices, Mueller Hinton broth (MHB) and calf serum. Geometric mean MIC ratios, serum:MHB, were 25.2:1 (M. haemolytica) and 27.4:1 (P. multocida). The degree of binding of oxytetracycline to serum protein was 52.4%. Differences between serum and broth MICs could not be accounted for by oxytetracycline binding to serum protein. In vitro time-kill data suggested a co-dependent killing action of oxytetracycline. The in vitro data indicate inhibition of the killing action of oxytetracycline by serum factor(s). The nature of the inhibition requires further study. The outcome of treatment with oxytetracycline of respiratory tract infections in calves caused by M. haemolytica and P. multocida may not be related solely to a direct killing action

Onderzoek naar residuen van antibiotica en chemotherapeutica bij slachtkippen

N.a.v. berichten als zou in Nederland, evenals in Belgie, ongeveer 4% van de slachtkippen antimicrobiele residuen bevatten zijn in de periode 1985-04-22 tot 1985-06-13 255 vleesmonsters microbiologisch gescreend op de aanwezigheid van antibiotica. Daarnaast werd met chemische methoden gekeken naar de aanwezigheid van chlooramfenicol, sulfonamiden en nitrofuranen

Transforming Shiga toxin-producing Escherichia coli surveillance through whole genome sequencing in food safety practices

IntroductionShiga toxin-producing Escherichia coli (STEC) is a gastrointestinal pathogen causing foodborne outbreaks. Whole Genome Sequencing (WGS) in STEC surveillance holds promise in outbreak prevention and confinement, in broadening STEC epidemiology and in contributing to risk assessment and source attribution. However, despite international recommendations, WGS is often restricted to assist outbreak investigation and is not yet fully implemented in food safety surveillance across all European countries, in contrast to for example in the United States.MethodsIn this study, WGS was retrospectively applied to isolates collected within the context of Belgian food safety surveillance and combined with data from clinical isolates to evaluate its benefits. A cross-sector WGS-based collection of 754 strains from 1998 to 2020 was analyzed.ResultsWe confirmed that WGS in food safety surveillance allows accurate detection of genomic relationships between human cases and strains isolated from food samples, including those dispersed over time and geographical locations. Identifying these links can reveal new insights into outbreaks and direct epidemiological investigations to facilitate outbreak management. Complete WGS-based isolate characterization enabled expanding epidemiological insights related to circulating serotypes, virulence genes and antimicrobial resistance across different reservoirs. Moreover, associations between virulence genes and severe disease were determined by incorporating human metadata into the data analysis. Gaps in the surveillance system were identified and suggestions for optimization related to sample centralization, harmonizing isolation methods, and expanding sampling strategies were formulated.DiscussionThis study contributes to developing a representative WGS-based collection of circulating STEC strains and by illustrating its benefits, it aims to incite policymakers to support WGS uptake in food safety surveillance

The benefits of whole genome sequencing for foodborne outbreak investigation from the perspective of a national reference laboratory in a smaller country

Gradually, conventional methods for foodborne pathogen typing are replaced by whole genome sequencing (WGS). Despite studies describing the overall benefits, National Reference Laboratories of smaller countries often show slower uptake of WGS, mainly because of significant investments required to generate and analyze data of a limited amount of samples. To facilitate this process and incite policy makers to support its implementation, a Shiga toxin-producing Escherichia coli (STEC) O157:H7 (stx1+, stx2+, eae+) outbreak (2012) and a STEC O157:H7 (stx2+, eae+) outbreak (2013) were retrospectively analyzed using WGS and compared with their conventional investigations. The corresponding results were obtained, with WGS delivering even more information, e.g., on virulence and antimicrobial resistance genotypes. Besides a universal, all-in-one workflow with less hands-on-time (five versus seven actual working days for WGS versus conventional), WGS-based cgMLST-typing demonstrated increased resolution. This enabled an accurate cluster definition, which remained unsolved for the 2013 outbreak, partly due to scarce epidemiological linking with the suspect source. Moreover, it allowed detecting two and one earlier circulating STEC O157:H7 (stx1+, stx2+, eae+) and STEC O157:H7 (stx2+, eae+) strains as closely related to the 2012 and 2013 outbreaks, respectively, which might have further directed epidemiological investigation initially. Although some bottlenecks concerning centralized data-sharing, sampling strategies, and perceived costs should be considered, we delivered a proof-of-concept that even in smaller countries, WGS offers benefits for outbreak investigation, if a sufficient budget is available to ensure its implementation in surveillance. Indeed, applying a database with background isolates is critical in interpreting isolate relationships to outbreaks, and leveraging the true benefit of WGS in outbreak investigation and/or prevention

Validation strategy of a bioinformatics whole genome sequencing workflow for Shiga toxin-producing Escherichia coli using a reference collection extensively characterized with conventional methods

Whole genome sequencing (WGS) enables complete characterization of bacterial pathogenic isolates at single nucleotide resolution, making it the ultimate tool for routine surveillance and outbreak investigation. The lack of standardization, and the variation regarding bioinformatics workflows and parameters, however, complicates interoperability among (inter)national laboratories. We present a validation strategy applied to a bioinformatics workflow for Illumina data that performs complete characterization of Shiga toxin-producing Escherichia coli (STEC) isolates including antimicrobial resistance prediction, virulence gene detection, serotype prediction, plasmid replicon detection and sequence typing. The workflow supports three commonly used bioinformatics approaches for the detection of genes and alleles: alignment with blast+, kmer-based read mapping with KMA, and direct read mapping with SRST2. A collection of 131 STEC isolates collected from food and human sources, extensively characterized with conventional molecular methods, was used as a validation dataset. Using a validation strategy specifically adopted to WGS, we demonstrated high performance with repeatability, reproducibility, accuracy, precision, sensitivity and specificity above 95 % for the majority of all assays. The WGS workflow is publicly available as a ‘push-button’ pipeline at https://galaxy.sciensano.be. Our validation strategy and accompanying reference dataset consisting of both conventional and WGS data can be used for characterizing the performance of various bioinformatics workflows and assays, facilitating interoperability between laboratories with different WGS and bioinformatics set-ups

Removal of diclofenac and sulfamethoxazole from aqueous solutions and wastewaters using a three-dimensional electrochemical process

The three-dimensional (3D) electrochemical treatment process was studied for the removal of two pharmaceuticals, diclofenac (anti-inflammatory) and sulfamethoxazole (antibiotic), in mono and bi-component systems. Adsorption and conventional two-dimensional electrochemical processes were initially studied and then combined to develop the 3D process. The influence of different operating parameters on the removal efficiency was studied: the distance between the cathode and the anode, the pharmaceutical and electrolyte (NaCl) concentrations, the pH, and the (carbon-based) adsorbent used as particulate electrode (biochar and commercial activated carbon, granulometry, and amount). The energy consumption and the electric energy per order were evaluated. The results demonstrate the efficiency of the 3D process for the removal of diclofenac and sulfamethoxazole from aqueous solutions, both for mono- and bi-component systems, achieving their complete removal respectively in 10 and 30 min, using a Mixed Metal Oxide anode (titanium-coated with RuO2-IrO2-TiO2), a stainless steel cathode, a biochar particulate electrode (1–2 mm), an initial pharmaceutical concentration of 10 mg/L, an inter-electrode distance of 7.5 cm, a pH value of 7 and a current density of 7 mA/cm2. The optimised 3D process was also successfully applied to a wastewater treatment plant effluent, but lower removal efficiencies were observed (after 30 min) for bi-component fortified samples; 49% for DCF and 86% for SMX, with energy consumptions of 1224 and 613 Wh/g and an electric energy per order of 19.1 and 8.77 kWh/m3 respectively. On the other hand, the pharmaceuticals were completely removed from the effluent when real concentrations (i.e. without their addition) were usedThis research was funded by the Associate Laboratory for Green Chemistry-LAQV, which is funded by Portuguese national funds through projects UIDB/50006/2020, UIDP/50006/20POCI-01–0247-FEDER-039882), sponsored by the Program “Portugal 2020″, and co-funded by “Fundo Europeu de Desenvolvimento Regional (FEDER)” through POCI. M.M.M. (CEECIND/02702/2017) is grateful for the financial support through national funds (FCT). P. Remor acknowledges FCT for the Ph.D. grant (SFRH/BD/020, and LA/P/0008/2020, from the Fundaç ão para a Ciência e a Tecnologia (FCT)/Ministério da Ciência, Tecnologia e Ensino Superior (MCTES). This research also was funded through project OXI-e3D (7543/2020)info:eu-repo/semantics/publishedVersio

Electroanalytical study of the pesticide asulam

The electrochemical behaviour of the herbicide Asulam was studied by cyclic and square wave voltammetry. Asulam may be irreversibly oxidised at a glassy carbon electrode. Maximum currents were obtained at pH=1.9 in aqueous electrolyte solution. Based on the electrochemical behaviour of Asulam, two analytical methodologies were developed for its determination in water samples, using square wave voltammetry (SWV) and flow injection analysis (FIA) coupled with an amperometric detector. Limits of detection of 7.1x10-6 mol L-1 and 1.2x10-8 mol L-1 for SWV and FIA respectively, were achieved. Repeatability was calculated by assessing the relative standard deviation (%) for 10 consecutive determinations of one sample. The found values were 2.1% for SWV and 5.0% for FIA. Validation of the results provided by SWV and FIA methodologies was performed by comparison with results from an HPLC-DAD technique. Good relative deviations were found (<5%). Recovery trials were performed to assess the accuracy of the results and the obtained values were between 84% and 107% for both methods