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1.
Front Immunol ; 15: 1457785, 2024.
Article in English | MEDLINE | ID: mdl-39257585

ABSTRACT

Controlled human infection model (CHIM) studies, which involve deliberate exposure of healthy human volunteers to an infectious agent, are recognised as important tools to advance vaccine development. These studies not only facilitate estimates of vaccine efficacy, but also offer an experimental approach to study disease pathogenesis and profile vaccine immunogenicity in a controlled environment, allowing correlation with clinical outcomes. Consequently, the data from CHIMs can be used to identify immunological correlates of protection (CoP), which can help accelerate vaccine development. In the case of invasive Salmonella infections, vaccination offers a potential instrument to prevent disease. Invasive Salmonella disease, caused by the enteric fever pathogens Salmonella enterica serovar Typhi (S. Typhi) and S. Paratyphi A, B and C, and nontyphoidal Salmonella (iNTS), remains a significant cause of mortality and morbidity in low- and middle-income countries, resulting in over 200,000 deaths and the loss of 15 million DALYs annually. CHIM studies have contributed to the understanding of S. Typhi infection and provided invaluable insight into the development of vaccines and CoP following vaccination against S. Typhi. However, CoP are less well understood for S. Paratyphi A and iNTS. This brief review focuses on the contribution of vaccine-CHIM trials to our understanding of the immune mechanisms associated with protection following vaccines against invasive Salmonella pathogens, particularly in relation to CoP.


Subject(s)
Salmonella Infections , Salmonella Vaccines , Humans , Salmonella Vaccines/immunology , Salmonella Infections/immunology , Salmonella Infections/prevention & control , Salmonella typhi/immunology , Vaccination , Vaccine Efficacy , Typhoid Fever/prevention & control , Typhoid Fever/immunology , Salmonella/immunology
2.
Front Immunol ; 15: 1454857, 2024.
Article in English | MEDLINE | ID: mdl-39263222

ABSTRACT

An oral Controlled Human Infection Model (CHIM) with wild-type S. Typhi was re-established allowing us to explore the development of immunity. In this model, ~55% of volunteers who received the challenge reached typhoid diagnosis criteria (TD), while ~45% did not (NoTD). Intestinal macrophages are one of the first lines of defense against enteric pathogens. Most organs have self-renewing macrophages derived from tissue-resident progenitor cells seeded during the embryonic stage; however, the gut lacks these progenitors, and all intestinal macrophages are derived from circulating monocytes. After infecting gut-associated lymphoid tissues underlying microfold (M) cells, S. Typhi causes a primary bacteremia seeding organs of the reticuloendothelial system. Following days of incubation, a second bacteremia and clinical disease ensue. S. Typhi likely interacts with circulating monocytes or their progenitors in the bone marrow. We assessed changes in circulating monocytes after CHIM. The timepoints studied included 0 hours (pre-challenge) and days 1, 2, 4, 7, 9, 14, 21 and 28 after challenge. TD participants provided extra samples at the time of typhoid diagnosis, and 48-96 hours later (referred as ToD). We report changes in Classical Monocytes -CM-, Intermediate Monocytes -IM- and Non-classical Monocytes -NCM-. Changes in monocyte activation markers were identified only in TD participants and during ToD. CM and IM upregulated molecules related to interaction with bacterial antigens (TLR4, TLR5, CD36 and CD206). Of importance, CM and IM showed enhanced binding of S. Typhi. Upregulation of inflammatory molecules like TNF-α were detected, but mechanisms involved in limiting inflammation were also activated (CD163 and CD354 downregulation). CM upregulated molecules to interact/modulate cells of the adaptive immunity, including T cells (HLA-DR, CD274 and CD86) and B cells (CD257). Both CM and IM showed potential to migrate to the gut as integrin α4ß7 was upregulated. Unsupervised analysis revealed 7 dynamic cell clusters. Five of these belonged to CM showing that this is the main population activated during ToD. Overall, we provide new insights into the changes that diverse circulating monocyte subsets undergo after typhoid diagnosis, which might be important to control this disease since these cells will ultimately become intestinal macrophages once they reach the gut.


Subject(s)
Monocytes , Salmonella typhi , Typhoid Fever , Humans , Typhoid Fever/diagnosis , Typhoid Fever/immunology , Salmonella typhi/immunology , Monocytes/immunology , Male , Adult , Female , Young Adult , Macrophages/immunology
3.
Microb Genom ; 10(9)2024 Sep.
Article in English | MEDLINE | ID: mdl-39254668

ABSTRACT

Typhoid fever is endemic in many parts of the world and remains a major public health concern in tropical and sub-tropical developing nations, including Fiji. To address high rates of typhoid fever, the Northern Division of Fiji implemented a mass vaccination with typhoid conjugate vaccine (Vi-polysaccharide conjugated to tetanus toxoid) as a public health control measure in 2023. In this study we define the genomic epidemiology of Salmonella Typhi in the Northern Division prior to island-wide vaccination, sequencing 85% (n=419) of the total cases from the Northern and Central Divisions of Fiji that occurred in the period 2017-2019. We found elevated rates of nucleotide polymorphisms in the tviD and tviE genes (responsible for Vi-polysaccharide synthesis) relative to core genome levels within the Fiji endemic S. Typhi genotype 4.2. Expansion of these findings within a globally representative database of 12 382 S. Typhi (86 genotyphi clusters) showed evidence of convergent evolution of the same tviE mutations across the S. Typhi population, indicating that tvi selection has occurred both independently and globally. The functional impact of tvi mutations on the Vi-capsular structure and other phenotypic characteristics are not fully elucidated, yet commonly occurring tviE polymorphisms localize adjacent to predicted active site residues when overlayed against the predicted TviE protein structure. Given the central role of the Vi-polysaccharide in S. Typhi biology and vaccination, further integrated epidemiological, genomic and phenotypic surveillance is required to determine the spread and functional implications of these mutations.


Subject(s)
Polysaccharides, Bacterial , Salmonella typhi , Typhoid Fever , Salmonella typhi/genetics , Fiji/epidemiology , Typhoid Fever/microbiology , Typhoid Fever/epidemiology , Humans , Polysaccharides, Bacterial/genetics , Genetic Heterogeneity , Typhoid-Paratyphoid Vaccines/genetics , Genotype , Mutation , Polymorphism, Single Nucleotide , Bacterial Capsules/genetics
4.
Nat Commun ; 15(1): 8414, 2024 Sep 28.
Article in English | MEDLINE | ID: mdl-39341826

ABSTRACT

Typhoidal Salmonella enterica serovars, such as Typhi and Paratyphi A, cause severe systemic infections, thereby posing a significant threat as human-adapted pathogens. This study focuses on cytolysin A (ClyA), a virulence factor essential for bacterial dissemination within the human body. We show that ClyA is exclusively expressed by intracellular S. Paratyphi A within the Salmonella-containing vacuole (SCV), regulated by the PhoP/Q system and SlyA. ClyA localizes in the bacterial periplasm, suggesting potential secretion. Deletion of TtsA, an essential Type 10 Secretion System component, completely abolishes intracellular ClyA detection and its presence in host cell supernatants. Host cells infected with wild-type S. Paratyphi A contain substantial ClyA, with supernatants capable of lysing neighboring cells. Notably, ClyA selectively lyses macrophages and erythrocytes while sparing epithelial cells. These findings identify ClyA as an intracellularly induced cytolysin, dependent on the SCV environment and secreted via a Type 10 Secretion System, with specific cytolytic activity.


Subject(s)
Bacterial Proteins , Salmonella paratyphi A , Vacuoles , Humans , Bacterial Proteins/metabolism , Bacterial Proteins/genetics , Animals , Mice , Vacuoles/metabolism , Salmonella paratyphi A/metabolism , Macrophages/microbiology , Macrophages/metabolism , Perforin/metabolism , Perforin/genetics , Salmonella typhi/metabolism , Virulence Factors/metabolism , Erythrocytes/metabolism , Cytotoxins/metabolism , Epithelial Cells/metabolism , Epithelial Cells/microbiology , Bacterial Secretion Systems/metabolism , Bacterial Secretion Systems/genetics , Gene Expression Regulation, Bacterial
5.
Lancet ; 404(10459): 1182-1183, 2024 Sep 28.
Article in English | MEDLINE | ID: mdl-39342956
6.
Medicina (Kaunas) ; 60(9)2024 Aug 27.
Article in English | MEDLINE | ID: mdl-39336445

ABSTRACT

Background and Objectives: In the undertaken study, proteomics alterations of blood-borne XDR S. Typhi isolated from Pakistan were investigated using mass spectrometry. Materials and Methods: MDR and XDR S. Typhi total protein lysates were fractionated, digested, and processed for nanoflow LC-LTQ-Orbitrap MS analysis. Results: Among the 1267 identified proteins, 37 were differentially regulated, of which 28 were up-regulated, and 9 were down-regulated in XDR S. Typhi as compared to MDR S. Typhi. Based on the functional annotation, proteins found up-regulated are involved mainly in metabolic pathways (ManA, FadB, DacC, GpmA, AphA, PfkB, TalA, FbaB, OtsA, 16504242), the biosynthesis of secondary metabolites (ManA, FadB, GlpB, GpmA, PfkB, TalA, FbaB, OtsA), microbial metabolism in diverse environments (FadB, GpmA, PfkB, NfnB, TalA, FbaB), and ABC transporters (PstS, YbeJ, MglB, RbsB, ArtJ). Proteins found down-regulated are involved mainly in carbon metabolism (FadB, GpmA, PfkB, FalA, FbaB) and the biosynthesis of amino acids (GpmA, PfkB, TalA, FbaB). Most of the identified differential proteins were predicted to be antigenic, and matched with resistome data. Conclusions: A total of 28 proteins were up-regulated, and 9 were down-regulated in XDR S. Typhi. Further characterization of the identified proteins will help in understanding the molecular signaling involved in the emergence of XDR S. Typhi.


Subject(s)
Salmonella typhi , Up-Regulation , Salmonella typhi/drug effects , Pakistan , Humans , Bacterial Proteins , Drug Resistance, Multiple, Bacterial/genetics , Typhoid Fever/microbiology , Proteomics/methods
7.
Front Immunol ; 15: 1384642, 2024.
Article in English | MEDLINE | ID: mdl-39328410

ABSTRACT

Despite decades of intense research, our understanding of the correlates of protection against Salmonella Typhi (S. Typhi) infection and disease remains incomplete. T follicular helper cells (TFH), an important link between cellular and humoral immunity, play an important role in the development and production of high affinity antibodies. While traditional TFH cells reside in germinal centers, circulating TFH (cTFH) (a memory subset of TFH) are present in blood. We used specimens from a typhoid controlled human infection model whereby participants were immunized with Ty21a live attenuated S. Typhi vaccine and then challenged with virulent S. Typhi. Some participants developed typhoid disease (TD) and some did not (NoTD), which allowed us to assess the association of cTFH subsets in the development and prevention of typhoid disease. Of note, the frequencies of cTFH were higher in NoTD than in TD participants, particularly 7 days after challenge. Furthermore, the frequencies of cTFH2 and cTFH17, but not cTFH1 subsets were higher in NoTD than TD participants. However, we observed that ex-vivo expression of activation and homing markers were higher in TD than in NoTD participants, particularly after challenge. Moreover, cTFH subsets produced higher levels of S. Typhi-specific responses (cytokines/chemokines) in both the immunization and challenge phases. Interestingly, unsupervised analysis revealed unique clusters with distinct signatures for each cTFH subset that may play a role in either the development or prevention of typhoid disease. Importantly, we observed associations between frequencies of defined cTFH subsets and anti-S. Typhi antibodies. Taken together, our results suggest that circulating TFH2 and TFH17 subsets might play an important role in the development or prevention of typhoid disease. The contribution of these clusters was found to be distinct in the immunization and/or challenge phases. These results have important implications for vaccines aimed at inducing long-lived protective T cell and antibody responses.


Subject(s)
Salmonella typhi , T Follicular Helper Cells , Typhoid Fever , Typhoid-Paratyphoid Vaccines , Humans , Salmonella typhi/immunology , Typhoid Fever/immunology , Typhoid Fever/prevention & control , Typhoid-Paratyphoid Vaccines/immunology , Typhoid-Paratyphoid Vaccines/administration & dosage , T Follicular Helper Cells/immunology , Male , Female , Adult , Antibodies, Bacterial/blood , Antibodies, Bacterial/immunology , Young Adult , Polysaccharides, Bacterial/immunology , Immunization , Administration, Oral , Adolescent
8.
PLoS One ; 19(9): e0300979, 2024.
Article in English | MEDLINE | ID: mdl-39283918

ABSTRACT

As the effectiveness of current treatments against the development of antimicrobial resistance is declining, new strategies are required. A great source of novel secondary metabolites with therapeutics effects are the endophytic bacteria present in medicinal plants. In this study, Klebsiella aerogenes (an endophytic bacteria belonging to the Enterobacteriaceae family) was isolated from Kalanchoe blossfeldiana (a medicinal plant". The bacterial secondary metabolites were identified using GC-MS techniques. Furthermore, the antibacterial potentials were investigated against multi-drug resistance (MDR) Salmonella typhi and Staphylococcus aureus. The GC-MS chromatogram of K. aerogenes secondary metabolites extract displayed total of 36 compounds. Ethyl acetate extracts of K. aerogenes, showed mean zone of growth inhibition of 15.00 ± 1.00 against S. typhi and 7.00 ± 1.00mm against S. aureus, respectively. The extract demonstrated significant antibacterial effectiveness against S. typhi and moderate antibacterial efficacy against S. aureus, with minimum inhibitory concentration (MIC) values ranging from 0.089 to 0.39 mg/mL. The time-kill kinetics profile of the ethyl acetate extract against S. typhi revealed a decrease in the number of viable cells during the initial 5, 6, and 24 hours. Conversely, there was a sudden increase in viable cells up to 6 hours for S. aureus. The identified secondary metabolite with high percentage than others, benzeneethanamine exhibited favorable interactions (-7.2 kcal/mol) with the penicillin-binding protein (PBP2a) of S. aureus and (-7.5 kcal/mol) osmoporin (OmpC) of S. typhi, indicating its potential as a candidate for drug development against these MDR bacteria. This study reported for the first time, bacterial endophytes associated with K. blossfeldiana with antibacterial activities.


Subject(s)
Anti-Bacterial Agents , Drug Resistance, Multiple, Bacterial , Enterobacter aerogenes , Microbial Sensitivity Tests , Staphylococcus aureus , Anti-Bacterial Agents/pharmacology , Anti-Bacterial Agents/chemistry , Drug Resistance, Multiple, Bacterial/drug effects , Enterobacter aerogenes/drug effects , Enterobacter aerogenes/metabolism , Staphylococcus aureus/drug effects , Salmonella typhi/drug effects , Secondary Metabolism , Plant Extracts/pharmacology , Plant Extracts/chemistry
9.
Carbohydr Polym ; 346: 122632, 2024 Dec 15.
Article in English | MEDLINE | ID: mdl-39245500

ABSTRACT

The fabrication of multi-component film with colloidal particles could be inconvenient. A novel "swell-permeate" (SP) strategy was proposed to form homogeneous multi-component films. The SP strategy allows colloidal particles to fit into the polymer network by stretching the polymer chains assisted by water. We demonstrated the strategy by creating films with polysaccharide substrates as ß-cyclodextrin grafted chitosan (CS) with nanocellulose. The addition of nanocellulose significantly increased the mechanical properties and the barrier performance of the films. The size of nanocellulose particles in affecting mechanical properties was investigated by applying different length of cellulose nanocrystal (CNC), the longer of which, due to denser physical entanglements, showed a better increase to the film in the elastic modulus and tensile strength to 4.54-fold and 5.71-fold, respectively. The films were also loaded with ethyl-p-coumarate (EpCA) and had an enhanced performance in anti-microbial for Altenaria alternata, Salmonella typhi, and Escherichia coli. The anti-oxidative property was increased as well, and both effects were valid both in vitro and in ready-to-eat apples. The strategy provides a practical and convenient method for fabricating colloidal particle containing films, and the novel idea of "swell-permeate" is potentially regarded as a new solution to the challenge of ready-to-eat food quality maintenance.


Subject(s)
Cellulose , Chitosan , Escherichia coli , Food Packaging , Nanoparticles , Tensile Strength , Chitosan/chemistry , Cellulose/chemistry , Escherichia coli/drug effects , Nanoparticles/chemistry , Anti-Bacterial Agents/chemistry , Anti-Bacterial Agents/pharmacology , Antioxidants/chemistry , Antioxidants/pharmacology , beta-Cyclodextrins/chemistry , Edible Films , Salmonella typhi/drug effects , Elastic Modulus
10.
BMJ Case Rep ; 17(9)2024 Sep 20.
Article in English | MEDLINE | ID: mdl-39306340

ABSTRACT

A woman in her early 20's presented with fever and unintentional weight loss of 4 kg over a period of 1 month and abdominal pain for 10 days. Empirical antibiotic therapy administered prior to hospitalisation was not successful. Evaluation for fever was unrewarding except for an abnormal ultrasound which showed two cysts with the largest dimension of 9 cm in the right adnexal region. All blood cultures were sterile. She underwent laparoscopic cystectomy. Bacterial culture of cyst fluid grew Salmonella enterica subspecies enterica serotype Typhi which was found to be resistant to fluoroquinolones. The case emphasises the fact that localised infection of the ovarian cyst can occur in extraintestinal salmonellosis that can have a negative blood culture and can mimic ovarian malignancy.


Subject(s)
Ovarian Cysts , Humans , Female , Ovarian Cysts/microbiology , Ovarian Cysts/diagnosis , Ovarian Cysts/complications , Ovarian Cysts/surgery , Anti-Bacterial Agents/therapeutic use , Young Adult , Salmonella Infections/diagnosis , Salmonella Infections/drug therapy , Salmonella Infections/microbiology , Diagnosis, Differential , Salmonella typhi/isolation & purification , Ultrasonography , Abdominal Pain/etiology
11.
Am J Trop Med Hyg ; 111(4): 848-852, 2024 Oct 02.
Article in English | MEDLINE | ID: mdl-39137766

ABSTRACT

Typbar-TCV®, a typhoid conjugate vaccine (TCV), was prequalified by the World Health Organization in 2017. We evaluated its effectiveness in a mass vaccination program targeting children 9 months to 14 years in Navi Mumbai, India, from September 2018 to July 2020. We compared laboratory-confirmed typhoid cases from six clinical sites with age-matched community controls. Of 38 cases, three (8.6%) received TCV through the campaign, compared with 53 (37%) of 140 controls. The adjusted odds ratio of typhoid fever among vaccinated children was 0.16 (95% CI: 0.05-0.55), equivalent to a vaccine effectiveness of 83.7% (95% CI: 45.0-95.3). Vaccine effectiveness of Typbar-TCV in this large public sector vaccine introduction was similar to prior randomized controlled trials, providing reassurance to policymakers that TCV effectiveness is robust in a large-scale implementation.


Subject(s)
Typhoid Fever , Typhoid-Paratyphoid Vaccines , Vaccines, Conjugate , Humans , Typhoid-Paratyphoid Vaccines/immunology , Typhoid-Paratyphoid Vaccines/administration & dosage , Typhoid Fever/prevention & control , Typhoid Fever/epidemiology , India/epidemiology , Child , Child, Preschool , Infant , Vaccines, Conjugate/immunology , Adolescent , Female , Male , Vaccine Efficacy , Salmonella typhi/immunology , Mass Vaccination
12.
Virulence ; 15(1): 2395831, 2024 Dec.
Article in English | MEDLINE | ID: mdl-39185619

ABSTRACT

Salmonella enterica serovar Typhi (S. Typhi) causes typhoid fever, a systemic infection that affects millions of people worldwide. S. Typhi can invade and survive within host cells, such as intestinal epithelial cells and macrophages, by modulating their immune responses. However, the immunomodulatory capability of S. Typhi in relation to TolC-facilitated efflux pump function remains unclear. The role of TolC, an outer membrane protein that facilitates efflux pump function, in the invasion and immunomodulation of S. Typhi, was studied in human intestinal epithelial cells and macrophages. The tolC deletion mutant of S. Typhi was compared with the wild-type and its complemented strain in terms of their ability to invade epithelial cells, survive and induce cytotoxicity in macrophages, and elicit proinflammatory cytokine production in macrophages. The tolC mutant, which has a defective outer membrane, was impaired in invading epithelial cells compared to the wild-type strain, but the intracellular presence of the tolC mutant exhibited greater cytotoxicity and induced higher levels of proinflammatory cytokines (IL-1ß and IL-8) in macrophages compared to the wild-type strain. These effects were reversed by complementing the tolC mutant with a functional tolC gene. Our results suggest that TolC plays a role in S. Typhi to efficiently invade epithelial cells and suppress host immune responses during infection. TolC may be a potential target for the development of novel therapeutics against typhoid fever.


Subject(s)
Bacterial Outer Membrane Proteins , Epithelial Cells , Macrophages , Salmonella typhi , Typhoid Fever , Salmonella typhi/pathogenicity , Salmonella typhi/immunology , Salmonella typhi/genetics , Humans , Macrophages/microbiology , Macrophages/immunology , Bacterial Outer Membrane Proteins/genetics , Bacterial Outer Membrane Proteins/metabolism , Bacterial Outer Membrane Proteins/immunology , Epithelial Cells/microbiology , Epithelial Cells/immunology , Typhoid Fever/immunology , Typhoid Fever/microbiology , Immunomodulation , Cytokines/metabolism , Cytokines/immunology , Microbial Viability , Interleukin-8/metabolism , Interleukin-1beta/metabolism , Interleukin-1beta/immunology , Cell Line
13.
Int J Infect Dis ; 147: 107187, 2024 Oct.
Article in English | MEDLINE | ID: mdl-39038733

ABSTRACT

OBJECTIVES: Typhoid remains a persistent contributor to childhood morbidity in communities lacking sanitation infrastructure. Typhoid conjugate vaccine (TCV) is effective in reducing disease risk in vaccinees; however, the duration of protection is unknown. This study measured the longevity of immune response to TCV in children aged under 10 years in Hyderabad, Pakistan, where an outbreak of extensively drug-resistant typhoid has been ongoing. METHODS: A subset of children who received the TCV as part of the outbreak response were enrolled purposively from March 2018 to February 2019. The participants were followed up until January 2023. Blood samples were taken at baseline, 4-6 weeks, 6 months, and annually 1-4 years after vaccination to measure anti-Vi immunoglobulin (Ig) G levels using enzyme-linked immunosorbent assay. Active phone-based surveillance was performed to identify breakthrough infections. Blood culture was offered to any child with a history of fever ≥3 days within the last 7 days. A total of 81 children received a second dose of TCV in November 2019 during a catch-up campaign organized by the Sindh government. RESULTS: Nearly all participants seroconverted (802 of 837; 95.8%) at 4-6 weeks after vaccination. A total of 4 years after vaccination, 438 of 579 (75.6%) participants remained above the seroconversion threshold. The geometric mean titer (U/mL) of anti-Vi IgG at 4-6 weeks was 832.6 (95% confidence interval [CI]: 768.0-902.6); at 4 years after vaccination, the geometric mean titers in children aged 6 months to 2 years (12.6, [95% CI: 9.8-16.3]) and >2-5 years (40.1, [95% CI: 34.4-46.6]) were lower than in children aged >5-10 years (71.1, [95% CI: 59.5-85.0]). During 4 years of follow-up, nine children had culture-confirmed Salmonella Typhi infection; these infections occurred after a median duration of 3.4 years. All enteric fever cases seroconverted at 4-6 weeks after vaccination and seven (70.0%) remained seroconverted 4 years after vaccination. CONCLUSIONS: We observed 95.8% seroconversion after a single dose of TCV. There was a decay in anti-Vi IgG titers, and, at 4 years, approximately 75.6% remained seroconverted. There was a faster decay in children aged ≤2 years. Breakthrough infections were documented after a median 3.4 years after vaccination.


Subject(s)
Antibodies, Bacterial , Immunoglobulin G , Salmonella typhi , Typhoid Fever , Typhoid-Paratyphoid Vaccines , Vaccines, Conjugate , Humans , Typhoid-Paratyphoid Vaccines/immunology , Typhoid-Paratyphoid Vaccines/administration & dosage , Pakistan/epidemiology , Typhoid Fever/prevention & control , Typhoid Fever/immunology , Typhoid Fever/epidemiology , Salmonella typhi/immunology , Child, Preschool , Female , Male , Antibodies, Bacterial/blood , Child , Immunoglobulin G/blood , Vaccines, Conjugate/immunology , Vaccines, Conjugate/administration & dosage , Infant , Vaccination/methods , Disease Outbreaks/prevention & control
14.
Lancet Microbe ; 5(8): 100841, 2024 Aug.
Article in English | MEDLINE | ID: mdl-38996496

ABSTRACT

BACKGROUND: Enteric fever is a serious public health concern. The causative agents, Salmonella enterica serovars Typhi and Paratyphi A, frequently have antimicrobial resistance (AMR), leading to limited treatment options and poorer clinical outcomes. We investigated the genomic epidemiology, resistance mechanisms, and transmission dynamics of these pathogens at three urban sites in Africa and Asia. METHODS: S Typhi and S Paratyphi A bacteria isolated from blood cultures of febrile children and adults at study sites in Dhaka (Bangladesh), Kathmandu (Nepal), and Blantyre (Malawi) during STRATAA surveillance were sequenced. Isolates were charactered in terms of their serotypes, genotypes (according to GenoTyphi and Paratype), molecular determinants of AMR, and population structure. We used phylogenomic analyses incorporating globally representative genomic data from previously published surveillance studies and ancestral state reconstruction to differentiate locally circulating from imported pathogen AMR variants. Clusters of sequences without any single-nucleotide variants in their core genome were identified and used to explore spatiotemporal patterns and transmission dynamics. FINDINGS: We sequenced 731 genomes from isolates obtained during surveillance across the three sites between Oct 1, 2016, and Aug 31, 2019 (24 months in Dhaka and Kathmandu and 34 months in Blantyre). S Paratyphi A was present in Dhaka and Kathmandu but not Blantyre. S Typhi genotype 4.3.1 (H58) was common in all sites, but with different dominant variants (4.3.1.1.EA1 in Blantyre, 4.3.1.1 in Dhaka, and 4.3.1.2 in Kathmandu). Multidrug resistance (ie, resistance to chloramphenicol, co-trimoxazole, and ampicillin) was common in Blantyre (138 [98%] of 141 cases) and Dhaka (143 [32%] of 452), but absent from Kathmandu. Quinolone-resistance mutations were common in Dhaka (451 [>99%] of 452) and Kathmandu (123 [89%] of 138), but not in Blantyre (three [2%] of 141). Azithromycin-resistance mutations in acrB were rare, appearing only in Dhaka (five [1%] of 452). Phylogenetic analyses showed that most cases derived from pre-existing, locally established pathogen variants; 702 (98%) of 713 drug-resistant infections resulted from local circulation of AMR variants, not imported variants or recent de novo emergence; and pathogen variants circulated across age groups. 479 (66%) of 731 cases clustered with others that were indistinguishable by point mutations; individual clusters included multiple age groups and persisted for up to 2·3 years, and AMR determinants were invariant within clusters. INTERPRETATION: Enteric fever was associated with locally established pathogen variants that circulate across age groups. AMR infections resulted from local transmission of resistant strains. These results form a baseline against which to monitor the impacts of control measures. FUNDING: Wellcome Trust, Bill & Melinda Gates Foundation, EU Horizon 2020, and UK National Institute for Health and Care Research.


Subject(s)
Anti-Bacterial Agents , Phylogeny , Salmonella paratyphi A , Salmonella typhi , Typhoid Fever , Humans , Bangladesh/epidemiology , Nepal/epidemiology , Typhoid Fever/epidemiology , Typhoid Fever/microbiology , Typhoid Fever/transmission , Typhoid Fever/drug therapy , Salmonella typhi/genetics , Salmonella typhi/drug effects , Child , Anti-Bacterial Agents/pharmacology , Adult , Child, Preschool , Malawi/epidemiology , Salmonella paratyphi A/genetics , Salmonella paratyphi A/drug effects , Male , Adolescent , Drug Resistance, Bacterial/genetics , Female , Infant , Paratyphoid Fever/epidemiology , Paratyphoid Fever/microbiology , Paratyphoid Fever/transmission , Paratyphoid Fever/drug therapy , Young Adult , Genotype , Genome, Bacterial/genetics , Microbial Sensitivity Tests , Middle Aged , Genomics
15.
Infect Genet Evol ; 123: 105632, 2024 Sep.
Article in English | MEDLINE | ID: mdl-38964564

ABSTRACT

OBJECTIVES: The aim of this study was to understand the status of extensively drug-resistance (XDR) genotype in Salmonella enterica serotype Typhi (S. Typhi) recovered during the pre to post COVID-19 pandemic period using Multiplex PCR. METHODS: A longitudinal descriptive study was carried out during five years. Antibiotic susceptibility testing was performed according to the Clinical Laboratory Standards Institute antimicrobial susceptibility testing guidelines. The identification of S. Typhi, the detection of their high-risk lineages and XDR genotype was done using single nucleotide polymorphism-based multiplex PCR. RESULTS: A total of four hundred nine (n = 409) S. Typhi isolates were recovered during pre to post COVID-19 pandemic period. Among them, 30.81% belonged to the pre COVID-19 period while 69.19% to the post COVID-19 period. Different trends in antibiotic resistance in S. Typhi isolates with high prevalence of XDR-S. Typhi were observed. However, there was comparatively different frequency of their occurrence among the S. Typhi isolates recovered during pre to post COVID-19 pandemic period. Multiplex PCR showed that the majority of S. Typhi isolates were the H58 haplotype or genotype 4.3.1 which contained XDR genotype. CONCLUSIONS: The increasing episodes of XDR-S. Typhi causing typhoid fever in endemic areas is alarming. The antibiotic resistance in food and water borne pathogens greatly contribute to the dissemination of the antimicrobial resistance in pathogenic bacteria, which has now been considered as a global concern.


Subject(s)
Anti-Bacterial Agents , COVID-19 , Salmonella typhi , Typhoid Fever , Humans , Salmonella typhi/drug effects , Salmonella typhi/genetics , COVID-19/epidemiology , Anti-Bacterial Agents/pharmacology , Typhoid Fever/epidemiology , Typhoid Fever/microbiology , SARS-CoV-2/genetics , SARS-CoV-2/drug effects , Adult , Male , Microbial Sensitivity Tests , Longitudinal Studies , Female , Child, Preschool , Child , Young Adult , Genotype , Adolescent , Middle Aged , Drug Resistance, Bacterial , Drug Resistance, Multiple, Bacterial/genetics , Infant , Multiplex Polymerase Chain Reaction
17.
Sci Rep ; 14(1): 17164, 2024 07 26.
Article in English | MEDLINE | ID: mdl-39060281

ABSTRACT

Salmonella Typhi is a human-restricted pathogen that is transmitted by the faecal-oral route and causative organism of typhoid fever. Using health facility data from 2016 to 2020, this study focuses on modelling the spatial variation in typhoid risk in Ndirande township in Blantyre. To pursue this objective, we developed a marked inhomogeneous Poisson process model that allows us to incorporate both individual-level and environmental risk factors. The results from our analysis indicate that typhoid cases are spatially clustered, with the incidence decreasing by 54% for a unit increase in the water, sanitation, and hygiene (WASH) score. Typhoid intensity was also higher in children aged below 18 years than in adults. However, our results did not show evidence of a strong temporal variation in typhoid incidence. We also discuss the inferential benefits of using point pattern models to characterise the spatial variation in typhoid risk and outline possible extensions of the proposed modelling framework.


Subject(s)
Salmonella typhi , Typhoid Fever , Humans , Typhoid Fever/epidemiology , Typhoid Fever/microbiology , Salmonella typhi/isolation & purification , Adolescent , Child , Malawi/epidemiology , Adult , Child, Preschool , Male , Female , Young Adult , Incidence , Infant , Risk Factors , Sanitation , Urban Population
18.
PLoS Negl Trop Dis ; 18(7): e0011848, 2024 Jul.
Article in English | MEDLINE | ID: mdl-39052692

ABSTRACT

BACKGROUND: Accurate diagnosis of enteric fever is challenging, particularly in low- and middle-income countries, due to the overlap of clinical and laboratory features with other pathogens. To better understand the difficulties in enteric fever diagnosis, we evaluated the characteristics of patients clinically diagnosed with enteric fever and the real-world performance of TUBEX TF, one of the most used tests in Indonesia. METHODOLOGY/PRINCIPAL FINDINGS: Patients were recruited through the AFIRE (Etiology of Acute Febrile Illness Requiring Hospitalization) study at eight Indonesian hospitals. Blood culture was performed for all patients, and TUBEX TF was performed for suspected enteric cases. Salmonella PCR and ELISA tests were performed at a reference lab. Sensitivity and specificity of TUBEX TF and IgM and IgG anti-S. Typhi ELISA were determined. Of 301 patients clinically diagnosed with enteric fever, 50 (16.6%) were confirmed by blood culture and/or PCR. Confirmed cases were mostly school-aged children presenting with fever, anorexia, dizziness and/or abdominal pain with normal leukocyte count or leukopenia. TUBEX TF demonstrated a sensitivity of 97.6% to 70.7% and specificity of 38.3% to 67.2% at cutoffs of 4 and 6, respectively. Acute IgG demonstrated the best sensitivity and specificity, at 90.7% and 82.7%, respectively, and the best ROC characteristics. CONCLUSIONS/SIGNIFICANCE: A substantial proportion of enteric fever was misdiagnosed at all study hospitals, likely due to the overlap of clinical characteristics and lab parameters with those of other common pathogens. The TUBEX TF rapid serological assay demonstrated suboptimal performance in our setting and tended to over-diagnose enteric fever. The role of IgG from acute specimens for identification of enteric fever cases merits additional consideration.


Subject(s)
Antibodies, Bacterial , Enzyme-Linked Immunosorbent Assay , Immunoglobulin G , Immunoglobulin M , Sensitivity and Specificity , Typhoid Fever , Humans , Immunoglobulin M/blood , Indonesia , Typhoid Fever/diagnosis , Typhoid Fever/immunology , Female , Male , Child , Child, Preschool , Adolescent , Antibodies, Bacterial/blood , Adult , Young Adult , Enzyme-Linked Immunosorbent Assay/methods , Immunoglobulin G/blood , Middle Aged , Infant , Hospitals , Salmonella typhi/immunology , Salmonella typhi/isolation & purification , Aged , Polymerase Chain Reaction/methods
19.
Ghana Med J ; 58(1): 86-90, 2024 Mar.
Article in English | MEDLINE | ID: mdl-38957275

ABSTRACT

Objective: This study aims to examine the frequency of Salmonella Paratyphi found in blood cultures and evaluate the antibiotic susceptibility pattern of Salmonella isolates to different antibiotics. Additionally, the study aims to assess the paradigm shift in the trend of enteric fever caused by Salmonella Typhi (S. Typhi) to Salmonella Paratyphi(S. Paratyphi) . Study Design: Retrospective study. Participant: The study enrolled patients aged 12 years and above diagnosed with enteric fever (positive blood culture) and admitted to Peelamedu Samanaidu Govindasamy Naidu (PSG) Hospital. Interventions: The study analyzed demographic and antibiotic susceptibility profiles of Salmonella isolates collected from 106 enteric fever patients in the hospital between 2010 and 2022. The susceptibility profiles of Salmonella isolates to multiple antibiotics were assessed. Results: There were 106 participants, and 95 (89.62%) of them had enteric fever linked to Salmonella Typhi, while only 11 (10.38%) had enteric fever linked to Salmonella Paratyphi A. From 2010 to 2022, the study discovered a general decline in the prevalence of enteric fever caused by Salmonella species. But between 2014 and 2022, the incidence of enteric fever linked to S. Typhi rapidly increased. Azithromycin (100% , n = 106) and ceftriaxone (99% , n = 105) were highly effective against the Salmonella isolates, whereas nalidixic acid was resisted by 3 isolates (4.72%, n = 3). Conclusion: The study observed a higher incidence of Salmonella Typhi in comparison to Paratyphi A and a greater susceptibility of males to enteric fever. Funding: None declared.


Subject(s)
Anti-Bacterial Agents , Microbial Sensitivity Tests , Salmonella paratyphi A , Salmonella typhi , Typhoid Fever , Humans , Male , Female , Anti-Bacterial Agents/pharmacology , Anti-Bacterial Agents/therapeutic use , Typhoid Fever/epidemiology , Typhoid Fever/microbiology , Typhoid Fever/drug therapy , Retrospective Studies , Salmonella typhi/drug effects , Salmonella typhi/isolation & purification , Salmonella paratyphi A/drug effects , Salmonella paratyphi A/isolation & purification , Adult , Adolescent , Child , Middle Aged , Young Adult , Paratyphoid Fever/epidemiology , Paratyphoid Fever/microbiology , Paratyphoid Fever/drug therapy , Incidence , Drug Resistance, Bacterial , Azithromycin/therapeutic use , Azithromycin/pharmacology , Ceftriaxone/therapeutic use , Ceftriaxone/pharmacology , Aged , Prevalence
20.
Clin Lab ; 70(7)2024 Jul 01.
Article in English | MEDLINE | ID: mdl-38965941

ABSTRACT

BACKGROUND: Salmonella typhi is a specific strain of the Salmonella bacterium, responsible for triggering typhoid fever; a significant public health concern in developing nations. OBJECTIVE: The current study aimed to identify the bacteria from the gallbladder, taken during cholecystectomies of patients, by isolating Salmonella typhi and by using microscopic characteristics, biochemical and polymerase chain reaction (PCR) tests. METHODS: A total of 120 specimens were collected from the Baghdad Teaching Hospital, Iraq. A cross-sectional descriptive study was carried out from October, 2021, to July, 2022. During that study, 26 (54.2%) male patient tested positive for Salmonella typhias well as 22 (45.8%) female patients. The age of the patients varied from < 30 to > 60 years. p-value > 0.05 was considered significant to confirm a relationship between age and Salmonella typhi effect for patients. RESULTS: Out of the 120 blood samples taken for this study, 48 (40%) tested positive by use of PCR test, 40 (33.3%) tested positive by use of the Widal test, 35 (29.1%) were positive for biopsy culture, and 35 (29.1%) were positive for blood culture. All Salmonella typhi isolates were found to be sensitive to the imipenem, cefepime, and ceftriaxone, but were resistant to gentamycin, ciprofloxacin, amikacin, erythromycin, and tetracycline (72%, 29%, 43%, 100%, 100%, respectively). CONCLUSIONS: The real time polymerase chain reaction (RT-PCR) tests and the Vitek 2 compact system showed a high level of accuracy in the detection of Salmonella typhi. Multidrug resistance was observed, which should be a signal to reduce antibiotic consumption.


Subject(s)
Cholecystectomy , Gallbladder , Salmonella typhi , Typhoid Fever , Humans , Salmonella typhi/isolation & purification , Salmonella typhi/genetics , Female , Male , Iraq , Adult , Middle Aged , Cross-Sectional Studies , Typhoid Fever/microbiology , Typhoid Fever/diagnosis , Gallbladder/microbiology , Anti-Bacterial Agents/pharmacology , Anti-Bacterial Agents/therapeutic use , Microbial Sensitivity Tests , Polymerase Chain Reaction/methods , Young Adult
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