EVOLution of TREEs as drivers
of terrestrial biodiversity

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Next-generation sequencing for beginners: applications to population genetics, forest health and tree breeding
From Monday 17 June 2013
To Wednesday 19 June 2013
Contact This email address is being protected from spambots. You need JavaScript enabled to view it.

This summer school course was intended to give a brief introduction to new sequencing technologies (the so-called Next-Generation Sequencing or NGS) and their applications in forest research.

The first part of the course provided a general overview on the steps followed by a typical NGS project, covering the following topics:

  • FASTQ format and sequence quality (Phred score and fastqc software)
  • A simple pipeline: BWA + Samtools
  • Visualization: IGV
  • Identifying SNPs: Samtools
  • Annotating SNPs: ensembl vep.pl
  • Identifying structural variants
  • RNAseq: tophat + cufflinks
  • De novo assembly: SGA

The second part of the course focussed on applications of NGS to taxonomy, population genetics and breeding, including talks on adaptation to environmental changes, genomic selection and analysis of environmental samples. A hands-on workshop on genome-wide genetic association (GWAS) took place in the afternoon of the second day.

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Location Valladolid, Spain

Funding Initiatives

Funding is available for EVOLTREE members: training expense reimbursement, conference grants and project grants


eLab Services

The eLab provides a search interface which can browse over all databases currently available within the EVOLTREE project.



Scientific events of interest to the EVOLTREE community are listed here. Conference grants are available to cover expenses



EVOLTREE is a growing resource, archived Articles can be found here.

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