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Comparative 454 pyrosequencing of transcripts from two olive genotypes during fruit development.

Alagna F, D'Agostino N, Torchia L, Servili M, Rao R, Pietrella M, Giuliano G, Chiusano ML, Baldoni L, Perrotta G - BMC Genomics (2009)

Bottom Line: Raw sequence data were processed using a four step pipeline procedure and data were stored in a relational database with a web interface.Massively parallel sequencing of different fruit cDNA collections has provided large scale information about the structure and putative function of gene transcripts accumulated during fruit development.Comparative transcript profiling allowed the identification of differentially expressed genes with potential relevance in regulating the fruit metabolism and phenolic content during ripening.

View Article: PubMed Central - HTML - PubMed

Affiliation: CNR-Institute of Plant Genetics, Via Madonna Alta 130, 06128 Perugia, Italy.

ABSTRACT

Background: Despite its primary economic importance, genomic information on olive tree is still lacking. 454 pyrosequencing was used to enrich the very few sequence data currently available for the Olea europaea species and to identify genes involved in expression of fruit quality traits.

Results: Fruits of Coratina, a widely cultivated variety characterized by a very high phenolic content, and Tendellone, an oleuropein-lacking natural variant, were used as starting material for monitoring the transcriptome. Four different cDNA libraries were sequenced, respectively at the beginning and at the end of drupe development. A total of 261,485 reads were obtained, for an output of about 58 Mb. Raw sequence data were processed using a four step pipeline procedure and data were stored in a relational database with a web interface.

Conclusion: Massively parallel sequencing of different fruit cDNA collections has provided large scale information about the structure and putative function of gene transcripts accumulated during fruit development. Comparative transcript profiling allowed the identification of differentially expressed genes with potential relevance in regulating the fruit metabolism and phenolic content during ripening.

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Partial representation of the metabolic pathways for phenyl-propanoid and flavonoid biosynthesis (Kegg maps 009490 and 00941, respectively). Color codes for boxes are the same as in Figure 7.
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Figure 9: Partial representation of the metabolic pathways for phenyl-propanoid and flavonoid biosynthesis (Kegg maps 009490 and 00941, respectively). Color codes for boxes are the same as in Figure 7.

Mentions: Finally, transcripts involved in flavonoid biosynthesis were also regulated between developmental stages and genotypes (Figure 9).


Comparative 454 pyrosequencing of transcripts from two olive genotypes during fruit development.

Alagna F, D'Agostino N, Torchia L, Servili M, Rao R, Pietrella M, Giuliano G, Chiusano ML, Baldoni L, Perrotta G - BMC Genomics (2009)

Partial representation of the metabolic pathways for phenyl-propanoid and flavonoid biosynthesis (Kegg maps 009490 and 00941, respectively). Color codes for boxes are the same as in Figure 7.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC2748093&req=5

Figure 9: Partial representation of the metabolic pathways for phenyl-propanoid and flavonoid biosynthesis (Kegg maps 009490 and 00941, respectively). Color codes for boxes are the same as in Figure 7.
Mentions: Finally, transcripts involved in flavonoid biosynthesis were also regulated between developmental stages and genotypes (Figure 9).

Bottom Line: Raw sequence data were processed using a four step pipeline procedure and data were stored in a relational database with a web interface.Massively parallel sequencing of different fruit cDNA collections has provided large scale information about the structure and putative function of gene transcripts accumulated during fruit development.Comparative transcript profiling allowed the identification of differentially expressed genes with potential relevance in regulating the fruit metabolism and phenolic content during ripening.

View Article: PubMed Central - HTML - PubMed

Affiliation: CNR-Institute of Plant Genetics, Via Madonna Alta 130, 06128 Perugia, Italy.

ABSTRACT

Background: Despite its primary economic importance, genomic information on olive tree is still lacking. 454 pyrosequencing was used to enrich the very few sequence data currently available for the Olea europaea species and to identify genes involved in expression of fruit quality traits.

Results: Fruits of Coratina, a widely cultivated variety characterized by a very high phenolic content, and Tendellone, an oleuropein-lacking natural variant, were used as starting material for monitoring the transcriptome. Four different cDNA libraries were sequenced, respectively at the beginning and at the end of drupe development. A total of 261,485 reads were obtained, for an output of about 58 Mb. Raw sequence data were processed using a four step pipeline procedure and data were stored in a relational database with a web interface.

Conclusion: Massively parallel sequencing of different fruit cDNA collections has provided large scale information about the structure and putative function of gene transcripts accumulated during fruit development. Comparative transcript profiling allowed the identification of differentially expressed genes with potential relevance in regulating the fruit metabolism and phenolic content during ripening.

Show MeSH