A Validated Methodology for Genetic Identification of Tuna Species (Genus Thunnus)
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{"title"=>"A Validated Methodology for Genetic Identification of Tuna Species (Genus Thunnus)", "type"=>"journal", "authors"=>[{"first_name"=>"Jordi", "last_name"=>"Viñas", "scopus_author_id"=>"7003762702"}, {"first_name"=>"Sergi", "last_name"=>"Tudela", "scopus_author_id"=>"56068219700"}], "year"=>2009, "source"=>"PLoS ONE", "identifiers"=>{"pmid"=>"1000090690", "doi"=>"10.1371/journal.pone.0007606", "sgr"=>"77949329987", "arxiv"=>"1203.2655", "isbn"=>"0011-3891", "scopus"=>"2-s2.0-77949329987", "issn"=>"19326203", "pui"=>"368587312"}, "id"=>"131d8cd4-8bfd-3821-8415-6e0e9d07d299", "abstract"=>"Background: Abstract Tuna species of the genus Thunnus, such as the bluefin tunas, are some of the most important and yet most endangered trade fish in the world. Identification of these species in traded forms, however, may be difficult depending on Methodology: the presentation of the products, which may hamper conservation efforts on trade control. In this paper, we validated a genetic methodology that can fully distinguish between the eight Thunnus species from any kind of processed tissue. Methodology: the presentation of the products, which may hamper conservation efforts on trade control. In this paper, we validated a genetic methodology that can fully distinguish between the eight Thunnus species from any kind of processed tissue. After testing several genetic markers, a complete discrimination of the eight tuna species was achieved using Forensically Informative Nucleotide Sequencing based primarily on the sequence variability of the hypervariable genetic marker mitochondrial DNA control region (mtDNA CR), followed, in some specific cases, by a second validation by a nuclear marker rDNA first internal transcribed spacer (ITS1). This methodology was able to distinguish all tuna species, including those belonging to the subgenus Neothunnus that are very closely related, and in consequence can not be differentiated with other genetic markers of lower variability. This methodology also took into consideration the presence of introgression that has been reported in past studies between T. thynnus, T. orientalis and T. alalunga. Finally, we applied the methodology Conclusions: to cross-check the species identity of 26 processed tuna samples. Conclusions: Using the combination of two genetic markers, one mitochondrial and another nuclear, allows a full discrimination between all eight tuna species. Unexpectedly, the genetic marker traditionally used for DNA barcoding, cytochrome oxidase 1, could not differentiate all species, thus its use as a genetic marker for tuna species identification is questioned.", "link"=>"http://www.mendeley.com/research/validated-methodology-genetic-identification-tuna-species-genus-thunnus", "reader_count"=>76, "reader_count_by_academic_status"=>{"Professor > Associate Professor"=>2, "Librarian"=>1, "Student > Doctoral Student"=>1, "Researcher"=>25, "Student > Ph. D. Student"=>19, "Student > Postgraduate"=>1, "Other"=>5, "Student > Master"=>9, "Student > Bachelor"=>6, "Lecturer"=>1, "Lecturer > Senior Lecturer"=>1, "Professor"=>5}, "reader_count_by_user_role"=>{"Professor > Associate Professor"=>2, "Librarian"=>1, "Student > Doctoral Student"=>1, "Researcher"=>25, "Student > Ph. D. Student"=>19, "Student > Postgraduate"=>1, "Other"=>5, "Student > Master"=>9, "Student > Bachelor"=>6, "Lecturer"=>1, "Lecturer > Senior Lecturer"=>1, "Professor"=>5}, "reader_count_by_subject_area"=>{"Environmental Science"=>1, "Biochemistry, Genetics and Molecular Biology"=>4, "Nursing and Health Professions"=>1, "Agricultural and Biological Sciences"=>61, "Medicine and Dentistry"=>2, "Arts and Humanities"=>1, "Social Sciences"=>1, "Computer Science"=>2, "Earth and Planetary Sciences"=>2, "Economics, Econometrics and Finance"=>1}, "reader_count_by_subdiscipline"=>{"Medicine and Dentistry"=>{"Medicine and Dentistry"=>2}, "Social Sciences"=>{"Social Sciences"=>1}, "Earth and Planetary Sciences"=>{"Earth and Planetary Sciences"=>2}, "Economics, Econometrics and Finance"=>{"Economics, Econometrics and Finance"=>1}, "Agricultural and Biological Sciences"=>{"Agricultural and Biological Sciences"=>61}, "Computer Science"=>{"Computer Science"=>2}, "Nursing and Health Professions"=>{"Nursing and Health Professions"=>1}, "Biochemistry, Genetics and Molecular Biology"=>{"Biochemistry, Genetics and Molecular Biology"=>4}, "Environmental Science"=>{"Environmental Science"=>1}, "Arts and Humanities"=>{"Arts and Humanities"=>1}}, "reader_count_by_country"=>{"Canada"=>1, "United States"=>1, "Japan"=>2, "Brazil"=>1, "Spain"=>3}, "group_count"=>3}

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  • {"files"=>["https://ndownloader.figshare.com/files/878490"], "description"=>"<p>Forensically Informative Nucleotide Sequencing of the 26 unknown sampled based on the sequence variability of the mitochondrial control region. Tree is reconstructed based on the information given in <a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0007606#pone-0007606-g001\" target=\"_blank\">Figure 1</a>. Tree is rooted at midpoint.</p>", "links"=>[], "tags"=>["tuna"], "article_id"=>548954, "categories"=>["Marine Biology"], "users"=>["Jordi Viñas", "Sergi Tudela"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0007606.g004", "stats"=>{"downloads"=>0, "page_views"=>8, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Genetic_tuna_species_identification_of_unknown_samples_/548954", "title"=>"Genetic tuna species identification of unknown samples.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-02-21 04:06:17"}
  • {"files"=>["https://ndownloader.figshare.com/files/878245"], "description"=>"<p>Phylogenetic tree using the 49 mitochondrial <i>COI</i> representing the eight recognized tuna species and including individuals of <i>T. thynnus</i> and <i>T. orientalis</i> with introgressed mtDNA. Tree is rooted at midpoint. Numbers above the nodes represent bootstrap support above 60% after 1,000 replicates.</p>", "links"=>[], "tags"=>["dna", "oxidase", "phylogenetic"], "article_id"=>548707, "categories"=>["Marine Biology"], "users"=>["Jordi Viñas", "Sergi Tudela"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0007606.g002", "stats"=>{"downloads"=>0, "page_views"=>11, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Mitochondrial_DNA_cytochrome_oxidase_1_COI_phylogenetic_tree_/548707", "title"=>"Mitochondrial DNA <i>cytochrome oxidase 1</i> (<i>COI</i>) phylogenetic tree.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-02-21 04:04:56"}
  • {"files"=>["https://ndownloader.figshare.com/files/878129"], "description"=>"<p>Phylogenetic tree using the 42 mitochondrial control region sequences (mtDNA CR) representing the eight recognized tuna species and including introgressed mtDNA CR sequences of <i>T. thynnus</i> and <i>T. orientalis</i>. Tree is rooted at midpoint. Numbers above the nodes represent bootstrap support above 70% after 1,000 replicates.</p>", "links"=>[], "tags"=>["dna", "phylogenetic"], "article_id"=>548593, "categories"=>["Marine Biology"], "users"=>["Jordi Viñas", "Sergi Tudela"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0007606.g001", "stats"=>{"downloads"=>1, "page_views"=>3, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Mitochondrial_DNA_control_region_phylogenetic_tree_/548593", "title"=>"Mitochondrial DNA control region phylogenetic tree.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-02-21 04:04:17"}
  • {"files"=>["https://ndownloader.figshare.com/files/878629"], "description"=>"<p>For the mitochondrial DNA Control Region (<i>CR</i>) and in parenthesis the number of individuals used to estimate the nucleotide diversity and the reference source of the sequences. For the mtDNA <i>COI</i> and <i>ITSI</i> the nucleotide diversity was estimated using the same data of the phylogenetic analysis.</p>", "links"=>[], "tags"=>["samples", "validation", "methodology", "intra", "inter-specific", "levels", "variability", "nucleotide"], "article_id"=>549085, "categories"=>["Marine Biology"], "users"=>["Jordi Viñas", "Sergi Tudela"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0007606.t001", "stats"=>{"downloads"=>0, "page_views"=>5, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Summary_of_samples_used_in_the_validation_methodology_and_intra_and_inter_specific_levels_of_genetic_variability_960_nucleotide_diversity_/549085", "title"=>"Summary of samples used in the validation methodology and intra and inter-specific levels of genetic variability (<i>π</i>, nucleotide diversity).", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2013-02-21 04:07:00"}
  • {"files"=>["https://ndownloader.figshare.com/files/878370"], "description"=>"<p>Phylogenetic tree using the 60 nuclear <i>ITS1</i> sequences representing the eight recognized tuna species and including individuals of <i>T. thynnus</i> and <i>T. orientalis</i> with introgressed mtDNA. Tree is rooted at midpoint. Numbers above the nodes represent bootstrap support above 50% after 1,000 replicates.</p>", "links"=>[], "tags"=>["transcribed", "phylogenetic"], "article_id"=>548831, "categories"=>["Marine Biology"], "users"=>["Jordi Viñas", "Sergi Tudela"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0007606.g003", "stats"=>{"downloads"=>0, "page_views"=>6, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Nuclear_rDNA_first_internal_transcribed_spacer_ITS1_phylogenetic_tree_/548831", "title"=>"Nuclear <i>rDNA first internal transcribed spacer</i> (<i>ITS1</i>) phylogenetic tree.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-02-21 04:05:36"}

PMC Usage Stats | Further Information

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