EVOLTREE

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

As EVOLTREE member you can make the most of our funding initiatives: training expense reimbursement, conference grants and ISS mobility grants.

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eLab Services

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

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Events

Many scientific events take place every year - make the most of a grant to cover your expenses for your participation in such events in 2017!

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Training

EVOLTREE organises different training courses on different topics. Financial support is available for participants from EVOLTREE partner organisations.

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