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<h3><font style="color:#31B404;">Research</font></h3>
<h3><font style="color:#31B404;">Research</font></h3>


The Pecinka lab is hosted by the [http://www.mpipz.mpg.de/10574/koornneef-dpt Department of Plant Breeding and Genetics] at the [http://www.mpipz.mpg.de/2169/en Max Planck Institute for Plant Breeding Research] in Cologne, Germany.
The Pecinka lab is hosted by the [http://www.mpipz.mpg.de/2169/en Max Planck Institute for Plant Breeding Research] in Cologne, Germany.




Our goal is to understand molecular and evolutionary mechanisms shaping plant genomes and epigenomes. We analyze how DNA sequence and chromatin changes are generated by endo- and exogenous factors and how these forces are balanced by the genome repair and epigenetic mechanisms. To this end we use mainly the model plant ''Arabidopsis thaliana'' and several other ''Brassicaceae'' and analyze them by forward and reverse genetics, molecular, biochemical, cytogenetic and bioinformatic methods.
Our goal is to understand molecular and evolutionary mechanisms shaping plant genomes and epigenomes. We analyze how DNA sequence and chromatin changes are generated by endo- and exogenous factors and how these forces are balanced by the genome repair and epigenetic mechanisms. For our research we use ''Arabidopsis thaliana'', several other ''Brassicaceae'', selected crops and analyze them by forward and reverse genetics, molecular, biochemical, cytogenetic and bioinformatic methods.
[[Pecinka_lab:Research | read more...]]
[[Pecinka_lab:Research | read more...]]
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<h3><font style="color:#4169E1;">Lab Members</font></h3>
<h3><font style="color:#4169E1;">Lab Members</font></h3>
*[[Pecinka_lab:Ales_Pecinka|Ales Pecinka]]


*[[Pecinka_lab:Mariana_Diaz|Mariana Andrea Diaz Smoje]]
*[[Pecinka_lab:Mariana_Diaz|Mariana Andrea Diaz Smoje]]
*[[Pecinka_lab:Andreas_Finke|Andreas Finke]]
*[[Pecinka_lab:Andreas_Finke|Andreas Finke]]
*[[Pecinka_lab:Chun Hsin Liu|Chun Hsin Liu (Phoebe)]]
*[[Pecinka_lab:Karin_Kruska|Karin Kruska]]
*[[Pecinka_lab:Ales_Pecinka|Ales Pecinka]]
*[[Pecinka_lab:Kashif Nawaz|Kashif Nawaz]]
*[[Pecinka_lab:Bjoern_Pietzenuk|Björn Pietzenuk]]
*[[Pecinka_lab:Pranav_Sahu|Pranav Sahu]]
*[[Pecinka_lab:Thomas_Piofczyk|Thomas Piofczyk]]
*[[Pecinka_lab:Fen_Yang|Fen Yang]]


<h3><font style="color:#4169E1;">Technitians</font></h3>
<h3><font style="color:#4169E1;">Technitians</font></h3>
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<h3><font style="color:#FF8C00;">Recent Publications</font></h3>  
<h3><font style="color:#FF8C00;">Recent Publications</font></h3>  


*Liu C-H, Finke A, Diaz M, Rozhon W, Poppenberger B, Baubec T, Pecinka A. (2015): Repair of DNA Damage Induced by the Cytidine Analog Zebularine Requires ATR and ATM in Arabidopsis. Plant Cell doi/10.1105/tpc.114.135467 [http://www.plantcell.org/content/early/2015/05/28/tpc.114.135467.full.pdf+html PDF].
*Willing E.M., Piofczyk T., Albert A., Winkler J.B., Schneeberger K., Pecinka A. (2016): UVR2 ensures transgenerational genome stability under simulated natural UV-B in ''Arabidopsis thaliana''. Nature Communications 7:13522. doi: 10.1038/ncomms13522. [http://www.nature.com/articles/ncomms13522 Open access]
*Baranauskė S, Mickutė M, Plotnikova A, Finke A, Venclovas Č, Klimašauskas S, Vilkaitis G. (2015): Functional mapping of the plant small RNA methyltransferase: HEN1 physically interacts with HYL1 and DICER-LIKE 1 proteins. Nucleic Acids Research 43:2802-2812 [http://nar.oxfordjournals.org/content/43/5/2802.long Full text]
*Pietzenuk B., Markus C., Gaubert H., Bagwan N., Merotto A., Bucher E., Pecinka A. (2016): Recurrent evolution of heat-responsiveness in Brassicaceae COPIA elements. Genome Biology 17:209 DOI: 10.1186/s13059-016-1072-3 [https://genomebiology.biomedcentral.com/articles/10.1186/s13059-016-1072-3 Open access]
*Willing, Rawat et al. (2015): Genome expansion of Arabis alpina linked with retrotransposition and reduced symmetric DNA methylation. Nature Plants 1:1-7 [http://www.nature.com/articles/nplants201423 Full text]
*Baroux C., Pecinka A., Fuchs J., Kreth G., Schubert I., Grossniklaus I. (2016): Non-random chromosome arrangement in triploid endosperm nuclei. Chromosoma doi:10.1007/s00412-016-0578-5 [http://link.springer.com/article/10.1007/s00412-016-0578-5 Open access]
*Piofczyk T, Jeena G, Pecinka A. (2015): Arabidopsis thaliana natural variation reveals connections between UV radiation stress and plant pathogen-like defense responses. Plant Physiology Biochemistry DOI: 10.1016/j.plaphy.2015.01.011 (2015) [http://www.sciencedirect.com/science/article/pii/S0981942815000212 Full text]
*Rawat V., Abdelsamad A., Pietzenuk B., Seymour D.K., Koenig D., Weigel D., Pecinka A., Schneeberger K. (2015): Improving the Annotation of Arabidopsis lyrata Using RNA-Seq Data. PLoS One 10(9):e0137391. [http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0137391 Open access]
 
 
 


*[[Pecinka_lab:Publications|see complete list...]]
*[[Pecinka_lab:Publications|see complete list...]]
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<h3><font style="color:red">News</font></h3>
<h3><font style="color:red">News</font></h3>
*2015-06-15: Ahmed successfully defended his PhD work at University of Göttingen. Congratulations!
*2017-06-01: Pranav Sahu joins the lab as Marie Curie fellow and will analyze effects of the changing climate on plant performance
*2015-06: Not only DNA demethylation - cytidine analog zebularine triggers DNA damage response in Arabidopsis. Read more in our recent Plant Cell paper [http://www.plantcell.org/content/early/2015/05/28/tpc.114.135467.full.pdf+html PDF]
*2017-05-19: Lab visit to the Centre of Plant Structural and Functional Genomics of the Institute of Experimental Botany in Olomouc, Czech Republic - from 1st September 2017 our new home institute!
*2015-05: Andreas co-authored on the paper showing physical interaction between specific miRNA components. Congratulations! [http://nar.oxfordjournals.org/content/43/5/2802 Full text]
*2016-12-01: Fast mutation accumulation under natural UV-B without pyrimidine dimer repair. See more in our new paper [http://www.nature.com/articles/ncomms13522 Open access]  
*2015-02-10: "Arabis alpina" genome reveals peculiar pattern of DNA methylation. See more in the current Nature Plants paper by Schneeberger lab [http://www.nature.com/articles/nplants201423 Full text]
*2016-10-11: Transposons and heat stress. Read about evolution of heat responsiveness in ''ONSEN'' and other TEs groups in our latest paper [https://genomebiology.biomedcentral.com/articles/10.1186/s13059-016-1072-3 Open access]
*2015-02-05: Arabidopsis natural variation in response to UV stress reveals connections to pathogen-like responses. Read more in our Plant Physiology and Biochemistry paper [http://www.sciencedirect.com/science/article/pii/S0981942815000212 Full text]
 
 




Revision as of 14:21, 5 June 2017


Home      Research      People      Publications      Protocols      Resources      Seminars      Positions      Lab life     


Research

The Pecinka lab is hosted by the Max Planck Institute for Plant Breeding Research in Cologne, Germany.


Our goal is to understand molecular and evolutionary mechanisms shaping plant genomes and epigenomes. We analyze how DNA sequence and chromatin changes are generated by endo- and exogenous factors and how these forces are balanced by the genome repair and epigenetic mechanisms. For our research we use Arabidopsis thaliana, several other Brassicaceae, selected crops and analyze them by forward and reverse genetics, molecular, biochemical, cytogenetic and bioinformatic methods. read more...

Lab Members

Technitians


see complete list...



Recent Publications

  • Willing E.M., Piofczyk T., Albert A., Winkler J.B., Schneeberger K., Pecinka A. (2016): UVR2 ensures transgenerational genome stability under simulated natural UV-B in Arabidopsis thaliana. Nature Communications 7:13522. doi: 10.1038/ncomms13522. Open access
  • Pietzenuk B., Markus C., Gaubert H., Bagwan N., Merotto A., Bucher E., Pecinka A. (2016): Recurrent evolution of heat-responsiveness in Brassicaceae COPIA elements. Genome Biology 17:209 DOI: 10.1186/s13059-016-1072-3 Open access
  • Baroux C., Pecinka A., Fuchs J., Kreth G., Schubert I., Grossniklaus I. (2016): Non-random chromosome arrangement in triploid endosperm nuclei. Chromosoma doi:10.1007/s00412-016-0578-5 Open access
  • Rawat V., Abdelsamad A., Pietzenuk B., Seymour D.K., Koenig D., Weigel D., Pecinka A., Schneeberger K. (2015): Improving the Annotation of Arabidopsis lyrata Using RNA-Seq Data. PLoS One 10(9):e0137391. Open access

News

  • 2017-06-01: Pranav Sahu joins the lab as Marie Curie fellow and will analyze effects of the changing climate on plant performance
  • 2017-05-19: Lab visit to the Centre of Plant Structural and Functional Genomics of the Institute of Experimental Botany in Olomouc, Czech Republic - from 1st September 2017 our new home institute!
  • 2016-12-01: Fast mutation accumulation under natural UV-B without pyrimidine dimer repair. See more in our new paper Open access
  • 2016-10-11: Transposons and heat stress. Read about evolution of heat responsiveness in ONSEN and other TEs groups in our latest paper Open access






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