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Geographically widespread swordfish barcode stock identification: a case study of its application.

Pappalardo AM, Guarino F, Reina S, Messina A, De Pinto V - PLoS ONE (2011)

Bottom Line: This information was successfully applied to the discrimination of unknown samples from the market, detecting in some cases mislabeled seafood products.Similar results were obtained with 5'dloop.Our preliminary data in swordfish Xiphias gladius confirm that Cytochrome Oxidase I can be proposed as an efficient species-specific marker that has also the potential to assign geographical provenance.

View Article: PubMed Central - PubMed

Affiliation: Section of Biochemistry and Molecular Biology, Department of Biological, Geological and Environmental Sciences, University of Catania, National Institute of Biomembranes and Biosystems, Section of Catania, Catania, Italy.

ABSTRACT

Background: The swordfish (Xiphias gladius) is a cosmopolitan large pelagic fish inhabiting tempered and tropical waters and it is a target species for fisheries all around the world. The present study investigated the ability of COI barcoding to reliably identify swordfish and particularly specific stocks of this commercially important species.

Methodology: We applied the classical DNA barcoding technology, upon a 682 bp segment of COI, and compared swordfish sequences from different geographical sources (Atlantic, Indian Oceans and Mediterranean Sea). The sequences of the 5' hyper-variable fragment of the control region (5'dloop), were also used to validate the efficacy of COI as a stock-specific marker.

Case report: This information was successfully applied to the discrimination of unknown samples from the market, detecting in some cases mislabeled seafood products.

Conclusions: The NJ distance-based phenogram (K2P model) obtained with COI sequences allowed us to correlate the swordfish haplotypes to the different geographical stocks. Similar results were obtained with 5'dloop. Our preliminary data in swordfish Xiphias gladius confirm that Cytochrome Oxidase I can be proposed as an efficient species-specific marker that has also the potential to assign geographical provenance. This information might speed the samples analysis in commercial application of barcoding.

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Neighbour-Joining distance-based phenogram (K2P) between sequences of 5′dloop in unknown origin samples (but all of them labeled as Mediterranean) purchased at local supermarkets.The branch connecting the X13 (outgroup) sample to the ingroup was re-scaled in order to focus on the differences within X. gladius.
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pone-0025516-g005: Neighbour-Joining distance-based phenogram (K2P) between sequences of 5′dloop in unknown origin samples (but all of them labeled as Mediterranean) purchased at local supermarkets.The branch connecting the X13 (outgroup) sample to the ingroup was re-scaled in order to focus on the differences within X. gladius.

Mentions: Samples of sliced swordfishes were obtained from the local market and processed to sequence the COI and 5′dloop regions. All these samples were claimed to be fishes from the Mediterrean Sea. The sequences obtained were included into the previous analyses and new NJ trees were built, with the aim to assign the correct provenance to the unknown samples. Interestingly, the sample named X13 was located outside the trees. The identification of the sequence of X13 revealed that it was a shark, Prionace glauca (Figures 4–5). Three out of 14 remaining unknown samples were found to cluster with Atlantic Ocean with both markers (samples X4, X9, X11) and only 11 samples clustered with the fishes from Mediterranean Sea, as it was originally declared by the sellers (Figures 4–5). In particular, in Table 2 we can observe that there is a strong agreement between both markers (COI and 5′dloop) and all the Mediterranean specimens, with the exception of X12, can be assigned at the same phylogenetic clade (Clade I or Clade II as defined in [11], [3]).


Geographically widespread swordfish barcode stock identification: a case study of its application.

Pappalardo AM, Guarino F, Reina S, Messina A, De Pinto V - PLoS ONE (2011)

Neighbour-Joining distance-based phenogram (K2P) between sequences of 5′dloop in unknown origin samples (but all of them labeled as Mediterranean) purchased at local supermarkets.The branch connecting the X13 (outgroup) sample to the ingroup was re-scaled in order to focus on the differences within X. gladius.
© Copyright Policy
Related In: Results  -  Collection

Show All Figures
getmorefigures.php?uid=PMC3198442&req=5

pone-0025516-g005: Neighbour-Joining distance-based phenogram (K2P) between sequences of 5′dloop in unknown origin samples (but all of them labeled as Mediterranean) purchased at local supermarkets.The branch connecting the X13 (outgroup) sample to the ingroup was re-scaled in order to focus on the differences within X. gladius.
Mentions: Samples of sliced swordfishes were obtained from the local market and processed to sequence the COI and 5′dloop regions. All these samples were claimed to be fishes from the Mediterrean Sea. The sequences obtained were included into the previous analyses and new NJ trees were built, with the aim to assign the correct provenance to the unknown samples. Interestingly, the sample named X13 was located outside the trees. The identification of the sequence of X13 revealed that it was a shark, Prionace glauca (Figures 4–5). Three out of 14 remaining unknown samples were found to cluster with Atlantic Ocean with both markers (samples X4, X9, X11) and only 11 samples clustered with the fishes from Mediterranean Sea, as it was originally declared by the sellers (Figures 4–5). In particular, in Table 2 we can observe that there is a strong agreement between both markers (COI and 5′dloop) and all the Mediterranean specimens, with the exception of X12, can be assigned at the same phylogenetic clade (Clade I or Clade II as defined in [11], [3]).

Bottom Line: This information was successfully applied to the discrimination of unknown samples from the market, detecting in some cases mislabeled seafood products.Similar results were obtained with 5'dloop.Our preliminary data in swordfish Xiphias gladius confirm that Cytochrome Oxidase I can be proposed as an efficient species-specific marker that has also the potential to assign geographical provenance.

View Article: PubMed Central - PubMed

Affiliation: Section of Biochemistry and Molecular Biology, Department of Biological, Geological and Environmental Sciences, University of Catania, National Institute of Biomembranes and Biosystems, Section of Catania, Catania, Italy.

ABSTRACT

Background: The swordfish (Xiphias gladius) is a cosmopolitan large pelagic fish inhabiting tempered and tropical waters and it is a target species for fisheries all around the world. The present study investigated the ability of COI barcoding to reliably identify swordfish and particularly specific stocks of this commercially important species.

Methodology: We applied the classical DNA barcoding technology, upon a 682 bp segment of COI, and compared swordfish sequences from different geographical sources (Atlantic, Indian Oceans and Mediterranean Sea). The sequences of the 5' hyper-variable fragment of the control region (5'dloop), were also used to validate the efficacy of COI as a stock-specific marker.

Case report: This information was successfully applied to the discrimination of unknown samples from the market, detecting in some cases mislabeled seafood products.

Conclusions: The NJ distance-based phenogram (K2P model) obtained with COI sequences allowed us to correlate the swordfish haplotypes to the different geographical stocks. Similar results were obtained with 5'dloop. Our preliminary data in swordfish Xiphias gladius confirm that Cytochrome Oxidase I can be proposed as an efficient species-specific marker that has also the potential to assign geographical provenance. This information might speed the samples analysis in commercial application of barcoding.

Show MeSH