De Novo Assembly and Comparative Transcriptome Analyses of Red and Green Morphs of Sweet Basil Grown in Full Sunlight
Identifieur interne : 000053 ( Main/Exploration ); précédent : 000052; suivant : 000054De Novo Assembly and Comparative Transcriptome Analyses of Red and Green Morphs of Sweet Basil Grown in Full Sunlight
Auteurs : Sara Torre [Italie] ; Massimiliano Tattini [Italie] ; Cecilia Brunetti [Italie] ; Lucia Guidi [Italie] ; Antonella Gori [Italie] ; Cristina Marzano [Italie] ; Marco Landi [Italie] ; Federico Sebastiani [Italie]Source :
- PLoS ONE [ 1932-6203 ] ; 2016.
Abstract
Sweet basil (
Url:
DOI: 10.1371/journal.pone.0160370
PubMed: 27483170
PubMed Central: 4970699
Affiliations:
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last="Tattini">Massimiliano Tattini</name><affiliation wicri:level="1"><nlm:aff id="aff001"><addr-line>Institute for Sustainable Plant Protection, Department of Biology, Agriculture and Food Sciences, The National Research Council of Italy, Sesto Fiorentino, Italy</addr-line></nlm:aff><country xml:lang="fr">Italie</country><wicri:regionArea>Institute for Sustainable Plant Protection, Department of Biology, Agriculture and Food Sciences, The National Research Council of Italy, Sesto Fiorentino</wicri:regionArea><wicri:noRegion>Sesto Fiorentino</wicri:noRegion></affiliation></author><author><name sortKey="Brunetti, Cecilia" sort="Brunetti, Cecilia" uniqKey="Brunetti C" first="Cecilia" last="Brunetti">Cecilia Brunetti</name><affiliation wicri:level="1"><nlm:aff id="aff002"><addr-line>Trees and Timber Institute, Department of Biology, Agriculture and Food Sciences, The National Research Council of Italy, Sesto Fiorentino, Italy</addr-line></nlm:aff><country 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Marzano</name><affiliation wicri:level="1"><nlm:aff id="aff003"><addr-line>Department of Agri-Food Production and Environmental Sciences, University of Florence, Sesto Fiorentino, Italy</addr-line></nlm:aff><country xml:lang="fr">Italie</country><wicri:regionArea>Department of Agri-Food Production and Environmental Sciences, University of Florence, Sesto Fiorentino</wicri:regionArea><wicri:noRegion>Sesto Fiorentino</wicri:noRegion></affiliation></author><author><name sortKey="Landi, Marco" sort="Landi, Marco" uniqKey="Landi M" first="Marco" last="Landi">Marco Landi</name><affiliation wicri:level="3"><nlm:aff id="aff004"><addr-line>Department of Agriculture, Food and Environment, University of Pisa, Pisa, Italy</addr-line></nlm:aff><country xml:lang="fr">Italie</country><wicri:regionArea>Department of Agriculture, Food and Environment, University of Pisa, Pisa</wicri:regionArea><placeName><settlement type="city">Pise</settlement><region nuts="2">Toscane</region></placeName></affiliation></author><author><name sortKey="Sebastiani, Federico" sort="Sebastiani, Federico" uniqKey="Sebastiani F" first="Federico" last="Sebastiani">Federico Sebastiani</name><affiliation wicri:level="1"><nlm:aff id="aff001"><addr-line>Institute for Sustainable Plant Protection, Department of Biology, Agriculture and Food Sciences, The National Research Council of Italy, Sesto Fiorentino, Italy</addr-line></nlm:aff><country xml:lang="fr">Italie</country><wicri:regionArea>Institute for Sustainable Plant Protection, Department of Biology, Agriculture and Food Sciences, The National Research Council of Italy, Sesto Fiorentino</wicri:regionArea><wicri:noRegion>Sesto Fiorentino</wicri:noRegion></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PMC</idno><idno type="pmid">27483170</idno><idno type="pmc">4970699</idno><idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4970699</idno><idno type="RBID">PMC:4970699</idno><idno type="doi">10.1371/journal.pone.0160370</idno><date when="2016">2016</date><idno type="wicri:Area/Pmc/Corpus">000125</idno><idno type="wicri:Area/Pmc/Curation">000125</idno><idno type="wicri:Area/Pmc/Checkpoint">000049</idno><idno type="wicri:Area/Ncbi/Merge">000746</idno><idno type="wicri:Area/Ncbi/Curation">000746</idno><idno type="wicri:Area/Ncbi/Checkpoint">000746</idno><idno type="wicri:Area/Main/Merge">000053</idno><idno type="wicri:Area/Main/Curation">000053</idno><idno type="wicri:Area/Main/Exploration">000053</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main"><italic>De Novo</italic> Assembly and Comparative Transcriptome Analyses of Red and Green Morphs of Sweet Basil Grown in Full Sunlight</title><author><name sortKey="Torre, Sara" sort="Torre, Sara" uniqKey="Torre S" first="Sara" last="Torre">Sara Torre</name><affiliation wicri:level="1"><nlm:aff id="aff001"><addr-line>Institute for Sustainable Plant Protection, Department of Biology, Agriculture and Food Sciences, The National Research Council of Italy, Sesto Fiorentino, Italy</addr-line></nlm:aff><country xml:lang="fr">Italie</country><wicri:regionArea>Institute for Sustainable Plant Protection, Department of Biology, Agriculture and Food Sciences, The National Research Council of Italy, Sesto Fiorentino</wicri:regionArea><wicri:noRegion>Sesto Fiorentino</wicri:noRegion></affiliation></author><author><name sortKey="Tattini, Massimiliano" sort="Tattini, Massimiliano" uniqKey="Tattini M" first="Massimiliano" last="Tattini">Massimiliano Tattini</name><affiliation wicri:level="1"><nlm:aff id="aff001"><addr-line>Institute for Sustainable Plant Protection, Department of Biology, Agriculture and Food Sciences, The National Research Council of Italy, Sesto Fiorentino, Italy</addr-line></nlm:aff><country xml:lang="fr">Italie</country><wicri:regionArea>Institute for Sustainable Plant Protection, Department of Biology, Agriculture and Food Sciences, The National Research Council of Italy, Sesto Fiorentino</wicri:regionArea><wicri:noRegion>Sesto Fiorentino</wicri:noRegion></affiliation></author><author><name sortKey="Brunetti, Cecilia" sort="Brunetti, Cecilia" uniqKey="Brunetti C" first="Cecilia" last="Brunetti">Cecilia Brunetti</name><affiliation wicri:level="1"><nlm:aff id="aff002"><addr-line>Trees and Timber Institute, Department of Biology, Agriculture and Food Sciences, The National Research Council of Italy, Sesto Fiorentino, Italy</addr-line></nlm:aff><country xml:lang="fr">Italie</country><wicri:regionArea>Trees and Timber Institute, Department of Biology, Agriculture and Food Sciences, The National Research Council of Italy, Sesto Fiorentino</wicri:regionArea><wicri:noRegion>Sesto Fiorentino</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:aff id="aff003"><addr-line>Department of Agri-Food Production and Environmental Sciences, University of Florence, Sesto Fiorentino, Italy</addr-line></nlm:aff><country xml:lang="fr">Italie</country><wicri:regionArea>Department of Agri-Food Production and Environmental Sciences, University of Florence, Sesto Fiorentino</wicri:regionArea><wicri:noRegion>Sesto Fiorentino</wicri:noRegion></affiliation></author><author><name sortKey="Guidi, Lucia" sort="Guidi, Lucia" uniqKey="Guidi L" first="Lucia" last="Guidi">Lucia Guidi</name><affiliation wicri:level="3"><nlm:aff id="aff004"><addr-line>Department of Agriculture, Food and Environment, University of Pisa, Pisa, Italy</addr-line></nlm:aff><country xml:lang="fr">Italie</country><wicri:regionArea>Department of Agriculture, Food and Environment, University of Pisa, Pisa</wicri:regionArea><placeName><settlement type="city">Pise</settlement><region nuts="2">Toscane</region></placeName></affiliation></author><author><name sortKey="Gori, Antonella" sort="Gori, Antonella" uniqKey="Gori A" first="Antonella" last="Gori">Antonella Gori</name><affiliation wicri:level="1"><nlm:aff id="aff003"><addr-line>Department of Agri-Food Production and Environmental Sciences, University of Florence, Sesto Fiorentino, Italy</addr-line></nlm:aff><country xml:lang="fr">Italie</country><wicri:regionArea>Department of Agri-Food Production and Environmental Sciences, University of Florence, Sesto Fiorentino</wicri:regionArea><wicri:noRegion>Sesto Fiorentino</wicri:noRegion></affiliation></author><author><name sortKey="Marzano, Cristina" sort="Marzano, Cristina" uniqKey="Marzano C" first="Cristina" last="Marzano">Cristina Marzano</name><affiliation wicri:level="1"><nlm:aff id="aff003"><addr-line>Department of Agri-Food Production and Environmental Sciences, University of Florence, Sesto Fiorentino, Italy</addr-line></nlm:aff><country xml:lang="fr">Italie</country><wicri:regionArea>Department of Agri-Food Production and Environmental Sciences, University of Florence, Sesto Fiorentino</wicri:regionArea><wicri:noRegion>Sesto Fiorentino</wicri:noRegion></affiliation></author><author><name sortKey="Landi, Marco" sort="Landi, Marco" uniqKey="Landi M" first="Marco" last="Landi">Marco Landi</name><affiliation wicri:level="3"><nlm:aff id="aff004"><addr-line>Department of Agriculture, Food and Environment, University of Pisa, Pisa, Italy</addr-line></nlm:aff><country xml:lang="fr">Italie</country><wicri:regionArea>Department of Agriculture, Food and Environment, University of Pisa, Pisa</wicri:regionArea><placeName><settlement type="city">Pise</settlement><region nuts="2">Toscane</region></placeName></affiliation></author><author><name sortKey="Sebastiani, Federico" sort="Sebastiani, Federico" uniqKey="Sebastiani F" first="Federico" last="Sebastiani">Federico Sebastiani</name><affiliation wicri:level="1"><nlm:aff id="aff001"><addr-line>Institute for Sustainable Plant Protection, Department of Biology, Agriculture and Food Sciences, The National Research Council of Italy, Sesto Fiorentino, Italy</addr-line></nlm:aff><country xml:lang="fr">Italie</country><wicri:regionArea>Institute for Sustainable Plant Protection, Department of Biology, Agriculture and Food Sciences, The National Research Council of Italy, Sesto Fiorentino</wicri:regionArea><wicri:noRegion>Sesto Fiorentino</wicri:noRegion></affiliation></author></analytic><series><title level="j">PLoS ONE</title><idno type="eISSN">1932-6203</idno><imprint><date when="2016">2016</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p>Sweet basil (<italic>Ocimum basilicum</italic>), one of the most popular cultivated herbs worldwide, displays a number of varieties differing in several characteristics, such as the color of the leaves. The development of a reference transcriptome for sweet basil, and the analysis of differentially expressed genes in acyanic and cyanic cultivars exposed to natural sunlight irradiance, has interest from horticultural and biological point of views. There is still great uncertainty about the significance of anthocyanins in photoprotection, and how green and red morphs may perform when exposed to photo-inhibitory light, a condition plants face on daily and seasonal basis. We sequenced the leaf transcriptome of the green-leaved Tigullio (TIG) and the purple-leaved Red Rubin (RR) exposed to full sunlight over a four-week experimental period. We assembled and annotated 111,007 transcripts. A total of 5,468 and 5,969 potential SSRs were identified in TIG and RR, respectively, out of which 66 were polymorphic <italic>in silico</italic>. Comparative analysis of the two transcriptomes showed 2,372 differentially expressed genes (DEGs) clustered in 222 enriched Gene ontology terms. Green and red basil mostly differed for transcripts abundance of genes involved in secondary metabolism. While the biosynthesis of waxes was up-regulated in red basil, the biosynthesis of flavonols and carotenoids was up-regulated in green basil. Data from our study provides a comprehensive transcriptome survey, gene sequence resources and microsatellites that can be used for further investigations in sweet basil. The analysis of DEGs and their functional classification also offers new insights on the functional role of anthocyanins in photoprotection.</p></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Lewis, La" uniqKey="Lewis L">LA Lewis</name></author><author><name sortKey="Mccourt, Rm" uniqKey="Mccourt R">RM McCourt</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Hughes, Nm" uniqKey="Hughes N">NM Hughes</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Gould, Ks" uniqKey="Gould K">KS Gould</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Chalker Scott, L" uniqKey="Chalker Scott L">L Chalker-Scott</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Tignor, Me" uniqKey="Tignor M">ME Tignor</name></author><author><name sortKey="Davies, Fs" uniqKey="Davies F">FS Davies</name></author><author><name 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Gessler</name></author></analytic></biblStruct></listBibl></div1></back></TEI><affiliations><list><country><li>Italie</li></country><region><li>Toscane</li></region><settlement><li>Pise</li></settlement></list><tree><country name="Italie"><noRegion><name sortKey="Torre, Sara" sort="Torre, Sara" uniqKey="Torre S" first="Sara" last="Torre">Sara Torre</name></noRegion><name sortKey="Brunetti, Cecilia" sort="Brunetti, Cecilia" uniqKey="Brunetti C" first="Cecilia" last="Brunetti">Cecilia Brunetti</name><name sortKey="Brunetti, Cecilia" sort="Brunetti, Cecilia" uniqKey="Brunetti C" first="Cecilia" last="Brunetti">Cecilia Brunetti</name><name sortKey="Gori, Antonella" sort="Gori, Antonella" uniqKey="Gori A" first="Antonella" last="Gori">Antonella Gori</name><name sortKey="Guidi, Lucia" sort="Guidi, Lucia" uniqKey="Guidi L" first="Lucia" last="Guidi">Lucia Guidi</name><name sortKey="Landi, Marco" sort="Landi, Marco" uniqKey="Landi M" first="Marco" last="Landi">Marco Landi</name><name sortKey="Marzano, Cristina" sort="Marzano, Cristina" uniqKey="Marzano C" first="Cristina" last="Marzano">Cristina Marzano</name><name sortKey="Sebastiani, Federico" sort="Sebastiani, Federico" uniqKey="Sebastiani F" first="Federico" last="Sebastiani">Federico Sebastiani</name><name sortKey="Tattini, Massimiliano" sort="Tattini, Massimiliano" uniqKey="Tattini M" first="Massimiliano" last="Tattini">Massimiliano Tattini</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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