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What are the steps involved in microbial DNA extraction and PCR analysis of river water samples?

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Environmental pollution

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Microbial DNA extraction and PCR analysis of river water samples involve several steps. Firstly, water samples are collected from different water systems and collected in triplicate using sterile filter units . Next, DNA extraction is performed using various kits depending on the type of water sample and the presence of PCR inhibitors. For example, the QIAamp DNA mini kit is suitable for DNA extraction from treated water, while the QIAamp DNA stool mini kit is efficient for samples from river water with high concentrations of PCR inhibitors . Additionally, the FastDNA SPIN Kit for Soil can effectively extract DNA from microbes in river and stream waters . After DNA extraction, PCR analysis is conducted using universal primers to amplify ribosomal RNA. The amplified DNA fragments are then analyzed using techniques such as PCR-RFLP to detect changes in the microbial community .

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Journal Article•DOI Evaluation of water sampling methodologies for amplicon-based characterization of bacterial community structure Christopher Staley, Trevor J. Gould, Ping Wang, Jane Phillips, James B. Cotner, Michael J. Sadowsky - Show less +5 more 01 Jul 2015-Journal of Microbiological Methods 38 Citations	The paper does not provide information about the specific steps involved in microbial DNA extraction and PCR analysis of river water samples.
Book Chapter•DOI Sampling of Riverine or Marine Bacterial Communities in Remote Locations: From Field to Publication Katja Lehmann 01 Jan 2016-Methods of Molecular Biology	The paper does not provide specific steps for microbial DNA extraction and PCR analysis of river water samples.
Open access•Journal Article•DOI Water Quality Measurements with a Simple Molecular Analysis (PCR-RFLP) of the Microbiome in a Metropolitan River System in Japan Liswara Neneng, Rudy Agung Nugroho, Yukio Komai, Naru Takayama, Koji Kawamura - Show less +4 more 22 Jul 2019 4 Citations	The paper does not provide information on the specific steps involved in microbial DNA extraction and PCR analysis of river water samples.
Open access•Journal Article•DOI Evaluation of DNA extraction methods for quantifying Helicobacter pylori in water with PCR inhibitors Eun-Sook Lee, So-Yang Cha, Jong-Soon Jung - Show less +2 more 24 Jun 2021-Water supply 3 Citations	The paper does not provide specific steps for microbial DNA extraction and PCR analysis of river water samples.
Open access•Posted Content•DOI Sample collection and eDNA extraction from Sterivex filter units v2 Rosangela de Fátima Pereira Marquesone 16 Nov 2022	The provided paper does not specifically mention the steps involved in microbial DNA extraction and PCR analysis of river water samples. The paper focuses on the sample collection and DNA extraction protocol using Sterivex filter units.

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