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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:Catarine Markus|Catarine Markus]]
*[[Pecinka_lab:Ales_Pecinka|Ales Pecinka]]
*[[Pecinka_lab:Kashif Nawaz|Kashif Nawaz]]
*[[Pecinka_lab:Anna_Nowicka|Anna Nowicka]]
*[[Pecinka_lab:Bjoern_Pietzenuk|Björn Pietzenuk]]
*[[Pecinka_lab:Bjoern_Pietzenuk|Björn Pietzenuk]]
*[[Pecinka_lab:Thomas_Piofczyk|Thomas Piofczyk]]
*[[Pecinka_lab:Ugur_Ercan|Ugur Ercan]]
 
<h3><font style="color:#4169E1;">Guest Scientists</font></h3>
*[[Pecinka_lab:Nawratan_Bagwan|Navratan Bagwan]]
*[[Pecinka_lab:Swarit_Jasial|Swarit Jasial]]
*[[Pecinka_lab:Laura_Monforte_Lopez|Laura Monforte Lopez]]


<h3><font style="color:#4169E1;">Technitians</font></h3>
<h3><font style="color:#4169E1;">Technitians</font></h3>
*[[Pecinka_lab:Barbara_Eilts|Barbara Eilts]]
*[[Pecinka_lab:Barbara_Eilts|Barbara Eilts]]
*[[Pecinka_lab:Petra_Pecinkova|Petra Pecinkova]]
*[[Pecinka_lab:Petra_Pecinkova|Petra Pecinkova]]
*[[Pecinka_lab:Valentina_Strizhova|Valentina Strizhova]]




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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>  


*Pecinka A, Abdelsamad Ahmed, Vu GTH. Hidden genetic nature of epigenetic natural variation in plants. Trends in Plant Science in press (2013) [http://www.sciencedirect.com/science/article/pii/S1360138513001453 Full text]  
*Vu G.T.H., Schmutzer T., Bull F., Cao H.X., Fuchs J., Tran T.D., Jovtchev G., Pistrick K., Stein N., Pecinka A., Neumann P., Novak P., Macas J., Deard P.H., Blattner F.R., Scholz U., Schubert I (2015): Comparative Genome Analysis Reveals Divergent Genome Size Evolution in a Carnivorous Plant Genus. Plant Genome doi:10.3835/plantgenome2015.04.0021 [https://dl.sciencesocieties.org/publications/tpg/articles/0/0/plantgenome2015.04.0021 Open access]  
*de Meaux J, Pecinka A. The Arabidopsis genus: An emerging model to elucidate the molecular basis of interspecific differences in transposable element activity. Mobile Genetic Elements 2:142-144 (2012). [[media:deMeaux-MES-2012.pdf| PDF]]
*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 A, Mittelsten Scheid O. Stress-induced chromatin changes: A critical view on their heritability. Plant Cell Physiology doi: 10.1093/pcp/pcs044 (2012). [[media:Pecinka-PCP-2012.pdf| PDF]]
*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]
*Alcázar R, Pecinka A, Aarts MGM, Fransz PF, Koornneef M. Signals of speciation within Arabidopsis thaliana in comparison with its relatives. Curr Opin Plant Biol 15:205-211 (2012). [http://www.sciencedirect.com/science/article/pii/S1369526612000039 abstract]
*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_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>
*2013-10-01: Mariana Diaz starts her PhD in the group
*2016-02-01: Heinrich selected to join Mittelsten Scheid lab at GMI Vienna as new Ph.D. student. Congratulations!
*2013-09-30: Lab field trip to Altenahr [[Pecinka_lab:Labtrip|Lab trip Altenahr]]
*2016-01-01: Happy and successful new year 2016.
*2013-09-24: Andreas successfully defended his PhD at the University of Halle-Wittenberg. Congratulations!
*2015-12-20: Lab visit to the Christmas market
*2013-08-14: The review "Hidden genetic nature of plant epigenetic natural variation" was published in Trends in Plant Science [http://www.sciencedirect.com/science/article/pii/S1360138513001453 Full text]  
*2015-10-29: Björn successfully defended his PhD work at University of Cologne. Well done!
*2015-10-21: Reveal the secrets of minute carnivorous plant genome [https://dl.sciencesocieties.org/publications/tpg/articles/0/0/plantgenome2015.04.0021 Open access]
*2015-09-29: 60 km lab bike trip to Ville forest near Cologne. Well done!
*2015-09-28: Anna Nowicka joined the lab for her DAAD post-doc.
 
 
 
 
 
 
   
   


Revision as of 15:58, 1 February 2016


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

  • Vu G.T.H., Schmutzer T., Bull F., Cao H.X., Fuchs J., Tran T.D., Jovtchev G., Pistrick K., Stein N., Pecinka A., Neumann P., Novak P., Macas J., Deard P.H., Blattner F.R., Scholz U., Schubert I (2015): Comparative Genome Analysis Reveals Divergent Genome Size Evolution in a Carnivorous Plant Genus. Plant Genome doi:10.3835/plantgenome2015.04.0021 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
  • 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.
  • see complete list...

News

  • 2016-02-01: Heinrich selected to join Mittelsten Scheid lab at GMI Vienna as new Ph.D. student. Congratulations!
  • 2016-01-01: Happy and successful new year 2016.
  • 2015-12-20: Lab visit to the Christmas market
  • 2015-10-29: Björn successfully defended his PhD work at University of Cologne. Well done!
  • 2015-10-21: Reveal the secrets of minute carnivorous plant genome Open access
  • 2015-09-29: 60 km lab bike trip to Ville forest near Cologne. Well done!
  • 2015-09-28: Anna Nowicka joined the lab for her DAAD post-doc.






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