Phylogenetic group B2 Escherichia coli strains from the bowel microbiota of Pakistani infants carry few virulence genes and lack the capacity for long-term persistence

Introduction: The severity of urinary tract infection (UTI) produced by uropathogenic Escherichia coli (UPEC) is due to the expression of a wide spectrum of virulence genes. E. coli strains were divided into four phylogenetic groups (A, B1, B2 and D) based on their virulence genes. The present study aimed to assess the relationship between virulence genes, phylogenetic groups, and antibiotic resistance of UPEC. Methodology: A total of 148 E. coli were tested for antimicrobial resistance against 10 drugs using the disk diffusion method. The isolates were screened by polymerase chain reaction (PCR) for detection of virulence genes and categorized into the four major phylogenetic groups. Results: Phylogenetic group B2 was predominant (33.8%), followed by D (28.4%), A (19.6), and B1 (18.2%). A higher prevalence of fimH (89.9%), fyuA (70.3%), traT (66.2%), iutA (62.2%), kpsMTII (58.8%), and aer (56.1%) genes were found in UPEC, indicating a putative role of adhesins, iron acquisition systems, and protectins that are main cause of UTIs. The most common antibiotic resistance was to cephalotin (85.1%), ampicillin (78.4%) and the least to nitrofurantoin (5.4%) and imipenem (2%). In total, 93.9% of isolates were multidrug resistant (MDR). Conclusions: This study showed that group B2 and D were the predominant phylogenetic groups and virulence-associated genes were mostly distributed in these groups. The virulence genes encoding components of adhesins, iron acquisition systems, and protectins were highly prevalent among antibiotic-resistant UPEC. Although the majority of strains are MDR, nitrofurantoin is the drug of choice for treatment of UTI patients in Ulaanbaatar.

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Antibiotic resistance is linked to carriage of papC and iutA virulence genes and phylogenetic group D background in commensal and uropathogenic Escherichia coli from infants and young children

European Journal of Clinical Microbiology & Infectious Diseases ◽

10.1007/s10096-016-2854-y ◽

2016 ◽

Vol 36 (4) ◽

pp. 721-729 ◽

Cited By ~ 11

Author(s):

N. Karami ◽

A. E. Wold ◽

I. Adlerberth

Keyword(s):

Escherichia Coli ◽

Antibiotic Resistance ◽

Young Children ◽

Virulence Genes ◽

Uropathogenic Escherichia Coli ◽

Phylogenetic Group ◽

Group D ◽

Infants And Young Children

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Escherichia coli EDL933 Requires Gluconeogenic Nutrients To Successfully Colonize the Intestines of Streptomycin-Treated Mice Precolonized with E. coli Nissle 1917

Infection and Immunity ◽

10.1128/iai.02943-14 ◽

2015 ◽

Vol 83 (5) ◽

pp. 1983-1991 ◽

Cited By ~ 12

Author(s):

Silvia A. C. Schinner ◽

Matthew E. Mokszycki ◽

Jimmy Adediran ◽

Mary Leatham-Jensen ◽

Tyrrell Conway ◽

...

Keyword(s):

Escherichia Coli ◽

Virulence Genes ◽

Probiotic Strain ◽

Content Type ◽

E Coli ◽

Link Type ◽

Mouse Intestine ◽

K 12 ◽

Rule Out

Escherichia coliMG1655, a K-12 strain, uses glycolytic nutrients exclusively to colonize the intestines of streptomycin-treated mice when it is the onlyE. colistrain present or when it is confronted withE. coliEDL933, an O157:H7 strain. In contrast,E. coliEDL933 uses glycolytic nutrients exclusively when it is the onlyE. colistrain in the intestine but switches in part to gluconeogenic nutrients when it colonizes mice precolonized withE. coliMG1655 (R. L. Miranda et al., Infect Immun 72:1666–1676, 2004,http://dx.doi.org/10.1128/IAI.72.3.1666-1676.2004). Recently, J. W. Njoroge et al. (mBio 3:e00280-12, 2012,http://dx.doi.org/10.1128/mBio.00280-12) reported thatE. coli86-24, an O157:H7 strain, activates the expression of virulence genes under gluconeogenic conditions, suggesting that colonization of the intestine with a probioticE. colistrain that outcompetes O157:H7 strains for gluconeogenic nutrients could render them nonpathogenic. Here we report thatE. coliNissle 1917, a probiotic strain, uses both glycolytic and gluconeogenic nutrients to colonize the mouse intestine between 1 and 5 days postfeeding, appears to stop using gluconeogenic nutrients thereafter in a large, long-term colonization niche, but continues to use them in a smaller niche to compete with invadingE. coliEDL933. Evidence is also presented suggesting that invadingE. coliEDL933 uses both glycolytic and gluconeogenic nutrients and needs the ability to perform gluconeogenesis in order to colonize mice precolonized withE. coliNissle 1917. The data presented here therefore rule out the possibility thatE. coliNissle 1917 can starve the O157:H7E. colistrain EDL933 of gluconeogenic nutrients, even thoughE. coliNissle 1917 uses such nutrients to compete withE. coliEDL933 in the mouse intestine.

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Carbapenem Resistance Profiles of Pathogenic Escherichia coli in Uganda

European Journal of Biology and Biotechnology ◽

10.24018/ejbio.2021.2.2.171 ◽

2021 ◽

Vol 2 (2) ◽

pp. 63-73

Author(s):

Kenneth Ssekatawa ◽

Denis K. Byarugaba ◽

Jesca L. Nakavuma ◽

Charles D. Kato ◽

Francis Ejobi ◽

...

Keyword(s):

Escherichia Coli ◽

Virulence Factors ◽

Virulence Genes ◽

Carbapenem Resistance ◽

Phylogenetic Group ◽

Clinical Isolates ◽

Phylogenetic Groups ◽

Phenotypic Resistance ◽

E Coli ◽

Tract Infections

Escherichia coli has been implicated as one of the main etiological agents of diarrhea, urinary tract infections, meningitis and septicemia worldwide. The ability to cause diseases is potentiated by presence of virulence factors. The virulence factors influence the capacity of E. coli to infect and colonize different body systems. Thus, pathogenic E. coli are grouped into DEC strains that are mainly clustered in phylogenetic group B1 and A; ExPEC belonging to A, B2 and D. Coexistence of virulence and beta-lactamase encoding genes complicates treatment outcomes. Therefore, this study aimed at presenting the carbapenem resistance (CR) profiles among pathogenic E. coli. This was a retrospective cross-sectional study involving use of 421 archived E. coli clinical isolates collected in 2019 from four Uganda tertiary hospitals. The isolates were subjected to antibiotics sensitivity assays to determine phenotypic resistance. Four sets of multiplex PCR were performed to detect CR genes, DEC pathotypes virulence genes, ExPEC PAI and the E. coli phylogenetic groups. Antibiotic susceptibility revealed that all the 421 E. coli isolates used were MDR as they exhibited 100% resistance to more than one of the first-line antibiotics. The study registered phenotypic and genotypic CR prevalence of 22.8% and 33.0% respectively. The most predominant gene was blaOXA-48 with genotypic frequency of 33.0%, then blaVIM (21.0%), blaIMP (16.5%), blaKPC (14.8%) and blaNDM (14.8%). Spearman’s correlation revealed that presence of CR genes was highly associated with phenotypic resistance. Furthermore, of 421 MDR E. coli isolates, 19.7% harboured DEC virulence genes, where EPEC recorded significantly higher prevalence (10.8%) followed by S-ETEC (3.1%), STEC (2.9%), EIEC (2.0%) and L-ETEC (2.0%). Genetic analysis characterized 46.1% of the isolates as ExPEC and only PAI IV536 (33.0%) and PAI IICFT073 (13.1%) were detected. Phylogenetic group B2 was predominantly detected (41.1%), followed by A (30.2%), B1(21.6%), and D (7.1%). Furthermore, 38.6% and 23.1% of the DEC and ExPEC respectively expressed phenotypic resistance. Our results exhibited significant level of CR carriage among the MDR DEC and ExPEC clinical isolates belonging to phylogenetic groups B1 and B2 respectively. Virulence and CR genetic factors are mainly located on mobile elements. Thus, constitutes a great threat to the healthcare system as this promotes horizontal gene transfer.

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Performance, diarrhea incidence, and occurrence of Escherichia coli virulence genes during long-term administration of a probiotic Enterococcus faecium strain to sows and piglets1

Journal of Animal Science ◽

10.2527/2006.843608x ◽

2006 ◽

Vol 84 (3) ◽

pp. 608-617 ◽

Cited By ~ 112

Author(s):

D. Taras ◽

W. Vahjen ◽

M. Macha ◽

O. Simon

Keyword(s):

Escherichia Coli ◽

Enterococcus Faecium ◽

Virulence Genes ◽

Diarrhea Incidence ◽

Term Administration ◽

Faecium Strain

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Occurrence of extended-spectrum β-lactamase, AmpC and virulence genes in Escherichia coli isolates from vegetable salads in Morocco

British Food Journal ◽

10.1108/bfj-11-2016-0573 ◽

2017 ◽

Vol 119 (7) ◽

pp. 1633-1647

Author(s):

Kaotar Nayme ◽

Abouddihaj Barguigua ◽

Brahim Bouchrif ◽

Idrissa Diawara ◽

Fatima El Otmani ◽

...

Keyword(s):

Escherichia Coli ◽

Gel Electrophoresis ◽

Virulence Genes ◽

Phylogenetic Group ◽

Pulsed Field Gel Electrophoresis ◽

Resistant Bacteria ◽

Content Type ◽

Pulsed Field ◽

E Coli ◽

Extended Spectrum

Purpose The purpose of this paper is to assess the occurrence of the extended-spectrum β-lactamases (ESBLs) and AmpC β-lactamase genes in 144 Escherichia coli isolates recovered from 160 vegetable salad samples. Design/methodology/approach Among the 144 E. coli isolates recovered from 160 vegetable salads, 17 (12 percent) ceftazidime-resistant isolates were screened for ESBL production with the double disk-diffusion test. The ESBL-producing isolates were characterized for antimicrobial resistance, the presence of virulence genes and plasmid-mediated quinolone resistance (PMQR) determinants. The isolates were also subjected to phylogenetic group typing. The existence of plasmid AmpC genes and mutations in the regulatory region of the chromosomal AmpC gene was assessed using polymerase chain reaction (PCR) and sequencing. All β-lactamase isolates were further characterized by pulsed-field gel electrophoresis to determine the genetic relatedness. Findings Overall, 17 (12 percent) of the 144 E. coli isolates studied were ceftazidime resistant. Among the 17 isolates, 13 (77 percent) were multidrug resistant and four (23.5 percent) were ESBL producers. The bla CTX-M14 was the only gene detected. Of the 12 AmpC-producing isolates, three (18 percent) harbored plasmid-encoded AmpC and sequencing analysis of the chromosomal AmpC genes revealed mutations in the promoter/attenuator region. PMQR determinants were detected in 9 (52 percent) isolates. A was the most prevalent phylogenetic group (56 percent), followed by groups B1 (31 percent), D (6 percent), and B2 (6 percent). PCR showed that six (50 percent) ESBL/AmpC-producing E. coli isolates carried one and/or two virulence genes. Pulsed-field gel electrophoresis showed no epidemiological relationship between these isolates. Originality/value This study places vegetable salads within the spectrum of ecological niches that may be vehicles for antibiotic-resistant bacteria/genes with clinical interest and these findings are worthy of attention as their spread to humans by ingestion cannot be dismissed.

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Comparison of Escherichia coli isolates implicated in human urinary tract infection and avian colibacillosis

Microbiology ◽

10.1099/mic.0.27499-0 ◽

2005 ◽

Vol 151 (6) ◽

pp. 2097-2110 ◽

Cited By ~ 227

Author(s):

Kylie E. Rodriguez-Siek ◽

Catherine W. Giddings ◽

Curt Doetkott ◽

Timothy J. Johnson ◽

Mohamed K. Fakhr ◽

...

Keyword(s):

Escherichia Coli ◽

Urinary Tract Infection ◽

Urinary Tract ◽

Virulence Genes ◽

Phylogenetic Group ◽

Human Beings ◽

Phylogenetic Groups ◽

E Coli ◽

Phylogenetic group determination and plasmid virulence gene profiles of colistin-resistant Escherichia coli originated from the broiler meat supply chain in Bogor, Indonesia

Veterinary World ◽

10.14202/vetworld.2020.1807-1814 ◽

2020 ◽

Vol 13 (9) ◽

pp. 1807-1814

Author(s):

Irma Rahayuningtyas ◽

Agustin Indrawati ◽

I Wayan Teguh Wibawan ◽

Maria Fatima Palupi ◽

Istiyaningsih Istiyaningsih

Keyword(s):

Escherichia Coli ◽

Supply Chain ◽

Virulence Genes ◽

Virulence Gene ◽

Phylogenetic Group ◽

Health Concern ◽

Small Scale ◽

Broiler Meat ◽

E Coli ◽

Gene Profiles

Background and Aim: Pathogenic Escherichia coli contamination along the broiler meat supply chain is a serious public health concern. This bacterial infection with multidrug-resistant can lead to treatment failure. Several studies have revealed that avian pathogenic E. coli (APEC) and human extraintestinal pathogenic E. coli (ExPEC) showed a close genetic relationship and may share virulence genes. This study aimed to determine the phylogenetic group and virulence gene profiles in colistin-resistant E. coli obtained from the broiler meat supply chain in Bogor, West Java, Indonesia. Materials and Methods: Fifty-eight archive isolates originated from the cloacal swab, litter, drinking water, inside plucker swab, fresh meat at small scale poultry slaughterhouses, and traditional markets were used in this study. All the isolates were characterized by a polymerase chain reaction to determine the phylogenetic group (A, B1, B2, or D) and virulence gene profiles with APEC marker genes (iutA, hlyF, iss, iroN, and ompT). Results: Phylogenetic grouping revealed that the isolates belong to A group (34.48%), D group (34.48%), B1 group (17.24%), and B2 group (13.79%). The virulence gene prevalence was as follows: iutA (36%), hlyF (21%), ompT (21%), iroN (10%), and iss (9%). The B2 group presented with more virulence genes combinations. iroN, hlyF, and ompT genes were positively associated with the B2 group (p≤0.05). Conclusion: Our results highlight the role of colistin-resistant E. coli originated from the broiler meat supply chain as a potential reservoir for human ExPEC virulence genes.

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