Pecinka lab

From OpenWetWare

(Difference between revisions)
Jump to: navigation, search
Current revision (04:06, 14 December 2016) (view source)
 
(60 intermediate revisions not shown.)
Line 5: Line 5:
<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 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. 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...]]
|rowspan=2 width=200px style="padding: 5px; background-color: #ffffff; border: 0px solid #4169E1;" |
|rowspan=2 width=200px style="padding: 5px; background-color: #ffffff; border: 0px solid #4169E1;" |
<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:Mariana_Diaz|Mariana Andrea Diaz Smoje]]
*[[Pecinka_lab:Mariana_Diaz|Mariana Andrea Diaz Smoje]]
 +
*[[Pecinka_lab:Annelotte_van_Dieren|Annelotte van Dieren]]
*[[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:Fen_Yang|Fen Yang]]
-
*[[Pecinka_lab:Thomas_Piofczyk|Thomas Piofczyk]]
+
<h3><font style="color:#4169E1;">Technitians</font></h3>
<h3><font style="color:#4169E1;">Technitians</font></h3>
Line 26: Line 26:
*[[Pecinka_lab:Petra_Pecinkova|Petra Pecinkova]]
*[[Pecinka_lab:Petra_Pecinkova|Petra Pecinkova]]
-
<h3><font style="color:#4169E1;">Visiting scientists</font></h3>
 
-
*[[Pecinka_lab:Marlene_Elsässer|Marlene Elsässer]]
 
-
*[[Pecinka_lab:Heinrich_Bente|Heinrich Bente]]
 
[[Pecinka_lab:People|see complete list...]]
[[Pecinka_lab:People|see complete list...]]
Line 34: Line 31:
-
[http://www4.clustrmaps.com/user/efef92c9 http://www4.clustrmaps.com/stats/maps-no_clusters/openwetware.org-wiki-Pecinka_Lab-thumb.jpg]
+
 
|-
|-
Line 44: Line 41:
<h3><font style="color:#FF8C00;">Recent Publications</font></h3>  
<h3><font style="color:#FF8C00;">Recent Publications</font></h3>  
-
*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]  
+
*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]
-
*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]
+
*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]
-
*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]
+
*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]
-
*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]  
+
*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...]]
Line 55: Line 51:
<h3><font style="color:red">News</font></h3>
<h3><font style="color:red">News</font></h3>
-
*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]
+
*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]  
-
*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]
+
*2016-11-01: Karin and Annelotte start their master works in the group.
 +
*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]
 +
*2016-09-15: Fen Yang joins the lab as new PhD student. Welcome in Cologne!
 +
*2016-08-30: Priscilla successfully defended her B.Sc. work. Congratulations!
 +
 
 +
 
 +
 
 +
 

Current revision

Image:LablogoAP2.tif


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

  • 2016-12-01: Fast mutation accumulation under natural UV-B without pyrimidine dimer repair. See more in our new paper Open access
  • 2016-11-01: Karin and Annelotte start their master works in the group.
  • 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
  • 2016-09-15: Fen Yang joins the lab as new PhD student. Welcome in Cologne!
  • 2016-08-30: Priscilla successfully defended her B.Sc. work. Congratulations!






Personal tools