Genotyping virulence and resistance profiles in salmonella isolated from diarrheic children in Nairobi city, Kenya
Gastroenterology and Hepatology from Bed to Bench,
Vol. 17 No. 4 (2024),
2 December 2024
https://doi.org/10.22037/ghfbb.v17i4.3026
Abstract
Aim: To characterize salmonella virulent and antibiotic resistance genes in children with diarrhea in Nairobi city, Kenya.
Background: Salmonella species carry virulent genes whose expression correlate with severity of salmonellosis. Effective treatment of salmonellosis by antibiotics is threatened by expression of antibiotic resistant genes.
Methods: In a cross-sectional study, a total of 374 children below five years presenting with diarrhea at Mbagathi County Hospital were recruited. Stool microbiology test was used to detect Salmonella species. Polymerase chain reaction was used to detect virulent and antibiotic resistant genes.
Results: Salmonella species was isolated in 9 (2.4%) children. A total of 9 (100.0%), 7(77.8%), 9 (100.0%) and 6 (66.6%) of the isolates harbored invA, Hila, sopB, and Stn virulent genes, respectively. None (0.0%) of the isolates was resistant to gentamycin but 7 (77.8%), 7 (77.8%), 9 (100.0%), 8 (88.9%), 7 (77.8%), 6 (66.7%) and 5 (55.6%) of Salmonella species were resistant to ampicillin, ceftriaxone, streptomycin, ciprofloxacin, chloramphenicol, erythromycin and tetracycline, respectively. Ampicillin (citm), ceftriaxone (bla CMY), streptomycin (aadA1), gentamycin (aac(3)-IV), ciprofloxacin (qnr), chloramphenicol (catA1), erythromycin (ereA) and tetracycline (tetA) resistant gene was detected in 6 (85.7%), 6 (85.7%), 9 (100.0%), 8 (100.0%), 6 (85.7%), 6 (100.0%), and 5 (100.0%) of Salmonella isolates that were phenotypic resistant to ampicillin, ceftriaxone, streptomycin, ciprofloxacin, chloramphenicol, erythromycin and tetracycline, respectively.
Conclusion: Salmonella species expressing virulent and antibiotic resistant genes is an important cause of gastroenteritis in children in Kenya
- Salmonella enterica
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References
GBD 2017 Non-Typhoidal Salmonella Invasive Disease Collaborators. The global burden of non-typhoidal salmonella invasive disease: a systematic analysis for the Global Burden of Disease Study 2017. Lancet Infect Dis 2019;19:1312–24.
Ahmad M, Khan AU. Global economic impact of antibiotic resistance: A review. J Glob Antimicrob Resist 2019;19:313–6.
Petano-Duque JM, Rueda-García V, Rondón-Barragán IS. Virulence genes identification in Salmonella enterica isolates from humans, crocodiles, and poultry farms from two regions in Colombia. Vet World 2023;16:2096–103.
Darwin KH, Miller VL. Molecular basis of the interaction of Salmonella with the intestinal mucosa. Clin Microbiol Rev 1999;12:405–28.
Zhao S, Xu Q, Cui Y, Yao S, Jin S, Zhang Q, et al. Salmonella effector SopB reorganizes cytoskeletal vimentin to maintain replication vacuoles for efficient infection. Nat Commun 2023;14:478.
Lucas RL, Lostroh CP, DiRusso CC, Spector MP, Wanner BL, Lee CA. Multiple factors independently regulate hilA and invasion gene expression in Salmonella enterica serovar typhimurium. J Bacteriol 2000;182:1872–82.
Sun H, Kamanova J, Lara-Tejero M, Galán JE. A family of salmonella type III secretion effector proteins selectively targets the NF-κB signaling Pathway to preserve host homeostasis. PLoS Pathog 2016;12:1005484.
Higgins D, Mukherjee N, Pal C, Sulaiman IM, Jiang Y, Hanna S, et al. Association of virulence and antibiotic resistance in salmonella-statistical and computational insights into a selected set of clinical isolates. Microorganisms 2020;8:1465.
Chen Z, Bai J, Wang S, Zhang X, Zhan Z, Shen H, et al. Prevalence, antimicrobial resistance, virulence genes and genetic diversity of salmonella isolated from retail duck meat in southern China. Microorganisms 2020;8:444.
Ochieng C, Chen JC, Osita MP, Katz LS, Griswold T, Omballa V, et al. Molecular characterization of circulating Salmonella Typhi strains in an urban informal settlement in Kenya. PLoS Negl Trop Dis 2022;16:0010704.
Leting SK, Musyoki SK, Maiyoh GK. Characterization and drug susceptibility pattern of Salmonella and Shigella in children below five years: a cross-sectional study conducted in Lodwar, Turkana County, in Northern Kenya. Pan Afr Med J 2022;42:13.
Kasiano P, Kavai S, Kiiru S, Nyerere A, Kariuki S. Typhoidal salmonella disease in Mukuru informal settlement, Nairobi Kenya; carriage, diversity, and antimicrobial resistant genes. PLoS One 2024;19:0298635.
Langata LM, Maingi JM, Musonye HA, Kiiru J, Nyamache AK. Antimicrobial resistance genes in Salmonella and Escherichia coli isolates from chicken droppings in Nairobi, Kenya. BMC Res Notes 2019;12:22.
Saraiva M de MS, Benevides VP, da Silva NMV, Varani A de M, de Freitas Neto OC, Berchieri Â, et al. Genomic and evolutionary analysis of salmonella enterica serovar kentucky sequence type 198 isolated from Livestock In East Africa. Front Cell Infect Microbiol 2022;12:772829.
Ngai DG, Nyamache AK, Ombori O. Prevalence and antimicrobial resistance profiles of Salmonella species and Escherichia coli isolates from poultry feeds in Ruiru Sub-County, Kenya. BMC Res Notes 2021;14:41.
Crump JA, Thomas KM, Benschop J, Knox MA, Wilkinson DA, Midwinter AC, et al. Investigating the meat pathway as a source of human nontyphoidal salmonella bloodstream infections and diarrhea in East Africa. Clin Infect Dis 2021;73:1570–8.
Tiedje JM, Fu Y, Mei Z, Schäffer A, Dou Q, Amelung W, et al. Antibiotic resistance genes in food production systems support One Health opinions. Curr Opin Environ Sci Health 2023;34:100492.
Nyanga PL, Onyuka J, Webale MK, Were T, Budambula V. Escherichia coli pathotypes and Shigella sero-groups in diarrheic children in Nairobi city, Kenya. Gastroenterol Hepatol Bed Bench 2017;10:220–8.
Webale MK, Wanjala C, Guyah B, Shaviya N, Munyekenye GO, Nyanga PL, et al. Epidemiological patterns and antimicrobial resistance of bacterial diarrhea among children in Nairobi City, Kenya. Gastroenterol Hepatol Bed Bench 2020;13:238–46.
Webale MK, Guyah B, Wanjala C, Nyanga PL, Webale SK, Abonyo C, et al. Phenotypic and genotypic antibiotic resistant diarrheagenic escherichia coli pathotypes isolated from children with diarrhea in Nairobi City, Kenya. Ethiop J Health Sci 2020;30:881–90.
Humphries RM, Ambler J, Mitchell SL, Castanheira M, Dingle T, Hindler JA, et al. CLSI methods development and standardization working group best practices for evaluation of antimicrobial susceptibility tests. J Clin Microbiol 2018;56:01934-17.
Keita AM, Doh S, Sow SO, Powell H, Omore R, Jahangir Hossain M, et al. Prevalence, clinical severity, and seasonality of adenovirus 40/41, astrovirus, sapovirus, and rotavirus among young children with moderate-to-severe diarrhea: results from the vaccine impact on diarrhea in Africa (VIDA) study. Clin Infect Dis 2023;76:123–31.
Hugho EA, Kumburu HH, Thomas K, Lukambagire AS, Wadugu B, Amani N, et al. High diversity of Salmonella spp. from children with diarrhea, food, and environmental sources in Kilimanjaro - Tanzania: one health approach. Front Microbiol. 2023;14:1277019.
Omotade TI, Babalola TE, Anyabolu CH, Japhet MO. Rotavirus and bacterial diarrhoea among children in Ile-Ife, Nigeria: Burden, risk factors and seasonality. PLoS One 2023;18:0291123.
Tosisa W, Mihret A, Ararsa A, Eguale T, Abebe T. Prevalence and antimicrobial susceptibility of Salmonella and Shigella species isolated from diarrheic children in Ambo town. BMC Pediatr 2020;20:91.
Mbae C, Mwangi M, Gitau N, Irungu T, Muendo F, Wakio Z, et al. Factors associated with occurrence of salmonellosis among children living in Mukuru slum, an urban informal settlement in Kenya. BMC Infect Dis 2020;20:422.
Mbuthia OW, Ng’ayo MO. Antibiotic sensitivity profile of bacterial isolates from stool samples among children below five years in Murang’a County, Kenya. Pan Afr Med J 2023;45:87.
Assefa A, Girma M. Prevalence and antimicrobial susceptibility patterns of Salmonella and Shigella isolates among children aged below five years with diarrhea attending Robe General Hospital and Goba Referral Hospital, South East Ethiopia. Trop Dis Travel Med Vaccines 2019;5:19.
Ngogo FA, Joachim A, Abade AM, Rumisha SF, Mizinduko MM, Majigo MV. Factors associated with Salmonella infection in patients with gastrointestinal complaints seeking health care at Regional Hospital in Southern Highland of Tanzania. BMC Infect Dis 2020;20:135.
Ke Y, Lu W, Liu W, Zhu P, Chen Q, Zhu Z. Non-typhoidal Salmonella infections among children in a tertiary hospital in Ningbo, Zhejiang, China, 2012-2019. PLoS Negl Trop Dis 2020;14:0008732.
Tack B, Vita D, Phoba MF, Mbuyi-Kalonji L, Hardy L, Barbé B, et al. Direct association between rainfall and non-typhoidal Salmonella bloodstream infections in hospital-admitted children in the Democratic Republic of Congo. Sci Rep 2021;11:21617.
Buehler AJ, Wiedmann M, Kassaify Z, Cheng RA. Evaluation of invA diversity among salmonella species suggests why some commercially available rapid detection kits may fail to detect multiple salmonella subspecies and species. J Food Prot 2019;82:710–7.
Abhadionmhen AO, Imarenezor EPK, Brown STC, Lana OE, Usiabulu OQ. Molecular identification of invA gene from Salmonella species isolated from human sources in Southern Taraba, North-East Nigeria. AJRID 2024;15:7–16.
Ajayi A, Smith S, Ibidunni BS, Coulibaly KJ, Funbi JT, Adeleye AI. Serotype distribution and virulence profile of salmonella enterica serovars isolated from food animals and humans in Lagos Nigeria. Microbiol Biotechnol Lett 2019;47:310–6.
Sohi MJ, Bidhendi SM, Khaki P. Assessment of stn, sipB and sopB virulence genes in various Salmonella serovars. ARI 2023;1615–23.
Nikiema MEM, Kakou-ngazoa S, Ky/Ba A, Sylla A, Bako E, Addablah AYA, et al. Characterization of virulence factors of Salmonella isolated from human stools and street food in urban areas of Burkina Faso. BMC Microbiol 2021;21:338.
Crăciunaş C, Keul AL, Flonta M, Cristea M. DNA-based diagnostic tests for Salmonella strains targeting hilA, agfA, spvC and sef genes. J Environ Manage 2012;95:S15–8.
Tasmin R, Gulig PA, Parveen S. Detection of virulence plasmid–encoded genes in salmonella typhimurium and salmonella kentucky isolates recovered from commercially processed chicken carcasses. J Food Prot 2019;82:1364–8.
Mutai WC, Muigai AWT, Waiyaki P, Kariuki S. Multi-drug resistant Salmonella enterica serovar Typhi isolates with reduced susceptibility to ciprofloxacin in Kenya. BMC Microbiol 2018;18:187.
Muriuki SW, Neondo JO, Budambula NLM. Detection and profiling of antibiotic resistance among culturable bacterial isolates in vended food and soil samples. Int J Microbiol 2020;2020:6572693.
Verraes C, Van Boxstael S, Van Meervenne E, Van Coillie E, Butaye P, Catry B, et al. Antimicrobial resistance in the food chain: a review. Int J Environ Res Public Health 2013;10:2643–69.
Rware H, Monica KK, Idah M, Fernadis M, Davis I, Buke W, et al. Examining antibiotic use in Kenya: farmers’ knowledge and practices in addressing antibiotic resistance. CABI Agric Biosci 2024;5:21.
Goodman KE, Cosgrove SE, Pineles L, Magder LS, Anderson DJ, Dodds Ashley E, et al. Significant Regional Differences in Antibiotic Use Across 576 US Hospitals and 11 701 326 Adult Admissions, 2016-2017. Clin Infect Dis 2021;73:213–22.
Uzairue LI, Shittu OB, Ojo OE, Obuotor TM, Olanipekun G, Ajose T, et al. Antimicrobial resistance and virulence genes of invasive Salmonella enterica from children with bacteremia in north-central Nigeria. SAGE Open Med 2023;11:20503121231175322.
Yasin N, Rahman H, Sarwar Y, Qasim M, Nisa I, Ikram A, et al. Salmonella typhi from northwest Pakistan: molecular strain typing and drug resistance signature. Microb Drug Resist 2022;28:120–6.
Tajbakhsh M, Hendriksen RS, Nochi Z, Zali MR, Aarestrup FM, Garcia-Migura L. Antimicrobial resistance in Salmonella spp. recovered from patients admitted to six different hospitals in Tehran, Iran from 2007 to 2008. Folia Microbiol 2012;57:91–7.
Abbasi E, Ghaznavi-Rad E. Quinolone resistant Salmonella species isolated from pediatric patients with diarrhea in central Iran. BMC Gastroenterol 2021;21:140.
Litrup E, Kiil K, Hammerum AM, Roer L, Nielsen EM, Torpdahl M. Plasmid-borne colistin resistance gene mcr-3 in Salmonella isolates from human infections, Denmark, 2009-17. Euro Surveill 2017;22:30587.
Wu W, Wang H, Lu J, Wu J, Chen M, Xu Y, et al. Genetic diversity of Salmonella enteric serovar typhi and paratyphi in Shenzhen, China from 2002 through 2007. BMC Microbiol 2010;10:32.
Mossoro-Kpinde CD, Manirakiza A, Mbecko JR, Misatou P, Le Faou A, Frank T. Antimicrobial resistance of enteric salmonella in Bangui, Central African Republic. J Trop Med 2015;2015:483974.
Rozwandowicz M, Brouwer MSM, Fischer J, Wagenaar JA, Gonzalez-Zorn B, Guerra B, et al. Plasmids carrying antimicrobial resistance genes in Enterobacteriaceae. J Antimicrob Chemother 2018;73:1121–37.
Carroll LM, Wiedmann M, den Bakker H, Siler J, Warchocki S, Kent D, et al. Whole-genome sequencing of drug-resistant salmonella enterica isolates from dairy cattle and humans in New York and Washington states reveals source and geographic associations. Appl Environ Microbiol 2017;83:00140-17.
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