TY - JOUR
T1 - De novo assembly of maritime pine transcriptome
T2 - Implications for forest breeding and biotechnology
AU - Canales, Javier
AU - Bautista, Rocio
AU - Label, Philippe
AU - Gómez-Maldonado, Josefa
AU - Lesur, Isabelle
AU - Fernández-Pozo, Noe
AU - Rueda-López, Marina
AU - Guerrero-Fernández, Dario
AU - Castro-Rodríguez, Vanessa
AU - Benzekri, Hicham
AU - Cañas, Rafael A.
AU - Guevara, María Angeles
AU - Rodrigues, Andreia
AU - Seoane, Pedro
AU - Teyssier, Caroline
AU - Morel, Alexandre
AU - Ehrenmann, François
AU - Le Provost, Grégoire
AU - Lalanne, Céline
AU - Noirot, Céline
AU - Klopp, Christophe
AU - Reymond, Isabelle
AU - García-Gutiérrez, Angel
AU - Trontin, Jean François
AU - Lelu-Walter, Marie Anne
AU - Miguel, Celia
AU - Cervera, María Teresa
AU - Cantón, Francisco R.
AU - Plomion, Christophe
AU - Harvengt, Luc
AU - Avila, Concepción
AU - Gonzalo Claros, M.
AU - Cánovas, Francisco M.
N1 - WOS:000333027500002
PY - 2014
Y1 - 2014
N2 - Maritime pine (Pinus pinasterAit.) is a widely distributed conifer species in Southwestern Europe and one of the most advanced models for conifer research. In the current work, comprehensive characterization of the maritime pine transcriptome was performed using a combination of two different next-generation sequencing platforms, 454 and Illumina. De novo assembly of the transcriptome provided a catalogue of 26 020 unique transcripts in maritime pine trees and a collection of 9641 full-length cDNAs. Quality of the transcriptome assembly was validated by RT-PCR amplification of selected transcripts for structural and regulatory genes. Transcription factors and enzyme-encoding transcripts were annotated. Furthermore, the available sequencing data permitted the identification of polymorphisms and the establishment of robust single nucleotide polymorphism (SNP) and simple-sequence repeat (SSR) databases for genotyping applications and integration of translational genomics in maritime pine breeding programmes. All our data are freely available at SustainpineDB, the P. pinaster expressional database. Results reported here on the maritime pine transcriptome represent a valuable resource for future basic and applied studies on this ecological and economically important pine species.
AB - Maritime pine (Pinus pinasterAit.) is a widely distributed conifer species in Southwestern Europe and one of the most advanced models for conifer research. In the current work, comprehensive characterization of the maritime pine transcriptome was performed using a combination of two different next-generation sequencing platforms, 454 and Illumina. De novo assembly of the transcriptome provided a catalogue of 26 020 unique transcripts in maritime pine trees and a collection of 9641 full-length cDNAs. Quality of the transcriptome assembly was validated by RT-PCR amplification of selected transcripts for structural and regulatory genes. Transcription factors and enzyme-encoding transcripts were annotated. Furthermore, the available sequencing data permitted the identification of polymorphisms and the establishment of robust single nucleotide polymorphism (SNP) and simple-sequence repeat (SSR) databases for genotyping applications and integration of translational genomics in maritime pine breeding programmes. All our data are freely available at SustainpineDB, the P. pinaster expressional database. Results reported here on the maritime pine transcriptome represent a valuable resource for future basic and applied studies on this ecological and economically important pine species.
KW - Conifers
KW - Full-length cDNA
KW - Next-generation sequencing
KW - Single nucleotide polymorphism
KW - Transcription factors
KW - Transcriptome sequencing
UR - http://www.scopus.com/inward/record.url?scp=84896394485&partnerID=8YFLogxK
U2 - 10.1111/pbi.12136
DO - 10.1111/pbi.12136
M3 - Article
C2 - 24256179
AN - SCOPUS:84896394485
VL - 12
SP - 286
EP - 299
JO - Plant Biotechnology Journal
JF - Plant Biotechnology Journal
SN - 1467-7644
IS - 3
ER -