Estimating sampling effort for early detection of non-indigenous benthic species in the Toledo Harbor Region of Lake Erie

Ram, Jeffrey L.; Banno, Fady; Gala, Richard R.; Gizicki, Jason P.; Kashian, Donna R.

doi:10.3391/mbi.2014.5.3.03

Cited by 12 publications

(10 citation statements)

References 11 publications

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“…Our META and MORPH datasets both identified most of the AIS species found by Ram, Banno, Gala, Gizicki, and Kashian (2014) (Clarke et al, 2017;Elbrecht & Leese, 2015;Zhou et al, 2013). Additionally, MORPH surveys often fail to sample and distinguish taxa due to low population numbers, crypsis, and/or capture method biases (Darling & Mahon, 2011).…”

Section: Application For Ais Detection and Monitoring (Hypothesis 3)supporting

confidence: 54%

“…Our META and MORPH datasets both identified most of the AIS species found by Ram, Banno, Gala, Gizicki, and Kashian (2014) in their benthic sampling of the Maumee River and accompanying individual specimen barcoding. An exception was that our META missed the faucet snail B. tentaculata (here solely found at the mouth of the Maumee River by the OEPA), and neither MORPH nor META identified the chironomid Lipiniella sp.…”

Section: Discussionmentioning

confidence: 61%

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Macroinvertebrate community diversity and habitat quality relationships along a large river from targeted eDNA metabarcode assays

Marshall

Stepien

2020

Environmental DNA

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Species compositions and diversity levels of aquatic macroinvertebrate communities provide important indicators of ecosystem health. However, such community analyses typically are limited by time and effort of sampling, sorting, and identifications, as well as morphological character uncertainty for some taxa, especially at early life stages. Our objective was to evaluate a suite of targeted metabarcode high-throughput sequencing assays to characterize the macroinvertebrate communities (specifically targeting Annelida, Bryozoa, Crustacea, Insecta, and Mollusca) from environmental (e)DNA water samples along 160 km of the Maumee River, OH (a major Lake Erie, Laurentian Great Lakes tributary). Multiple alpha (richness, Shannon Index, and Simpson's Index) and beta (Bray-Curtis and Sørensen dissimilarities) diversity metrics from the metabarcode assays were compared with an Invertebrate Community Index (ICI) metric calculated from traditional morphological sampling surveys conducted by the Ohio Environmental Protection Agency. The 15 Maumee River sites varied in their ICI scores (ranging from 4 to 46), with seven sites rated as "poor" or "very poor" and eight scoring "fair" or "good." Metabarcoding assays yielded greater gamma richness, delineating 181 Operational Taxonomic Units versus 172 taxa from morphology (the latter often limited to family or genus-level identifications). Both datasets supported similar river-wide trends, with comparable gamma, alpha, and beta diversity patterns and community compositions across habitat types and habitat quality scores. Metabarcode assays revealed similar detection of important bioindicator Insecta, but missed most Trichoptera (caddisflies). eDNA identified eight aquatic invasive species on the GLANSIS (Great Lakes Aquatic Nonindigenous Species Information System) list, including three missed by the morphological surveys (Branchiura sowerbyi, Potamothrix bedoti, and Skistodiaptomus pallidus; with Lophopodella carteri, Faxonius rusticus, Corbicula fluminea, Dreissena polymorpha, and Valvata piscinalis in both datasets). Findings illustrate the utility of eDNA sampling | 573 MARSHALL And STEPIEn

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Section: Application For Ais Detection and Monitoring (Hypothesis 3)supporting

confidence: 54%

Section: Discussionmentioning

confidence: 61%

Macroinvertebrate community diversity and habitat quality relationships along a large river from targeted eDNA metabarcode assays

Marshall

Stepien

2020

Environmental DNA

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“…The finding that the estimated number of samples to detect 95% of projected richness varied substantially between methods of resolving ambiguous taxa has implications for survey design and evaluation. For example, under the binational 2012 Great Lakes Water Quality Agreement, US and Canadian federal agencies are tasked with implementing monitoring programs for exotic aquatic species, and projected taxa richness (Chao1) is being used to estimate the sampling effort needed to detect taxa of a given rarity (which equates to a given level of establishment for exotic species), as well as develop more efficient monitoring programs (Hoffman et al, 2011;Ram et al, 2014). Given the sensitivity of estimated sampling effort to detect 95% of projected taxa, appropriate caution is warranted when determining how many additional samples are needed as part of a monitoring program.…”

Section: Possible Effect Of Study Area Characteristics and Survey Desmentioning

confidence: 99%

“…Accordingly, choices for resolving ambiguous taxa can impact nonparametric estimates of projected species richness (aka, asymptotic richness) that rely on the number of rare taxa encountered with a given sampling effort to estimate the total species pool of an area. Projected richness estimates are commonly used in prioritizing biodiversity conservation efforts (Desmet and Cowling 2004;Sambuichi and Haridasan 2007), and to assess sampling effort sufficiency (Schreiber and Brauns 2010;Ram et al, 2014). We recognize that these non-parametric estimates of projected taxa richness have been criticized because their precision and accuracy depend on both sampling effort (D'Alessandro and Fattorini 2002) and distribution patterns, especially rarity and spatial aggregation (Reese et al, 2014;Walther andMoore 2005, Chiarucci et al, 2003).…”

Section: Introductionmentioning

confidence: 99%

Resolving taxonomic ambiguities: Effects on rarity, projected richness, and indices in macroinvertebrate datasets

Meredith

Trebitz

Hoffman

2019

Ecological Indicators

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Biodiversity information is an important basis for ecological research and environmental assessment, and can be impacted by choices made in the manipulation and analysis of taxonomic data. Such choices include methods for resolving multiple redundant levels of taxonomic resolution, as typically arise with morphological identification of damaged or immature aquatic macro-invertebrates. In particular, the effects of these processing choices on number of rare taxa are poorly understood yet potentially significant to the estimation of projected taxa richness and related evaluations such as biodiversity conservation value and survey sufficiency. Using aquatic macroinvertebrate data collected for two nearshore areas of Lake Superior, we determined how multiple methods of resolving taxonomic redundancies influence two commonly-used estimates of projected richness, Chao1 and Chao2, which hinge on the ratio of taxa that are singletons to doubletons (i.e., just one versus two individuals found) or uniques versus duplicates (i.e., just one versus two occurrences). We also determined how choice of ambiguous taxa method, including some modified specifically to retain rare taxa and others taken from the literature, influenced effort to reach 95% of projected richness, site-level richness and abundance, and representative invertebrate IBI scores. We found that Chao1 was more sensitive to method choice than Chao2, because singleton and doubleton status was more frequently affected when taxa were deleted, merged, or reassigned in the process of resolving taxonomic redundancies than was unique and duplicate status. Methods that eliminated redundant taxa at the site scale but not the study-area scale tended to overinflate study area and projected richness, and resulted in a significant loss of abundance. The method that aggregated or deleted redundant taxa depending on abundance resulted in a decrease in site and study area richness, abundance, and an underestimation of projected richness. Methods which reassigned parents to common children retained a majority of richness and abundance information and a more realistic estimate of projected taxa richness; however, the identity of poorly-identified parents was imputed. All methods resulted in little effect to typical IBI scores. Overall, no one method is fully capable of removing spurious richness at the study-area scale while preserving all taxa occurrence, abundance and rarity patterns. Therefore, the most appropriate method for making comparisons among sites may be different than the most

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“…Thankfully, there seems to be no longer any debate amongst policy-makers and protection agencies that invasive species represent one of the greatest threats to biodiversity in aquatic ecosystems, with the ICAIS conference and its proceedings reflecting this. Many of the contributions dealt with detection (e.g., the use of vital stains to detect freshwater taxa [Adams et al 2014]; sampling effort [Ram et al 2014]; predictors for environmental suitability [Prescott et al 2014]; and environmental DNA techniques for Asian Carp [Wilson et al 2014]) and risk assessment (e.g., Champion et al's 2014 aquatic weed risk assessment; and Baier et al's 2014 biofilm assessment) acknowledging that the best way to 'manage' a biological invasion is to stop it happening in the first place. However, if an invader evades biosecurity protocols and mitigation (e.g., ballast water filtration issues [Briski et al 2014]; and methods to mitigate green crab impact [Best et al 2014]) and control measures fail (e.g., harvest incentives [Pasko and Goldberg 2014]; or the use of microbial biocides such as Zequanox [Meehan et al 2014]) and then starts to spread out and establish itself, it is here that the old fashioned niche concept perhaps comes into its own.…”

mentioning

confidence: 99%

Evaluating efficacy of a ballast water filtration system for reducing spread of aquatic species in freshwater ecosystems

Briski¹,

Linley²,

Adams³

et al. 2014

MBI

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Estimating sampling effort for early detection of non-indigenous benthic species in the Toledo Harbor Region of Lake Erie

Cited by 12 publications

References 11 publications

Macroinvertebrate community diversity and habitat quality relationships along a large river from targeted eDNA metabarcode assays

Macroinvertebrate community diversity and habitat quality relationships along a large river from targeted eDNA metabarcode assays

Resolving taxonomic ambiguities: Effects on rarity, projected richness, and indices in macroinvertebrate datasets

Evaluating efficacy of a ballast water filtration system for reducing spread of aquatic species in freshwater ecosystems

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