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Analysis of multi-sample pools in the detection of SARS-CoV-2 RNA for mass screening: An Indian perspective.
Indian J Med Microbiol. 2020 Jul-Dec; 38(3 & 4):451-456.IJ

Abstract

In the current COVID-19 crisis, many national healthcare systems are confronted with a huge demand for mass testing and an acute shortage of diagnostic resources. Considering group testing as a viable solution, this pilot study was carried out to find the maximum number of samples that can be pooled together to accurately detect one positive sample carrying the severe acute respiratory syndrome-coronavirus 2 viral RNA from different pools. We made different pool sizes ranging from 5 to 30 samples. Three positive samples, covering the common range of polymerase chain reaction (PCR) threshold cycle values (an indirect indicator of viral load) observed in our patients, were selected, and different pools were made with known negative samples. The pools underwent real-time qualitative PCR for the determination of effective maximum pool size. It was observed that up to 20-sample pools of all positive samples could accurately be detected in terms of both E gene and RdRp gene, leading to considerable conservation of resources, time and workforce. However, while deciding the optimal pool size, the infection level in that particular geographical area and sensitivity of the test assay used (limit of detection) have to be taken into account.

Authors+Show Affiliations

Department of Microbiology, All India Institute of Medical Sciences, Rishikesh, Uttarakhand, India.Department of Microbiology, All India Institute of Medical Sciences, Rishikesh, Uttarakhand, India.Department of Microbiology, All India Institute of Medical Sciences, Rishikesh, Uttarakhand, India.Department of Microbiology, All India Institute of Medical Sciences, Rishikesh, Uttarakhand, India.

Pub Type(s)

Journal Article

Language

eng

PubMed ID

33154262

Citation

Deka, Sangeeta, et al. "Analysis of Multi-sample Pools in the Detection of SARS-CoV-2 RNA for Mass Screening: an Indian Perspective." Indian Journal of Medical Microbiology, vol. 38, no. 3 & 4, 2020, pp. 451-456.
Deka S, Kalita D, Mangla A, et al. Analysis of multi-sample pools in the detection of SARS-CoV-2 RNA for mass screening: An Indian perspective. Indian J Med Microbiol. 2020;38(3 & 4):451-456.
Deka, S., Kalita, D., Mangla, A., & Shankar, R. (2020). Analysis of multi-sample pools in the detection of SARS-CoV-2 RNA for mass screening: An Indian perspective. Indian Journal of Medical Microbiology, 38(3 & 4), 451-456. https://doi.org/10.4103/ijmm.IJMM_20_273
Deka S, et al. Analysis of Multi-sample Pools in the Detection of SARS-CoV-2 RNA for Mass Screening: an Indian Perspective. Indian J Med Microbiol. 2020 Jul-Dec;38(3 & 4):451-456. PubMed PMID: 33154262.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Analysis of multi-sample pools in the detection of SARS-CoV-2 RNA for mass screening: An Indian perspective. AU - Deka,Sangeeta, AU - Kalita,Deepjyoti, AU - Mangla,Amit, AU - Shankar,Ravi, PY - 2020/11/6/entrez PY - 2020/11/7/pubmed PY - 2020/12/2/medline KW - COVID-19 KW - SARS-CoV-2 KW - group testing KW - pooling KW - reverse-transcriptase-polymerase chain reaction SP - 451 EP - 456 JF - Indian journal of medical microbiology JO - Indian J Med Microbiol VL - 38 IS - 3 & 4 N2 - In the current COVID-19 crisis, many national healthcare systems are confronted with a huge demand for mass testing and an acute shortage of diagnostic resources. Considering group testing as a viable solution, this pilot study was carried out to find the maximum number of samples that can be pooled together to accurately detect one positive sample carrying the severe acute respiratory syndrome-coronavirus 2 viral RNA from different pools. We made different pool sizes ranging from 5 to 30 samples. Three positive samples, covering the common range of polymerase chain reaction (PCR) threshold cycle values (an indirect indicator of viral load) observed in our patients, were selected, and different pools were made with known negative samples. The pools underwent real-time qualitative PCR for the determination of effective maximum pool size. It was observed that up to 20-sample pools of all positive samples could accurately be detected in terms of both E gene and RdRp gene, leading to considerable conservation of resources, time and workforce. However, while deciding the optimal pool size, the infection level in that particular geographical area and sensitivity of the test assay used (limit of detection) have to be taken into account. SN - 1998-3646 UR - https://www.unboundmedicine.com/medline/citation/33154262/Analysis_of_multi_sample_pools_in_the_detection_of_SARS_CoV_2_RNA_for_mass_screening:_An_Indian_perspective_ L2 - https://linkinghub.elsevier.com/retrieve/pii/IndianJMedMicrobiol_2020_38_3_451_299823 DB - PRIME DP - Unbound Medicine ER -