Pecinka lab

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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.
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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>
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*[[Pecinka_lab:Ales_Pecinka|Ales Pecinka]]
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*[[Pecinka_lab:Ahmed_Abdelsamad|Ahmed Abdelsamad]]
 
*[[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]]
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*[[Pecinka_lab:Chun Hsin Liu|Chun Hsin Liu (Phoebe)]]
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*[[Pecinka_lab:Catarine Markus|Catarine Markus]]
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*[[Pecinka_lab:Ales_Pecinka|Ales Pecinka]]
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*[[Pecinka_lab:Kashif Nawaz|Kashif Nawaz]]
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*[[Pecinka_lab:Anna_Nowicka|Anna Nowicka]]
*[[Pecinka_lab:Bjoern_Pietzenuk|Björn Pietzenuk]]
*[[Pecinka_lab:Bjoern_Pietzenuk|Björn Pietzenuk]]
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*[[Pecinka_lab:Thomas_Piofczyk|Thomas Piofczyk]]
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*[[Pecinka_lab:Ugur_Ercan|Ugur Ercan]]
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*[[Pecinka_lab:Priscilla_Yuliani|Priscilla_Yuliani_Gandha]]
<h3><font style="color:#4169E1;">Technitians</font></h3>
<h3><font style="color:#4169E1;">Technitians</font></h3>
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*[[Pecinka_lab:Petra_Pecinkova|Petra Pecinkova]]
*[[Pecinka_lab:Petra_Pecinkova|Petra Pecinkova]]
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<h3><font style="color:#4169E1;">Visiting scientists</font></h3>
 
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*[[Pecinka_lab:Marlene_Elsässer|Marlene Elsässer]]
 
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*[[Pecinka_lab:Heinrich_Bente|Heinrich Bente]]
 
[[Pecinka_lab:People|see complete list...]]
[[Pecinka_lab:People|see complete list...]]
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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>  
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*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]  
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*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]
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*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]
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*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]  
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*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]
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*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]
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*Pecinka A, Abdelsamad Ahmed, Vu GTH. Hidden genetic nature of epigenetic natural variation in plants. Trends in Plant Science 18:625-632 (2013) [http://www.sciencedirect.com/science/article/pii/S1360138513001453 Full text]  
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*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]
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*[[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>
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*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]
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*2016-03-15: Bjoern selected as new post-doc in Ute Kraemer's lab at Ruhr University Bochum!
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*2014-04: Navratan was selected as a PhD student at Centro Nacional de Investigaciones Cardiovasculares (CNIC), Madrid, Spain and Tom obtained post-doctoral fellowship at Institut de Recherche pour le Développement (IRD), Montpellier, France. Congratulations!
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*2016-03-09_12: MPIPZ PhD retreat in Hennef. Great science, great fun!
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*2014-03-31: The manuscript "Drugs for Plant Chromosome and Chromatin Research" published in the special issue of Cytogenetic Genome Research [http://www.karger.com/Article/FullText/360774 Full text]
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*2016-03-08: First Arabidopsis already flowering around Cologne.
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*2016-03-01: Non-random arrangement of chromosomes in endospem nuclei... See more [http://link.springer.com/article/10.1007/s00412-016-0578-5 ...]
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*2016-02-17: Heinrich successfully defended his M.Sc. work at University of Cologne!
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*2016-02: Priscilla joins the lab for her bachelor work and Dominique for his internship. Welcome!
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*2016-02-01: Heinrich selected to join Mittelsten Scheid lab at GMI Vienna as new Ph.D. student. Congratulations!
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Current revision

Image:LablogoAP2.tif


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

  • 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
  • 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

News

  • 2016-03-15: Bjoern selected as new post-doc in Ute Kraemer's lab at Ruhr University Bochum!
  • 2016-03-09_12: MPIPZ PhD retreat in Hennef. Great science, great fun!
  • 2016-03-08: First Arabidopsis already flowering around Cologne.
  • 2016-03-01: Non-random arrangement of chromosomes in endospem nuclei... See more ...
  • 2016-02-17: Heinrich successfully defended his M.Sc. work at University of Cologne!
  • 2016-02: Priscilla joins the lab for her bachelor work and Dominique for his internship. Welcome!
  • 2016-02-01: Heinrich selected to join Mittelsten Scheid lab at GMI Vienna as new Ph.D. student. Congratulations!






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