• "Assaying sensory ciliopathies using calcium biosensor expression in zebrafish ciliated olfactory neurons" 

      Bergboer, JGM; Wyatt, Cameron; Austin-Tse, C; Yaksi, Emre; Drummond, IA (Journal article; Peer reviewed, 2018)
      Background Primary cilia mediate signal transduction by acting as an organizing scaffold for receptors, signalling proteins and ion channels. Ciliated olfactory sensory neurons (OSNs) organize olfactory receptors and ion ...
    • Connectome inference and cluster extraction from calcium imaging 

      Aronsen, Tord (Master thesis, 2017)
      This is a study of calcium imaging recordings from the spontaneous activity in the habenula and telencephalon region in juvenile and dormant zebrafish. The zebrafish is a model organism that, with some genetic manipulation, ...
    • Developing real-time tracking software and setup for studying active avoidance conditioning in zebrafish 

      Palumbo, Fabrizio (Master thesis, 2016)
      The cognitive capabilities of fish have historically been underestimated and, in many respects, they are comparable to birds and mammals. Currently, an increasing number of behavioural neuroscience laboratories have started ...
    • Evolutionary conserved brainstem circuits encode category, concentration and mixtures of taste 

      Vendrell-Llopis, Nuria; Yaksi, Emre (Journal article; Peer reviewed, 2015)
      Evolutionary conserved brainstem circuits are the first relay for gustatory information in the vertebrate brain. While the brainstem circuits act as our life support system and they mediate vital taste related behaviors, ...
    • Glia-neuron interactions underlie state transitions to generalized seizures 

      Diaz Verdugo, Carmen; Myren-Svelstad, Sverre; Aydin, Ecem; Van Hoeymissen, Evelien; Deneubourg, Celine; Vanderhaeghe, Silke; Vancraeynest, Julie; Pelgrims, Robbrecht; Casacak, Mehmet Ilyas; Muto, Akira; Kawakami, Koichi; Jurisch-Yaksi, Nathalie; Yaksi, Emre (Journal article; Peer reviewed, 2019)
      Brain activity and connectivity alter drastically during epileptic seizures. The brain networks shift from a balanced resting state to a hyperactive and hypersynchronous state. It is, however, less clear which mechanisms ...
    • Gustatory-mediated avoidance of bacterial lipopolysaccharides via TRPA1 activation in Drosophila 

      Soldano, Alessia; Alpizar, Yeranddy A; Boonen, Brett; Franco, Luis; Lopez-Requena, Alejandro; Liu, Guangda; Mora, Natalia; Yaksi, Emre; Voets, Thomas; Vennekens, Rudi; Hassan, Bassem A; Talavera, Karel (Journal article; Peer reviewed, 2016)
      Detecting pathogens and mounting immune responses upon infection is crucial for animal health. However, these responses come at a high metabolic price (McKean and Lazzaro, 2011, Kominsky et al., 2010), and avoiding pathogens ...
    • Identification of a neuronal population in the telencephalon essential for fear conditioning in zebrafish 

      Lal, Pradeep; Tanabe, Hideyuki; Suster, Maximiliano L; Ailani, Deepak; Kotani, Yuri; Muto, Akira; Itoh, Mari; Iwasaki, Miki; Wada, Hironori; Yaksi, Emre; Kawakami, Koichi (Journal article; Peer reviewed, 2018)
      Background Fear conditioning is a form of learning essential for animal survival and used as a behavioral paradigm to study the mechanisms of learning and memory. In mammals, the amygdala plays a crucial role in fear ...
    • Interhemispheric connections between olfactory bulbs improve odor detection 

      Kermen, Florence; Lal, Pradeep; Faturos, Nicholas G.; Yaksi, Emre (Peer reviewed; Journal article, 2020)
      Interhemispheric connections enable interaction and integration of sensory information in bilaterian nervous systems and are thought to optimize sensory computations. However, the cellular and spatial organization of ...
    • Methods for studying the zebrafish brain: Past, present and future 

      Wyatt, Cameron; Bartoszek, Ewelina; Yaksi, Emre (Journal article; Peer reviewed, 2015)
      The zebrafish (Danio rerio) is one of the most promising new model organisms. The increasing popularity of this amazing small vertebrate is evident from the exponentially growing numbers of research articles, funded projects ...
    • Motile-Cilia-Mediated Flow Improves Sensitivity and Temporal Resolution of Olfactory Computations 

      Reiten, Ingrid; Uslu, Fazil Emre; Forè, Stèphanie; Pelgrims, Robbrecht; Ringers, Christa; Diaz Verdugo, Carmen; Hoffmann, Maximilian; Lal, Pradeep; Kawakami, Koichi; Pekkan, Kerem; Yaksi, Emre; Jurisch-Yaksi, Nathalie (Journal article; Peer reviewed, 2017)
      Motile cilia are actively beating hair-like structures that cover the surface of multiple epithelia. The flow that ciliary beating generates is utilized for diverse functions and depends on the spatial location and biophysical ...