Low mislabeling rates indicate marked improvements in European seafood market operations

Mariani, Stefano; Griffiths, Andrew M.; Velasco, A. M.; Kappel, K. van; Jérôme, Marc; Pérez‐Martín, Ricardo I.; Schröder, Ute; Verrez‐Bagnis, Véronique; Silva, Helena Alves; Vandamme, Sara; Boufana, Belgees; Mendes, Rogério; Shorten, Marc; Smith, Cat; Hankard, Elizabeth A.; Hook, Samantha A.; Weymer, Alice S; Gunning, Daryl; Sotelo, Carmen G.

doi:10.1890/150119

Cited by 86 publications

(63 citation statements)

References 17 publications

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“…The results report a high number of non-compliances in products declared as Atlantic cod ( Gadus morhua ), in part due to the fact that it was one of the most sampled species. For this species, the observed mislabelling rate was 4%, which is in line with the values obtained in another recent survey (Mariani et al., 2015), although higher rates have also been reported (Filonzi et al., 2010, Herrero et al., 2010). When adjusting for the number of samples tested, the flatfishes were among the highest in terms of mislabelling frequencies, including the common sole ( Solea solea , 24%), the yellowfin sole ( Limanda aspera , 15%) and the halibut ( Hippoglossus hippoglossus , 8%).…”

Section: Introductionsupporting

confidence: 92%

Novel nuclear barcode regions for the identification of flatfish species

et al. 2017

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The development of an efficient seafood traceability framework is crucial for the management of sustainable fisheries and the monitoring of potential substitution fraud across the food chain. Recent studies have shown the potential of DNA barcoding methods in this framework, with most of the efforts focusing on using mitochondrial targets such as the cytochrome oxidase 1 and cytochrome b genes. In this article, we show the identification of novel targets in the nuclear genome, and their associated primers, to be used for the efficient identification of flatfishes of the Pleuronectidae family. In addition, different in silico methods are described to generate a dataset of barcode reference sequences from the ever-growing wealth of publicly available sequence information, replacing, where possible, labour-intensive laboratory work. The short amplicon lengths render the analysis of these new barcode target regions ideally suited to next-generation sequencing techniques, allowing characterisation of multiple fish species in mixed and processed samples. Their location in the nucleus also improves currently used methods by allowing the identification of hybrid individuals.

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Section: Introductionsupporting

confidence: 92%

Novel nuclear barcode regions for the identification of flatfish species

et al. 2017

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“…; Mariani et al. ) contrast with higher rates (>25%) reported in earlier studies (e.g., Wong & Hanner ; Logan et al. ; Warner et al.…”

Section: Discussionmentioning

confidence: 64%

Using DNA barcoding to track seafood mislabeling in Los Angeles restaurants

Willette

Simmonds

Cheng

et al. 2017

Conservation Biology

110

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Seafood mislabeling is common in both domestic and international markets. Studies on seafood fraud often report high rates of mislabeling (e.g., >70%), but these studies have been limited to a single sampling year, which means it is difficult to assess the impact of stricter governmental truth-in-labeling regulations. We used DNA barcoding to assess seafood labeling in 26 sushi restaurants in Los Angeles over 4 years. Seafood from 3 high-end grocery stores were also sampled (n = 16) in 2014. We ordered 9 common sushi fish from menus, preserved tissue samples in 95% ethanol, extracted the genomic DNA, amplified and sequenced a portion of the mtDNA COI gene, and identified the resulting sequence to known fish sequences from the National Center for Biotechnology Information nucleotide database. We compared DNA results with the U.S. Food and Drug Administration (FDA) list of acceptable market names and retail names. We considered sushi-sample labels that were inconsistent with FDA names mislabeled. Sushi restaurants had a consistently high percentage of mislabeling (47%; 151 of 323) from 2012 to 2015, yet mislabeling was not homogenous across species. Halibut, red snapper, yellowfin tuna, and yellowtail had consistently high (<77%) occurrences of mislabeling on menus, whereas mislabeling of salmon and mackerel were typically low (>15%). All sampled sushi restaurants had at least one case of mislabeling. Mislabeling of sushi-grade fish from high-end grocery stores was also identified in red snapper, yellowfin tuna, and yellowtail, but at a slightly lower frequency (42%) than sushi restaurants. Despite increased regulatory measures and media attention, we found seafood mislabeling continues to be prevalent.

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“…DNA barcoding and metabarcoding techniques are now established and indispensable tools for the assessment and monitoring of past and present ecosystems (Leray & Knowlton, 2015;Pedersen et al, 2015;Thomsen & Willerslev, 2015;Valentini et al, 2016), and are being increasingly incorporated into policy and management decisions (Hering et al, 2018;Kelly et al, 2014b;Mariani et al, 2015;Rees, Maddison, Middleditch, Patmore, & Gough, 2014). A remarkably wide range of biological substrates can now be sequenced to identify presence of a particular species or reconstruct communities, and can include restaurant sushi meals (Vandamme et al, 2016), deep sea sediments (Guardiola et al, 2015), permafrost ice cores (Willerslev et al, 2003), terrestrial insect collections (Ji et al, 2013), animal faeces (Kartzinel et al, 2015) and seawater samples (Thomsen, Kielgast, Iversen, Møller, et al, 2012a).…”

Section: Introductionmentioning

confidence: 99%

Non‐specific amplification compromises environmental DNA metabarcoding with COI

et al. 2019

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Metabarcoding extra‐organismal DNA from environmental samples is now a key technique in aquatic biomonitoring and ecosystem health assessment. Of critical consideration when designing experiments, and especially so when developing community standards and legislative frameworks, is the choice of genetic marker and primer set. Mitochondrial cytochrome c oxidase subunit I (COI), the standard DNA barcode marker for animals, with its extensive reference library, taxonomic discriminatory power and predictable sequence variation, is the natural choice for many metabarcoding applications. However, for targeting specific taxonomic groups in environmental samples, the utility of COI has yet to be fully scrutinized. Here, by using a case study of marine and freshwater fishes from the British Isles, we quantify the in silico performance of twelve primer pairs from four mitochondrial loci – COI, cytochrome b, 12S and 16S – in terms of reference library coverage, taxonomic discriminatory power and primer universality. We subsequently test in vitro four primer pairs – three COI and one 12S – for their specificity, reproducibility, and congruence with independent datasets derived from traditional survey methods at five estuarine and coastal sites around the English Channel and North Sea. Our results show that for aqueous extra‐organismal DNA at low template concentrations, both metazoan‐targeted and fish‐targeted COI primers perform poorly in comparison to 12S, exhibiting low levels of reproducibility due to non‐specific amplification of prokaryotic and non‐target eukaryotic DNAs. An ideal metabarcode would have an extensive reference library upon which custom primers could be designed, either for broad assessments of biodiversity, or taxon specific surveys. Such a database is available for COI, but low primer specificity hinders practical application, while conversely, 12S primers offer high specificity, but lack adequate references. The latter, however, can be mitigated by expanding the concept of DNA barcodes to include whole mitochondrial genomes generated by genome‐skimming existing tissue collections.

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Low mislabeling rates indicate marked improvements in European seafood market operations

Cited by 86 publications

References 17 publications

Novel nuclear barcode regions for the identification of flatfish species

Novel nuclear barcode regions for the identification of flatfish species

Using DNA barcoding to track seafood mislabeling in Los Angeles restaurants

Non‐specific amplification compromises environmental DNA metabarcoding with COI

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