Université de Fribourg

Xenacoelomorpha survey reveals that all 11 animal homeobox gene classes were present in the first bilaterians

Brauchle, Michael ; Bilican, Adem ; Eyer, Claudia ; Bailly, Xavier ; Martínez, Pedro ; Ladurner, Peter ; Bruggmann, Rémy ; Sprecher, Simon G.

In: Genome Biology and Evolution, 2018, vol. 10, no. 9, p. 2205–2217

Homeodomain transcription factors are involved in many developmental processes across animals and have been linked to body plan evolution. Detailed classifications of these proteins identified 11 distinct classes of homeodomain proteins in animal genomes, each harboring specific sequence composition and protein domains. Although humans contain the full set of classes, Drosophila melanogaster...

Université de Fribourg

Regulators of Long-Term Memory Revealed by Mushroom Body-Specific Gene Expression Profiling in Drosophila melanogaster

Widmer, Yves F. ; Bilican, Adem ; Bruggmann, Rémy ; Sprecher, Simon G.

In: Genetics, 2018, vol. 209, no. 4, p. 1167–1181

Memory formation is achieved by genetically tightly controlled molecular pathways that result in a change of synaptic strength and synapse organization. While for short- term memory traces, rapidly acting biochemical pathways are in place, the formation of long-lasting memories requires changes in the transcriptional program of a cell. Although many genes involved in learning and memory...

Université de Fribourg

Mushroom body-specific profiling of gene expression identifies regulators of long-term memory in Drosophila

Widmer, Yves F ; Bilican, Adem ; Bruggmann, Rémy ; Sprecher, Simon G

Memory formation is achieved by genetically tightly controlled molecular pathways that result in a change of synaptic strength and synapse organization. While for short- term memory traces rapidly acting biochemical pathways are in place, the formation of long-lasting memories requires changes in the transcriptional program of a cell. Although many genes involved in learning and memory...

Université de Fribourg

Insight into the evolution of the Solanaceae from the parental genomes of Petunia hybrida

Bombarely, Aureliano ; Moser, Michel ; Amrad, Avichai ; Bao, Manzhu ; Bapaume, Laure ; Barry, Cornelius S. ; Bliek, Mattijs ; Boersma, Maaike R. ; Borghi, Lorenzo ; Bruggmann, Rémy ; Bucher, Marcel ; DAgostino, Nunzio ; Davies, Kevin ; Druege, Uwe ; Dudareva, Natalia ; Egea-Cortines, Marcos ; Delledonne, Massimo ; Fernandez-Pozo, Noe ; Franken, Philipp ; Grandont, Laurie ; Heslop-Harrison, J. S. ; Hintzsche, Jennifer ; Johns, Mitrick ; Koes, Ronald ; Lv, Xiaodan ; Lyons, Eric ; Malla, Diwa ; Martinoia, Enrico ; Mattson, Neil S. ; Morel, Patrice ; Mueller, Lukas A. ; Muhlemann, Joëlle ; Nouri, Eva ; Passeri, Valentina ; Pezzotti, Mario ; Qi, Qinzhou ; Reinhardt, Didier ; Rich, Melanie ; Richert-Pöggeler, Katja R. ; Robbins, Tim P. ; Schatz, Michael C. ; Schranz, M. Eric ; Schuurink, Robert C. ; Schwarzacher, Trude ; Spelt, Kees ; Tang, Haibao ; Urbanus, SusanL. ; Vandenbussche, Michiel ; Vijverberg, Kitty ; Villarino, Gonzalo H. ; Warner, RyanM. ; Weiss, Julia ; Yue, Zhen ; Zethof, Jan ; Quattrocchio, Francesca ; Sims, Thomas L. ; Kuhlemeier, Cris

In: Nature Plants, 2016, vol. 2, p. 16074

Petunia hybrida is a popular bedding plant that has a long history as a genetic model system. We report the whole-genome sequencing and assembly of inbred derivatives of its two wild parents, P. axillaris N and P. inflata S6. The assemblies include 91.3% and 90.2% coverage of their diploid genomes (1.4 Gb; 2n = 14) containing 32,928 and 36,697 protein-coding genes, respectively. The...

Université de Fribourg

Multimodal stimulus coding by a gustatory sensory neuron in Drosophila larvae

Giesen, Lena van ; Hernandez-Nunez, Luis ; Delasoie-Baranek, Sophie ; Colombo, Martino ; Renaud, Philippe ; Bruggmann, Rémy ; Benton, Richard ; Samuel, Aravinthan D.T. ; Sprecher, Simon G.

In: Nature Communications, 2016, vol. 7, p. 10687

Accurate perception of taste information is crucial for animal survival. In adult Drosophila, gustatory receptor neurons (GRNs) perceive chemical stimuli of one specific gustatory modality associated with a stereotyped behavioural response, such as aversion or attraction. We show that GRNs of Drosophila larvae employ a surprisingly different mode of gustatory information coding. Using a novel...

Université de Fribourg

Generation of SNP datasets for orangutan population genomics using improved reduced-representation sequencing and direct comparisons of SNP calling algorithms

Greminger, Maja P ; Stölting, Kai N ; Nater, Alexander ; Goossens, Benoit ; Arora, Natasha ; Bruggmann, Rémy ; Patrignani, Andrea ; Nussberger, Beatrice ; Sharma, Reeta ; Kraus, Robert H S ; Ambu, Laurentius N ; Singleton, Ian ; Chikhi, Lounes ; Schaik, Carel P van ; Krützen, Michael

In: BMC Genomics, 2014, vol. 15, no. 1, p. 16

Background: High-throughput sequencing has opened up exciting possibilities in population and conservation genetics by enabling the assessment of genetic variation at genome-wide scales. One approach to reduce genome complexity, i.e. investigating only parts of the genome, is reduced-representation library (RRL) sequencing. Like similar approaches, RRL sequencing reduces ascertainment bias due to...