Multi-marker eDNA metabarcoding survey to assess the environmental impact of three offshore gas platforms in the North Adriatic Sea (Italy)

Cordier, Tristan; Frontalini, Fabrizio; Cermakova, Kristina; Apothéloz-Perret-Gentil, Laure; Treglia, Mauro; Scantamburlo, Enrico; Bonamin, Vladimiro; Pawłowski, Jan

doi:10.1016/j.marenvres.2018.12.009

Cited by 71 publications

(66 citation statements)

References 53 publications

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“…The characterization of the community was possible using 6 sampling units at each site, thus differentiating each of them on a small-spatial scale; however, with only 3 samples it was possible to attain approximately 85% of the total OTUs diversity of the intertidal meiofauna in Lima estuary (Fais et al, 2020). Moreover, previous investigations through DNA metabarcoding have demonstrated the importance of a multi-locus approach and sample's size for monitoring meiofauna in marine-coastal environments, focusing on small-scale spatial variation (Brannock and Halanych, 2015;Cowart et al, 2015;Haenel et al, 2017;Nascimento et al, 2018;Cordier et al, 2019;Fais et al, 2020).…”

Section: Discussionmentioning

confidence: 99%

Meiofauna metabarcoding in Lima estuary (Portugal) suggests high taxon replacement within a background of network stability

Fais

Bellisario

Duarte

et al. 2020

Regional Studies in Marine Science

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Meiofauna organisms play an important role in ecological and sedimentary processes in estuarine ecosystems. Recently, the application of environmental DNA (eDNA) for investigating meiofauna in different environments, improved the accessibility to its diversity and composition in a scale, frequency and depth previously unattainable. Nevertheless, little attention has been given to the description of baseline patterns of coupled spatial and temporal dynamics of meiobenthic communities. In an earlier study conducted in Lima estuary (NW Portugal), using eDNA metabarcoding of sediment samples, high levels of meiofauna Operational Taxonomic Units (OTUs) turnover were recorded, between sampling points only a few metres apart, and among sampling stations along the estuary. In order to verify the consistency of these patterns, in the current study we re-assessed Lima estuary's meiofauna communities approximately 1 year after, applying the same methodological approach (targeting segments of the COI and 18S rRNA genes), and expanding HTS-data analyses through the use of association networks. A high degree of spatial turnover was found both within and between sampling stations and this was consistent for both markers and years. As a consequence, most of the betadiversity was accounted by OTU replacement with only a minor contribution from OTU richness. Despite the high levels of OTU replacement, relatively stable network properties were found in meiofaunal communities, irrespective of the sampled year. Network properties appear to shift sharply from the downstream/high salinity area of the estuary to the mesohaline medium-upstream areas, suggesting high resilience and redundancy of meiofaunal communities along the estuarine gradient. The recognition of meiofauna's networks features may improve the understanding of the ecology and dynamics of these communities that apparently hold large portions of variable elements, thereby making difficult their analyses solely based on the OTU/species composition.

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Section: Discussionmentioning

confidence: 99%

Meiofauna metabarcoding in Lima estuary (Portugal) suggests high taxon replacement within a background of network stability

Fais

Bellisario

Duarte

et al. 2020

Regional Studies in Marine Science

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“…As an alternative, a diversity of Operational Taxonomic Units (OTUs) can be extracted from eDNA metabarcoding through filtering and clustering techniques (12). Even if environmental genomics approaches have a long tradition of using OTU-based bioindicators (13), the extent to which the diversity of OTUs from a limited number of eDNA samples can reveal or predict the diversity of vertebrate species in a given biodiversity hotspot has not yet been investigated. This is particularly challenging for cryptobenthic fish species that are key for reef ecosystems (14) but usually missed by classical surveys (7).…”

Section: Introductionmentioning

confidence: 99%

Accumulation curves of environmental DNA sequences predict coastal fish diversity in the coral triangle

et al. 2020

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Environmental DNA (eDNA) has the potential to provide more comprehensive biodiversity assessments, particularly for vertebrates in species-rich regions. However, this method requires the completeness of a reference database (i.e. a list of DNA sequences attached to each species), which is not currently achieved for many taxa and ecosystems. As an alternative, a range of operational taxonomic units (OTUs) can be extracted from eDNA metabarcoding. However, the extent to which the diversity of OTUs provided by a limited eDNA sampling effort can predict regional species diversity is unknown. Here, by modelling OTU accumulation curves of eDNA seawater samples across the Coral Triangle, we obtained an asymptote reaching 1531 fish OTUs, while 1611 fish species are recorded in the region. We also accurately predict ( R ² = 0.92) the distribution of species richness among fish families from OTU-based asymptotes. Thus, the multi-model framework of OTU accumulation curves extends the use of eDNA metabarcoding in ecology, biogeography and conservation.

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“…Few studies have applied eDNA metabarcoding to the environmental impact monitoring of offshore oil and gas platforms. Their authors use it either to measure oil spill impact on benthic biodiversity (Bik et al., 2012; Brannock et al., 2017; Coelho et al., 2016; Smith et al., 2015; Xie et al., 2017) or to test its usefulness as a complementary tool for benthic monitoring of offshore platforms (Cordier et al., 2019; Lanzén et al., 2016; Laroche, et al., 2018; Laroche, et al., 2018; Laroche et al., 2016). The latter studies either focus on particular taxonomic groups, such as benthic foraminifera (Laroche et al., 2016), or propose a broader multitaxon approach (Cordier et al., 2019; Laroche, et al., 2018).…”

Section: Introductionmentioning

confidence: 99%

Benthic monitoring of oil and gas offshore platforms in the North Sea using environmental DNA metabarcoding

Mauffrey

Cordier

Apothéloz-Perret-Gentil

et al. 2020

Molecular Ecology

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Multi-marker eDNA metabarcoding survey to assess the environmental impact of three offshore gas platforms in the North Adriatic Sea (Italy)

Cited by 71 publications

References 53 publications

Meiofauna metabarcoding in Lima estuary (Portugal) suggests high taxon replacement within a background of network stability

Meiofauna metabarcoding in Lima estuary (Portugal) suggests high taxon replacement within a background of network stability

Accumulation curves of environmental DNA sequences predict coastal fish diversity in the coral triangle

Benthic monitoring of oil and gas offshore platforms in the North Sea using environmental DNA metabarcoding

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