Biodiversity assessment across a dynamic riverine system: A comparison of eDNA metabarcoding versus traditional fish surveying methods

Abstract While many studies have considered the ability of eDNA to assess animal communities in lacustrine settings, fewer have considered riverine systems, particularly those spanning the environmental gradients present in large river basins. Such dynamic systems are challenging for eDNA biomonitor...

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Autores principales:	Jane Hallam, Elizabeth L. Clare, John Iwan Jones, Julia J. Day
Formato:	article
Lenguaje:	EN
Publicado:	Wiley 2021
Materias:	community structure eDNA estuary fish monitoring freshwater biodiversity metabarcoding Environmental sciences GE1-350 Microbial ecology QR100-130
Acceso en línea:	https://doaj.org/article/ba6facfec86847fea7f18cbbb7883207
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spelling	oai:doaj.org-article:ba6facfec86847fea7f18cbbb78832072021-11-23T16:15:25ZBiodiversity assessment across a dynamic riverine system: A comparison of eDNA metabarcoding versus traditional fish surveying methods2637-494310.1002/edn3.241https://doaj.org/article/ba6facfec86847fea7f18cbbb78832072021-11-01T00:00:00Zhttps://doi.org/10.1002/edn3.241https://doaj.org/toc/2637-4943Abstract While many studies have considered the ability of eDNA to assess animal communities in lacustrine settings, fewer have considered riverine systems, particularly those spanning the environmental gradients present in large river basins. Such dynamic systems are challenging for eDNA biomonitoring due to differing eDNA transport distances in rivers and the effects of river chemistry. To address this challenge, we focused on the Thames River system, UK, which has exceptional historical fish records providing a baseline to test the accuracy of eDNA metabarcoding in recovering fish community structure across both fresh and tidal zones. Two primer sets targeting 12S and CO1 regions were used to capture fish communities across the Thames catchment, from the upper freshwaters to the mid estuary. eDNA was collected at 35 sites, 14 of which were simultaneously paired with traditional fish surveys for direct comparison. We demonstrated that eDNA metabarcoding consistently detected more freshwater species than traditional methods, despite extensive sampling effort using the latter. In contrast, metabarcoding did not perform as well as traditional approaches in estuarine waters, although results included the novel detection of the protected sea lamprey. We further demonstrated that minor variations in the recovery of all approaches would not impact on the assessment of simple ecological models of community structure and, thus, some variability between approaches should not be viewed as a serious hindrance to uptake. Rather, our findings support a growing consensus that eDNA can reliably detect fish communities across dynamic freshwater habitats.Jane HallamElizabeth L. ClareJohn Iwan JonesJulia J. DayWileyarticlecommunity structureeDNAestuaryfish monitoringfreshwater biodiversitymetabarcodingEnvironmental sciencesGE1-350Microbial ecologyQR100-130ENEnvironmental DNA, Vol 3, Iss 6, Pp 1247-1266 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	community structure eDNA estuary fish monitoring freshwater biodiversity metabarcoding Environmental sciences GE1-350 Microbial ecology QR100-130
spellingShingle	community structure eDNA estuary fish monitoring freshwater biodiversity metabarcoding Environmental sciences GE1-350 Microbial ecology QR100-130 Jane Hallam Elizabeth L. Clare John Iwan Jones Julia J. Day Biodiversity assessment across a dynamic riverine system: A comparison of eDNA metabarcoding versus traditional fish surveying methods
description	Abstract While many studies have considered the ability of eDNA to assess animal communities in lacustrine settings, fewer have considered riverine systems, particularly those spanning the environmental gradients present in large river basins. Such dynamic systems are challenging for eDNA biomonitoring due to differing eDNA transport distances in rivers and the effects of river chemistry. To address this challenge, we focused on the Thames River system, UK, which has exceptional historical fish records providing a baseline to test the accuracy of eDNA metabarcoding in recovering fish community structure across both fresh and tidal zones. Two primer sets targeting 12S and CO1 regions were used to capture fish communities across the Thames catchment, from the upper freshwaters to the mid estuary. eDNA was collected at 35 sites, 14 of which were simultaneously paired with traditional fish surveys for direct comparison. We demonstrated that eDNA metabarcoding consistently detected more freshwater species than traditional methods, despite extensive sampling effort using the latter. In contrast, metabarcoding did not perform as well as traditional approaches in estuarine waters, although results included the novel detection of the protected sea lamprey. We further demonstrated that minor variations in the recovery of all approaches would not impact on the assessment of simple ecological models of community structure and, thus, some variability between approaches should not be viewed as a serious hindrance to uptake. Rather, our findings support a growing consensus that eDNA can reliably detect fish communities across dynamic freshwater habitats.
format	article
author	Jane Hallam Elizabeth L. Clare John Iwan Jones Julia J. Day
author_facet	Jane Hallam Elizabeth L. Clare John Iwan Jones Julia J. Day
author_sort	Jane Hallam
title	Biodiversity assessment across a dynamic riverine system: A comparison of eDNA metabarcoding versus traditional fish surveying methods
title_short	Biodiversity assessment across a dynamic riverine system: A comparison of eDNA metabarcoding versus traditional fish surveying methods
title_full	Biodiversity assessment across a dynamic riverine system: A comparison of eDNA metabarcoding versus traditional fish surveying methods
title_fullStr	Biodiversity assessment across a dynamic riverine system: A comparison of eDNA metabarcoding versus traditional fish surveying methods
title_full_unstemmed	Biodiversity assessment across a dynamic riverine system: A comparison of eDNA metabarcoding versus traditional fish surveying methods
title_sort	biodiversity assessment across a dynamic riverine system: a comparison of edna metabarcoding versus traditional fish surveying methods
publisher	Wiley
publishDate	2021
url	https://doaj.org/article/ba6facfec86847fea7f18cbbb7883207
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Biodiversity assessment across a dynamic riverine system: A comparison of eDNA metabarcoding versus traditional fish surveying methods

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