Genomic characterisation of Salmonella enterica serovar Wangata isolates obtained from different sources reveals low genomic diversity

Simpson, K. M.; Mor, Siobhan M.; Ward, Michael P.; Collins, Julie; Flint, James; Hill-Cawthorne, Grant A.; Ghany, Moataz Abd El

doi:10.1371/journal.pone.0229697

Cited by 4 publications

(3 citation statements)

References 37 publications

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“…Salmonella enterica is a major foodborne pathogen of global importance, and its genomic diversity has been widely studied [67][68][69][70][71][72]. Subspecies I contains more than 1,500 of the total 2,600+ serotypes in the species and is of most importance with respect to human infections [73].…”

Section: Discussionmentioning

confidence: 99%

Genomic and Phenotypic Analysis of Salmonella enterica Bacteriophages Identifies Two Novel Phage Species

Bhandare,

Lawal,

Colavecchio

et al. 2024

Preprint

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Bacteriophages (phages) are potential alternatives to chemical antimicrobials against pathogens of public health significance. Understanding the diversity and host specificity of phages is important for developing effective phage biocontrol approaches. Here, we assessed the host range, morphology, and genetic diversity of eight Salmonella enterica phages isolated from a wastewater treatment plant. The host range analysis revealed that six out of eight phages lysed more than 81% of the 43 Salmonella enterica isolates tested. The genomic sequences of all phages were determined. Whole genome sequencing data (WGS) data revealed that phage genome sizes ranged from 41 to 114 kb with GC contents be-tween 39.9 and 50.0 %. Two of the phages SB13 and SB28 represent new species Epsep-timavirus SB13 and genera Macdonaldcampvirus, respectively as designated by the In-ternational Committee for the Taxonomy of Viruses (ICTV) as per genome based taxonomic classification. One phage (SB18) belonged to the Myoviridae morphotype while the re-maining phages belonged to the Siphoviridae morphotype. The gene content analyses showed that none of the phages possessed virulence, toxin, antibiotic resistance, type I-VI toxin-antitoxin modules or lysogeny genes. Three (SB3, SB15 and SB18) out of the eight phages possessed tailspike proteins. Whole genome-based phylogeny of the eight phages with their 113 homologs revealed three clusters A, B, C and seven subclusters (A1, A2, A3, B1, B2, C1 and C2). While cluster C1 phages were predominantly isolated from animal sources, cluster B contained phages from both wastewater and animal sources. The broad host range of these phages highlights their potential use to control the presence of S. enterica in foods.

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Section: Discussionmentioning

confidence: 99%

Genomic and Phenotypic Analysis of Salmonella enterica Bacteriophages Identifies Two Novel Phage Species

Bhandare,

Lawal,

Colavecchio

et al. 2024

Preprint

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show abstract

“…Suppose the antibiotic resistances seen in human bacterial isolates are closely related to those seen in animal Salmonella enterica Transmission and Antimicrobial Resistance Dynamics across One-Health… DOI: http://dx.doi.org/10.5772/intechopen.109229 isolates. In that case, it may be possible to identify animal sources of resistant bacteria in human infections that can be targeted to reduce human disease [76,90,91]. This can be done by determining if the resistances seen in human bacterial isolates are similar to those seen in animal isolates [92].…”

Section: Antimicrobial Resistance Of S Enterica From Humans Animals A...mentioning

confidence: 99%

Salmonella enterica Transmission and Antimicrobial Resistance Dynamics across One-Health Sector

Uzairue¹,

Shittu²

2024

Salmonella - Perspectives for Low-Cost Prevention, Control and Treatment

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From human infection to animal production and the environment, Salmonella enterica has become a global-threat. The pathogen’s dynamics have been determined by its transfer from sector to sector. Antibiotic-resistant bacteria can survive and proliferate in antibiotics. Misuse of antibiotics has made certain S. enterica resistant. The One-Health sector has antibiotic-resistant Salmonella (an approach that recognizes that human health is closely connected to the health of animals and the shared environment). According to certain studies, most animal and environmental S. enterica have virulence genes needed for human infections. S. enterica antibiotic resistance patterns have varied over the decades, resulting in pan-drug-resistant-strains. Plasmid-mediated fluoroquinolone resistance genes are found in One-Health Salmonella species. The S. enterica subspecies Typhi has been found to be extensively drug-resistant (XDR) in some areas. Cephalosporin-resistant S. enterica subspecies Typhi is a severe problem that underscores the need for Vi-conjugat-vaccines. New diagnostics for resistant-Salmonella in food, animal, environment, and human sectors are needed to control the spread of these deadly infections. Also, hygiene is essential as reduced transmissions have been recorded in developed countries due to improved hygienic practices. This chapter aims to discuss the transmission and antimicrobial resistance dynamics of S. enterica across the One-Health sector.

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“…[36][37][38][39] Comparative genomic data from invasive Salmonella data and those from the environment and food chain have shown relatedness between clinical isolates and other sources. 10,11,40 It has caused great concern as clinical S. enterica are resistant to the commonly used antibiotic, and some have been found to harbor extended-spectrum betalactamases (ESBL) genes which could make treatment difficult. [41][42][43][44][45][46] Recent data from surveillance has found non-typhoidal Salmonellae to be highly resistant to antimicrobials.…”

Section: Introductionmentioning

confidence: 99%

Antimicrobial resistance and virulence genes of invasive Salmonella enterica from children with bacteremia in north-central Nigeria

Uzairue,

Shittu,

Ojo

et al. 2023

SAGE Open Medicine

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Objectives: Bacteremia due to invasive Salmonella enterica has been reported earlier in children in Nigeria. This study aimed to detect the virulence and antibiotic resistance genes of invasive Salmonella enterica from children with bacteremia in north-central Nigeria. Method: From June 2015 to June 2018, 4163 blood cultures yielded 83 Salmonella isolates. This is a secondary cross-sectional analysis of the Salmonella isolates. The Salmonella enterica were isolated and identified using standard bacteriology protocol. Biochemical identifications of the Salmonella enterica were made by Phoenix MD 50 identification system. Further identification and confirmation were done with polyvalent antisera O and invA gene. Antimicrobial susceptibility testing was done following clinical and laboratory standard institute guidelines. Resistant genes and virulence genes were determined using a real-time polymerase chain reaction. Result: Salmonella typhi 51 (61.4%) was the most prevalent serovar, followed by Salmonella species 13 (15.7%), choleraesuis 8 (9.6%), enteritidis 6 (7.2%), and typhimurium 5 (6.1%). Fifty-one (61.4%) of 83 Salmonella enterica were typhoidal, while 32 (38.6%) were not. Sixty-five (78.3%) of the 83 Salmonella enterica isolates were resistant to ampicillin and trimethoprim-sulfamethoxazole, followed by chloramphenicol 39 (46.7%), tetracycline 41 (41.4%), piperacillin 33 (33.9%), amoxicillin-clavulanate, and streptomycin 21 (25.3%), while cephalothin was 19 (22.9%). Thirty-nine (46.9%) of the 83 Salmonella enterica isolates were multi-drug resistant, and none were extensive drug resistant or pan-drug resistant. A blaTEM 42 (50.6%), floR 32 (38.6%), qnrA 24 (28.9%), tetB 20 (20.1%), tetA 10 (10.0%), and tetG 5 (6.0%) were the antibiotic resistance genes detected. There were perfect agreement between phenotypic and genotypic detection of antimicrobial resistance in tetracycline, ciprofloxacin, and chloramphenicol, while beta-lactam showed κ = 0.60 agreement. All of the Salmonella enterica isolates had the virulence genes invA, sopB, mgtC, and sip4D, while 33 (39.8%), 45 (51.8%), and 2 (2.4%) had ssaQ, spvC, and ljsGI-1, respectively. Conclusion: Our findings showed multi-drug resistant Salmonella enterica in children with bacteremia in northern Nigeria. In addition, significant virulence and antimicrobial resistance genes were found in invasive Salmonella enterica in northern Nigeria. Thus, our study emphasizes the need to monitor antimicrobial resistance in Salmonella enterica from invasive sources in Nigeria and supports antibiotic prudence.

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Genomic characterisation of Salmonella enterica serovar Wangata isolates obtained from different sources reveals low genomic diversity

Cited by 4 publications

References 37 publications

Genomic and Phenotypic Analysis of Salmonella enterica Bacteriophages Identifies Two Novel Phage Species

Genomic and Phenotypic Analysis of Salmonella enterica Bacteriophages Identifies Two Novel Phage Species

Salmonella enterica Transmission and Antimicrobial Resistance Dynamics across One-Health Sector

Antimicrobial resistance and virulence genes of invasive Salmonella enterica from children with bacteremia in north-central Nigeria

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