Distribution and relationships of antimicrobial resistance determinants among extended-spectrum-cephalosporin-resistant or carbapenem-resistant Escherichia coli isolates from rivers and sewage treatment plants in India

Masato Akiba, Tsuyoshi Sekizuka, Akifumi Yamashita, Makoto Kuroda, Yuki Fujii, Misato Murata, Ken Ichi Lee, Derrick Ian Joshua, Keshava Balakrishna, Indira Bairy, Kaushik Subramanian, Padma Krishnan, Natesan Munuswamy, Ravindra K. Sinha, Taketoshi Iwata, Masahiro Kusumoto, Keerthi S. Guruge

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Abstract

To determine the distribution and relationship of antimicrobial resistance determinants among extended-spectrum-cephalosporin (ESC)-resistant or carbapenem-resistant Escherichia coli isolates from the aquatic environment in India, water samples were collected from rivers or sewage treatment plants in five Indian states. A total of 446 E. coli isolates were randomly obtained. Resistance to ESC and/or carbapenem was observed in 169 (37.9%) E. coli isolates, which were further analyzed. These isolates showed resistance to numerous antimicrobials; more than half of the isolates exhibited resistance to eight or more antimicrobials. The blaNDM gene was detected in 14/21 carbapenem-resistant E. coli isolates: blaNDM-1 in 2 isolates, blaNDM-5 in 7 isolates, and blaNDM-7 in 5 isolates. The blaCTX-M gene was detected in 112 isolates (66.3%): blaCTX-M-15 in 108 isolates and blaCTX-M-55 in 4 isolates. We extracted 49 plasmids from selected isolates, and their whole-genome sequences were determined. Fifty resistance genes were detected, and 11 different combinations of replicon types were observed among the 49 plasmids. The network analysis results suggested that the plasmids sharing replicon types tended to form a community, which is based on the predicted gene similarity among the plasmids. Four communities each containing from 4 to 17 plasmids were observed. Three of the four communities contained plasmids detected in different Indian states, suggesting that the interstate dissemination of ancestor plasmids has already occurred. Comparison of the DNA sequences of the blaNDM-positive plasmids detected in this study with known sequences of related plasmids suggested that various mutation events facilitated the evolution of the plasmids and that plasmids with similar genetic backgrounds have widely disseminated in India.

Original languageEnglish
Pages (from-to)2972-2980
Number of pages9
JournalAntimicrobial Agents and Chemotherapy
Volume60
Issue number5
DOIs
Publication statusPublished - 01-05-2016

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Carbapenems
Cephalosporins
Sewage
Rivers
India
Plasmids
Escherichia coli
Replicon
Genes
Genome

All Science Journal Classification (ASJC) codes

  • Pharmacology
  • Pharmacology (medical)
  • Infectious Diseases

Cite this

Akiba, Masato ; Sekizuka, Tsuyoshi ; Yamashita, Akifumi ; Kuroda, Makoto ; Fujii, Yuki ; Murata, Misato ; Lee, Ken Ichi ; Joshua, Derrick Ian ; Balakrishna, Keshava ; Bairy, Indira ; Subramanian, Kaushik ; Krishnan, Padma ; Munuswamy, Natesan ; Sinha, Ravindra K. ; Iwata, Taketoshi ; Kusumoto, Masahiro ; Guruge, Keerthi S. / Distribution and relationships of antimicrobial resistance determinants among extended-spectrum-cephalosporin-resistant or carbapenem-resistant Escherichia coli isolates from rivers and sewage treatment plants in India. In: Antimicrobial Agents and Chemotherapy. 2016 ; Vol. 60, No. 5. pp. 2972-2980.
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abstract = "To determine the distribution and relationship of antimicrobial resistance determinants among extended-spectrum-cephalosporin (ESC)-resistant or carbapenem-resistant Escherichia coli isolates from the aquatic environment in India, water samples were collected from rivers or sewage treatment plants in five Indian states. A total of 446 E. coli isolates were randomly obtained. Resistance to ESC and/or carbapenem was observed in 169 (37.9{\%}) E. coli isolates, which were further analyzed. These isolates showed resistance to numerous antimicrobials; more than half of the isolates exhibited resistance to eight or more antimicrobials. The blaNDM gene was detected in 14/21 carbapenem-resistant E. coli isolates: blaNDM-1 in 2 isolates, blaNDM-5 in 7 isolates, and blaNDM-7 in 5 isolates. The blaCTX-M gene was detected in 112 isolates (66.3{\%}): blaCTX-M-15 in 108 isolates and blaCTX-M-55 in 4 isolates. We extracted 49 plasmids from selected isolates, and their whole-genome sequences were determined. Fifty resistance genes were detected, and 11 different combinations of replicon types were observed among the 49 plasmids. The network analysis results suggested that the plasmids sharing replicon types tended to form a community, which is based on the predicted gene similarity among the plasmids. Four communities each containing from 4 to 17 plasmids were observed. Three of the four communities contained plasmids detected in different Indian states, suggesting that the interstate dissemination of ancestor plasmids has already occurred. Comparison of the DNA sequences of the blaNDM-positive plasmids detected in this study with known sequences of related plasmids suggested that various mutation events facilitated the evolution of the plasmids and that plasmids with similar genetic backgrounds have widely disseminated in India.",
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Akiba, M, Sekizuka, T, Yamashita, A, Kuroda, M, Fujii, Y, Murata, M, Lee, KI, Joshua, DI, Balakrishna, K, Bairy, I, Subramanian, K, Krishnan, P, Munuswamy, N, Sinha, RK, Iwata, T, Kusumoto, M & Guruge, KS 2016, 'Distribution and relationships of antimicrobial resistance determinants among extended-spectrum-cephalosporin-resistant or carbapenem-resistant Escherichia coli isolates from rivers and sewage treatment plants in India', Antimicrobial Agents and Chemotherapy, vol. 60, no. 5, pp. 2972-2980. https://doi.org/10.1128/AAC.01950-15

Distribution and relationships of antimicrobial resistance determinants among extended-spectrum-cephalosporin-resistant or carbapenem-resistant Escherichia coli isolates from rivers and sewage treatment plants in India. / Akiba, Masato; Sekizuka, Tsuyoshi; Yamashita, Akifumi; Kuroda, Makoto; Fujii, Yuki; Murata, Misato; Lee, Ken Ichi; Joshua, Derrick Ian; Balakrishna, Keshava; Bairy, Indira; Subramanian, Kaushik; Krishnan, Padma; Munuswamy, Natesan; Sinha, Ravindra K.; Iwata, Taketoshi; Kusumoto, Masahiro; Guruge, Keerthi S.

In: Antimicrobial Agents and Chemotherapy, Vol. 60, No. 5, 01.05.2016, p. 2972-2980.

Research output: Contribution to journalArticle

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AU - Sekizuka, Tsuyoshi

AU - Yamashita, Akifumi

AU - Kuroda, Makoto

AU - Fujii, Yuki

AU - Murata, Misato

AU - Lee, Ken Ichi

AU - Joshua, Derrick Ian

AU - Balakrishna, Keshava

AU - Bairy, Indira

AU - Subramanian, Kaushik

AU - Krishnan, Padma

AU - Munuswamy, Natesan

AU - Sinha, Ravindra K.

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AU - Kusumoto, Masahiro

AU - Guruge, Keerthi S.

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