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Environmental DNA filtration techniques affect recovered biodiversity

Freshwater metazoan biodiversity assessment using environmental DNA (eDNA) captured on filters offers new opportunities for water quality management. Filtering of water in the field is a logistical advantage compared to transport of water to the nearest lab, and thus, appropriate filter preservation...

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Autores principales: Majaneva, Markus, Diserud, Ola H., Eagle, Shannon H. C., Boström, Erik, Hajibabaei, Mehrdad, Ekrem, Torbjørn
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2018
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5856736/
https://www.ncbi.nlm.nih.gov/pubmed/29549344
http://dx.doi.org/10.1038/s41598-018-23052-8
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author Majaneva, Markus
Diserud, Ola H.
Eagle, Shannon H. C.
Boström, Erik
Hajibabaei, Mehrdad
Ekrem, Torbjørn
author_facet Majaneva, Markus
Diserud, Ola H.
Eagle, Shannon H. C.
Boström, Erik
Hajibabaei, Mehrdad
Ekrem, Torbjørn
author_sort Majaneva, Markus
collection PubMed
description Freshwater metazoan biodiversity assessment using environmental DNA (eDNA) captured on filters offers new opportunities for water quality management. Filtering of water in the field is a logistical advantage compared to transport of water to the nearest lab, and thus, appropriate filter preservation becomes crucial for maximum DNA recovery. Here, the effect of four different filter preservation strategies, two filter types, and pre-filtration were evaluated by measuring metazoan diversity and community composition, using eDNA collected from a river and a lake ecosystem. The filters were preserved cold on ice, in ethanol, in lysis buffer and dry in silica gel. Our results show that filters preserved either dry or in lysis buffer give the most consistent community composition. In addition, mixed cellulose ester filters yield more consistent community composition than polyethersulfone filters, while the effect of pre-filtration remained ambiguous. Our study facilitates development of guidelines for aquatic community-level eDNA biomonitoring, and we advocate filtering in the field, using mixed cellulose ester filters and preserving the filters either dry or in lysis buffer.
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spelling pubmed-58567362018-03-22 Environmental DNA filtration techniques affect recovered biodiversity Majaneva, Markus Diserud, Ola H. Eagle, Shannon H. C. Boström, Erik Hajibabaei, Mehrdad Ekrem, Torbjørn Sci Rep Article Freshwater metazoan biodiversity assessment using environmental DNA (eDNA) captured on filters offers new opportunities for water quality management. Filtering of water in the field is a logistical advantage compared to transport of water to the nearest lab, and thus, appropriate filter preservation becomes crucial for maximum DNA recovery. Here, the effect of four different filter preservation strategies, two filter types, and pre-filtration were evaluated by measuring metazoan diversity and community composition, using eDNA collected from a river and a lake ecosystem. The filters were preserved cold on ice, in ethanol, in lysis buffer and dry in silica gel. Our results show that filters preserved either dry or in lysis buffer give the most consistent community composition. In addition, mixed cellulose ester filters yield more consistent community composition than polyethersulfone filters, while the effect of pre-filtration remained ambiguous. Our study facilitates development of guidelines for aquatic community-level eDNA biomonitoring, and we advocate filtering in the field, using mixed cellulose ester filters and preserving the filters either dry or in lysis buffer. Nature Publishing Group UK 2018-03-16 /pmc/articles/PMC5856736/ /pubmed/29549344 http://dx.doi.org/10.1038/s41598-018-23052-8 Text en © The Author(s) 2018 Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.
spellingShingle Article
Majaneva, Markus
Diserud, Ola H.
Eagle, Shannon H. C.
Boström, Erik
Hajibabaei, Mehrdad
Ekrem, Torbjørn
Environmental DNA filtration techniques affect recovered biodiversity
title Environmental DNA filtration techniques affect recovered biodiversity
title_full Environmental DNA filtration techniques affect recovered biodiversity
title_fullStr Environmental DNA filtration techniques affect recovered biodiversity
title_full_unstemmed Environmental DNA filtration techniques affect recovered biodiversity
title_short Environmental DNA filtration techniques affect recovered biodiversity
title_sort environmental dna filtration techniques affect recovered biodiversity
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5856736/
https://www.ncbi.nlm.nih.gov/pubmed/29549344
http://dx.doi.org/10.1038/s41598-018-23052-8
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