Resistome characterization of extended-spectrum beta-lactamase (ESBL)-producing <i>Escherichia coli</i> isolated from wastewater treatment utilities in Oregon

Easler, Maeghan; Cheney, Clinton; Johnson, Jared; Zadeh, M. Khorshidi; Nguyen, Jacquelynn N.; Yiu, Sue Yee; Waite‐Cusic, Joy; Radniecki, Tyler S.; Navab-Daneshmand, Tala

doi:10.2166/wh.2022.292

Cited by 3 publications

(4 citation statements)

References 36 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Bacteria carrying extended-spectrum beta-lactamases (ESBL) commonly possess one of the three gene types bla TEM , bla CTX-M , and bla SHV , thereby enhancing their ability to develop resistance against β-lactam antibiotics [ 38 ]. Moreover, ESBL-producing E. coli are more inclined to exhibit resistance to multiple drugs than E. coli that do not produce ESBL [ 39 ]. In the present study, the majority of MDR E. coli strains possessed bla TEM and bla CTX-M , with the presence of bla SHV notably lacking.…”

Section: Discussionmentioning

confidence: 99%

Comprehensive Assessment of Multidrug-Resistant and Extraintestinal Pathogenic Escherichia coli in Wastewater Treatment Plant Effluents

Park,

Bae,

Kang

et al. 2024

Microorganisms

View full text Add to dashboard Cite

Multidrug-resistant (MDR) Escherichia coli poses a significant threat to public health, contributing to elevated rates of morbidity, mortality, and economic burden. This study focused on investigating the antibiotic resistance profiles, resistance and virulence gene distributions, biofilm formation capabilities, and sequence types of E. coli strains resistant to six or more antibiotic classes. Among 918 strains isolated from 33 wastewater treatment plants (WWTPs), 53.6% (492/918) demonstrated resistance, 32.5% (298/918) were MDR, and over 8% (74/918) were resistant to six or more antibiotic classes, exhibiting complete resistance to ampicillin and over 90% to sulfisoxazole, nalidixic acid, and tetracycline. Key resistance genes identified included sul2, blaTEM, tetA, strA, strB, and fimH as the predominant virulence genes linked to cell adhesion but limited biofilm formation; 69% showed no biofilm formation, and approximately 3% were strong producers. Antibiotic residue analysis detected ciprofloxacin, sulfamethoxazole, and trimethoprim in all 33 WWTPs. Multilocus sequence typing analysis identified 29 genotypes, predominantly ST131, ST1193, ST38, and ST69, as high-risk clones of extraintestinal pathogenic E. coli. This study provided a comprehensive analysis of antibiotic resistance in MDR E. coli isolated from WWTPs, emphasizing the need for ongoing surveillance and research to effectively manage antibiotic resistance.

show abstract

Section: Discussionmentioning

confidence: 99%

Comprehensive Assessment of Multidrug-Resistant and Extraintestinal Pathogenic Escherichia coli in Wastewater Treatment Plant Effluents

Park,

Bae,

Kang

et al. 2024

Microorganisms

View full text Add to dashboard Cite

show abstract

“…E. coli strains were previously isolated from influent, secondary effluent, final effluent, and biosolids streams of eight wastewater treatment utilities across Oregon as described in our previous study (Table S1) (26). Wastewater samples were collected between January 2019 and September 2020.…”

Section: E Coli Isolates and Wastewater Samplesmentioning

confidence: 99%

“…Long-read sequencing libraries were prepared using the Rapid Barcoding Sequencing kit (SQK-RBK004) and sequenced on a MinION system (Oxford Nanopore, Oxford, UK) following the manufacturer's protocol. Short-read sequencing was performed using the Illumina MiSeq as described previously (26).…”

Section: Whole Genome Sequencing and Analysismentioning

confidence: 99%

“…In this paper, we resolved the genome of ESBL-producing E. coli isolates collected from wastewater utilities in Oregon whose AMR genotypes and phenotypes were previously characterized in our lab (26). Using a hybrid sequencing and assembly strategy (short- and long-read sequencing), we identified ARGs and virulence factors harbored on plasmids and chromosomes.…”

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

Resolved Genomes of Wastewater ESBL-ProducingEscherichia coliand Metagenomic Analysis of Source Wastewater Samples

Cheney,

Johnson,

Marie

et al. 2024

Preprint

Self Cite

View full text Add to dashboard Cite

Extended-spectrum beta-lactamase (ESBL) producingEscherichia colipose a serious threat to human health because of their resistance to the most commonly prescribed antibiotics: penicillins and cephalosporins. In this study, we provide a genomic and metagenomic context for the determinant ESBL genes ofE. coliisolated from various wastewater treatment utilities in Oregon, USA. Class A beta-lactamase genes on chromosomes (blaCTX-M,blaTEM) were clustered with antibiotic resistance genes associated with other classes of antibiotics (sulfonamides and aminoglycosides) along with insertional elements. ESBL genes such asblaCTX-M,blaTEM, andblaSHV were also detected on conjugable plasmids of IncF and IncI incompatibility types. One novel IncF plasmid (pSHV2A_ESBLF) was identified in which carried a multi-drug resistance genotype (blaSHV-2A,aadA22,aac3,aph6,tetA, andsul1) in addition to amer(mercury resistance) operon, colicin, and aerobactin genes. Shotgun metagenomic analysis of theE. coli-originating wastewater samples showed the presence of class A beta-lactamases; however, the ESBL genes identified in theE. coligenomes were below the detection limits. Other ESBL-associated genes (i.e.,blaOXA.11,blaFOX.7, andblaGES.17) were identified in the wastewater samples and their occurrences were correlated with the core microbial genera (e.g.,Paraprevotella). In both theE. coligenomes and the wastewater samples, tetracycline, aminoglycoside, and beta-lactam resistance determinants frequently co-occurred. The unique combination of whole-genome and metagenomic analysis provides a holistic description of ESBL-producing organisms and genes in the Oregonian wastewater system.

show abstract

Resolved genomes of wastewater ESBL-producing Escherichia coli and metagenomic analysis of source wastewater samples

Cheney,

Johnson,

Ste. Marie

et al. 2024

Microbiol Spectr

View full text Add to dashboard Cite

Extended-spectrum beta-lactamase (ESBL)-producing Escherichia coli pose a serious threat to human health because of their resistance to the most commonly prescribed antibiotics: penicillins and cephalosporins. In this study, we provide a genomic and metagenomic context for the determinant beta-lactam resistance genes of ESBL-positive E. coli isolated from various wastewater treatment utilities in Oregon, USA. Class A beta-lactamase genes on chromosomes ( bla CTX-M, bla TEM) were clustered with antibiotic resistance genes associated with other classes of antibiotics (sulfonamides and aminoglycosides) along with insertional elements. ESBL genes such as bla CTX-M, bla TEM, and bla SHV were also detected on conjugable plasmids of IncF and IncI incompatibility types. One novel IncF plasmid (pSHV2A_ESBLF) was identified, which carried a multidrug resistance genotype ( bla SHV-2A, aadA22 , aac 3, aph 6, tet A, and sul 1) in addition to a mer (mercury resistance) operon, colicin, and aerobactin genes. Shotgun metagenomic analysis of the ESBL-producing E. coli -originating wastewater samples showed the presence of class A beta-lactamases; however, the ESBL genes identified in the E. coli genomes were below the detection limits. Other ESBL-associated genes (i.e., bla OXA.11, bla FOX.7, and bla GES.17) were identified in the wastewater samples, and their occurrences were correlated with the core microbial genera (e.g., Paraprevotella ). In the E. coli genomes and wastewater samples, tetracycline, aminoglycoside, and beta-lactam resistance determinants frequently co-occurred. The combination of whole-genome and metagenomic analysis provides a holistic description of ESBL-producing organisms and genes in wastewater systems. IMPORTANCE Using a hybrid sequencing and assembly strategy (short- and long-read sequencing), we identified the distribution of ARGs and virulence factors harbored on plasmids and chromosomes. We further characterized plasmids’ incompatibility types and the co-occurrences of ARGs and virulence factors on plasmids and chromosomes. We investigated the transferability of plasmid-mediated beta-lactams via conjugation. Finally, using shotgun metagenomic analysis of the ESBL-producing Escherichia coli -originated wastewater samples, we described the microbial community, the resistome composition, and the potential associations with plasmid-mediated beta-lactam genes and other ARGs.

show abstract

Resistome characterization of extended-spectrum beta-lactamase (ESBL)-producing Escherichia coli isolated from wastewater treatment utilities in Oregon

Cited by 3 publications

References 36 publications

Comprehensive Assessment of Multidrug-Resistant and Extraintestinal Pathogenic Escherichia coli in Wastewater Treatment Plant Effluents

Comprehensive Assessment of Multidrug-Resistant and Extraintestinal Pathogenic Escherichia coli in Wastewater Treatment Plant Effluents

Resolved Genomes of Wastewater ESBL-ProducingEscherichia coliand Metagenomic Analysis of Source Wastewater Samples

Resolved genomes of wastewater ESBL-producing Escherichia coli and metagenomic analysis of source wastewater samples

Contact Info

Product

Resources

About