Difference between revisions of "Pecinka lab"

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<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.
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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.
  
 
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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.
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.
 
 
[[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]]
  
*[[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]]
*[[Pecinka_lab:Chun Hsin Liu|Chun Hsin Liu (Phoebe)]]
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*[[Pecinka_lab:Hana Jerabkova|Hana Jeřábková]]
*[[Pecinka_lab:Ales_Pecinka|Ales Pecinka]]
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*[[Pecinka_lab:Karin_Kruska|Karin Kruska]]
*[[Pecinka_lab:Bjoern_Pietzenuk|Björn Pietzenuk]]
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*[[Pecinka_lab:Kashif Nawaz|Kashif Nawaz]]
*[[Pecinka_lab:Thomas_Piofczyk|Thomas Piofczyk]]
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*[[Pecinka_lab:Beata Petrovska|Beáta Petrovská]]
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*[[Pecinka_lab:Pranav_Sahu|Pranav Sahu]]
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*[[Pecinka_lab:Fen_Yang|Fen Yang]]
  
<h3><font style="color:#4169E1;">Guest Scientists</font></h3>
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[[Pecinka_lab:People|see complete list...]]
*[[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>
 
*[[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]
 
  
 
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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]  
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*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]
*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]]
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*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]
*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]]
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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]
*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]
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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]
  
 
*[[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
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*2017-09-01: Two excellent post-docs Beata Petrovska and Hana Jerabkova join the group in Olomouc.
*2013-09-30: Lab field trip to Altenahr
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*2017-09-01: The group moves from MPIPZ to the Centre of Plant Structural and Functional Genomics in Olomouc, Czech Republic.
*2013-09-24: Andreas successfully defended his PhD at the University of Halle-Wittenberg. Congratulations!
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*2017-06-01: Pranav Sahu joins the lab as Marie Curie fellow and will analyze effects of the changing climate on plant performance
*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]  
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*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!
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*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 12:00, 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