PreprintReviewVersion 2Preserved in Portico This version is not peer-reviewed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. Preprints2020, 2020040419. https://doi.org/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. https://doi.org/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. Preprints2020, 2020040419. https://doi.org/10.20944/preprints202004.0419.v2
APA Style
Rana, D., & Pokhrel, N. (2021). Effect of Incorporation of Bead-Beating during DNA Extraction for Detection of Trichuris trichiura in Stool Samples in Community Settings: A Systematic Review. Preprints. https://doi.org/10.20944/preprints202004.0419.v2
Chicago/Turabian Style
Rana, D. and Nischal Pokhrel. 2021 "Effect of Incorporation of Bead-Beating during DNA Extraction for Detection of Trichuris trichiura in Stool Samples in Community Settings: A Systematic Review" Preprints. https://doi.org/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.
Keywords
Trichuris trichiura; polymerase chain reaction; bead-beating; DNA extraction; Systematic review
Subject
Biology and Life Sciences, Biochemistry and Molecular Biology
Copyright:
This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
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.
Commenter: Divya Rana
Commenter's Conflict of Interests: Author