Impact of Genetic Diversity of Uropathogenic Escherichia coli and Klebsiella pneumoniae Strains on the Dissemination of Extended Spectrum Beta-Lactam Resistance Genes in C？te d’Ivoire
The increase and spread of bacterial resistance to extended-spectrum beta-lactam antibiotics are reported in many infections and are a real public health problem worldwide. Drug pressure is a factor that favors the emergence of a population of better adapted bacteria. However, there is no literature highlighting the genetic diversity and evolutionary structure of E. coli and K. pneumoniae in an environment with high selection pressure in C？te d’Ivoire. The objective of this study was to evaluate the genetic diversity of E. coli and K. pneumoniae strains circulating at the HKB Hospital in Abobo and at the Daloa Regional Hospital and its impact on the dissemination of extended spectrum beta-lactam resistance genes. A total of 39 strains isolated from the urinary tract of infected patients, including 30 strains of E. coli and 9 strains of K. pneumoniae were studied. A total of 39 strains isolated from the urinary tract of infected patients, including 30 strains of E. coli and 9 strains of K. pneumoniae were studied. From genomic DNA extracts, ESBL resistance genes were amplified by PCR and sequenced, in addition to genetic typing by ERIC-PCR. The data obtained were submitted to genetic and bioinformatics analyses. The results have shown a genetic diversity important in E. coli and K. pneumoniae with diversity indexs (SID) ranging from 0.5 to 0.77. The genetic structure of the bacterial species studied has shown a clonal distribution of strains with clones expressing TEM-9 and CTX-M-15 variants. Also, this clonal structure was correlated with the spread of resistance genes in E. coli and K. pneumoniae. The spread of resistant clones is a factor that might limit the fight against antibiotic resistance.
References
[1]
Salam, M.A., Al-Amin, M.Y., Salam, M.T., Pawar, J.S., Akhter, N., Rabaan, A.A., et al. (2023) Antimicrobial Resistance: A Growing Serious Threat for Global Public Health. Healthcare, 11, Article No. 1946. https://doi.org/10.3390/healthcare11131946
[2]
Sultan, I., Rahman, S., Jan, A.T., Siddiqui, M.T., Mondal, A.H. and Haq, Q.M.R. (2018) Antibiotics, Resistome and Resistance Mechanisms: A Bacterial Perspective. Frontiers in Microbiology, 9, Article No. 2066. https://doi.org/10.3389/fmicb.2018.02066
[3]
Munita, J.M. and Arias, C.A. (2016) Mechanisms of Antibiotic Resistance. Microbiology Spectrum, 4, 1-24. https://doi.org/10.1128/microbiolspec.vmbf-0016-2015
[4]
WHO (2018) High Level of Antibiotic Resistance Worldwide. https://www.who.int/data/gho/data/themes/antimicrobial-resistance-(amr)
[5]
Husna, A., Rahman, M.M., Badruzzaman, A.T.M., Sikder, M.H., Islam, M.R., Rahman, M.T., et al. (2023) Extended-Spectrum β-Lactamases (ESBL): Challenges and Opportunities. Biomedicines, 11, Article No. 2937. https://doi.org/10.3390/biomedicines11112937
[6]
Collignon, P.J. and McEwen, S.A. (2019) One Health—Its Importance in Helping to Better Control Antimicrobial Resistance. Tropical Medicine and Infectious Disease, 4, Article No. 22. https://doi.org/10.3390/tropicalmed4010022
[7]
Tahou, E.J., Guessesennd, K.N., Gba, K.M.K., Gbonon, V., Konan, F., Tiekoura, B.K., et al. (2017) Characterization and Horizontal Transfert of Enhanced Spectrum Beta-lactamases Production in Klebsiella pneumoniae Clinical Strains from 2011 to 2016 in Abidjan (Côte d’Ivoire). International Journal of Current Advanced Research, 6, 8118-8122. http://dx.doi.org/10.24327/ijrsr.2018.0901.1352
[8]
Gadou, V., Guessennd, N., Toty, A., Konan, F., Ouattara, M., Dosso, M., et al. (2018) Molecular Detection of the Arr-2 Gene in Escherichia coli and Klebsiella pneumoniae Resistant to Rifampicin in Abidjan, Côte D’ivoire. Microbiology Research Journal International, 23, 1-8. https://doi.org/10.9734/mrji/2018/40552
[9]
Stefaniuk, E.M. (2018) The Usefulness of Chromogenic Media for Qualitative and Semi-Quantitative Diagnostic of Urinary Tract Infections. Polish Journal of Microbiology, 67, 213-218. https://doi.org/10.21307/pjm-2018-031
[10]
Tandon, N. and Bhargava, B. (2019) Standard Operating Procedure Bacteriology. Anti-Microbial Resistance Surveillance and Research Network. 2nd Edition, Indian Council of Medical Research, 216 p.
[11]
Versalovic, J., Koeuth, T. and Lupski, R. (1991) Distribution of Repetitive DNA Sequences in Eubacteria and Application to Fingerprinting of Bacterial Genomes. Nucleic Acids Research, 19, 6823-6831. https://doi.org/10.1093/nar/19.24.6823
[12]
Innocent, A.A., Mathurin, K., Paulin, D.S., Thomas, K.K., William, Y., Sanogo, A.T., et al. (2021) Molecular Characterization and in Silico Analysis of Mutations Associated with Extended-Spectrum Beta-Lactamase Resistance in Uropathogenic Escherichia coli and Klebsiella Pneumoniae in Two Hospitals, Côte d’Ivoire. International Journal of Genetics and Molecular Biology, 13, 9-20. https://doi.org/10.5897/ijgmb2020.0207
[13]
Campioni, F., Moratto Bergamini, A.M. and Falcão, J.P. (2012) Genetic Diversity, Virulence Genes and Antimicrobial Resistance of Salmonella enteritidis Isolated from Food and Humans over a 24-Year Period in Brazil. Food Microbiology, 32, 254-264. https://doi.org/10.1016/j.fm.2012.06.008
[14]
Sheng, Y., Zheng, W., Pei, K. and Ma, K. (2005) Genetic Variation within and among Populations of a Dominant Desert Tree Haloxylon ammodendron (Amaranthaceae) in China. Annals of Botany, 96, 245-252. https://doi.org/10.1093/aob/mci171
[15]
Peakall, R. and Smouse, P.E. (2012) Genalex 6.5: Genetic Analysis in Excel. Population Genetic Software for Teaching and Research—An Update. Bioinformatics, 28, 2537-2539. https://doi.org/10.1093/bioinformatics/bts460
[16]
R Core Team (2021) A Language and Environment for Statistical Computing. R Foundation for Statistical Computing. https://www.R-project.org/
[17]
Bilung, L.M., Pui, C.F., Su’ut, L. and Apun, K. (2018) Evaluation of BOX-PCR and ERIC-PCR as Molecular Typing Tools for Pathogenic Leptospira. Disease Markers, 2018, Article ID: 1351634. https://doi.org/10.1155/2018/1351634
[18]
Afkhami Ardakani, M. and Ranjbar, R. (2016) Molecular Typing of Uropathogenic E. coli Strains by the ERIC-PCR Method. Electronic Physician, 8, 2291-2295. https://doi.org/10.19082/2291
[19]
Subudhi, E., Jena, J., Debata, N., Sahoo, R. and Gaur, M. (2017) Genetic Diversity Study of Various β-Lactamase-Producing Multidrug-Resistant Escherichia coli Isolates from a Tertiary Care Hospital Using ERIC-PCR. Indian Journal of Medical Research, 146, 23-29. https://doi.org/10.4103/ijmr.ijmr_575_16
[20]
Barus, T., Hanjaya, I., Sadeli, J., Lay, B.W., Suwanto, A. and Yulandi, A. (2013) Genetic Diversity of Klebsiella Spp. Isolated from Tempe Based on Enterobacterial Repetitive Intergenic Consensus-Polymerase Chain Reaction (ERIC-PCR). HAYATI Journal of Biosciences, 20, 171-176. https://doi.org/10.4308/hjb.20.4.171
[21]
Gibreel, T.M. (2011) Molecular Epidemiology of Uropathogenic Escherichia coli in Northwest England and Characterization of the ST131 Clone in the Region. PhD Thesis in the Faculty of Medical and Human Sciences, University of Manchester, 202 p.
[22]
Shokoohizadeh, L. (2016) Molecular Methods for Bacterial Strain Typing. Medical Laboratory Journal, 10, 1-7. https://doi.org/10.18869/acadpub.mlj.10.2.1
[23]
Waturangi, D.E., Joanito, I.Y. and Thomas, S. (2012) Use of REP-and ERIC-PCR to Reveal Genetic Heterogeneity of Vibrio Cholerae from Edible Ice in Jakarta, Indonesia. Gut Pathogens, 4, Article No. 2. https://doi.org/10.1186/1757-4749-4-2
[24]
A’yun, Q., Suwanto, A. and Barus, T. (2015) Genetic Profiles of Escherichia coli Isolated from Indonesian Tempeh Based on Enterobacterial Repetitive Intergenic Consensus-Polymerase Chain Reaction (ERIC-PCR). Microbiology Indonesia, 9, 58-64. https://doi.org/10.5454/mi.9.2.2
[25]
Durmaz, S., Bal, E.B.B., Gunaydin, M., Yula, E. and Percin, D. (2014) Detection of β-Lactamase Genes, ERIC-PCR Typing and Phylogenetic Groups of ESBL Producing Quinolone Resistant Clinical Escherichia coli Isolates. Biomedical Research, 26, 43-50.
[26]
Irrgang, A., Falgenhauer, L., Fischer, J., Ghosh, H., Guiral, E., Guerra, B., et al. (2017) CTX-M-15-Producing E. coli Isolates from Food Products in Germany Are Mainly Associated with an IncF-Type Plasmid and Belong to Two Predominant Clonal E. coli Lineages. Frontiers in Microbiology, 8, Article No. 2318. https://doi.org/10.3389/fmicb.2017.02318
[27]
Nicolas-Chanoine, M., Bertrand, X. and Madec, J. (2014) Escherichia coli ST131, an Intriguing Clonal Group. Clinical Microbiology Reviews, 27, 543-574. https://doi.org/10.1128/cmr.00125-13
[28]
Brahmi, S., Dunyach-Rémy, C., Touati, A. and Lavigne, J. (2015) CTX-M-15-Producing Escherichia coli and the Pandemic Clone O25b-St131 Isolated from Wild Fish in Mediterranean Sea. Clinical Microbiology and Infection, 21, e18-e20. https://doi.org/10.1016/j.cmi.2014.09.019
[29]
Nguyen, T.T.T., Nguyen, H.T., Tsai, M., Byadgi, O., Wang, P., Yoshida, T., et al. (2017) Genetic Diversity, Virulence Genes, and Antimicrobial Resistance of Streptococcus dysgalactiae Isolates from Different Aquatic Animal Sources. Aquaculture, 479, 256-264. https://doi.org/10.1016/j.aquaculture.2017.06.002
