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Considerations for metabarcoding-based port biological baseline surveys aimed at marine non-indigenous species monitoring and risk-assessments

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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

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Sorting things out: Assessing effects of unequal specimen biomass on DNA metabarcoding

inferredcites →https://doi.org/10.1002/ece3.4213openalex-snapshot

eDNA metabarcoding as a new surveillance approach for coastal Arctic biodiversity

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Species‐level biodiversity assessment using marine environmental DNA metabarcoding requires protocol optimization and standardization

inferredcites →https://doi.org/10.1002/lom3.10237openalex-snapshot

Evaluation of marine zooplankton community structure through environmental DNA metabarcoding

inferredcites →https://doi.org/10.1007/978-3-642-53971-8openalex-snapshot

Springer handbook of marine biotechnology

inferredcites →https://doi.org/10.1007/978-3-642-53971-8_16openalex-snapshot

Detection of Invasive Species

inferredcites →https://doi.org/10.1007/978-94-011-4523-7_13openalex-snapshot

The Scale and Ecological Consequences of Biological Invasions in the World’s Oceans

inferredcites →https://doi.org/10.1007/s00227-015-2782-xopenalex-snapshot

Lack of genetic variation in the response of a trematode parasite to ocean acidification

inferredcites →https://doi.org/10.1007/s004420100716openalex-snapshot

Ecologically meaningful transformations for ordination of species data

inferredcites →https://doi.org/10.1007/s10530-015-0854-yopenalex-snapshot

DNA (meta)barcoding of biological invasions: a powerful tool to elucidate invasion processes and help managing aliens

inferredcites →https://doi.org/10.1016/j.ecolind.2018.07.044openalex-snapshot

Adapting metabarcoding-based benthic biomonitoring into routine marine ecological status assessment networks

inferredcites →https://doi.org/10.1016/j.ecss.2016.02.014openalex-snapshot

Assessing biological invasions in European Seas: Biological traits of the most widespread non-indigenous species

inferredcites →https://doi.org/10.1016/j.marpol.2014.12.015openalex-snapshot

Dose of truth—Monitoring marine non-indigenous species to serve legislative requirements

inferredcites →https://doi.org/10.1016/j.marpolbul.2010.09.014openalex-snapshot

How useful are port surveys focused on target pest identification for exotic species management?

inferredcites →https://doi.org/10.1016/j.marpolbul.2011.01.008openalex-snapshot

Potential risk of harmful algae transport by ballast waters: The case of Bilbao Harbour

inferredcites →https://doi.org/10.1016/j.marpolbul.2018.08.067openalex-snapshot

Strategy of port baseline surveys (PBS) in the Adriatic Sea

inferredcites →https://doi.org/10.1016/j.seares.2013.04.009openalex-snapshot

Spatial distribution and temporal trends of soft-bottom marine benthic alien species collected during the period 1989–2008 in the Nervión estuary (southeastern Bay of Biscay)

inferredcites →https://doi.org/10.1016/j.seares.2017.06.001openalex-snapshot

The challenges and promises of genetic approaches for ballast water management

inferredcites →https://doi.org/10.1016/s0308-597x(03)00041-1openalex-snapshot

Marine invasive alien species: a threat to global biodiversity

inferredcites →https://doi.org/10.1017/s1755267211001011openalex-snapshot

First record of invasive Theora lubrica (Mollusca: Bivalvia: Semelidae) in the Atlantic Ocean

inferredcites →https://doi.org/10.1038/ncomms12544openalex-snapshot

Environmental DNA reveals that rivers are conveyer belts of biodiversity information

inferredcites →https://doi.org/10.1038/ncomms14087openalex-snapshot

Annual time-series analysis of aqueous eDNA reveals ecologically relevant dynamics of lake ecosystem biodiversity

inferredcites →https://doi.org/10.1038/s41598-018-21285-1openalex-snapshot

Presence-absence of marine macrozoobenthos does not generally predict abundance and biomass

inferredcites →https://doi.org/10.1038/s41598-018-27048-2openalex-snapshot

Effects of sampling effort on biodiversity patterns estimated from environmental DNA metabarcoding surveys

inferredcites →https://doi.org/10.1046/j.1095-8312.2003.00197.xopenalex-snapshot

Molecular systematics of cowries (Gastropoda: Cypraeidae) and diversification patterns in the tropics

inferredcites →https://doi.org/10.1071/mf15361openalex-snapshot

Using environmental (e)DNA sequencing for aquatic biodiversity surveys: a beginner’s guide

inferredcites →https://doi.org/10.1080/08927014.2016.1186165openalex-snapshot

Metabarcoding improves detection of eukaryotes from early biofouling communities: implications for pest monitoring and pathway management

inferredcites →https://doi.org/10.1093/aobpla/plt042openalex-snapshot

Hitting the right target: taxonomic challenges for, and of, plant invasions

inferredcites →https://doi.org/10.1093/bioinformatics/btr381openalex-snapshot

UCHIME improves sensitivity and speed of chimera detection

inferredcites →https://doi.org/10.1093/bioinformatics/btt593openalex-snapshot

PEAR: a fast and accurate Illumina Paired-End reAd mergeR

inferredcites →https://doi.org/10.1093/bioinformatics/btu170openalex-snapshot

Trimmomatic: a flexible trimmer for Illumina sequence data

inferredcites →https://doi.org/10.1098/rsbl.2003.0025openalex-snapshot

Barcoding animal life: cytochrome c oxidase subunit 1 divergences among closely related species

inferredcites →https://doi.org/10.1111/1755-0998.12940openalex-snapshot

Comparison of environmental DNA and bulk‐sample metabarcoding using highly degenerate cytochrome c oxidase I primers

inferredcites →https://doi.org/10.1111/1755-0998.12971openalex-snapshot

Environmental DNA metabarcoding studies are critically affected by substrate selection

inferredcites →https://doi.org/10.1111/1755-0998.12982openalex-snapshot

Environmental DNA (eDNA) metabarcoding reveals strong discrimination among diverse marine habitats connected by water movement

inferredcites →https://doi.org/10.1111/2041-210x.12574openalex-snapshot

The ecologist's field guide to sequence‐based identification of biodiversity

inferredcites →https://doi.org/10.1111/2041-210x.12683openalex-snapshot

Comparison of capture and storage methods for aqueous macrobial eDNA using an optimized extraction protocol: advantage of enclosed filter

inferredcites →https://doi.org/10.1111/2041-210x.12789openalex-snapshot

Assessing strengths and weaknesses of DNA metabarcoding‐based macroinvertebrate identification for routine stream monitoring

inferredcites →https://doi.org/10.1111/2041-210x.13276openalex-snapshot

Non‐specific amplification compromises environmental DNA metabarcoding with COI

inferredcites →https://doi.org/10.1111/ddi.12465openalex-snapshot

Early detection of aquatic invaders using metabarcoding reveals a high number of non‐indigenous species in C anadian ports

inferredcites →https://doi.org/10.1111/ele.12111openalex-snapshot

The risk of marine bioinvasion caused by global shipping

inferredcites →https://doi.org/10.1111/j.1365-2664.2010.01864.xopenalex-snapshot

Cost‐efficiency of biodiversity indicators for Mediterranean ecosystems and the effects of socio‐economic factors

inferredcites →https://doi.org/10.1111/j.1365-294x.2012.05470.xopenalex-snapshot

Towards next‐generation biodiversity assessment using DNA metabarcoding

inferredcites →https://doi.org/10.1111/j.1600-0706.2011.19451.xopenalex-snapshot

A new conceptual and methodological framework for exploring and explaining pattern in presence – absence data

inferredcites →https://doi.org/10.1128/aem.00062-07openalex-snapshot

Naive Bayesian Classifier for Rapid Assignment of rRNA Sequences into the New Bacterial Taxonomy

inferredcites →https://doi.org/10.1128/aem.01541-09openalex-snapshot

Introducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities

inferredcites →https://doi.org/10.1186/1742-9994-10-34openalex-snapshot

A new versatile primer set targeting a short fragment of the mitochondrial COI region for metabarcoding metazoan diversity: application for characterizing coral reef fish gut contents

inferredcites →https://doi.org/10.1201/9780429397547-30openalex-snapshot

Environmental DNA (eDNA)

inferredcites →https://doi.org/10.1371/journal.pcbi.1003531openalex-snapshot

Waste Not, Want Not: Why Rarefying Microbiome Data Is Inadmissible

inferredcites →https://doi.org/10.1371/journal.pone.0006372openalex-snapshot

A Method for Studying Protistan Diversity Using Massively Parallel Sequencing of V9 Hypervariable Regions of Small-Subunit Ribosomal RNA Genes

inferredcites →https://doi.org/10.1371/journal.pone.0073935openalex-snapshot

Evaluating Detection Limits of Next-Generation Sequencing for the Surveillance and Monitoring of International Marine Pests

inferredcites →https://doi.org/10.1371/journal.pone.0177643openalex-snapshot

Environmental DNA (eDNA) metabarcoding assays to detect invasive invertebrate species in the Great Lakes

inferredcites →https://doi.org/10.1371/journal.pone.0183347openalex-snapshot

DNA in a bottle—Rapid metabarcoding survey for early alerts of invasive species in ports

inferredcites →https://doi.org/10.14806/ej.17.1.200openalex-snapshot

Cutadapt removes adapter sequences from high-throughput sequencing reads

inferredcites →https://doi.org/10.1890/08-1823.1openalex-snapshot

Associations between species and groups of sites: indices and statistical inference

inferredcites →https://doi.org/10.1890/12-0992.1openalex-snapshot

Global ballast water management and the “same location” concept: a clear term or a clear issue?

inferredcites →https://doi.org/10.2307/2963459openalex-snapshot

Species Assemblages and Indicator Species: The Need for a Flexible Asymmetrical Approach

inferredcites →https://doi.org/10.3389/fmars.2016.00096openalex-snapshot

Benchmarking DNA Metabarcoding for Biodiversity-Based Monitoring and Assessment

inferredcites →https://doi.org/10.3389/fmars.2016.00203openalex-snapshot

Marine Sediment Sample Pre-processing for Macroinvertebrates Metabarcoding: Mechanical Enrichment and Homogenization

inferredcites →https://doi.org/10.3391/ai.2012.7.2.003openalex-snapshot

First record of the invasive brackish water mytilid Limnoperna securis (Lamarck, 1819) in the Bay of Biscay

inferredcites →https://doi.org/10.3391/bir.2016.5.2.05openalex-snapshot

First record of the non-indigenous Melita nitida Smith, 1873 (Crustacea: Amphipoda: Melitidae) in the Bay of Biscay (NE Atlantic)

inferredcites →https://doi.org/10.7717/peerj.3044openalex-snapshot

Spatial distribution of environmental DNA in a nearshore marine habitat

inferredcites →https://doi.org/10.7717/peerj.593openalex-snapshot

Swarm: robust and fast clustering method for amplicon-based studies

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

inferred← citeshttps://doi.org/10.1002/edn3.583openalex-snapshot

Disentangling eukaryotic biodiversity patterns from man‐made environments (port and marina) and nearby coral reefs in the Red Sea: A focus on the surveillance of non‐indigenous species

inferred← citeshttps://doi.org/10.1016/j.marenvres.2021.105340openalex-snapshot

Building on gAMBI in ports for a challenging biological invasions scenario: Blue-gNIS as a proof of concept

inferred← citeshttps://doi.org/10.1016/j.marpolbul.2021.112893openalex-snapshot

Environmental DNA sampling protocols for the surveillance of marine non-indigenous species in Irish coastal waters

inferred← citeshttps://doi.org/10.1016/j.rsma.2020.101307openalex-snapshot

Gap-analysis and annotated reference library for supporting macroinvertebrate metabarcoding in Atlantic Iberia

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