Salmonellosis outbreak with novel Salmonella enterica subspecies enterica serotype (11:z41:e,n,z15) attributable to sesame products in five European countries, 2016 to 2017

Meinen, Anika; Simon, Sandra; Banerji, Sangeeta; Szabó, István; Malorny, Burkhard; Blettner, Maria; Hadžiabdić, Sead; Becker, Natalie; Luber, Petra; Lohr, Dorothee; Harms, Carolin; Plenge‐Bönig, Anita; Mellou, Kassiani; Mandilara, Georgia; Mossong, Joël; Ragimbeau, Catherine; Weicherding, Pierre; Hau, Patrick; Dědičová, Daniela; Šafaříková, Lucie; Nair, Satheesh; Dallman, Timothy J.; Larkin, Lesley; McCormick, Jacquelyn; Pinna, Elizabeth de; Severi, Ettore; Kotila, Saara; Niskanen, Taina; Rizzi, V.; Deserio, Domenico; Flieger, Antje; Stark, Klaus

doi:10.2807/1560-7917.es.2019.24.36.1800543

Cited by 19 publications

(16 citation statements)

References 15 publications

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“…Our collection also included a novel serovar, derived from an outbreak related to sesame seeds 18 . Interestingly, the antigenic formula of this novel serovar was correctly identified by SeqSero demonstrating its effectiveness for classifying novel serovars.…”

Section: Discussionmentioning

confidence: 99%

Genome-based Salmonella serotyping as the new gold standard

Banerji

Simon

Tille

et al. 2020

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Salmonella enterica is the second most reported bacterial cause of food-borne infections in europe. therefore molecular surveillance activities based on pathogen subtyping are an important measure of controlling Salmonellosis by public health agencies. In Germany, at the federal level, this work is carried out by the national Reference center for Salmonella and other Bacterial enteric pathogens (nRc). With rise of next generation sequencing techniques, the NRC has introduced whole-genome-based typing methods for S. enterica in 2016. In this study we report on the feasibility of genome-based in silico serotyping in the German setting using raw sequence reads. We found that SeqSero and seven gene MLST showed 98% and 95% concordance, respectively, with classical serotyping for the here evaluated serotypes, including the most common German serotypes S. enteritidis and S. typhimurium as well as less frequently found serotypes. the level of concordance increased to >99% when the results of both in silico methods were combined. However, both tools exhibited misidentification of monophasic variants, in particular monophasic S. Typhimurium and therefore need to be fine-tuned for reliable detection of this epidemiologically important variant. We conclude that with adjustments Salmonella genomebased serotyping might become the new gold standard.Subtyping of bacterial enteric pathogens, such as Salmonella enterica, traditionally relies on serotyping. The species Salmonella enterica is divided into six subspecies and consists of more than 2600 serovars, which are classified according to the White-Kauffmann-Le Minor Scheme 1 . Serotyping is based on determination of somatic O antigens and flagellin H antigens by reaction with specific antisera. Most S. enterica serovars have two alternately expressed H antigens, also referred to as 'phases' . The phase-1 and phase-2 flagellin proteins are encoded by fliC and fljB, respectively. The phase switch is regulated by the invertase hin and the fliC repressor gene fljA 2 . Therefore, the specific antigenic formula consists of three positions: the first position represents the O antigens, the second and third positions the two different flagellin H antigens. Each antigen position is separated by a colon, i.e. O:H1:H2. The antigenic formula for S. Typhimurium for example is accordingly 1,4,[5],12:i:1,2. There are variants of S. Typhimurium, which express only one flagellin and which therefore are referred to as monophasic S. Typhimurium. S. Enteritidis on the other hand does not possess a second flagellin per se, which is reflected in the antigenic formula: 1,9,12:g,m:-. It should be noted that some serovars share the same antigenic formula and require additional testing for unambiguous identification, e.g. the clinically important serovar S. Chloeraesuis shares its antigenic formula 6,7:c:1,5 with serovars S. Paratyphi C and S. Typhisuis. A differentiation is possible based on biochemical characteristics or PCR 3 .With rise of next generation sequencing (NGS) techniques, genomic typing ...

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Section: Discussionmentioning

confidence: 99%

Genome-based Salmonella serotyping as the new gold standard

Banerji

Simon

Tille

et al. 2020

Sci Rep

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“…P. pentosaceus is a strain of LAB that not only enhances the flavour and preservation of food agents but also inhibits colonization by pathogenic bacteria. Many foodborne pathogens colonize food and multiply to cause food decay and poisoning, such as Salmonella [ 73 ], Escherichia coli [ 74 ] and Listeria [ 75 ]. P. pentosaceus behaves as a good antipathogen agent when faced with such harmful bacteria.…”

Section: Antimicrobial Propertiesmentioning

confidence: 99%

Pediococcus pentosaceus, a future additive or probiotic candidate

et al. 2021

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Background Pediococcus pentosaceus, a promising strain of lactic acid bacteria (LAB), is gradually attracting attention, leading to a rapid increase in experimental research. Due to increased demand for practical applications of microbes, the functional and harmless P. pentosaceus might be a worthwhile LAB strain for both the food industry and biological applications. Results As an additive, P. pentosaceus improves the taste and nutrition of food, as well as the storage of animal products. Moreover, the antimicrobial abilities of Pediococcus strains are being highlighted. Evidence suggests that bacteriocins or bacteriocin-like substances (BLISs) produced by P. pentosaceus play effective antibacterial roles in the microbial ecosystem. In addition, various strains of P. pentosaceus have been highlighted for probiotic use due to their anti-inflammation, anticancer, antioxidant, detoxification, and lipid-lowering abilities. Conclusions Therefore, it is necessary to continue studying P. pentosaceus for further use. Thorough study of several P. pentosaceus strains should clarify the benefits and drawbacks in the future.

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“…Using WGS, a very close genetic relationship of isolates from different countries was observed and further epidemiological analysis revealed sesame products, processed in a Greek factory, as vehicles of infection. Samples from raw material and processed food acquired in the course of the event, tested positive for S. Vari and could be confidently attributed to human cases by WGS, taking into account the epidemiological data ( Meinen et al, 2019 ).…”

Section: Resultsmentioning

confidence: 99%

Toward an Integrated Genome-Based Surveillance of Salmonella enterica in Germany

et al. 2021

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Despite extensive monitoring programs and preventative measures, Salmonella spp. continue to cause tens of thousands human infections per year, as well as many regional and international food-borne outbreaks, that are of great importance for public health and cause significant socio-economic costs. In Germany, salmonellosis is the second most common cause of bacterial diarrhea in humans and is associated with high hospitalization rates. Whole-genome sequencing (WGS) combined with data analysis is a high throughput technology with an unprecedented discriminatory power, which is particularly well suited for targeted pathogen monitoring, rapid cluster detection and assignment of possible infection sources. However, an effective implementation of WGS methods for large-scale microbial pathogen detection and surveillance has been hampered by the lack of standardized methods, uniform quality criteria and strategies for data sharing, all of which are essential for a successful interpretation of sequencing data from different sources. To overcome these challenges, the national GenoSalmSurv project aims to establish a working model for an integrated genome-based surveillance system of Salmonella spp. in Germany, based on a decentralized data analysis. Backbone of the model is the harmonization of laboratory procedures and sequencing protocols, the implementation of open-source bioinformatics tools for data analysis at each institution and the establishment of routine practices for cross-sectoral data sharing for a uniform result interpretation. With this model, we present a working solution for cross-sector interpretation of sequencing data from different sources (such as human, veterinarian, food, feed and environmental) and outline how a decentralized data analysis can contribute to a uniform cluster detection and facilitate outbreak investigations.

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Salmonellosis outbreak with novel Salmonella enterica subspecies enterica serotype (11:z41:e,n,z15) attributable to sesame products in five European countries, 2016 to 2017

Cited by 19 publications

References 15 publications

Genome-based Salmonella serotyping as the new gold standard

Genome-based Salmonella serotyping as the new gold standard

Pediococcus pentosaceus, a future additive or probiotic candidate

Toward an Integrated Genome-Based Surveillance of Salmonella enterica in Germany

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