Utrecht University > Biology > Bioinformatics > Group members > Lidija


Lidija Berke
Name Lidija Berke
Position Postdoctoral Researcher
Research topics Evolutionary dynamics and functional roles of regulatory systems in eukaryotic cells
Affiliations Bioinformatics group, Utrecht University
Promotors Prof. dr. P. Hogeweg & prof. dr. B. Snel
Address Padualaan 8
3584 CH Utrecht
the Netherlands
Location Room Z532
Phone +31 30 253 3004
Fax +31 30 251 3655
Email L(dot)Berke(at)uu(dot)nl

I have recently moved to the Biosystematics group at Wageningen University.


2010-2015 PhD, Theoretical Biology & Bioinformatics, Utrecht University
2008-2010 MSc Biomedical Sciences, Utrecht University
2004-2008 BSc Biotechnology, University of Ljubljana, Slovenia



Berke L, Snel B: The plant Polycomb repressive complex 1 (PRC1) existed in the ancestor of seed plants and has a complex duplication history. BMC Evol. Biol. 2015, 15:44.
[Pubmed] [Article]

Zeilmaker T, Ludwig NR, Elberse J, Seidl MF, Berke L, Van Doorn A, Schuurink RC, Snel B, Van den Ackerveken G: DOWNY MILDEW RESISTANT 6 and DMR6-LIKE OXYGENASE 1 are partially redundant but distinct suppressors of immunity in Arabidopsis. Plant J. 2015, 81(2):210-222.
[Pubmed] [Article]


Berke L, Snel B: The histone modification H3K27me3 is retained after gene duplication and correlates with conserved non-coding sequences in Arabidopsis. Genome Biol. Evol. 2014, 6(3):572–579.
[Pubmed] [Article]


Zhang H, Zhou H, Berke L, Heck AJ, Mohammed S, Scheres B, Menke FL: Quantitative phosphoproteomics after auxin-stimulated lateral root induction identifies a SNX1 phosphorylation site required for growth. Mol. Cell. Proteomics 2013, 12(5):1158-69.


Berke L, Sanchez-Perez GF, Snel B: Contribution of the epigenetic mark H3K27me3 to functional divergence after whole genome duplication in Arabidopsis. Genome Biol. 2012, 13:r94.
[Pubmed] [Article]

Schluepmann H, Berke L, Sanchez-Perez GF: Metabolism control over growth: a case for trehalose-6-phosphate in plants. J. Exp. Bot. 2012, 63(9):3379–3390.

Mithoe SC, Boersema PJ, Berke L, Snel B, Heck AJR, Menke FLH: Targeted quantitative phosphoproteomics approach for the detection of phospho-tyrosine signaling in plants. J. Proteome Res. 2012, 11(1):438–448.
[Pubmed] [Article]


Hove ten CA, Bochdanovits Z, Jansweijer VMA, Koning FG, Berke L, Sanchez-Perez GF, Scheres B, Heidstra R: Probing the roles of LRR RLK genes in Arabidopsis thaliana roots using a custom T-DNA insertion set. Plant Mol. Biol. 2011, 76(1-2):69–83.
[Pubmed] [Article]

Student projects

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