Difference between revisions of "Pecinka lab"

From OpenWetWare
Jump to: navigation, search
 
(104 intermediate revisions by the same user not shown)
Line 1: Line 1:
 
{{Template:Pecinka Lab}}
 
{{Template:Pecinka Lab}}
{| {| class="wikitable" width="100%" cellspacing="2px" cellpadding="0" border="0" style="padding:10px;color:#000000;background-color:#ffffff;"
+
{| {| class="wikitable" width="100%" cellspacing="2px" cellpadding="0" border="0" style="padding:20px;color:#000000;background-color:#ffffff;"
 
|-valign="top"
 
|-valign="top"
|style="padding: 5px;">; background-color: #ffffff; border: 2px solid #9ACD32;" |
+
|style="padding: 25px;">; background-color: #ffffff; border: 2px solid #9ACD32;" |
 
<h3><font style="color:#31B404;">Research</font></h3>
 
<h3><font style="color:#31B404;">Research</font></h3>
The goal of the Pecinka lab is to understand molecular mechanisms shaping plant genomes. 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.
 
  
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.
+
Pecinka group is hosted by the [http://olomouc.ueb.cas.cz/ Centre of Plant Structural and Functional Genomics], which is part of [http://www.ueb.cas.cz/cs Institute of Experimental Botany of the Czech Academy of Sciences, v. v. i.] in Olomouc, Czech Republic.
 +
 
 +
Our goal is understanding 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 mainly ''Arabidopsis thaliana'' and barley 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:Ahmed_Abdelsamad|Ahmed Abdelsamad]]
 
*[[Pecinka_lab:Chun Hsin Liu|Chun Hsin Liu (Phoebe)]]
 
 
*[[Pecinka_lab:Ales_Pecinka|Ales Pecinka]]
 
*[[Pecinka_lab:Ales_Pecinka|Ales Pecinka]]
*[[Pecinka_lab:Bjoern_Pietzenuk|Björn Pietzenuk]]
 
*[[Pecinka_lab:Thomas_Piofczyk|Thomas Piofczyk]]
 
  
<h3><font style="color:#4169E1;">Guest Scientists</font></h3>
+
*[[Pecinka_lab:Mariana_Diaz|Mariana Andrea Diaz Smoje]]
*[[Pecinka_lab:Nawratan_Bagwan|Navratan Bagwan]]
+
*[[Pecinka_lab:Andreas_Finke|Andreas Finke]]
*[[Pecinka_lab:Sabine_Le_Gall|Sabine Le Gall]]
+
*[[Pecinka_lab:Hana Jerabkova|Hana Jeřábková]]
 +
*[[Pecinka_lab:Karin_Kruska|Karin Kruska]]
 +
*[[Pecinka_lab:Kashif Nawaz|Kashif Nawaz]]
 +
*[[Pecinka_lab:Beata Petrovska|Beáta Petrovská]]
 +
*[[Pecinka_lab:Pranav_Sahu|Pranav Sahu]]
 +
*[[Pecinka_lab:Fen_Yang|Fen Yang]]
  
 +
[[Pecinka_lab:People|see complete list...]]
  
<h3><font style="color:#4169E1;">Technitians</font></h3>
 
*[[Pecinka_lab:Barbara_Eilts|Barbara Eilts]]
 
*[[Pecinka_lab:Petra_Pecinkova|Petra Pecinkova]]
 
 
 
[[Pecinka_lab:People|see complete list...]]
 
  
  
  
[http://www4.clustrmaps.com/user/efef92c9 http://www4.clustrmaps.com/stats/maps-no_clusters/openwetware.org-wiki-Pecinka_Lab-thumb.jpg]
 
  
 
|-
 
|-
Line 43: Line 37:
 
<h3><font style="color:#FF8C00;">Recent Publications</font></h3>  
 
<h3><font style="color:#FF8C00;">Recent Publications</font></h3>  
  
*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]]
+
*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, 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]]
+
*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]
*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]
+
*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, Fang W, Rehmsmeier M, Levy AA, Mittelsten Scheid O. Polyploidization increases meiotic recombination frequency in Arabidopsis. BMC Biology 9:24 (2011). [[media:Pecinka-BMCPB-2011.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_lab:Publications|see complete list...]]
 
*[[Pecinka_lab:Publications|see complete list...]]
Line 53: Line 47:
  
 
<h3><font style="color:red">News</font></h3>
 
<h3><font style="color:red">News</font></h3>
*2013-02-05: Next-generation sequencing grant from the Max Planck Society approved for funding.
+
*2017-09-01: Two excellent post-docs Beata Petrovska and Hana Jerabkova join the group in Olomouc.
*2013-02-05 - 07: Pecinka lab organized COST Action UV4Growth school "Molecular toolkit for applied UV-B research"
+
*2017-09-01: The group moves from MPIPZ to the Centre of Plant Structural and Functional Genomics in Olomouc, Czech Republic.  
 +
*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 [http://www.nature.com/articles/ncomms13522 Open access]
 +
  
  

Latest revision as of 11:00, 5 September 2017

Pecinka group2.jpg


Home      Research      People      Publications      Protocols      Resources      Seminars      Positions      Lab life     


Research

Pecinka group is hosted by the Centre of Plant Structural and Functional Genomics, which is part of Institute of Experimental Botany of the Czech Academy of Sciences, v. v. i. in Olomouc, Czech Republic.

Our goal is understanding 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 mainly Arabidopsis thaliana and barley and analyze them by forward and reverse genetics, molecular, biochemical, cytogenetic and bioinformatic methods. read more...

Lab Members

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

  • 2017-09-01: Two excellent post-docs Beata Petrovska and Hana Jerabkova join the group in Olomouc.
  • 2017-09-01: The group moves from MPIPZ to the Centre of Plant Structural and Functional Genomics in Olomouc, Czech Republic.
  • 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