An Environmental DNA Primer for Microbial and Restoration Ecology
Environmental DNA (eDNA) sequencing—DNA collected from the environment from living cells or shed DNA—was first developed for working with microbes and has greatly benefitted microbial ecologists for decades since. These tools have only become increasingly powerful with the advent of metabarcoding an...
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| Published in: | Microbial ecology 2023-04, Vol.85 (3), p.796-808 |
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An Environmental DNA Primer for Microbial and Restoration Ecology |
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Tessler, Michael Cunningham, Seth W. Ingala, Melissa R. Warring, Sally D. Brugler, Mercer R. |
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Archaea Biodiversity Biomedical and Life Sciences Deoxyribonucleic acid DNA DNA - genetics DNA Barcoding, Taxonomic - methods DNA Primers DNA sequencing DNA, Environmental - genetics Ecologists Ecology Environmental DNA Environmental Monitoring Environmental restoration Fungi Geoecology/Natural Processes Life Sciences Metagenomics Methods Microbial Ecology Microbiology Microorganisms Nature Conservation Protists Restoration Sequencing Storage Technology Viruses Water Quality/Water Pollution |
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Microbial ecology, 2023-04, Vol.85 (3), p.796-808 |
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Environmental DNA (eDNA) sequencing—DNA collected from the environment from living cells or shed DNA—was first developed for working with microbes and has greatly benefitted microbial ecologists for decades since. These tools have only become increasingly powerful with the advent of metabarcoding and metagenomics. Most new studies that examine diverse assemblages of bacteria, archaea, protists, fungi, and viruses lean heavily into eDNA using these newer technologies, as the necessary sequencing technology and bioinformatic tools have become increasingly affordable and user friendly. However, eDNA methods are rapidly evolving, and sometimes it can feel overwhelming to simply keep up with the basics. In this review, we provide a starting point for microbial ecologists who are new to DNA-based methods by detailing the eDNA methods that are most pertinent, including study design, sample collection and storage, selecting the right sequencing technology, lab protocols, equipment, and a few bioinformatic tools. Furthermore, we focus on how eDNA work can benefit restoration and what modifications are needed when working in this subfield. |
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ISSN: 0095-3628 |
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Academic</collection><jtitle>Microbial ecology</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Tessler, Michael</au><au>Cunningham, Seth W.</au><au>Ingala, Melissa R.</au><au>Warring, Sally D.</au><au>Brugler, Mercer R.</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>An Environmental DNA Primer for Microbial and Restoration Ecology</atitle><jtitle>Microbial ecology</jtitle><stitle>Microb Ecol</stitle><addtitle>Microb Ecol</addtitle><date>2023-04-01</date><risdate>2023</risdate><volume>85</volume><issue>3</issue><spage>796</spage><epage>808</epage><pages>796-808</pages><issn>0095-3628</issn><eissn>1432-184X</eissn><notes>ObjectType-Article-2</notes><notes>SourceType-Scholarly Journals-1</notes><notes>ObjectType-Feature-3</notes><notes>content type line 23</notes><notes>ObjectType-Review-1</notes><abstract>Environmental DNA (eDNA) sequencing—DNA collected from the environment from living cells or shed DNA—was first developed for working with microbes and has greatly benefitted microbial ecologists for decades since. 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