Preprint Review Version 2 Preserved in Portico This version is not peer-reviewed

Effect of Incorporation of Bead-Beating during DNA Extraction for Detection of Trichuris trichiura in Stool Samples in Community Settings: A Systematic Review

Version 1 : Received: 22 April 2020 / Approved: 23 April 2020 / Online: 23 April 2020 (15:29:18 CEST)
Version 2 : Received: 18 April 2021 / Approved: 19 April 2021 / Online: 19 April 2021 (11:54:06 CEST)

How to cite: Rana, D.; Pokhrel, N. Effect of Incorporation of Bead-Beating during DNA Extraction for Detection of Trichuris trichiura in Stool Samples in Community Settings: A Systematic Review. Preprints 2020, 2020040419 (doi: 10.20944/preprints202004.0419.v2). Rana, D.; Pokhrel, N. Effect of Incorporation of Bead-Beating during DNA Extraction for Detection of Trichuris trichiura in Stool Samples in Community Settings: A Systematic Review. Preprints 2020, 2020040419 (doi: 10.20944/preprints202004.0419.v2).

Abstract

Objectives: This meta-analysis was designed to assess the effect of addition of a bead-beating step during DNA extraction to effectively isolate Trichuris trichura DNA for quantitative Polymerase Chain Reaction (qPCR)-based diagnosis. Abstract was reported according to PRISMA-DTA abstract checklist. Methods: Eligibility criteria: qPCR-based molecular studies comparing the inclusion of bead-beating step during the DNA extraction from stool samples with extraction without the step were included in the analysis. Information sources: Studies using real patient samples in community settings were included. PubMed and Google search engine were searched in December 2019. Risk of bias and applicability: Risk of bias and applicability were assessed using QUADAS-2 checklist. Synthesis of results: Odds ratio for individual studies were combined to estimate Random Effects Model odds ratio. Additional literature were searched to discuss biochemical nature of helminth eggs. Results:Included studies: A total of six independent sub-studies were gathered from two published original articles. Division of the two major studies into six sub-studies was indispensable due to natures of the study carried. 128 of total 192 samples (in all studies) were positive for Trichiuris trichiura when bead-beating was used during DNA extraction compared to 108/192 when bead-beating was excluded. Combined odds ratio was 1.66 (95% CI: 1.059 to 2.602). Biochemical nature of helminth eggs was discussed. Discussions: Strengths and limitations: Though only two article were included in the study, six exclusive individual sub-studies were analyzed. Inherent differences in the background prevalence of helminth in study population could impact sensitivity of qPCR. Interpretation: It was found that the inclusion of the bead-beating step during DNA extraction significantly increased the sensitivity of the test.

Subject Areas

Trichuris trichiura; polymerase chain reaction; bead-beating; DNA extraction; Systematic review

Comments (1)

Comment 1
Received: 19 April 2021
Commenter: Divya Rana
Commenter's Conflict of Interests: Author
Comment: This manuscript has been rewritten according to Preferred Reporting Items for a Systematic Review and Meta-analysis for  Diagnostic Test Accuracy Studies (PRISMA-DTA). Risk of bias and applicability has been carried according to QUADAS-2 guidelines. Figures and files related to QUADAS-2 has been added.
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