Molecular identification of commercialized medicinal plants in southern Morocco.
Identifieur interne : 000659 ( Main/Exploration ); précédent : 000658; suivant : 000660Molecular identification of commercialized medicinal plants in southern Morocco.
Auteurs : Anneleen Kool [Suède] ; Hugo J. De Boer ; Asa Krüger ; Anders Rydberg ; Abdelaziz Abbad ; Lars Björk ; Gary MartinSource :
- PloS one [ 1932-6203 ] ; 2012.
Descripteurs français
- KwdFr :
- MESH :
- Wicri :
- geographic : Maroc.
English descriptors
- KwdEn :
- MESH :
- chemical , genetics : DNA, Plant.
- geographic : Morocco.
- genetics : Plant Roots, Plants, Medicinal.
- Base Sequence, DNA Barcoding, Taxonomic, Molecular Sequence Data, Sequence Analysis, DNA.
Abstract
BACKGROUND
Medicinal plant trade is important for local livelihoods. However, many medicinal plants are difficult to identify when they are sold as roots, powders or bark. DNA barcoding involves using a short, agreed-upon region of a genome as a unique identifier for species- ideally, as a global standard.
RESEARCH QUESTION
What is the functionality, efficacy and accuracy of the use of barcoding for identifying root material, using medicinal plant roots sold by herbalists in Marrakech, Morocco, as a test dataset.
METHODOLOGY
In total, 111 root samples were sequenced for four proposed barcode regions rpoC1, psbA-trnH, matK and ITS. Sequences were searched against a tailored reference database of Moroccan medicinal plants and their closest relatives using BLAST and Blastclust, and through inference of RAxML phylograms of the aligned market and reference samples.
PRINCIPAL FINDINGS
Sequencing success was high for rpoC1, psbA-trnH, and ITS, but low for matK. Searches using rpoC1 alone resulted in a number of ambiguous identifications, indicating insufficient DNA variation for accurate species-level identification. Combining rpoC1, psbA-trnH and ITS allowed the majority of the market samples to be identified to genus level. For a minority of the market samples, the barcoding identification differed significantly from previous hypotheses based on the vernacular names.
CONCLUSIONS/SIGNIFICANCE
Endemic plant species are commercialized in Marrakech. Adulteration is common and this may indicate that the products are becoming locally endangered. Nevertheless the majority of the traded roots belong to species that are common and not known to be endangered. A significant conclusion from our results is that unknown samples are more difficult to identify than earlier suggested, especially if the reference sequences were obtained from different populations. A global barcoding database should therefore contain sequences from different populations of the same species to assure the reference sequences characterize the species throughout its distributional range.
DOI: 10.1371/journal.pone.0039459
PubMed: 22761800
PubMed Central: PMC3384669
Affiliations:
Links toward previous steps (curation, corpus...)
Le document en format XML
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De Boer</name></author><author><name sortKey="Kruger, Asa" sort="Kruger, Asa" uniqKey="Kruger A" first="Asa" last="Krüger">Asa Krüger</name></author><author><name sortKey="Rydberg, Anders" sort="Rydberg, Anders" uniqKey="Rydberg A" first="Anders" last="Rydberg">Anders Rydberg</name></author><author><name sortKey="Abbad, Abdelaziz" sort="Abbad, Abdelaziz" uniqKey="Abbad A" first="Abdelaziz" last="Abbad">Abdelaziz Abbad</name></author><author><name sortKey="Bjork, Lars" sort="Bjork, Lars" uniqKey="Bjork L" first="Lars" last="Björk">Lars Björk</name></author><author><name sortKey="Martin, Gary" sort="Martin, Gary" uniqKey="Martin G" first="Gary" last="Martin">Gary Martin</name></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="2012">2012</date><idno type="RBID">pubmed:22761800</idno><idno type="pmid">22761800</idno><idno type="doi">10.1371/journal.pone.0039459</idno><idno type="pmc">PMC3384669</idno><idno type="wicri:Area/Main/Corpus">000655</idno><idno type="wicri:explorRef" wicri:stream="Main" wicri:step="Corpus" wicri:corpus="PubMed">000655</idno><idno type="wicri:Area/Main/Curation">000655</idno><idno type="wicri:explorRef" wicri:stream="Main" wicri:step="Curation">000655</idno><idno type="wicri:Area/Main/Exploration">000655</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en">Molecular identification of commercialized medicinal plants in southern Morocco.</title><author><name sortKey="Kool, Anneleen" sort="Kool, Anneleen" uniqKey="Kool A" first="Anneleen" last="Kool">Anneleen Kool</name><affiliation wicri:level="4"><nlm:affiliation>Department of Systematic Biology, Evolutionary Biology Centre, Uppsala University, Uppsala, Sweden. anneleen.kool@ebc.uu.se</nlm:affiliation><country xml:lang="fr">Suède</country><wicri:regionArea>Department of Systematic Biology, Evolutionary Biology Centre, Uppsala University, Uppsala</wicri:regionArea><orgName type="university">Université d'Uppsala</orgName><placeName><settlement type="city">Uppsala</settlement><region nuts="1">Svealand</region><region nuts="1">East Middle Sweden</region></placeName></affiliation></author><author><name sortKey="De Boer, Hugo J" sort="De Boer, Hugo J" uniqKey="De Boer H" first="Hugo J" last="De Boer">Hugo J. De Boer</name></author><author><name sortKey="Kruger, Asa" sort="Kruger, Asa" uniqKey="Kruger A" first="Asa" last="Krüger">Asa Krüger</name></author><author><name sortKey="Rydberg, Anders" sort="Rydberg, Anders" uniqKey="Rydberg A" first="Anders" last="Rydberg">Anders Rydberg</name></author><author><name sortKey="Abbad, Abdelaziz" sort="Abbad, Abdelaziz" uniqKey="Abbad A" first="Abdelaziz" last="Abbad">Abdelaziz Abbad</name></author><author><name sortKey="Bjork, Lars" sort="Bjork, Lars" uniqKey="Bjork L" first="Lars" last="Björk">Lars Björk</name></author><author><name sortKey="Martin, Gary" sort="Martin, Gary" uniqKey="Martin G" first="Gary" last="Martin">Gary Martin</name></author></analytic><series><title level="j">PloS one</title><idno type="eISSN">1932-6203</idno><imprint><date when="2012" type="published">2012</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Base Sequence (MeSH)</term><term>DNA Barcoding, Taxonomic (MeSH)</term><term>DNA, Plant (genetics)</term><term>Molecular Sequence Data (MeSH)</term><term>Morocco (MeSH)</term><term>Plant Roots (genetics)</term><term>Plants, Medicinal (genetics)</term><term>Sequence Analysis, DNA (MeSH)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>ADN des plantes (génétique)</term><term>Analyse de séquence d'ADN (MeSH)</term><term>Codage à barres de l'ADN pour la taxonomie (MeSH)</term><term>Données de séquences moléculaires (MeSH)</term><term>Maroc (MeSH)</term><term>Plantes médicinales (génétique)</term><term>Racines de plante (génétique)</term><term>Séquence nucléotidique (MeSH)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>DNA, Plant</term></keywords><keywords scheme="MESH" type="geographic" xml:lang="en"><term>Morocco</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Plant Roots</term><term>Plants, Medicinal</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>ADN des plantes</term><term>Plantes médicinales</term><term>Racines de plante</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Base Sequence</term><term>DNA Barcoding, Taxonomic</term><term>Molecular Sequence Data</term><term>Sequence Analysis, DNA</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Analyse de séquence d'ADN</term><term>Codage à barres de l'ADN pour la taxonomie</term><term>Données de séquences moléculaires</term><term>Maroc</term><term>Séquence nucléotidique</term></keywords><keywords scheme="Wicri" type="geographic" xml:lang="fr"><term>Maroc</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p><b>BACKGROUND</b></p><p>Medicinal plant trade is important for local livelihoods. However, many medicinal plants are difficult to identify when they are sold as roots, powders or bark. DNA barcoding involves using a short, agreed-upon region of a genome as a unique identifier for species- ideally, as a global standard.</p></div><div type="abstract" xml:lang="en"><p><b>RESEARCH QUESTION</b></p><p>What is the functionality, efficacy and accuracy of the use of barcoding for identifying root material, using medicinal plant roots sold by herbalists in Marrakech, Morocco, as a test dataset.</p></div><div type="abstract" xml:lang="en"><p><b>METHODOLOGY</b></p><p>In total, 111 root samples were sequenced for four proposed barcode regions rpoC1, psbA-trnH, matK and ITS. Sequences were searched against a tailored reference database of Moroccan medicinal plants and their closest relatives using BLAST and Blastclust, and through inference of RAxML phylograms of the aligned market and reference samples.</p></div><div type="abstract" xml:lang="en"><p><b>PRINCIPAL FINDINGS</b></p><p>Sequencing success was high for rpoC1, psbA-trnH, and ITS, but low for matK. Searches using rpoC1 alone resulted in a number of ambiguous identifications, indicating insufficient DNA variation for accurate species-level identification. Combining rpoC1, psbA-trnH and ITS allowed the majority of the market samples to be identified to genus level. For a minority of the market samples, the barcoding identification differed significantly from previous hypotheses based on the vernacular names.</p></div><div type="abstract" xml:lang="en"><p><b>CONCLUSIONS/SIGNIFICANCE</b></p><p>Endemic plant species are commercialized in Marrakech. Adulteration is common and this may indicate that the products are becoming locally endangered. Nevertheless the majority of the traded roots belong to species that are common and not known to be endangered. A significant conclusion from our results is that unknown samples are more difficult to identify than earlier suggested, especially if the reference sequences were obtained from different populations. A global barcoding database should therefore contain sequences from different populations of the same species to assure the reference sequences characterize the species throughout its distributional range.</p></div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">22761800</PMID><DateCompleted><Year>2013</Year><Month>03</Month><Day>21</Day></DateCompleted><DateRevised><Year>2018</Year><Month>11</Month><Day>13</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1932-6203</ISSN><JournalIssue CitedMedium="Internet"><Volume>7</Volume><Issue>6</Issue><PubDate><Year>2012</Year></PubDate></JournalIssue><Title>PloS one</Title><ISOAbbreviation>PLoS One</ISOAbbreviation></Journal><ArticleTitle>Molecular identification of commercialized medicinal plants in southern Morocco.</ArticleTitle><Pagination><MedlinePgn>e39459</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1371/journal.pone.0039459</ELocationID><Abstract><AbstractText Label="BACKGROUND" NlmCategory="BACKGROUND">Medicinal plant trade is important for local livelihoods. However, many medicinal plants are difficult to identify when they are sold as roots, powders or bark. DNA barcoding involves using a short, agreed-upon region of a genome as a unique identifier for species- ideally, as a global standard.</AbstractText><AbstractText Label="RESEARCH QUESTION" NlmCategory="OBJECTIVE">What is the functionality, efficacy and accuracy of the use of barcoding for identifying root material, using medicinal plant roots sold by herbalists in Marrakech, Morocco, as a test dataset.</AbstractText><AbstractText Label="METHODOLOGY" NlmCategory="METHODS">In total, 111 root samples were sequenced for four proposed barcode regions rpoC1, psbA-trnH, matK and ITS. Sequences were searched against a tailored reference database of Moroccan medicinal plants and their closest relatives using BLAST and Blastclust, and through inference of RAxML phylograms of the aligned market and reference samples.</AbstractText><AbstractText Label="PRINCIPAL FINDINGS" NlmCategory="RESULTS">Sequencing success was high for rpoC1, psbA-trnH, and ITS, but low for matK. Searches using rpoC1 alone resulted in a number of ambiguous identifications, indicating insufficient DNA variation for accurate species-level identification. Combining rpoC1, psbA-trnH and ITS allowed the majority of the market samples to be identified to genus level. For a minority of the market samples, the barcoding identification differed significantly from previous hypotheses based on the vernacular names.</AbstractText><AbstractText Label="CONCLUSIONS/SIGNIFICANCE" NlmCategory="CONCLUSIONS">Endemic plant species are commercialized in Marrakech. Adulteration is common and this may indicate that the products are becoming locally endangered. Nevertheless the majority of the traded roots belong to species that are common and not known to be endangered. A significant conclusion from our results is that unknown samples are more difficult to identify than earlier suggested, especially if the reference sequences were obtained from different populations. A global barcoding database should therefore contain sequences from different populations of the same species to assure the reference sequences characterize the species throughout its distributional range.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Kool</LastName><ForeName>Anneleen</ForeName><Initials>A</Initials><AffiliationInfo><Affiliation>Department of Systematic Biology, Evolutionary Biology Centre, Uppsala University, Uppsala, Sweden. anneleen.kool@ebc.uu.se</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>de Boer</LastName><ForeName>Hugo J</ForeName><Initials>HJ</Initials></Author><Author ValidYN="Y"><LastName>Krüger</LastName><ForeName>Asa</ForeName><Initials>A</Initials></Author><Author ValidYN="Y"><LastName>Rydberg</LastName><ForeName>Anders</ForeName><Initials>A</Initials></Author><Author ValidYN="Y"><LastName>Abbad</LastName><ForeName>Abdelaziz</ForeName><Initials>A</Initials></Author><Author ValidYN="Y"><LastName>Björk</LastName><ForeName>Lars</ForeName><Initials>L</Initials></Author><Author ValidYN="Y"><LastName>Martin</LastName><ForeName>Gary</ForeName><Initials>G</Initials></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType><PublicationType UI="D013485">Research Support, Non-U.S. Gov't</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2012</Year><Month>06</Month><Day>27</Day></ArticleDate></Article><MedlineJournalInfo><Country>United States</Country><MedlineTA>PLoS One</MedlineTA><NlmUniqueID>101285081</NlmUniqueID><ISSNLinking>1932-6203</ISSNLinking></MedlineJournalInfo><ChemicalList><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D018744">DNA, Plant</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D001483" MajorTopicYN="N">Base 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Sweden</li><li>Svealand</li></region><settlement><li>Uppsala</li></settlement><orgName><li>Université d'Uppsala</li></orgName></list><tree><noCountry><name sortKey="Abbad, Abdelaziz" sort="Abbad, Abdelaziz" uniqKey="Abbad A" first="Abdelaziz" last="Abbad">Abdelaziz Abbad</name><name sortKey="Bjork, Lars" sort="Bjork, Lars" uniqKey="Bjork L" first="Lars" last="Björk">Lars Björk</name><name sortKey="De Boer, Hugo J" sort="De Boer, Hugo J" uniqKey="De Boer H" first="Hugo J" last="De Boer">Hugo J. De Boer</name><name sortKey="Kruger, Asa" sort="Kruger, Asa" uniqKey="Kruger A" first="Asa" last="Krüger">Asa Krüger</name><name sortKey="Martin, Gary" sort="Martin, Gary" uniqKey="Martin G" first="Gary" last="Martin">Gary Martin</name><name sortKey="Rydberg, Anders" sort="Rydberg, Anders" uniqKey="Rydberg A" first="Anders" last="Rydberg">Anders Rydberg</name></noCountry><country name="Suède"><region name="Svealand"><name sortKey="Kool, Anneleen" sort="Kool, Anneleen" uniqKey="Kool A" first="Anneleen" last="Kool">Anneleen Kool</name></region></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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