Varietal Tracing of Virgin Olive Oils Based on Plastid DNA Variation Profiling
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{"title"=>"Varietal Tracing of Virgin Olive Oils Based on Plastid DNA Variation Profiling", "type"=>"journal", "authors"=>[{"first_name"=>"Marga", "last_name"=>"Pérez-Jiménez", "scopus_author_id"=>"57201594160"}, {"first_name"=>"Guillaume", "last_name"=>"Besnard", "scopus_author_id"=>"23007515100"}, {"first_name"=>"Gabriel", "last_name"=>"Dorado", "scopus_author_id"=>"7004470537"}, {"first_name"=>"Pilar", "last_name"=>"Hernandez", "scopus_author_id"=>"57074848900"}], "year"=>2013, "source"=>"PLoS ONE", "identifiers"=>{"sgr"=>"84881339849", "pmid"=>"23950947", "isbn"=>"1932-6203 (Electronic)\\r1932-6203 (Linking)", "pui"=>"369535408", "issn"=>"19326203", "scopus"=>"2-s2.0-84881339849", "doi"=>"10.1371/journal.pone.0070507"}, "id"=>"975bdae7-1b0c-3ce1-8848-f4ef78cc6f97", "abstract"=>"Olive oil traceability remains a challenge nowadays. DNA analysis is the preferred approach to an effective varietal identification, without any environmental influence. Specifically, olive organelle genomics is the most promising approach for setting up a suitable set of markers as they would not interfere with the pollinator variety DNA traces. Unfortunately, plastid DNA (cpDNA) variation of the cultivated olive has been reported to be low. This feature could be a limitation for the use of cpDNA polymorphisms in forensic analyses or oil traceability, but rare cpDNA haplotypes may be useful as they can help to efficiently discriminate some varieties. Recently, the sequencing of olive plastid genomes has allowed the generation of novel markers. In this study, the performance of cpDNA markers on olive oil matrices, and their applicability on commercial Protected Designation of Origin (PDO) oils were assessed. By using a combination of nine plastid loci (including multi-state microsatellites and short indels), it is possible to fingerprint six haplotypes (in 17 Spanish olive varieties), which can discriminate high-value commercialized cultivars with PDO. In particular, a rare haplotype was detected in genotypes used to produce a regional high-value commercial oil. We conclude that plastid haplotypes can help oil traceability in commercial PDO oils and set up an experimental methodology suitable for organelle polymorphism detection in the complex olive oil matrices.", "link"=>"http://www.mendeley.com/research/varietal-tracing-virgin-olive-oils-based-plastid-dna-variation-profiling", "reader_count"=>33, "reader_count_by_academic_status"=>{"Professor > Associate Professor"=>3, "Researcher"=>10, "Student > Doctoral Student"=>2, "Student > Ph. D. Student"=>7, "Student > Master"=>3, "Other"=>2, "Student > Bachelor"=>4, "Professor"=>2}, "reader_count_by_user_role"=>{"Professor > Associate Professor"=>3, "Researcher"=>10, "Student > Doctoral Student"=>2, "Student > Ph. D. Student"=>7, "Student > Master"=>3, "Other"=>2, "Student > Bachelor"=>4, "Professor"=>2}, "reader_count_by_subject_area"=>{"Unspecified"=>2, "Biochemistry, Genetics and Molecular Biology"=>4, "Agricultural and Biological Sciences"=>21, "Arts and Humanities"=>1, "Business, Management and Accounting"=>1, "Chemistry"=>3, "Computer Science"=>1}, "reader_count_by_subdiscipline"=>{"Chemistry"=>{"Chemistry"=>3}, "Agricultural and Biological Sciences"=>{"Agricultural and Biological Sciences"=>21}, "Computer Science"=>{"Computer Science"=>1}, "Business, Management and Accounting"=>{"Business, Management and Accounting"=>1}, "Biochemistry, Genetics and Molecular Biology"=>{"Biochemistry, Genetics and Molecular Biology"=>4}, "Unspecified"=>{"Unspecified"=>2}, "Arts and Humanities"=>{"Arts and Humanities"=>1}}, "reader_count_by_country"=>{"Chile"=>1, "Portugal"=>2, "Tunisia"=>1, "Germany"=>1, "Spain"=>2}, "group_count"=>0}

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Figshare

  • {"files"=>["https://ndownloader.figshare.com/files/1145802"], "description"=>"<p>List of olive oil varieties used showing information about country of origin, olive or oil suppliers, type of olive oil used for DNA extraction, protected denomination of origin to which oils belong, the use of olives for table or for making oil and if monovarietal oil is commercialized.</p>a<p>Abencor small-scale production;</p>b<p>NA: not available.</p><p>Boldface: Commercial olive oils in the process of obtaining PDO recognition.</p>", "links"=>[], "tags"=>["Agricultural biotechnology", "crops", "biotechnology", "Small molecules", "Computational biology", "genomics", "Genome sequencing", "population genetics", "Genetic polymorphism", "haplotypes", "genetics", "Plant genetics", "Plant science", "Plant genomics", "varieties"], "article_id"=>766608, "categories"=>["Medicine", "Biological Sciences"], "users"=>["Marga Pérez-Jiménez", "Guillaume Besnard", "Gabriel Dorado", "Pilar Hernández"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0070507.t001", "stats"=>{"downloads"=>1, "page_views"=>4, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Olive_varieties_analyzed_/766608", "title"=>"Olive varieties analyzed.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2013-08-07 01:54:07"}
  • {"files"=>["https://ndownloader.figshare.com/files/1145803"], "description"=>"<div><p>Olive oil traceability remains a challenge nowadays. DNA analysis is the preferred approach to an effective varietal identification, without any environmental influence. Specifically, olive organelle genomics is the most promising approach for setting up a suitable set of markers as they would not interfere with the pollinator variety DNA traces. Unfortunately, plastid DNA (cpDNA) variation of the cultivated olive has been reported to be low. This feature could be a limitation for the use of cpDNA polymorphisms in forensic analyses or oil traceability, but rare cpDNA haplotypes may be useful as they can help to efficiently discriminate some varieties. Recently, the sequencing of olive plastid genomes has allowed the generation of novel markers. In this study, the performance of cpDNA markers on olive oil matrices, and their applicability on commercial Protected Designation of Origin (PDO) oils were assessed. By using a combination of nine plastid loci (including multi-state microsatellites and short indels), it is possible to fingerprint six haplotypes (in 17 Spanish olive varieties), which can discriminate high-value commercialized cultivars with PDO. In particular, a rare haplotype was detected in genotypes used to produce a regional high-value commercial oil. We conclude that plastid haplotypes can help oil traceability in commercial PDO oils and set up an experimental methodology suitable for organelle polymorphism detection in the complex olive oil matrices.</p></div>", "links"=>[], "tags"=>["Agricultural biotechnology", "crops", "biotechnology", "Small molecules", "Computational biology", "genomics", "Genome sequencing", "population genetics", "Genetic polymorphism", "haplotypes", "genetics", "Plant genetics", "Plant science", "Plant genomics", "tracing", "virgin", "olive", "oils", "plastid", "dna"], "article_id"=>766609, "categories"=>["Medicine", "Biological Sciences"], "users"=>["Marga Pérez-Jiménez", "Guillaume Besnard", "Gabriel Dorado", "Pilar Hernández"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0070507", "stats"=>{"downloads"=>3, "page_views"=>13, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Varietal_Tracing_of_Virgin_Olive_Oils_Based_on_Plastid_DNA_Variation_Profiling_/766609", "title"=>"Varietal Tracing of Virgin Olive Oils Based on Plastid DNA Variation Profiling", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2013-08-07 01:54:07"}
  • {"files"=>["https://ndownloader.figshare.com/files/1145791"], "description"=>"<p>Examples of chromatograms showing discrepancies in DNA amplification from leaves (up) and oil (down) for <b>a</b>) locus 57 on variety ‘Blanqueta’; b) locus 19 on variety ‘Villalonga’; <b>b</b>) locus 1 on variety ‘Arbequina’. The expected allele peaks (as defined on leaf DNA) are marked with the corresponding allele size (bases).</p>", "links"=>[], "tags"=>["Agricultural biotechnology", "crops", "biotechnology", "Small molecules", "Computational biology", "genomics", "Genome sequencing", "population genetics", "Genetic polymorphism", "haplotypes", "genetics", "Plant genetics", "Plant science", "Plant genomics", "amplification"], "article_id"=>766597, "categories"=>["Medicine", "Biological Sciences"], "users"=>["Marga Pérez-Jiménez", "Guillaume Besnard", "Gabriel Dorado", "Pilar Hernández"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0070507.g002", "stats"=>{"downloads"=>0, "page_views"=>1, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Discrepancies_found_between_oil_and_leaf_amplification_patterns_/766597", "title"=>"Discrepancies found between oil and leaf amplification patterns.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-08-07 01:54:07"}
  • {"files"=>["https://ndownloader.figshare.com/files/1145785"], "description"=>"<p>Examples of chromatograms showing congruent DNA amplification from leaves (up) and oils (down). The allele peaks are marked with the corresponding allele size (bases). <b>a</b>) locus 38; <b>b</b>) Locus 19; <b>c</b>) Locus 11 and <b>d</b>) Locus 51.</p>", "links"=>[], "tags"=>["Agricultural biotechnology", "crops", "biotechnology", "Small molecules", "Computational biology", "genomics", "Genome sequencing", "population genetics", "Genetic polymorphism", "haplotypes", "genetics", "Plant genetics", "Plant science", "Plant genomics", "olive", "plastid", "dna"], "article_id"=>766591, "categories"=>["Medicine", "Biological Sciences"], "users"=>["Marga Pérez-Jiménez", "Guillaume Besnard", "Gabriel Dorado", "Pilar Hernández"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0070507.g001", "stats"=>{"downloads"=>0, "page_views"=>4, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Profiling_of_olive_plastid_DNA_markers_/766591", "title"=>"Profiling of olive plastid DNA markers.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-08-07 01:54:07"}
  • {"files"=>["https://ndownloader.figshare.com/files/1145799"], "description"=>"<p>The flowchart indicates the different steps to be taken for the discrimination of the six analyzed haplotypes.</p>", "links"=>[], "tags"=>["Agricultural biotechnology", "crops", "biotechnology", "Small molecules", "Computational biology", "genomics", "Genome sequencing", "population genetics", "Genetic polymorphism", "haplotypes", "genetics", "Plant genetics", "Plant science", "Plant genomics", "outlining", "approaches"], "article_id"=>766605, "categories"=>["Medicine", "Biological Sciences"], "users"=>["Marga Pérez-Jiménez", "Guillaume Besnard", "Gabriel Dorado", "Pilar Hernández"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0070507.g003", "stats"=>{"downloads"=>1, "page_views"=>0, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Flowchart_outlining_one_of_possible_approaches_to_identify_the_six_haplotypes_described_in_the_present_study_/766605", "title"=>"Flowchart outlining one of possible approaches to identify the six haplotypes described in the present study.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-08-07 01:54:07"}
  • {"files"=>["https://ndownloader.figshare.com/files/1145800"], "description"=>"<p>Plastid DNA haplotype for each olive variety and Locus-allele combinations for each olive variety.</p>", "links"=>[], "tags"=>["Agricultural biotechnology", "crops", "biotechnology", "Small molecules", "Computational biology", "genomics", "Genome sequencing", "population genetics", "Genetic polymorphism", "haplotypes", "genetics", "Plant genetics", "Plant science", "Plant genomics", "dna", "haplotype", "olive", "locus-allele", "combinations"], "article_id"=>766606, "categories"=>["Medicine", "Biological Sciences"], "users"=>["Marga Pérez-Jiménez", "Guillaume Besnard", "Gabriel Dorado", "Pilar Hernández"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0070507.t003", "stats"=>{"downloads"=>1, "page_views"=>4, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Plastid_DNA_haplotype_for_each_olive_variety_and_Locus_allele_combinations_for_each_olive_variety_/766606", "title"=>"Plastid DNA haplotype for each olive variety and Locus-allele combinations for each olive variety.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2013-08-07 01:54:07"}
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PMC Usage Stats | Further Information

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Relative Metric

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