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Our goal is to understand molecular and evolutionary mechanisms shaping plant genomes and epigenomes. We analyze how DNA sequence variation is generated by various mutagenic factors and how these forces are counteracted by the genome repair and maintenance mechanisms. To this end we use 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. 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.
[[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:Ahmed_Abdelsamad|Ahmed Abdelsamad]]
*[[Pecinka_lab:Heinrich Bente|Heinrich Bente]]
*[[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:Chun Hsin Liu|Chun Hsin Liu (Phoebe)]]
*[[Pecinka_lab:Ales_Pecinka|Ales Pecinka]]
*[[Pecinka_lab:Catarine Markus|Catarine Markus]]
*[[Pecinka_lab:Kashif Nawaz|Kashif Nawaz]]
*[[Pecinka_lab:Bjoern_Pietzenuk|Björn Pietzenuk]]
*[[Pecinka_lab:Bjoern_Pietzenuk|Björn Pietzenuk]]
*[[Pecinka_lab:Thomas_Piofczyk|Thomas Piofczyk]]
*[[Pecinka_lab:|Fugang Ren]]


<h3><font style="color:#4169E1;">Technitians</font></h3>
<h3><font style="color:#4169E1;">Technitians</font></h3>
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[http://www4.clustrmaps.com/user/efef92c9 http://www4.clustrmaps.com/stats/maps-no_clusters/openwetware.org-wiki-Pecinka_Lab-thumb.jpg]
 


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


*Piofczyk T, Jeena G, Pecinka A. 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]
*Cao H.X., Schmutzer T, Scholz U, Pecinka A, Schubert I, Vu G.T.H. (2015): Metatranscriptome analysis reveals host-microbiome interactions in traps of carnivorous Genlisea species. Frontiers in Microbiology doi: 10.3389/fmicb.2015.00526 [http://journal.frontiersin.org/article/10.3389/fmicb.2015.00526/abstract Open access]
*Abdelsamad A, Pecinka A. Pollen-Specific Activation of Arabidopsis Retrogenes Is Associated with Global Transcriptional Reprogramming. Plant Cell DOI: http:/​/​dx.​doi.​org/​10.​1105/​tpc.​114.​126011 (2014). [http://www.plantcell.org/content/early/2014/08/12/tpc.114.126011.full.pdf+html Open access PDF]  
*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 Open access].
*Pecinka A, Liu C.-H. Drugs for Plant Chromosome and Chromatin Research. Cytogenetic Genome Research DOI: 10.1159/000360774 (2014). [http://www.karger.com/Article/FullText/360774 Full text]
*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]
*Baubec T, Finke A, Mittelsten Scheid O, Pecinka A. Meristem-specific expression of epigenetic regulators safeguards transposon silencing in Arabidopsis. EMBO Reports doi: 10.1002/embr.201337915 (2014). [http://embor.embopress.org/content/early/2014/02/20/embr.201337915 Full text]
*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]
 
 




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<h3><font style="color:red">News</font></h3>
<h3><font style="color:red">News</font></h3>
*2015-02-05: Arabidopsis natural variation in response to UV stress reveals connections to pathogen-like responses. Read more in the recently released Plant Physiology and Biochemistry paper [http://www.sciencedirect.com/science/article/pii/S0981942815000212 Full text]
*2015-07-16: There is plenty of microbial life inside carnivorous plant traps [http://journal.frontiersin.org/article/10.3389/fmicb.2015.00526/abstract ...]
*2014-10-20: Thomas successfully defended his PhD. Congratulations!
*2015-07-01: Kashif starts his PhD on stress induced chromatin changes.
*2014-09-22: Lab field trip to Eltz castle.
*2015-06: Thomas leaving the lab, Henrich starting his masters and Catarine joining the group for one year of her PhD.  
*2014-08-12: RNA duplicated genes (retrogenes) are more frequent than expected in Arabidopsis and show transcriptional profile similar to animal retrogenes. Find more in our recent Plant Cell publication [http://www.plantcell.org/content/early/2014/08/12/tpc.114.126011.full.pdf+html Open access PDF]
*2015-06: Ahmed and Phoebe defended their PhD work at University of Göttingen and Cologne, respectively. Congratulations!
*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]
 




Revision as of 08:28, 16 July 2015


Home      Research      People      Publications      Protocols      Resources      Seminars      Positions      Lab life     


Research

The Pecinka lab is hosted by the Department of Plant Breeding and Genetics at 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. 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. read more...

Lab Members

Technitians


see complete list...



Recent Publications

  • Cao H.X., Schmutzer T, Scholz U, Pecinka A, Schubert I, Vu G.T.H. (2015): Metatranscriptome analysis reveals host-microbiome interactions in traps of carnivorous Genlisea species. Frontiers in Microbiology doi: 10.3389/fmicb.2015.00526 Open access
  • 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 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 Full text
  • Willing, Rawat et al. (2015): Genome expansion of Arabis alpina linked with retrotransposition and reduced symmetric DNA methylation. Nature Plants 1:1-7 Full text

News

  • 2015-07-16: There is plenty of microbial life inside carnivorous plant traps ...
  • 2015-07-01: Kashif starts his PhD on stress induced chromatin changes.
  • 2015-06: Thomas leaving the lab, Henrich starting his masters and Catarine joining the group for one year of her PhD.
  • 2015-06: Ahmed and Phoebe defended their PhD work at University of Göttingen and Cologne, respectively. Congratulations!
  • 2015-06: Not only DNA demethylation - cytidine analog zebularine triggers DNA damage response in Arabidopsis. Read more in our recent Plant Cell paper PDF





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