Early detection of marine non-indigenous species on Svalbard by DNA metabarcoding of sediment

Heuvel-Greve, M.J. van den; Brink, A.M. van den; Glorius, S.T.; Groot, G.A. de; Laros, I.; Renaud, Paul E.; Pettersen, Ragnhild; Węsławski, Jan Marcin; Kukliński, Piotr; Murk, Albertinka J.

doi:10.1007/s00300-021-02822-7

Cited by 20 publications

(13 citation statements)

References 47 publications

(65 reference statements)

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“… Casey et al (2021) have shown how the choice of genetic barcode marker for metabarcoding can produce a skewed picture of metazoan diversity. A particularly striking example of this was our detection of only two species of nematodes in Kongsfjord, whereas van den Heuvel-Greve et al (2021) detected 33 species using 18S primers, but only one with CO1. Even 33 may seem like a small number, considering the proposition that Kongsfjord has more than hundred species of nematodes as identified by morphology ( Somerfield et al, 2006 ).…”

Section: Discussionmentioning

confidence: 86%

Benthic invertebrates in Svalbard fjords—when metabarcoding does not outperform traditional biodiversity assessment

Willassen

Westgaard

Kongsrud

et al. 2022

PeerJ

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To protect and restore ecosystems and biodiversity is one of the 10 challenges identified by the United Nations’s Decade of the Ocean Science. In this study we used eDNA from sediments collected in two fjords of the Svalbard archipelago and compared the taxonomic composition with traditional methods through metabarcoding, targeting mitochondrial CO1, to survey benthos. Clustering of 21.6 mill sequence reads with a d value of 13 in swarm, returned about 25 K OTU reads. An identification search with the BOLD database returned 12,000 taxonomy annotated sequences spanning a similarity range of 50% to 100%. Using an acceptance filter of minimum 90% similarity to the CO1 reference sequence, we found that 74% of the ca 100 taxon identified sequence reads were Polychaeta and 22% Nematoda. Relatively few other benthic invertebrate species were detected. Many of the identified sequence reads were extra-organismal DNA from terrestrial, planktonic, and photic zone sources. For the species rich Polychaeta, we found that, on average, only 20.6% of the species identified from morphology were also detected with DNA. This discrepancy was not due to missing reference sequences in the search database, because 90–100% (mean 96.7%) of the visually identified species at each station were represented with barcodes in Boldsystems. The volume of DNA samples is small compared with the volume searched in visual sorting, and the replicate DNA-samples in sum covered only about 2% of the surface area of a grab. This may considerably reduce the detection rate of species that are not uniformly distributed in the sediments. Along with PCR amplification bias and primer mismatch, this may be an important reason for the limited congruence of species identified with the two approaches. However, metabarcoding also identified 69 additional species that are usually overlooked in visual sample sorting, demonstrating how metabarcoding can complement traditional methodology by detecting additional, less conspicuous groups of organisms.

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Section: Discussionmentioning

confidence: 86%

Benthic invertebrates in Svalbard fjords—when metabarcoding does not outperform traditional biodiversity assessment

Willassen

Westgaard

Kongsrud

et al. 2022

PeerJ

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“…the Mytilus complex), the lack of information on microscopic IAS, such as parasites, fungi and microalgae and the lack of knowledge on marine biota, particularly in the Arctic (Deb & Bailey, 2023), significantly hampers monitoring and surveillance programmes (Hughes et al., 2020). Recent advances in environmental DNA metabarcoding techniques are now enabling the early detection of some marine IAS in the Arctic (van den Heuvel‐Greve et al., 2021; Ware et al., 2016), although ground‐truthing and repeated sampling is still required to determine whether these species will survive, become established and subsequently cause any impact.…”

Section: Discussionmentioning

confidence: 99%

“…Paralithodes camtschaticus , apart from carrying an amphipod parasite, may also indirectly transmit trypanosome infections to wild cod populations (Hemmingsen et al., 2005). Both crab species have been recorded in other Arctic regions (Chan et al., 2018; van den Heuvel‐Greve et al., 2021), having been initially introduced to the Barents Sea in the 1960s and 1970s from its native range in the North Pacific with the intention of developing a fishery (Jørgensen et al., 2004). The snow crab Chionoecetes opilio was also introduced to the Barents Sea and has similarly expanded its range with some singular sightings from Svalbard, including a record from the northwest coast (Lorentzen et al., 2018), which may have originally resulted from a catch discard.…”

Section: Discussionmentioning

confidence: 99%

Horizon scanning of potential threats to high‐Arctic biodiversity, human health and the economy from marine invasive alien species: A Svalbard case study

Cottier‐Cook,

Bentley‐Abbot,

Cottier

et al. 2023

Global Change Biology

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The high Arctic is considered a pristine environment compared with many other regions in the northern hemisphere. It is becoming increasingly vulnerable to invasion by invasive alien species (IAS), however, as climate change leads to rapid loss of sea ice, changes in ocean temperature and salinity, and enhanced human activities. These changes are likely to increase the incidence of arrival and the potential for establishment of IAS in the region. To predict the impact of IAS, a group of experts in taxonomy, invasion biology and Arctic ecology carried out a horizon scanning exercise using the Svalbard archipelago as a case study, to identify the species that present the highest risk to biodiversity, human health and the economy within the next 10 years. A total of 114 species, currently absent from Svalbard, recorded once and/or identified only from environmental DNA samples, were initially identified as relevant for review. Seven species were found to present a high invasion risk and to potentially cause a significant negative impact on biodiversity and five species had the potential to have an economic impact on Svalbard. Decapod crabs, ascidians and barnacles dominated the list of highest risk marine IAS. Potential pathways of invasion were also researched, the most common were found associated with vessel traffic. We recommend (i) use of this approach as a key tool within the application of biosecurity measures in the wider high Arctic, (ii) the addition of this tool to early warning systems for strengthening existing surveillance measures; and (iii) that this approach is used to identify high‐risk terrestrial and freshwater IAS to understand the overall threat facing the high Arctic. Without the application of biosecurity measures, including horizon scanning, there is a greater risk that marine IAS invasions will increase, leading to unforeseen changes in the environment and economy of the high Arctic.

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“…However, pelagic eDNA studies from elsewhere in the Arctic region are still missing. Benthic communities have only been characterized with sediment eDNA in Kongsfjorden (Svalbard) for NIS detection (van den Heuvel-Greve et al, 2021), and in the Beaufort Sea (Alaska, Barrow). In the latter study, DNA metabarcoding was used to investigate sea ice and sediment samples for metazoan diversity throughout winter, spring and summer (Leasi et al, 2021).…”

Section: Prospects For Edna In a Changing Oceanmentioning

confidence: 99%

Environmental Dna in an Ocean of Change: Status, Challenges and Prospects

Havermans¹,

Dischereit²,

Pantiukhin³

et al. 2022

ACMAR

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Environmental DNA (eDNA) studies have burgeoned over the last two decades and the application of eDNA has increased exponentially since 2010, albeit at a slower pace in the marine system. We provide a literature overview on marine metazoan eDNA studies and assess recent achievements in answering questions related to species distributions, biodiversity and biomass. We investigate which are the better studied taxonomic groups, geographic regions and the genetic markers used. We evaluate the use of eDNA for addressing ecological and environmental issues through food web, ecotoxicological, surveillance and management studies. Based on this state of the art, we highlight exciting prospects of eDNA for marine time series, population genetic studies, the use of natural sampler DNA, and eDNA data for building trophic networks and ecosystem models. We discuss the current limitations, in terms of marker choice and incompleteness of reference databases. We also present recent advances using experiments and modeling to better understand persistence, decay and dispersal of eDNA in coastal and oceanic systems. Finally, we explore promising avenues for marine eDNA research, including autonomous or passive eDNA sampling, as well as the combined applications of eDNA with different surveillance methods and further molecular advances. Keywords: environmental DNA, DNA metabarcoding, marine metazoa, biodiversity, population genetics, natural sampler DNA, diet analysis.

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Early detection of marine non-indigenous species on Svalbard by DNA metabarcoding of sediment

Cited by 20 publications

References 47 publications

Benthic invertebrates in Svalbard fjords—when metabarcoding does not outperform traditional biodiversity assessment

Benthic invertebrates in Svalbard fjords—when metabarcoding does not outperform traditional biodiversity assessment

Horizon scanning of potential threats to high‐Arctic biodiversity, human health and the economy from marine invasive alien species: A Svalbard case study

Environmental Dna in an Ocean of Change: Status, Challenges and Prospects

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