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A unigene set for European beech ( Fagus sylvatica L.) and its use to decipher the molecular mechanisms involved in dormancy regulation
Author(s) -
Lesur Isabelle,
Bechade Alison,
Lalanne Céline,
Klopp Christophe,
Noirot Céline,
Leplé JeanCharles,
Kremer Antoine,
Plomion Christophe,
Le Provost Grégoire
Publication year - 2015
Publication title -
molecular ecology resources
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 2.96
H-Index - 136
eISSN - 1755-0998
pISSN - 1755-098X
DOI - 10.1111/1755-0998.12373
Subject(s) - beech , biology , fagus sylvatica , unigene , evolutionary biology , computational biology , genetics , gene , ecology , genome , expressed sequence tag
Systematic sequencing is the method of choice for generating genomic resources for molecular marker development and candidate gene identification in nonmodel species. We generated 47 357 Sanger EST s and 2.2M Roche‐454 reads from five cDNA libraries for European beech ( Fagus sylvatica L.). This tree species of high ecological and economic value in Europe is among the most representative trees of deciduous broadleaf forests. The sequences generated were assembled into 21 057 contigs with MIRA software. Functional annotations were obtained for 85% of these contigs, from the proteomes of four plant species, Swissprot accessions and the Gene Ontology database. We were able to identify 28 079 in silico SNP s for future marker development. Moreover, RNA seq and qPCR approaches identified genes and gene networks regulated differentially between two critical phenological stages preceding vegetative bud burst (the quiescent and swelling buds stages). According to climatic model‐based projection, some European beech populations may be endangered, particularly at the southern and eastern edges of the European distribution range, which are strongly affected by current climate change. This first genomic resource for the genus Fagus should facilitate the identification of key genes for beech adaptation and management strategies for preserving beech adaptability.