Cargando…

Targeted and passive environmental DNA approaches outperform established methods for detection of quagga mussels, Dreissena rostriformis bugensis in flowing water

1. The early detection of invasive non‐native species (INNS) is important for informing management actions. Established monitoring methods require the collection or observation of specimens, which is unlikely at the beginning of an invasion when densities are likely to be low. Environmental DNA (eDN...

Descripción completa

Detalles Bibliográficos
Autores principales: Blackman, Rosetta C., Ling, Kar Keun Sean, Harper, Lynsey R., Shum, Peter, Hänfling, Bernd, Lawson‐Handley, Lori
Formato: Online Artículo Texto
Lenguaje:English
Publicado: John Wiley and Sons Inc. 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7713958/
https://www.ncbi.nlm.nih.gov/pubmed/33304534
http://dx.doi.org/10.1002/ece3.6921
_version_ 1783618652496461824
author Blackman, Rosetta C.
Ling, Kar Keun Sean
Harper, Lynsey R.
Shum, Peter
Hänfling, Bernd
Lawson‐Handley, Lori
author_facet Blackman, Rosetta C.
Ling, Kar Keun Sean
Harper, Lynsey R.
Shum, Peter
Hänfling, Bernd
Lawson‐Handley, Lori
author_sort Blackman, Rosetta C.
collection PubMed
description 1. The early detection of invasive non‐native species (INNS) is important for informing management actions. Established monitoring methods require the collection or observation of specimens, which is unlikely at the beginning of an invasion when densities are likely to be low. Environmental DNA (eDNA) analysis is a highly promising technique for the detection of INNS—particularly during the early stages of an invasion. 2. Here, we compared the use of traditional kick‐net sampling with two eDNA approaches (targeted detection using both conventional and quantitative PCR and passive detection via metabarcoding with conserved primers) for detection of quagga mussel, Dreissena rostriformis bugensis, a high priority INNS, along a density gradient on the River Wraysbury, UK. 3. All three molecular tools outperformed traditional sampling in terms of detection. Conventional PCR and qPCR both had 100% detection rate in all samples and outperformed metabarcoding when the target species was at low densities. Additionally, quagga mussel DNA copy number (qPCR) and relative read count (metabarcoding) were significantly influenced by both mussel density and distance from source population, with distance being the most significant predictor. 4. Synthesis and application. All three molecular approaches were more sensitive than traditional kick‐net sampling for the detection of the quagga mussel in flowing water, and both qPCR and metabarcoding enabled estimates of relative abundance. Targeted approaches were more sensitive than metabarcoding, but metabarcoding has the advantage of providing information on the wider community and consequently the impacts of INNS.
format Online
Article
Text
id pubmed-7713958
institution National Center for Biotechnology Information
language English
publishDate 2020
publisher John Wiley and Sons Inc.
record_format MEDLINE/PubMed
spelling pubmed-77139582020-12-09 Targeted and passive environmental DNA approaches outperform established methods for detection of quagga mussels, Dreissena rostriformis bugensis in flowing water Blackman, Rosetta C. Ling, Kar Keun Sean Harper, Lynsey R. Shum, Peter Hänfling, Bernd Lawson‐Handley, Lori Ecol Evol Original Research 1. The early detection of invasive non‐native species (INNS) is important for informing management actions. Established monitoring methods require the collection or observation of specimens, which is unlikely at the beginning of an invasion when densities are likely to be low. Environmental DNA (eDNA) analysis is a highly promising technique for the detection of INNS—particularly during the early stages of an invasion. 2. Here, we compared the use of traditional kick‐net sampling with two eDNA approaches (targeted detection using both conventional and quantitative PCR and passive detection via metabarcoding with conserved primers) for detection of quagga mussel, Dreissena rostriformis bugensis, a high priority INNS, along a density gradient on the River Wraysbury, UK. 3. All three molecular tools outperformed traditional sampling in terms of detection. Conventional PCR and qPCR both had 100% detection rate in all samples and outperformed metabarcoding when the target species was at low densities. Additionally, quagga mussel DNA copy number (qPCR) and relative read count (metabarcoding) were significantly influenced by both mussel density and distance from source population, with distance being the most significant predictor. 4. Synthesis and application. All three molecular approaches were more sensitive than traditional kick‐net sampling for the detection of the quagga mussel in flowing water, and both qPCR and metabarcoding enabled estimates of relative abundance. Targeted approaches were more sensitive than metabarcoding, but metabarcoding has the advantage of providing information on the wider community and consequently the impacts of INNS. John Wiley and Sons Inc. 2020-10-29 /pmc/articles/PMC7713958/ /pubmed/33304534 http://dx.doi.org/10.1002/ece3.6921 Text en © 2020 The Authors. Ecology and Evolution published by John Wiley & Sons Ltd. This is an open access article under the terms of the http://creativecommons.org/licenses/by/4.0/ License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited.
spellingShingle Original Research
Blackman, Rosetta C.
Ling, Kar Keun Sean
Harper, Lynsey R.
Shum, Peter
Hänfling, Bernd
Lawson‐Handley, Lori
Targeted and passive environmental DNA approaches outperform established methods for detection of quagga mussels, Dreissena rostriformis bugensis in flowing water
title Targeted and passive environmental DNA approaches outperform established methods for detection of quagga mussels, Dreissena rostriformis bugensis in flowing water
title_full Targeted and passive environmental DNA approaches outperform established methods for detection of quagga mussels, Dreissena rostriformis bugensis in flowing water
title_fullStr Targeted and passive environmental DNA approaches outperform established methods for detection of quagga mussels, Dreissena rostriformis bugensis in flowing water
title_full_unstemmed Targeted and passive environmental DNA approaches outperform established methods for detection of quagga mussels, Dreissena rostriformis bugensis in flowing water
title_short Targeted and passive environmental DNA approaches outperform established methods for detection of quagga mussels, Dreissena rostriformis bugensis in flowing water
title_sort targeted and passive environmental dna approaches outperform established methods for detection of quagga mussels, dreissena rostriformis bugensis in flowing water
topic Original Research
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7713958/
https://www.ncbi.nlm.nih.gov/pubmed/33304534
http://dx.doi.org/10.1002/ece3.6921
work_keys_str_mv AT blackmanrosettac targetedandpassiveenvironmentaldnaapproachesoutperformestablishedmethodsfordetectionofquaggamusselsdreissenarostriformisbugensisinflowingwater
AT lingkarkeunsean targetedandpassiveenvironmentaldnaapproachesoutperformestablishedmethodsfordetectionofquaggamusselsdreissenarostriformisbugensisinflowingwater
AT harperlynseyr targetedandpassiveenvironmentaldnaapproachesoutperformestablishedmethodsfordetectionofquaggamusselsdreissenarostriformisbugensisinflowingwater
AT shumpeter targetedandpassiveenvironmentaldnaapproachesoutperformestablishedmethodsfordetectionofquaggamusselsdreissenarostriformisbugensisinflowingwater
AT hanflingbernd targetedandpassiveenvironmentaldnaapproachesoutperformestablishedmethodsfordetectionofquaggamusselsdreissenarostriformisbugensisinflowingwater
AT lawsonhandleylori targetedandpassiveenvironmentaldnaapproachesoutperformestablishedmethodsfordetectionofquaggamusselsdreissenarostriformisbugensisinflowingwater