Evaluation of LAMP-based assays for carbapenemase genes

Surobhi Lahiri, Rasika Venkataraman, Akshaya Jagan, Gargi Deshmukh, Sudipta Patra, Vani Reddy, V. Sangeetha, Rachana Solanki, Jyoti Gupta, Karuna Patel, Anuradha De, Chiranjay Mukhopadhyay, Mary Dias, Reba Kanungo, Deepak Mendiratta, Pradeep Nawal, Jayanthi Shastri, Lakshmi Vemu, Radha Rangarajan

Research output: Contribution to journalArticle

Abstract

Purpose. Rapid and accurate detection of carbapenem resistance is a critical requirement for the selection of appropriate therapy and initiation of infection control measures. Although several tests are available, their use is limited by one or more factors. Phenotypic tests are lengthy, have variable sensitivity and specificity and do not generally identify the carbapenemase. Molecular assays overcome many of these issues but cost can be a barrier to adoption, particularly in low-resource settings. To address the need for affordable, molecular tools, we have assessed the performance characteristics of loop-mediated isothermal amplification (LAMP)-based assays for the major carbapenemase genes, blaNDM, blaKPC, blaOXA-48, blaOXA-23 blaVIM and blaIMP.Methodology. The assays were validated using 1849 Gram-negative Indian clinical isolates obtained from seven hospitals and diagnostic centres.Results. The assays had diagnostic sensitivities of 98.14 %, 98.92 %, 100 %, 98.48 %, and diagnostic specificities of 98.94 %, 99.61 %, 97.42 %, 99.38 % for blaNDM, blaOXA-48, blaOXA-23 and blaVIM, respectively. Due to a low number of isolates positive for blaKPC and blaIMP, the performance characteristics of assays for these two genes could not be suitably evaluated.Conclusion. The performance characteristics suggest suitability for diagnostic and surveillance purposes.

Original languageEnglish
Pages (from-to)1431-1437
Number of pages7
JournalJournal of Medical Microbiology
Volume68
Issue number10
DOIs
Publication statusPublished - 01-10-2019

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Carbapenems
Infection Control
Genes
Costs and Cost Analysis
Sensitivity and Specificity
carbapenemase
Therapeutics

All Science Journal Classification (ASJC) codes

  • Microbiology
  • Microbiology (medical)

Cite this

Lahiri, S., Venkataraman, R., Jagan, A., Deshmukh, G., Patra, S., Reddy, V., ... Rangarajan, R. (2019). Evaluation of LAMP-based assays for carbapenemase genes. Journal of Medical Microbiology, 68(10), 1431-1437. https://doi.org/10.1099/jmm.0.001050
Lahiri, Surobhi ; Venkataraman, Rasika ; Jagan, Akshaya ; Deshmukh, Gargi ; Patra, Sudipta ; Reddy, Vani ; Sangeetha, V. ; Solanki, Rachana ; Gupta, Jyoti ; Patel, Karuna ; De, Anuradha ; Mukhopadhyay, Chiranjay ; Dias, Mary ; Kanungo, Reba ; Mendiratta, Deepak ; Nawal, Pradeep ; Shastri, Jayanthi ; Vemu, Lakshmi ; Rangarajan, Radha. / Evaluation of LAMP-based assays for carbapenemase genes. In: Journal of Medical Microbiology. 2019 ; Vol. 68, No. 10. pp. 1431-1437.
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Lahiri, S, Venkataraman, R, Jagan, A, Deshmukh, G, Patra, S, Reddy, V, Sangeetha, V, Solanki, R, Gupta, J, Patel, K, De, A, Mukhopadhyay, C, Dias, M, Kanungo, R, Mendiratta, D, Nawal, P, Shastri, J, Vemu, L & Rangarajan, R 2019, 'Evaluation of LAMP-based assays for carbapenemase genes', Journal of Medical Microbiology, vol. 68, no. 10, pp. 1431-1437. https://doi.org/10.1099/jmm.0.001050

Evaluation of LAMP-based assays for carbapenemase genes. / Lahiri, Surobhi; Venkataraman, Rasika; Jagan, Akshaya; Deshmukh, Gargi; Patra, Sudipta; Reddy, Vani; Sangeetha, V.; Solanki, Rachana; Gupta, Jyoti; Patel, Karuna; De, Anuradha; Mukhopadhyay, Chiranjay; Dias, Mary; Kanungo, Reba; Mendiratta, Deepak; Nawal, Pradeep; Shastri, Jayanthi; Vemu, Lakshmi; Rangarajan, Radha.

In: Journal of Medical Microbiology, Vol. 68, No. 10, 01.10.2019, p. 1431-1437.

Research output: Contribution to journalArticle

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T1 - Evaluation of LAMP-based assays for carbapenemase genes

AU - Lahiri, Surobhi

AU - Venkataraman, Rasika

AU - Jagan, Akshaya

AU - Deshmukh, Gargi

AU - Patra, Sudipta

AU - Reddy, Vani

AU - Sangeetha, V.

AU - Solanki, Rachana

AU - Gupta, Jyoti

AU - Patel, Karuna

AU - De, Anuradha

AU - Mukhopadhyay, Chiranjay

AU - Dias, Mary

AU - Kanungo, Reba

AU - Mendiratta, Deepak

AU - Nawal, Pradeep

AU - Shastri, Jayanthi

AU - Vemu, Lakshmi

AU - Rangarajan, Radha

PY - 2019/10/1

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N2 - Purpose. Rapid and accurate detection of carbapenem resistance is a critical requirement for the selection of appropriate therapy and initiation of infection control measures. Although several tests are available, their use is limited by one or more factors. Phenotypic tests are lengthy, have variable sensitivity and specificity and do not generally identify the carbapenemase. Molecular assays overcome many of these issues but cost can be a barrier to adoption, particularly in low-resource settings. To address the need for affordable, molecular tools, we have assessed the performance characteristics of loop-mediated isothermal amplification (LAMP)-based assays for the major carbapenemase genes, blaNDM, blaKPC, blaOXA-48, blaOXA-23 blaVIM and blaIMP.Methodology. The assays were validated using 1849 Gram-negative Indian clinical isolates obtained from seven hospitals and diagnostic centres.Results. The assays had diagnostic sensitivities of 98.14 %, 98.92 %, 100 %, 98.48 %, and diagnostic specificities of 98.94 %, 99.61 %, 97.42 %, 99.38 % for blaNDM, blaOXA-48, blaOXA-23 and blaVIM, respectively. Due to a low number of isolates positive for blaKPC and blaIMP, the performance characteristics of assays for these two genes could not be suitably evaluated.Conclusion. The performance characteristics suggest suitability for diagnostic and surveillance purposes.

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Lahiri S, Venkataraman R, Jagan A, Deshmukh G, Patra S, Reddy V et al. Evaluation of LAMP-based assays for carbapenemase genes. Journal of Medical Microbiology. 2019 Oct 1;68(10):1431-1437. https://doi.org/10.1099/jmm.0.001050