Phylogeny, Sequence-typing and virulence profile of uropathogenic E. coli (UPEC) strains from Pakistan

Abstract Background Escherichia coli lineage ST131 predominates across various spectra of extra-intestinal infections, including urinary tract infection (UTI). The distinctive resistance profile, diverse armamentarium of virulence factors and rapid global dissemination of ST131 E. coli makes it an intriguing pathogen. However, not much is known about the prevalence and genetic attributes of ST131 lineage in Pakistan. Methods We estimated the prevalence and genetic attributes of E. coli ST131 isolates causing UTI among 155 randomly selected samples. Samples were analyzed by phylogenetic grouping, O-typing, fumC/fimH typing. Isolates were further tested for ESBL and virulence factors using PCR. Results Overall, 59% of the UPEC isolates belonged to the phylogenetic group B2, followed by D=28%, B1= 8% and A= 5%. Among 18 different Sequence-types, ST131 was the dominant lineage (n=71; 46%) out of which 72% of the isolates were assigned to phylogenetic group B2 while 61% adhered to serogroup O25b. FumC/fimH typing confirmed 49% of the ST131 as H30 sub-types. In this study, significant numbers of the identified ST131 isolates were MDR and 42% showed ESBL phenotypes, out of which 57% carried blaCTX-M-15. Moreover, different virulence factors were detected in following percentages: fimH,155 (100%), iutA 86 (55%), feoB 76 (49%), papC 75 (48%), papGII 70 (45%), kpsMTII 40 (26%), papEF 37 (24%), fyuA 37 (24%), usp 22 (14%), papA 20 (13%), sfa/foc 20 (13%), hlyA 18 (12%), afa 15 (10%), cdtB 11 (7%), papGI 6 (4%), papGIII 6 (4%), kpsMTIII 4 (3%) and bmaE2 (1%). Conclusion Conclusively, this study provides important insights into the genetic and virulence attributes of pandemic MDR ST131 strains involved in UTIs. It also highlights high prevalence of ST131-O25b-H30 UPEC isolates in local population, which was previously unreported from this part of globe. Keywords: ST131, VF genes, ESBL, UPEC, MDR

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Phylogeny, Sequence-typing and virulence profile of uropathogenic E. coli (UPEC) strains from Pakistan

10.21203/rs.2.9480/v1 ◽

2019 ◽

Author(s):

Ihsan Ali ◽

Zara Rafaque ◽

Ibrar Ahmed ◽

Faiza Tariq ◽

Sarah E. Graham ◽

...

Keyword(s):

Escherichia Coli ◽

Urinary Tract Infection ◽

Virulence Factors ◽

Local Population ◽

Phylogenetic Group ◽

E Coli ◽

Intestinal Infections ◽

High Prevalence ◽

Phylogenetic Grouping ◽

Sequence Types

Abstract Background Escherichia coli lineage ST131 predominates across various spectra of extra-intestinal infections, including urinary tract infection (UTI). The distinctive resistance profile, diverse armamentarium of virulence factors and rapid global dissemination of ST131 E. coli makes it an intriguing pathogen. However, not much is known about the prevalence and genetic attributes of ST131 lineage in Pakistan. Methods We estimated the prevalence and genetic attributes of E. coli ST131 isolates causing UTI among 155 randomly selected samples. Samples were analyzed by phylogenetic grouping, O-typing, fumC/fimH typing. Isolates were further tested for ESBL and virulence factors using PCR. Results Overall, 59% of the UPEC isolates belonged to the phylogenetic group B2, followed by D=28%, B1= 8% and A= 5%. Among 18 different Sequence-types, ST131 was the dominant lineage (n=71; 46%) out of which 72% of the isolates were assigned to phylogenetic group B2 while 61% adhered to serogroup O25b. FumC/fimH typing confirmed 49% of the ST131 as H30 sub-types. In this study, significant numbers of the identified ST131 isolates were MDR and 42% showed ESBL phenotypes, out of which 57% carried blaCTX-M-15. Moreover, different virulence factors were detected in following percentages: fimH,155 (100%), iutA 86 (55%), feoB 76 (49%), papC 75 (48%), papGII 70 (45%), kpsMTII 40 (26%), papEF 37 (24%), fyuA 37 (24%), usp 22 (14%), papA 20 (13%), sfa/foc 20 (13%), hlyA 18 (12%), afa 15 (10%), cdtB 11 (7%), papGI 6 (4%), papGIII 6 (4%), kpsMTIII 4 (3%) and bmaE2 (1%). Conclusion Conclusively, this study provides important insights into the genetic and virulence attributes of pandemic MDR ST131 strains involved in UTIs. It also highlights high prevalence of ST131-O25b-H30 UPEC isolates in local population, which was previously unreported from this part of globe. Keywords: ST131, VF genes, ESBL, UPEC, MDR

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Phylogeny, Sequence-typing and virulence profile of uropathogenic E. coli (UPEC) strains from Pakistan

10.21203/rs.2.9480/v3 ◽

2019 ◽

Author(s):

Ihsan Ali ◽

Zara Rafaque ◽

Ibrar Ahmed ◽

Faiza Tariq ◽

Sarah E. Graham ◽

...

Keyword(s):

Escherichia Coli ◽

Urinary Tract Infection ◽

Virulence Factors ◽

Local Population ◽

Phylogenetic Group ◽

E Coli ◽

Intestinal Infections ◽

High Prevalence ◽

Phylogenetic Grouping ◽

Sequence Types

Abstract Background Escherichia coli lineage ST131 predominates across various spectra of extra-intestinal infections, including urinary tract infection (UTI). The distinctive resistance profile, diverse armamentarium of virulence factors and rapid global dissemination of ST131 E. coli makes it an intriguing pathogen. However, not much is known about the prevalence and genetic attributes of ST131 lineage in Pakistan. Methods We estimated the prevalence and genetic attributes of E. coli ST131 isolates causing UTI among 155 randomly selected samples. Samples were analyzed by phylogenetic grouping, O-typing, fumC/fimH typing. Isolates were further tested for ESBL and virulence factors using PCR. Results Overall, 59% of the UPEC isolates belonged to the phylogenetic group B2, followed by D=28%, B1= 8% and A= 5%. Among 18 different Sequence-types, ST131 was the dominant lineage (n=71; 46%) out of which 72% of the isolates were assigned to phylogenetic group B2 while 61% adhered to serogroup O25b. FumC/fimH typing confirmed 49% of the ST131 as H30 sub-types. In this study, significant numbers of the identified ST131 isolates were MDR and 42% showed ESBL phenotypes, out of which 57% carried blaCTX-M-15. Moreover, different virulence factors were detected in following percentages: fimH,155 (100%), iutA 86 (55%), feoB 76 (49%), papC 75 (48%), papGII 70 (45%), kpsMTII 40 (26%), papEF 37 (24%), fyuA 37 (24%), usp 22 (14%), papA 20 (13%), sfa/foc 20 (13%), hlyA 18 (12%), afa 15 (10%), cdtB 11 (7%), papGI 6 (4%), papGIII 6 (4%), kpsMTIII 4 (3%) and bmaE2 (1%). Conclusion Conclusively, this study provides important insights into the genetic and virulence attributes of pandemic MDR ST131 strains involved in UTIs. It also highlights high prevalence of ST131-O25b-H30 UPEC isolates in local population, which was previously unreported from this part of globe. Keywords: ST131, VF genes, ESBL, UPEC, MDR

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Presence of β-Lactamase-producing Enterobacterales and Salmonella Isolates in Marine Mammals

International Journal of Molecular Sciences ◽

10.3390/ijms22115905 ◽

2021 ◽

Vol 22 (11) ◽

pp. 5905

Author(s):

Olivia M. Grünzweil ◽

Lauren Palmer ◽

Adriana Cabal ◽

Michael P. Szostak ◽

Werner Ruppitsch ◽

...

Keyword(s):

Escherichia Coli ◽

Marine Mammals ◽

Virulence Genes ◽

Multidrug Resistant ◽

Healthcare Sector ◽

Whole Genome ◽

E Coli ◽

High Prevalence ◽

Lactamase Gene ◽

Sequence Types

Marine mammals have been described as sentinels of the health of marine ecosystems. Therefore, the aim of this study was to investigate (i) the presence of extended-spectrum β-lactamase (ESBL)- and AmpC-producing Enterobacterales, which comprise several bacterial families important to the healthcare sector, as well as (ii) the presence of Salmonella in these coastal animals. The antimicrobial resistance pheno- and genotypes, as well as biocide susceptibility of Enterobacterales isolated from stranded marine mammals, were determined prior to their rehabilitation. All E. coli isolates (n = 27) were screened for virulence genes via DNA-based microarray, and twelve selected E. coli isolates were analyzed by whole-genome sequencing. Seventy-one percent of the Enterobacterales isolates exhibited a multidrug-resistant (MDR) pheno- and genotype. The gene blaCMY (n = 51) was the predominant β-lactamase gene. In addition, blaTEM-1 (n = 38), blaSHV-33 (n = 8), blaCTX-M-15 (n = 7), blaOXA-1 (n = 7), blaSHV-11 (n = 3), and blaDHA-1 (n = 2) were detected. The most prevalent non-β-lactamase genes were sul2 (n = 38), strA (n = 34), strB (n = 34), and tet(A) (n = 34). Escherichia coli isolates belonging to the pandemic sequence types (STs) ST38, ST167, and ST648 were identified. Among Salmonella isolates (n = 18), S. Havana was the most prevalent serotype. The present study revealed a high prevalence of MDR bacteria and the presence of pandemic high-risk clones, both of which are indicators of anthropogenic antimicrobial pollution, in marine mammals.

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The AIDA Autotransporter System Is Associated with F18 and Stx2e in Escherichia coli Isolates from Pigs Diagnosed with Edema Disease and Postweaning Diarrhea

Clinical and Diagnostic Laboratory Immunology ◽

10.1128/cdli.8.1.143-149.2001 ◽

2001 ◽

Vol 8 (1) ◽

pp. 143-149 ◽

Cited By ~ 64

Author(s):

Ulla Niewerth ◽

Andreas Frey ◽

Thomas Voss ◽

Chantal Le Bouguénec ◽

Georg Baljer ◽

...

Keyword(s):

Escherichia Coli ◽

Western Blot ◽

Virulence Factors ◽

Rapid Screening ◽

Edema Disease ◽

E Coli ◽

Large Numbers ◽

High Prevalence ◽

Pcr Method ◽

Postweaning Diarrhea

ABSTRACT Pathogenic Escherichia coli strains are known to cause edema disease (ED) and postweaning diarrhea (PWD) in piglets. Although the exact mechanisms of pathogenicity that lead to ED-PWD remain to be elucidated, E. coli-borne Shiga-like toxin and adhesion-mediating virulence factors such as F18 adhesin or F4 fimbriae are believed to play a central role in ED-PWD. In light of these observations we investigated whether another E. coliadhesin, the plasmid-encoded AIDA (adhesin involved in diffuse adherence) might also be present in ED-PWD-causing E. coli isolates. For rapid screening for the AIDA system in large numbers of isolates, a multiplex PCR method along with a duplex Western blot procedure was developed. When screening 104 strains obtained from pigs with or without ED-PWD, we observed a high prevalence of the AIDA operon in porcine E. coli isolates, with over 25% of all strains being AIDA positive, and we could demonstrate a significant association of the intact AIDA gene (orfB) with ED-PWD, while defects in orfB were associated with the absence of disease. Although our data hint toward a contribution of AIDA to ED-PWD, further studies will be necessary since the presence of the AIDA genes was also associated with the presence of the Shiga-like toxin and F18 adhesin genes, two reported virulence factors for ED-PWD.

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Escherichia coli Isolates That Carryvat,fyuA,chuA, andyfcVEfficiently Colonize the Urinary Tract

Infection and Immunity ◽

10.1128/iai.00752-12 ◽

2012 ◽

Vol 80 (12) ◽

pp. 4115-4122 ◽

Cited By ~ 90

Author(s):

Rachel R. Spurbeck ◽

Paul C. Dinh ◽

Seth T. Walk ◽

Ann E. Stapleton ◽

Thomas M. Hooton ◽

...

Keyword(s):

Escherichia Coli ◽

Urinary Tract Infection ◽

Urinary Tract ◽

Tract Infection ◽

Virulence Factors ◽

Neonatal Meningitis ◽

Content Type ◽

E Coli ◽

Core Set ◽

Encoding Genes

ABSTRACTExtraintestinalEscherichia coli(ExPEC), a heterogeneous group of pathogens, encompasses avian, neonatal meningitis, and uropathogenicE. colistrains. While several virulence factors are associated with ExPEC, there is no core set of virulence factors that can be used to definitively differentiate these pathotypes. Here we describe a multiplex of four virulence factor-encoding genes,yfcV,vat,fyuA, andchuA, highly associated with uropathogenicE. colistrains that can distinguish three groups ofE. coli: diarrheagenic and animal-associatedE. colistrains, human commensal and avian pathogenicE. colistrains, and uropathogenic and neonatal meningitisE. colistrains. Furthermore, human intestinal isolates that encode all four predictor genes express them during exponential growth in human urine and colonize the bladder in the mouse model of ascending urinary tract infection in higher numbers than human commensal strains that do not encode the four predictor genes (P= 0.02), suggesting that the presence of the predictors correlates with uropathogenic potential.

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Prevalence of virulence factors in Escherichia coli isolated from healthy animals and water sources in Brazil

Journal of Water and Health ◽

10.2166/wh.2010.068 ◽

2011 ◽

Vol 9 (1) ◽

pp. 138-142 ◽

Cited By ~ 5

Author(s):

Camila Carlos ◽

Fabiana Alexandrino ◽

Monica A. M. Vieira ◽

Nancy C. Stoppe ◽

Maria Inês Z. Sato ◽

...

Keyword(s):

Escherichia Coli ◽

Virulence Factors ◽

Sewage Treatment ◽

E Coli ◽

Healthy Humans ◽

Tietê River ◽

Animal Source ◽

High Prevalence ◽

Clonal Origin ◽

High Diversity

The aim of this work was to verify the presence of seven virulence factors (ST, LT, eae, stx1, stx2, INV and EAEC) among Escherichia coli strains isolated from healthy humans, bovines, chickens, sheep, pigs and goats, from two sewage treatment plants and from the Tietê River. We have found a high prevalence of eae, stx1 and stx2 in ruminants. The EAEC gene was only found in humans and sewage. No strains presented ST, LT or INV. BOX-PCR fingerprints revealed a high diversity among the strains analysed and a non-clonal origin of strains that presented the same virulence factors. Therefore, we concluded that ruminants may constitute an important reservoir of most diarrheagenic E. coli in Brazil, except for EAEC strains. These results emphasize the importance of the identification of the animal source of fecal contamination for the correct water risk assessment.

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Phylogenetic association of fluoroquinolone and cephalosporin resistance of D-O1-ST648 Escherichia coli carrying bla CMY-2 from faecal samples of dogs in Japan

Journal of Medical Microbiology ◽

10.1099/jmm.0.054676-0 ◽

2014 ◽

Vol 63 (2) ◽

pp. 263-270 ◽

Cited By ~ 5

Author(s):

Toyotaka Sato ◽

Shin-ichi Yokota ◽

Torahiko Okubo ◽

Masaru Usui ◽

Nobuhiro Fujii ◽

...

Keyword(s):

Escherichia Coli ◽

Phylogenetic Group ◽

Clinical Isolates ◽

Dominant Group ◽

E Coli ◽

Faecal Samples ◽

Phylogenetic Grouping ◽

Cephalosporin Resistance ◽

Group D

This study aimed to investigate the genetic association between fluoroquinolone (FQ) and/or cephalosporin (CEP) resistance in Escherichia coli isolates from dogs, and the risk to human health. We characterized E. coli clinical isolates, derived from faecal samples of dogs attending veterinary hospitals, using phylogenetic grouping, determination of virulence factor (VF) prevalence, multilocus sequence typing (MLST) and O serotyping. The D group was the dominant phylogenetic group among strains resistant to FQ and/or CEP. In contrast, the dominant group among susceptible strains was group B2. Group D strains showed a significantly higher prevalence of VFs than strains belonging to groups A and B1, and were resistant to significantly more antimicrobials than group B2 strains. The phylogenetic distribution of FQ–CEP-resistant E. coli groups (FQ–CEPRECs) and FQ-resistant groups was significantly correlated (r = 0.98), but FQ–CEPRECs and CEP-resistant E. coli groups were not correlated (r = 0.58). Data from PFGE, O serotype and MLST analyses indicated that the majority of FQ-resistant strains derived from a particular lineage of phylogenetic group D: serotype O1 and sequence type (ST) 648. Some D-O1-ST648 strains carried bla CMY-2, showed multidrug resistance and possessed a higher prevalence of the VFs kspMT, ompT and PAI compared with other group D strains. Our data indicate that the emergence of FQ-CEP-resistant E. coli is based primarily on FQ-resistant E. coli. Moreover, as strains of the D-O1-ST648 lineage have been found in clinical isolates derived from humans at a relatively high frequency, our findings indicate that the spreading of D-O1-ST648 strains may cause serious difficulties in both veterinary and human clinical fields in the future.

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Virulence factors of Escherichia coli: an overview of animal and human infections with emphasis in bovine mastitis

Semina Ciências Agrárias ◽

10.5433/1679-0359.2019v40n5p2087 ◽

2019 ◽

Vol 40 (5) ◽

pp. 2087

Author(s):

Simony Trevizan Guerra ◽

Carolina Lechinski de Paula ◽

Carmen Alicia Daza Bolaños ◽

Rodrigo Tavanelli Hernandes ◽

Márcio Garcia Ribeiro

Keyword(s):

Escherichia Coli ◽

Virulence Factors ◽

Bovine Mastitis ◽

Clinical Mastitis ◽

Clinical Severity ◽

E Coli ◽

Intestinal Infections ◽

Wide Range ◽

Environmental Agents ◽

The Impact

Escherichia coli is a normal inhabitant of the enteric microflora of human and animal. Intestinal and extra-intestinal infections caused by E. coli in mammals are characterized by the presence of diversity of virulence factors. In addition it can be isolated from environment surrounding human and animal farms. E. coli is the main environmental pathogen causing clinical mastitis in dairy cattle. It causes a wide range of disease severity, from changes seen exclusively in milk to severe systemic signs. The severity of clinical mastitis has been conventionally classified into three levels: mild (grade 1), moderate (score 2), and severe (score 3). Recently, reports of cases of bovine mastitis caused by environmental agents have been on the rise, in particular in countries that have succeeded in controlling contagious microorganisms. Unlike enteric and certain extra-enteric conditions in domestic animals and humans, the impact of virulence factors on the occurrence of bovine mastitis due to E. coli, as well as the clinical severity of the cases, is not fully understood. In this regard, the present study reviewed the most relevant virulence factors of E. coli in human and animals, with emphasis in bovine mastitis.

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Prevalence and characterization of Escherichia coli in the Kelantan River and its adjacent coastal waters

Water Science & Technology Water Supply ◽

10.2166/ws.2020.018 ◽

2020 ◽

Vol 20 (3) ◽

pp. 930-942

Author(s):

Chui Wei Bong ◽

Siong Kiat Chai ◽

Lay Ching Chai ◽

Ai Jun Wang ◽

Choon Weng Lee

Keyword(s):

Escherichia Coli ◽

Coastal Waters ◽

Membrane Filtration ◽

Sea Water ◽

Phylogenetic Group ◽

Animal Origin ◽

Phylogenetic Groups ◽

E Coli ◽

Colony Forming Units ◽

Phylogenetic Grouping

Abstract The presence of Escherichia coli in river and sea water may cause different levels of infections and constitutes a risk to public health. In this study, water samples were collected from 15 sites along the Kelantan River, estuaries and its adjacent coastal waters to investigate the prevalence and diversity of E. coli. A membrane filtration technique was used to enumerate E. coli and phylogenetic grouping was performed using triplex polymerase chain reaction. E. coli abundance ranged from 3.1 × 10 to 1.6 × 105 colony forming units 100 mL−1, and total suspended solids correlated significantly with E. coli abundance (r2 = 0.165, p < 0.001) and rainfall (r2 = 0.342, p < 0.001). Phylogenetic group B1 and A (59.4%) were the most prevalent, whereas groups B2 and D were least abundant. The higher abundance of phylogenetic group D at upstream sites of the Kelantan River suggested fecal contamination mainly of animal origin. Canonical-correlation analysis showed phylogenetic group B2, and phylogenetic groups A and D were greater in waters with higher inorganic nutrients (e.g. NH4, NO2 and NO3), whereas phylogenetic group B1 appeared to have better salinity tolerance between phylogenetic groups.

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