Genomic Analysis of Multidrug-Resistant Strains Isolated in Tamaulipas, Mexico

Overview

Journal Trop Med Infect Dis

Specialty Infectious Diseases

Date 2023 Oct 27

PMID 37888586

Authors

Jessica L Ortega-Balleza

Abraham Guerrero

Graciela Castro-Escarpulli

Ana Veronica Martinez-Vazquez

Maria Antonia Cruz-Hernandez

Erick De Jesus De Luna-Santillana

Erika Acosta-Cruz

Iram Pablo Rodriguez-Sanchez

Gildardo Rivera

Virgilio Bocanegra-Garcia

Affiliations

Soon will be listed here.

Abstract

The global spread of antimicrobial resistance genes (ARGs) is a major public health concern. Mobile genetic elements (MGEs) are the main drivers of this spread by horizontal gene transfer (HGT). is widespread in various environments and serves as an indicator for monitoring antimicrobial resistance (AMR). Therefore, the objective of this work was to evaluate the whole genome of multidrug-resistant strains isolated from human clinical, animal, and environmental sources. Four strains previously isolated from human urine (n = 2), retail meat (n = 1), and water from the Rio Grande River (n = 1) collected in northern Tamaulipas, Mexico, were analyzed. strains were evaluated for antimicrobial susceptibility, followed by whole genome sequencing and bioinformatic analysis. Several ARGs were detected, including , , , , , , , and . Additionally, plasmid replicons (IncFIA, IncFIB, IncFII, IncY, IncR, and Col) and intact prophages were also found. Insertion sequences (ISs) were structurally linked with resistance and virulence genes. Finally, these findings indicate that strains have a large repertoire of resistance determinants, highlighting a high pathogenic potential and the need to monitor them.

Citing Articles

Molecular Characterization of Multidrug-Resistant from Fecal Samples of Wild Animals.

Sabenca C, Romero-Rivera M, Barbero-Herranz R, Sargo R, Sousa L, Silva F Vet Sci. 2024; 11(10).

PMID: 39453061 PMC: 11512376. DOI: 10.3390/vetsci11100469.

References

Kumar S, Stecher G, Li M, Knyaz C, Tamura K . MEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms. Mol Biol Evol. 2018; 35(6):1547-1549. PMC: 5967553. DOI: 10.1093/molbev/msy096. View

Mazumder R, Abdullah A, Ahmed D, Hussain A . High Prevalence of Gene among Extended-Spectrum β-Lactamase-Producing Isolates Causing Extraintestinal Infections in Bangladesh. Antibiotics (Basel). 2020; 9(11). PMC: 7696227. DOI: 10.3390/antibiotics9110796. View

Furlan J, Lopes R, Ramos M, Dos Santos L, Rosa R, Savazzi E . Colistin-resistant mcr-1-positive Escherichia coli ST1775-H137 co-harboring bla and bla recovered from an urban stream. Infect Genet Evol. 2021; 96:105156. DOI: 10.1016/j.meegid.2021.105156. View

Xu L, Dong Z, Fang L, Luo Y, Wei Z, Guo H . OrthoVenn2: a web server for whole-genome comparison and annotation of orthologous clusters across multiple species. Nucleic Acids Res. 2019; 47(W1):W52-W58. PMC: 6602458. DOI: 10.1093/nar/gkz333. View

Abdel-Kader F, Hamza E, Abdel-Moein K, Sabry M . Retail chicken giblets contaminated with extended-spectrum cephalosporin- and carbapenem-resistant carrying CMY-2. Vet World. 2022; 15(5):1297-1304. PMC: 9210848. DOI: 10.14202/vetworld.2022.1297-1304. View

Reid C, Blau K, Jechalke S, Smalla K, Djordjevic S . Whole Genome Sequencing of From Store-Bought Produce. Front Microbiol. 2020; 10:3050. PMC: 7000624. DOI: 10.3389/fmicb.2019.03050. View

Martinez-Vazquez A, Mandujano A, Cruz-Gonzalez E, Guerrero A, Vazquez J, Cruz-Pulido W . Evaluation of Retail Meat as a Source of ESBL in Tamaulipas, Mexico. Antibiotics (Basel). 2022; 11(12). PMC: 9774973. DOI: 10.3390/antibiotics11121795. View

Ortega-Balleza J, Guerrero A, Castro-Escarpulli G, Cruz-Gonzalez E, Rivera G, Bocanegra-Garcia V . Draft Genome Sequence of a Uropathogenic Escherichia coli Sequence Type 44 Strain Carrying Multiple Antimicrobial Resistance Genes. Microbiol Resour Announc. 2022; 11(4):e0093121. PMC: 9022579. DOI: 10.1128/mra.00931-21. View

Pitout J, Chen L . The Significance of Epidemic Plasmids in the Success of Multidrug-Resistant Drug Pandemic Extraintestinal Pathogenic Escherichia coli. Infect Dis Ther. 2023; 12(4):1029-1041. PMC: 10147871. DOI: 10.1007/s40121-023-00791-4. View

10.

Soleimani N, Aganj M, Ali L, Shokoohizadeh L, Sakinc T . Frequency distribution of genes encoding aminoglycoside modifying enzymes in uropathogenic E. coli isolated from Iranian hospital. BMC Res Notes. 2014; 7:842. PMC: 4258249. DOI: 10.1186/1756-0500-7-842. View

11.

Neumann B, Rackwitz W, Hunfeld K, Fuchs S, Werner G, Pfeifer Y . Genome sequences of two clinical isolates harboring the novel colistin-resistance gene variants - and -. Gut Pathog. 2020; 12:40. PMC: 7472697. DOI: 10.1186/s13099-020-00375-4. View

12.

Shin S, Shin M, Jung M, Belaynehe K, Yoo H . Prevalence of Antimicrobial Resistance and Transfer of Tetracycline Resistance Genes in Escherichia coli Isolates from Beef Cattle. Appl Environ Microbiol. 2015; 81(16):5560-6. PMC: 4510165. DOI: 10.1128/AEM.01511-15. View

13.

Gomi R, Matsuda T, Matsumura Y, Yamamoto M, Tanaka M, Ichiyama S . Whole-Genome Analysis of Antimicrobial-Resistant and Extraintestinal Pathogenic Escherichia coli in River Water. Appl Environ Microbiol. 2016; 83(5). PMC: 5311411. DOI: 10.1128/AEM.02703-16. View

14.

Sodagari H, Wang P, Robertson I, Abraham S, Sahibzada S, Habib I . Antimicrobial resistance and genomic characterisation of Escherichia coli isolated from caged and non-caged retail table eggs in Western Australia. Int J Food Microbiol. 2021; 340:109054. DOI: 10.1016/j.ijfoodmicro.2021.109054. View

15.

Awosile B, Reyes-Velez J, Cuesta-Astroz Y, Rodriguez-Lecompte J, Saab M, Heider L . Short communication: Whole-genome sequence analysis of 4 fecal bla-producing Escherichia coli isolates from Holstein dairy calves. J Dairy Sci. 2019; 103(1):877-883. DOI: 10.3168/jds.2019-16560. View

16.

Delgado-Blas J, Ovejero C, David S, Montero N, Calero-Caceres W, Garcillan-Barcia M . Population genomics and antimicrobial resistance dynamics of Escherichia coli in wastewater and river environments. Commun Biol. 2021; 4(1):457. PMC: 8041779. DOI: 10.1038/s42003-021-01949-x. View

17.

Astorga F, Navarrete-Talloni M, Miro M, Bravo V, Toro M, Blondel C . Antimicrobial resistance in isolated from dairy calves and bedding material. Heliyon. 2019; 5(11):e02773. PMC: 6888714. DOI: 10.1016/j.heliyon.2019.e02773. View

18.

Reid C, Wyrsch E, Roy Chowdhury P, Zingali T, Liu M, Darling A . Porcine commensal Escherichia coli: a reservoir for class 1 integrons associated with IS26. Microb Genom. 2018; 3(12). PMC: 5761274. DOI: 10.1099/mgen.0.000143. View

19.

. Global burden of bacterial antimicrobial resistance in 2019: a systematic analysis. Lancet. 2022; 399(10325):629-655. PMC: 8841637. DOI: 10.1016/S0140-6736(21)02724-0. View

20.

Fu Y, Zhang W, Wang H, Zhao S, Chen Y, Meng F . Specific patterns of gyrA mutations determine the resistance difference to ciprofloxacin and levofloxacin in Klebsiella pneumoniae and Escherichia coli. BMC Infect Dis. 2013; 13:8. PMC: 3576228. DOI: 10.1186/1471-2334-13-8. View