Evaluating the performance of five up-to-date DNA/RNA co-extraction methods for forensic application

Wang, Shouyu; Shanthan, Gnanagowry; Bouzga, Mariam; Dinh, Huyen; Haas, Cordula; Fonneløp, Ane Elida

doi:10.1016/j.forsciint.2021.110996

Cited by 17 publications

(8 citation statements)

References 25 publications

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“…All experimental samples were co-extracted using QIAamp DNA mini kit (QIAGEN) and mirVANA™ miRNA isolation kit (invitrogen by Thermo Fisher Scientific). The applied method was retrieved from the paper by Lindenbergh et al [8] with a few exceptions described by Wang et al [28]. A negative extraction control was included in each co-extraction run; 23 controls were analysed in total.…”

Section: Dna and Rna Co-extractionmentioning

confidence: 99%

Transfer, persistence and recovery of DNA and mRNA vaginal mucosa markers after intimate and social contact with Bayesian network analysis for activity level reporting

Johannessen

Gill

Shantan

et al. 2022

Forensic Science International: Genetics

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Section: Dna and Rna Co-extractionmentioning

confidence: 99%

Transfer, persistence and recovery of DNA and mRNA vaginal mucosa markers after intimate and social contact with Bayesian network analysis for activity level reporting

Johannessen

Gill

Shantan

et al. 2022

Forensic Science International: Genetics

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“…To reduce interference material in the sample, and to avoid influence on the determination of the result, sample purification is an important step that cannot be ignored. Currently, for the extraction and purification of NA, common methods are magnetic bead-based, column-based, and phenol-chloroform-based ( Mou et al, 2019 ; Wang S et al, 2021 ; White et al, 2022 ). In the early days of POCT devices, few researchers considered the project of integrating sample preprocessing into POCT devices.…”

Section: Loading the Samplementioning

confidence: 99%

Advances in the use of nanomaterials for nucleic acid detection in point-of-care testing devices: A review

Liu

et al. 2022

Front. Bioeng. Biotechnol.

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The outbreak of the coronavirus (COVID-19) has heightened awareness of the importance of quick and easy testing. The convenience, speed, and timely results from point-of-care testing (POCT) in all vitro diagnostic devices has drawn the strong interest of researchers. However, there are still many challenges in the development of POCT devices, such as the pretreatment of samples, detection sensitivity, specificity, and so on. It is anticipated that the unique properties of nanomaterials, e.g., their magnetic, optical, thermal, and electrically conductive features, will address the deficiencies that currently exist in POCT devices. In this review, we mainly analyze the work processes of POCT devices, especially in nucleic acid detection, and summarize how novel nanomaterials used in various aspects of POCT products can improve performance, with the ultimate aims of offering new ideas for the application of nanomaterials and the overall development of POCT devices.

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“…fluid, solid or magnetic beads is expected to have an impact as DNA recoveries differ between protocols. Wang et al [18] compared five different DNA/RNA extraction protocols, showing differences could be quantified.…”

Section: Extraction Efficiencymentioning

confidence: 99%

Limitations of qPCR to estimate DNA quantity: An RFU method to facilitate inter-laboratory comparisons for activity level, and general applicability

Gill

Bleka

Fonneløp

2022

Preprint

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The application of qPCR to estimate the quantity of DNA present is usually based upon a short amplicon (typically c.80bp) and a longer amplicon (typically c.200-300bp) where the latter is used to determine the amount of degradation present in a sample. The data are used to make decisions about a) whether there is sufficient template to amplify? b) how much of the elution volume to forward to PCR? A typical multiplex amplifies template in the region of 100-500bp. Consequently, the results from an 80bp amplicon will tend to overestimate the actual amplifiable quantity that is present in a degraded sample. To compensate, a method is presented that relates the quantity of amplifiable DNA to the average RFU of the amplified fragments. This provides greatly improved accuracy of the estimated quantity of DNA present, which may differ by more than an order of magnitude compared to qPCR. The relative DNA quantities can be apportioned per contributor once mixture proportions are ascertained with probabilistic genotyping software (EuroForMix). The motivation for this work was to provide an improved method to generate data to prepare distributions that are used to inform activity level propositions. However, other applications will benefit, particularly those where extraction and quantification are bypassed: For example direct PCR and Rapid DNA technology. The overall aim of this work was to provide a method of quantification that is standardised and can be used to compare results between different laboratories that use different multiplexes. A software solution "ShinyRFU" is provided to aid calculations.

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Evaluating the performance of five up-to-date DNA/RNA co-extraction methods for forensic application

Cited by 17 publications

References 25 publications

Transfer, persistence and recovery of DNA and mRNA vaginal mucosa markers after intimate and social contact with Bayesian network analysis for activity level reporting

Transfer, persistence and recovery of DNA and mRNA vaginal mucosa markers after intimate and social contact with Bayesian network analysis for activity level reporting

Advances in the use of nanomaterials for nucleic acid detection in point-of-care testing devices: A review

Limitations of qPCR to estimate DNA quantity: An RFU method to facilitate inter-laboratory comparisons for activity level, and general applicability

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