Virulence and resistance genes profiles and clonal relationships of non-typhoidal food-borne Salmonella strains isolated in Tunisia by whole genome sequencing

Hassena, Amal Ben; Haendiges, Julie; Zormati, Sonia; Guermazi, Sonda; Gdoura, Radhouane; González-Escalona, Narjol; Siala, Mariam

doi:10.1016/j.ijfoodmicro.2020.108941

Cited by 32 publications

(25 citation statements)

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“…A drug targeting this toxin might help alleviate these symptoms. Cell death is caused by the toxin cdtB, which may be found in the cytolethal distending toxin gene (cdtB) [23]. The results of this research con rmed those of [24] who found the presence of the cdtB gene in all Salmonella typhi isolates Similarly, [25] discovered that the ctdB gene was present in all Salmonella typhi isolates.…”

Section: Discussionsupporting

confidence: 68%

Occurrences and Virulence Genes Detection of Salmonella Typhi Isolates Among Patients With Typhoid Fever

Al-Khafaji

2022

Preprint

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in low and middle-income countries, Typhoid fever is a major public health problem globally. The intensity of Salmonella's pathogenesis is determined by the presence of numerous virulence factors expressed on Salmonella pathogenicity islands (SPIs). Study objectives included determining the occurrence of Salmonella typhi in typhoid fever by age, gender and determine the antibiogram profile against many routinely administered antibiotics. 166 samples of blood and feces were obtained from clinically suspicious patients at the Al-Najaf Public Health Department. This study took place between October 2020 and April 2021. Cultural and biochemical testing was used to identify the specimens, followed by identification using the Vitek2 system. The current work used a simple PCR technique, It was shown that genes are often associated with Salmonella typhi pathogenicity. Antibiotic sensitivity testing was performed on each isolate with the use 10 different antibiotics. A simple PCR experiment was performed to determine the presence of genes often associated with virulence in Salmonella typhi; 95(57%). This study identified two genes associated with pathogenicity (ctdB and tviA). 95 (57%) of the 166 total isolates tested positive for ctdB, but additional virulence genes were discovered in all 71 (42.7%) tviA (typhi Vi) gene isolated strains. This gene may contribute to the S. typhi strain's invasiveness. In conclusion, We demonstrated that typhoid infection is a significant public health risk, affects people of all ages, although it is more common in children aged 1-10 years. The rise of multidrug-resistant Salmonella spp. has created a significant issue for clinicians in terms of disease treatment. However, the current investigation discovered that the antibiotics Imipeneme and Cefotaxime are still effective against Salmonella spp. As a result, suitable criteria for prescribing these antibiotics should be followed to avoid multi-drug resistance concerns.

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Section: Discussionsupporting

confidence: 68%

Occurrences and Virulence Genes Detection of Salmonella Typhi Isolates Among Patients With Typhoid Fever

Al-Khafaji

2022

Preprint

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“…Schwarzengrund isolated from animal and environmental sources contained the same virulence factors as those carried by human clinical isolates. Additionally, several fimbrial genes and type III secretion systems 1 and 2, involved in cell invasion and survival of bacteria within phagocytes, were common to all Salmonella isolates [ 45 ]. These genes are also present in other serovars and are part of core genes with essential functions in Salmonella serovars [ 46 ].…”

Section: Resultsmentioning

confidence: 99%

Genomic characteristics and comparative genomics of Salmonella enterica subsp. enterica serovar Schwarzengrund strain S16 isolated from chicken feces

et al. 2022

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Background Salmonella enterica subsp. enterica serovar Schwarzengrund (S. Schwarzengrund) is most frequently isolated from commensals humans or poultry. Here we report S. Schwarzengrund strain S16, the first sequenced genome in the Republic of Korea. Additionally, genome sequencing for strain S16 was performed and compared with other S. Schwarzengrund genomes obtained from public database. Results Strain S16 was isolated from chicken feces. The complete genome consists of one chromosome and one plasmid. The genome size is 4,822,755 bp with 4852 coding sequences. Strain S16 was determined as serovar Schwarzengrund by in silico serotyping and typed as sequence type (ST) 96. Forty-six S. Schwarzengrund genomes yielded a pangenome of 7112 genes, core-genome of 3374 genes, accessory-genome of 2906 genes, and unique-genome of 835 genes. Eighty-one genes were unique to strain S16, including hypothetical proteins and transcriptional regulators. Genotypic analysis of antibiotic resistance of strain S16 confirmed resistance to amikacin, ciprofloxacin, sulfamethoxazole, streptomycin, and tetracycline. Unlike other S. Schwarzengrund genomes, strain S16 had a mutation of gyrB. Moreover, similar to other S. Schwarzengrund genomes reported in other countries, strain S16 was harbored for 153 virulence genes including Saf operon and cdtB gene. All the antibiotic resistance genes and virulence genes were present in the core- or accessory-genomes. Conclusions Complete genome of strain S16 was sequenced. Comparative genomic analysis revealed several genes responsible for antibiotic resistance and specific genomic features of strain S16 and identified virulence factors that might contribute to the human and animal pathogenicity of other S. Schwarzengrund genomes.

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“…As a kind of WGS-based subtyping method, cgMLST has high accuracy and can divide strains with minor sequence differences into different cgMLST sequence types (cgSTs), providing a powerful typing approach for molecular epidemiologic investigations. It is most commonly applied for foodborne disease surveillance in the public health area ( Yoshida et al, 2016 ; Vincent et al, 2018 ; Ben Hassena et al, 2021 ). cgMLST is proven to be an adequate tool for cluster definition and has become a routine means in many countries and laboratories ( Mellmann et al, 2011 ; Sabat et al, 2017 ; Simon et al, 2018 ; Robertson et al, 2019 ; Wang Y. J. et al, 2020 ; Hyeon et al, 2021 ).…”

Section: Introductionmentioning

confidence: 99%

Serotyping, MLST, and Core Genome MLST Analysis of Salmonella enterica From Different Sources in China During 2004–2019

Yan

Zhang

et al. 2021

Front. Microbiol.

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Salmonella enterica (S. enterica) is an important foodborne pathogen, causing food poisoning and human infection, and critically threatening food safety and public health. Salmonella typing is essential for bacterial identification, tracing, epidemiological investigation, and monitoring. Serotyping and multilocus sequence typing (MLST) analysis are standard bacterial typing methods despite the low resolution. Core genome MLST (cgMLST) is a high-resolution molecular typing method based on whole genomic sequencing for accurate bacterial tracing. We investigated 250 S. enterica isolates from poultry, livestock, food, and human sources in nine provinces of China from 2004 to 2019 using serotyping, MLST, and cgMLST analysis. All S. enterica isolates were divided into 36 serovars using slide agglutination. The major serovars in order were Enteritidis (31 isolates), Typhimurium (29 isolates), Mbandaka (23 isolates), and Indiana (22 isolates). All strains were assigned into 43 sequence types (STs) by MLST. Among them, ST11 (31 isolates) was the primary ST. Besides this, a novel ST, ST8016, was identified, and it was different from ST40 by position 317 C → T in dnaN. Furthermore, these 250 isolates were grouped into 185 cgMLST sequence types (cgSTs) by cgMLST. The major cgST was cgST235530 (11 isolates), and only three cgSTs contained isolates from human and other sources, indicating a possibility of cross-species infection. Phylogenetic analysis indicated that most of the same serovar strains were putatively homologous except Saintpaul and Derby due to their multilineage characteristics. In addition, serovar I 4,[5],12:i:- and Typhimurium isolates have similar genomic relatedness on the phylogenetic tree. In conclusion, we sorted out the phenotyping and genotyping diversity of S. enterica isolates in China during 2004–2019 and clarified the temporal and spatial distribution characteristics of Salmonella from different hosts in China in the recent 16 years. These results greatly supplement Salmonella strain resources, genetic information, and traceability typing data; facilitate the typing, traceability, identification, and genetic evolution analysis of Salmonella; and therefore, improve the level of analysis, monitoring, and controlling of foodborne microorganisms in China.

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Virulence and resistance genes profiles and clonal relationships of non-typhoidal food-borne Salmonella strains isolated in Tunisia by whole genome sequencing

Cited by 32 publications

References 46 publications

Occurrences and Virulence Genes Detection of Salmonella Typhi Isolates Among Patients With Typhoid Fever

Occurrences and Virulence Genes Detection of Salmonella Typhi Isolates Among Patients With Typhoid Fever

Genomic characteristics and comparative genomics of Salmonella enterica subsp. enterica serovar Schwarzengrund strain S16 isolated from chicken feces

Serotyping, MLST, and Core Genome MLST Analysis of Salmonella enterica From Different Sources in China During 2004–2019

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