De novoassembly of maritime pine transcriptome: implications for forest breeding and biotechnology

Assembling the 20 Gb white spruce (Picea glauca) genome from whole-genome shotgun sequencing data

(2013) Inanc Birol et al.   BIOINFORMATICS

High-density linkage mapping in a pine tree reveals a genomic region associated with inbreeding depression and provides clues to the extent and distribution of meiotic recombination

(2013) Emilie Chancerel et al.   BMC BIOLOGY

The Norway spruce genome sequence and conifer genome evolution

(2013) Björn Nystedt et al.   NATURE

The family of Dof transcription factors in pine

(2013) Marina Rueda-López et al.   TREES-STRUCTURE AND FUNCTION

Sequencing of the needle transcriptome from Norway spruce (Picea abies Karst L.) reveals lower substitution rates, but similar selective constraints in gymnosperms and angiosperms

(2012) Jun Chen et al.   BMC GENOMICS

A catalogue of putative unique transcripts from Douglas-fir (Pseudotsuga menziesii) based on 454 transcriptome sequencing of genetically diverse, drought stressed seedlings

(2012) Thomas Müller et al.   BMC GENOMICS

Reprogramming of gene expression during compression wood formation in pine: Coordinated modulation of S-adenosylmethionine, lignin and lignan related genes

(2012) David P Villalobos et al.   BMC PLANT BIOLOGY

Accuracy of Genomic Selection Methods in a Standard Data Set of Loblolly Pine (Pinus taeda L.)

(2012) M. F. R. Resende et al.   GENETICS

Ecological and genetic factors linked to contrasting genome dynamics in seed plants

(2012) A. R. Leitch et al.   NEW PHYTOLOGIST

Large-scale transcriptome characterization and mass discovery of SNPs in globe artichoke and its related taxa

(2012) Davide Scaglione et al.   PLANT BIOTECHNOLOGY JOURNAL

Towards decoding the conifer giga-genome

(2012) John Mackay et al.   PLANT MOLECULAR BIOLOGY

Genomics of a phylum distant from flowering plants: conifers

(2012) Kermit Ritland   Tree Genetics & Genomes

Conifer DBMagic: a database housing multiple de novo transcriptome assemblies for 12 diverse conifer species

(2012) W. Walter Lorenz et al.   Tree Genetics & Genomes

Novel Insights into Regulation of Asparagine Synthetase in Conifers

(2012) Javier Canales et al.   Frontiers in Plant Science

Comparative studies of de novo assembly tools for next-generation sequencing technologies

(2011) Yong Lin et al.   BIOINFORMATICS

EuroPineDB: a high-coverage web database for maritime pine transcriptome

(2011) Noé Fernández-Pozo et al.   BMC GENOMICS

Development and implementation of a highly-multiplexed SNP array for genetic mapping in maritime pine and comparative mapping with loblolly pine

(2011) Emilie Chancerel et al.   BMC GENOMICS

Profiling the venom gland transcriptomes of Costa Rican snakes by 454 pyrosequencing

(2011) Jordi Durban et al.   BMC GENOMICS

Gene family structure, expression and functional analysis of HD-Zip III genes in angiosperm and gymnosperm forest trees

(2011) Caroline L Côté et al.   BMC PLANT BIOLOGY

Forest tree genomics: growing resources and applications

(2011) David B. Neale et al.   NATURE REVIEWS GENETICS

A White Spruce Gene Catalog for Conifer Genome Analyses

(2011) Philippe Rigault et al.   PLANT PHYSIOLOGY

Association mapping for growth, straightness and wood chemistry traits in the Pinus pinaster Aquitaine breeding population

(2011) Camille Lepoittevin et al.   Tree Genetics & Genomes

Accelerating the domestication of forest trees in a changing world

(2011) Antoine Harfouche et al.   TRENDS IN PLANT SCIENCE

SeqTrim: a high-throughput pipeline for preprocessing any type of sequence reads

(2010) Juan Falgueras et al.   BMC BIOINFORMATICS

Heart transcriptome of the bank vole (Myodes glareolus): towards understanding the evolutionary variation in metabolic rate

(2010) Wiesław Babik et al.   BMC GENOMICS

Transcriptome sequencing in an ecologically important tree species: assembly, annotation, and marker discovery

(2010) Thomas L Parchman et al.   BMC GENOMICS

Subgroup 4 R2R3-MYBs in conifer trees: gene family expansion and contribution to the isoprenoid- and flavonoid-oriented responses

(2010) Frank Bedon et al.   JOURNAL OF EXPERIMENTAL BOTANY

A coding-independent function of gene and pseudogene mRNAs regulates tumour biology

(2010) Laura Poliseno et al.   NATURE

In Vitro vs In Silico Detected SNPs for the Development of a Genotyping Array: What Can We Learn from a Non-Model Species?

(2010) Camille Lepoittevin et al.   PLoS One

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

Comparative genome analysis of lignin biosynthesis gene families across the plant kingdom

(2009) Zhanyou Xu et al.   BMC BIOINFORMATICS

Generation and analysis of expressed sequence tags from six developing xylem libraries in Pinus radiata D. Don

(2009) Xinguo Li et al.   BMC GENOMICS

De novo assembly of human genomes with massively parallel short read sequencing

(2009) R. Li et al.   GENOME RESEARCH

PlnTFDB: updated content and new features of the plant transcription factor database

(2009) Paulino Pérez-Rodríguez et al.   NUCLEIC ACIDS RESEARCH

Evolution of Genome Size and Complexity in Pinus

(2009) Alison M. Morse et al.   PLoS One

Intra-specific variability in biomass partitioning and carbon isotopic discrimination under moderate drought stress in seedlings from four Pinus pinaster populations

(2009) Ismael Aranda et al.   Tree Genetics & Genomes

Characterization of expressed sequence tags from a full-length enriched cDNA library of Cryptomeria japonica male strobili

(2008) Norihiro Futamura et al.   BMC GENOMICS

A conifer genomics resource of 200,000 spruce (Picea spp.) ESTs and 6,464 high-quality, sequence-finished full-length cDNAs for Sitka spruce (Picea sitchensis)

(2008) Steven G Ralph et al.   BMC GENOMICS