De novo assembly and functional annotation of the olive (Olea europaea) transcriptome

Olive breeding programmes are focused on selecting for traits as short juvenile period, plant architecture suited for mechanical harvest, or oil characteristics, including fatty acid composition, phenolic, and volatile compounds to suit new markets. Understanding the molecular basis of these charact...

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Bibliographic Details
Published in:DNA research 2013-02, Vol.20 (1), p.93-108
Main Authors: Muñoz-Mérida, Antonio, González-Plaza, Juan José, Cañada, Andrés, Blanco, Ana María, García-López, Maria del Carmen, Rodríguez, José Manuel, Pedrola, Laia, Sicardo, M Dolores, Hernández, M Luisa, De la Rosa, Raúl, Belaj, Angjelina, Gil-Borja, Mayte, Luque, Francisco, Martínez-Rivas, José Manuel, Pisano, David G, Trelles, Oswaldo, Valpuesta, Victoriano, Beuzón, Carmen R
Format: Article
Language:English
Subjects:
Breeding
Buds
Databases, Genetic
Developmental stages
Economics
Expressed Sequence Tags
Fatty acid composition
Fruit - chemistry
Fruits
Gene expression
Gene Library
Genetic crosses
Genome, Plant
genomics
Leaves
Molecular Sequence Annotation
Olea
Olea - genetics
Olea europaea
Olive Oil
Plant breeding
Plant Oils - chemistry
Roots
Seedlings
Seeds
Seeds - genetics
Sequence Analysis, DNA
Stems
Transcriptome
Volatiles
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Summary:Olive breeding programmes are focused on selecting for traits as short juvenile period, plant architecture suited for mechanical harvest, or oil characteristics, including fatty acid composition, phenolic, and volatile compounds to suit new markets. Understanding the molecular basis of these characteristics and improving the efficiency of such breeding programmes require the development of genomic information and tools. However, despite its economic relevance, genomic information on olive or closely related species is still scarce. We have applied Sanger and 454 pyrosequencing technologies to generate close to 2 million reads from 12 cDNA libraries obtained from the Picual, Arbequina, and Lechin de Sevilla cultivars and seedlings from a segregating progeny of a Picual × Arbequina cross. The libraries include fruit mesocarp and seeds at three relevant developmental stages, young stems and leaves, active juvenile and adult buds as well as dormant buds, and juvenile and adult roots. The reads were assembled by library or tissue and then assembled together into 81 020 unigenes with an average size of 496 bases. Here, we report their assembly and their functional annotation.
ISSN:1340-2838
1756-1663
DOI:10.1093/dnares/dss036