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Center for Computational and Theoretical Biology

Computational Evolutionary Biology

Research

The capability to evolve is a hallmark of all biological systems. Reconstructing evolutionary history and unraveling underlying mechanisms is the main interest of my group. Currently, we are focusing on three different levels, namely proteins, transcriptomes and genomes. The common denominator of our projects is the use of computational and statistical methods to analyze large-scale data with the aim to understand how biological systems change over time.

Current Projects

Publications

2020[ to top ]
  • {{H}ow to {G}row a {T}ree: {P}lant {V}oltage-{D}ependent {C}ation {C}hannels in the {S}potlight of {E}volution} Dreyer, I.; Sussmilch, F. C.; Fukushima, K.; Riadi, G.; Becker, D.; Schultz, J.; Hedrich, R. in Trends Plant Sci (2020).
  • {{G}enomes of the {V}enus {F}lytrap and {C}lose {R}elatives {U}nveil the {R}oots of {P}lant {C}arnivory} Palfalvi, G.; Hackl, T.; Terhoeven, N.; Shibata, T. F.; Nishiyama, T.; Ankenbrand, M.; Becker, D.; Förster, F.; Freund, M.; Iosip, A.; Kreuzer, I.; Saul, F.; Kamida, C.; Fukushima, K.; Shigenobu, S.; Tamada, Y.; Adamec, L.; Hoshi, Y.; Ueda, K.; Winkelmann, T.; Fuchs, J.; Schubert, I.; Schwacke, R.; Al-Rasheid, K.; Schultz, J.; Hasebe, M.; Hedrich, R. in Curr Biol (2020). 30(12) 2312–2320.
  • BCdatabaser: on-the-fly reference database creation for DNA (meta-)barcoding Keller, Alexander; Hohlfeld, Sonja; Kolter, Andreas; Schultz, Jörg; Gemeinholzer, Birgit; Ankenbrand, Markus J. in Bioinformatics (2020). in press.
2019[ to top ]
  • {{V}enus flytrap microbiotas withstand harsh conditions during prey digestion} Sickel, W.; Van de Weyer, A. L.; Bemm, F.; Schultz, J.; Keller, A. in FEMS Microbiol. Ecol. (2019). 95(3)
  • {{A}cquiring {C}ontrol: {T}he {E}volution of {S}tomatal {S}ignalling {P}athways} Sussmilch, F. C.; Schultz, J.; Hedrich, R.; Roelfsema, M. R. G. in Trends Plant Sci. (2019). 24(4) 342–351.
2018[ to top ]
  • {chloroExtractor}: extraction and assembly of the chloroplast genome from whole genome shotgun data Ankenbrand, Markus J; Pfaff, Simon; Terhoeven, Niklas; Qureischi, Musga; Gündel, Maik; Wei{\ss}, Clemens L.; Hackl, Thomas; Förster, Frank in The Journal of Open Source Software (2018). 3(21) 464.
  • reper: Genome-wide identification, classification and quantification of repetitive elements without an assembled genome. Terhoeven, Niklas; Schultz, Jörg; Hackl, Thomas in Journal of Open Source Software (2018). 3(22) 527.
  • reper: Genome-wide identification, classification and quantification of repetitive elements without an assembled genome Terhoeven, Niklas; Schultz, Jörg; Hackl, Thomas in The Journal of Open Source Software (2018). 3(22) 527.
2017[ to top ]
  • biojs-io-biom, a {BioJS} component for handling data in Biological Observation Matrix ({BIOM}) format Ankenbrand, Markus J.; Terhoeven, Niklas; Hohlfeld, Sonja; Förster, Frank; Keller, Alexander in F1000Research (2017). 5 2348.
2016[ to top ]
  • {{W}{H}{A}{M}{Y} is a novel actin polymerase promoting myoblast fusion, macrophage cell motility and sensory organ development in {D}rosophila} Brinkmann, K.; Winterhoff, M.; Onel, S. F.; Schultz, J.; Faix, J.; Bogdan, S. in J. Cell. Sci. (2016). 129(3) 604–620.
  • {{V}enus flytrap carnivorous lifestyle builds on herbivore defense strategies} Bemm, F.; Becker, D.; Larisch, C.; Kreuzer, I.; Escalante-Perez, M.; Schulze, W. X.; Ankenbrand, M.; Van de Weyer, A. L.; Krol, E.; Al-Rasheid, K. A.; Mithofer, A.; Weber, A. P.; Schultz, J.; Hedrich, R. in Genome Res. (2016). 26(6) 812–825.
  • {{G}enome of a tardigrade: {H}orizontal gene transfer or bacterial contamination?} Bemm, F.; Weiss, C. L.; Schultz, J.; Forster, F. in Proc. Natl. Acad. Sci. U.S.A. (2016).
  • {{G}ating of the two-pore cation channel {A}t{T}{P}{C}1 in the plant vacuole is based on a single voltage-sensing domain} Ja?lan, D.; Mueller, T. D.; Becker, D.; Schultz, J.; Cuin, T. A.; Marten, I.; Dreyer, I.; Schonknecht, G.; Hedrich, R. in Plant Biol (Stuttg) (2016). 18(5) 750–760.
  • {{A}{L}{V}{I}{S}: interactive non-aggregative visualization and explorative analysis of multiple sequence alignments} Schwarz, R. F.; Tamuri, A. U.; Kultys, M.; King, J.; Godwin, J.; Florescu, A. M.; Schultz, J.; Goldman, N. in Nucleic Acids Res. (2016). 44(8) e77.
  • TBro: visualization and management of de novo transcriptomes. Ankenbrand, Markus J.; Weber, Lorenz; Becker, Dirk; Förster, Frank; Bemm, Felix in Database (2016). 2016
2015[ to top ]
  • {{I}{T}{S}2 {D}atabase {V}: {T}wice as {M}uch} Ankenbrand, M. J.; Keller, A.; Wolf, M.; Schultz, J.; Forster, F. in Mol. Biol. Evol. (2015). 32(11) 3030–3032.