The ITS1-5.8S-ITS2 Sequence Region in the Musaceae: Structure, Diversity and Use in Molecular Phylogeny
Identifieur interne : 000413 ( Main/Exploration ); précédent : 000412; suivant : 000414The ITS1-5.8S-ITS2 Sequence Region in the Musaceae: Structure, Diversity and Use in Molecular Phylogeny
Auteurs : Eva H Ibová [République tchèque] ; Jana Ková [République tchèque] ; Pavla Christelová [République tchèque] ; Stefan Taudien [Allemagne] ; Edmond De Langhe [Belgique] ; Jaroslav Doležel [République tchèque]Source :
- PLoS ONE [ 1932-6203 ] ; 2011.
Abstract
Genes coding for 45S ribosomal RNA are organized in tandem arrays of up to several thousand copies and contain 18S, 5.8S and 26S rRNA units separated by internal transcribed spacers ITS1 and ITS2. While the rRNA units are evolutionary conserved, ITS show high level of interspecific divergence and have been used frequently in genetic diversity and phylogenetic studies. In this work we report on the structure and diversity of the ITS region in 87 representatives of the family Musaceae. We provide the first detailed information on ITS sequence diversity in the genus
Url:
DOI: 10.1371/journal.pone.0017863
PubMed: 21445344
PubMed Central: 3062550
Affiliations:
- Allemagne, Belgique, République tchèque
- Province du Brabant flamand, Région flamande
- Louvain
- Katholieke Universiteit Leuven
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Le document en format XML
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Kova, Jana" uniqKey=" Kova J" first="Jana" last=" Ková">Jana Ková</name><affiliation wicri:level="1"><nlm:aff id="aff1"><addr-line>Centre of the Region Haná for Biotechnological and Agricultural Research, Institute of Experimental Botany, Olomouc, Czech Republic</addr-line></nlm:aff><country xml:lang="fr">République tchèque</country><wicri:regionArea>Centre of the Region Haná for Biotechnological and Agricultural Research, Institute of Experimental Botany, Olomouc</wicri:regionArea><wicri:noRegion>Olomouc</wicri:noRegion></affiliation></author><author><name sortKey="Christelova, Pavla" sort="Christelova, Pavla" uniqKey="Christelova P" first="Pavla" last="Christelová">Pavla Christelová</name><affiliation wicri:level="1"><nlm:aff id="aff1"><addr-line>Centre of the Region Haná for Biotechnological and Agricultural Research, Institute of Experimental Botany, Olomouc, Czech Republic</addr-line></nlm:aff><country xml:lang="fr">République tchèque</country><wicri:regionArea>Centre of the Region Haná for Biotechnological and Agricultural Research, Institute of Experimental Botany, Olomouc</wicri:regionArea><wicri:noRegion>Olomouc</wicri:noRegion></affiliation></author><author><name sortKey="Taudien, Stefan" sort="Taudien, Stefan" uniqKey="Taudien S" first="Stefan" last="Taudien">Stefan Taudien</name><affiliation wicri:level="1"><nlm:aff id="aff2"><addr-line>Genome Analysis, Leibniz Institute for Age Research, Fritz Lipmann Institute (FLI), Jena, Germany</addr-line></nlm:aff><country xml:lang="fr">Allemagne</country><wicri:regionArea>Genome Analysis, Leibniz Institute for Age Research, Fritz Lipmann Institute (FLI), Jena</wicri:regionArea><wicri:noRegion>Jena</wicri:noRegion><wicri:noRegion>Jena</wicri:noRegion><wicri:noRegion>Jena</wicri:noRegion></affiliation></author><author><name sortKey="De Langhe, Edmond" sort="De Langhe, Edmond" uniqKey="De Langhe E" first="Edmond" last="De Langhe">Edmond De Langhe</name><affiliation wicri:level="4"><nlm:aff id="aff3"><addr-line>Laboratory of Tropical Crop Improvement, Katholieke Universiteit Leuven, Leuven, Belgium</addr-line></nlm:aff><country xml:lang="fr">Belgique</country><wicri:regionArea>Laboratory of Tropical Crop Improvement, Katholieke Universiteit Leuven, Leuven</wicri:regionArea><orgName type="university">Katholieke Universiteit Leuven</orgName><placeName><settlement type="city">Louvain</settlement><region>Région flamande</region><region type="district" nuts="2">Province du Brabant flamand</region></placeName></affiliation></author><author><name sortKey="Dolezel, Jaroslav" sort="Dolezel, Jaroslav" uniqKey="Dolezel J" first="Jaroslav" last="Doležel">Jaroslav Doležel</name><affiliation wicri:level="1"><nlm:aff id="aff1"><addr-line>Centre of the Region Haná for Biotechnological and Agricultural Research, Institute of Experimental Botany, Olomouc, Czech Republic</addr-line></nlm:aff><country xml:lang="fr">République tchèque</country><wicri:regionArea>Centre of the Region Haná for Biotechnological and Agricultural Research, Institute of Experimental Botany, Olomouc</wicri:regionArea><wicri:noRegion>Olomouc</wicri:noRegion></affiliation></author></analytic><series><title level="j">PLoS ONE</title><idno type="eISSN">1932-6203</idno><imprint><date when="2011">2011</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p>Genes coding for 45S ribosomal RNA are organized in tandem arrays of up to several thousand copies and contain 18S, 5.8S and 26S rRNA units separated by internal transcribed spacers ITS1 and ITS2. While the rRNA units are evolutionary conserved, ITS show high level of interspecific divergence and have been used frequently in genetic diversity and phylogenetic studies. In this work we report on the structure and diversity of the ITS region in 87 representatives of the family Musaceae. We provide the first detailed information on ITS sequence diversity in the genus <italic>Musa</italic> and describe the presence of more than one type of ITS sequence within individual species. Both Sanger sequencing of amplified ITS regions and whole genome 454 sequencing lead to similar phylogenetic inferences. We show that it is necessary to identify putative pseudogenic ITS sequences, which may have negative effect on phylogenetic reconstruction at lower taxonomic levels. Phylogenetic reconstruction based on ITS sequence showed that the genus <italic>Musa</italic> is divided into two distinct clades – <italic>Callimusa</italic> and <italic>Australimusa</italic> and <italic>Eumusa</italic> and <italic>Rhodochlamys</italic>. Most of the intraspecific banana hybrids analyzed contain conserved parental ITS sequences, indicating incomplete concerted evolution of rDNA loci. Independent evolution of parental rDNA in hybrids enables determination of genomic constitution of hybrids using ITS. The observation of only one type of ITS sequence in some of the presumed interspecific hybrid clones warrants further study to confirm their hybrid origin and to unravel processes leading to evolution of their genomes.</p></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Gilbert, W" uniqKey="Gilbert W">W Gilbert</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Rogers, So" uniqKey="Rogers S">SO Rogers</name></author><author><name sortKey="Bendich, Aj" uniqKey="Bendich A">AJ Bendich</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Hillis, Dm" uniqKey="Hillis D">DM Hillis</name></author><author><name sortKey="Dixon, Mt" uniqKey="Dixon M">MT Dixon</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Hershkovitz, Ma" uniqKey="Hershkovitz M">MA Hershkovitz</name></author><author><name sortKey="Zimmer, Ea" uniqKey="Zimmer E">EA 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Gascuel</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Akaike, H" uniqKey="Akaike H">H Akaike</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Drummond, Aj" uniqKey="Drummond A">AJ Drummond</name></author><author><name sortKey="Rambaut, A" uniqKey="Rambaut A">A Rambaut</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Wuyts, J" uniqKey="Wuyts J">J Wuyts</name></author><author><name sortKey="De Rijk, P" uniqKey="De Rijk P">P De Rijk</name></author><author><name sortKey="Van De Peer, Y" uniqKey="Van De Peer Y">Y Van de Peer</name></author><author><name sortKey="Winkelmans, T" uniqKey="Winkelmans T">T Winkelmans</name></author><author><name sortKey="De Wachter, R" uniqKey="De Wachter R">R De Wachter</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Perrier, X" uniqKey="Perrier X">X Perrier</name></author><author><name sortKey="Bakry, F" uniqKey="Bakry F">F Bakry</name></author><author><name sortKey="Carreel, F" uniqKey="Carreel F">F Carreel</name></author><author><name sortKey="Jenny, C" uniqKey="Jenny C">C Jenny</name></author><author><name sortKey="Horry, J P" uniqKey="Horry J">J-P Horry</name></author></analytic></biblStruct></listBibl></div1></back></TEI><affiliations><list><country><li>Allemagne</li><li>Belgique</li><li>République tchèque</li></country><region><li>Province du Brabant flamand</li><li>Région flamande</li></region><settlement><li>Louvain</li></settlement><orgName><li>Katholieke Universiteit Leuven</li></orgName></list><tree><country name="République tchèque"><noRegion><name sortKey="H Ibova, Eva" sort="H Ibova, Eva" uniqKey="H Ibova E" first="Eva" last="H Ibová">Eva H Ibová</name></noRegion><name sortKey=" Kova, Jana" sort=" Kova, Jana" uniqKey=" Kova J" first="Jana" last=" Ková">Jana Ková</name><name sortKey="Christelova, Pavla" sort="Christelova, Pavla" uniqKey="Christelova P" first="Pavla" last="Christelová">Pavla Christelová</name><name sortKey="Dolezel, Jaroslav" sort="Dolezel, Jaroslav" uniqKey="Dolezel J" first="Jaroslav" last="Doležel">Jaroslav Doležel</name></country><country name="Allemagne"><noRegion><name sortKey="Taudien, Stefan" sort="Taudien, Stefan" uniqKey="Taudien S" first="Stefan" last="Taudien">Stefan Taudien</name></noRegion></country><country name="Belgique"><region name="Région flamande"><name sortKey="De Langhe, Edmond" sort="De Langhe, Edmond" uniqKey="De Langhe E" first="Edmond" last="De Langhe">Edmond De Langhe</name></region></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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