Year: 2016
Type: data-paper
Abstract: The full exploration of gene-environment interactions requires model organisms with well-characterized ecological interactions in their natural environment, manipulability in the laboratory and genomic tools. The waterflea Daphnia magna is an established ecological and toxicological model species, central to the food webs of freshwater lentic habitats and sentinel for water quality. Its tractability and cyclic parthenogenetic life-cycle are ideal to investigate links between genes and the environment. Capitalizing on this unique model system, the STRESSFLEA consortium generated a comprehensive RNA-Seq data set by exposing two inbred genotypes of D. magna and a recombinant cross of these genotypes to a range of environmental perturbations. Gene models were constructed from the transcriptome data and mapped onto the draft genome of D. magna using EvidentialGene. The transcriptome data generated here, together with the available draft genome sequence of D. magna and a high-density genetic map will be a key asset for future investigations in environmental genomics.
Source: Scientific Data
Authors: Luisa Orsini, Donald Gilbert, Ram Podicheti, Mieke Jansen, James B. Brown, Omid Shams Solari, Katina I. Spanier, John K. Colbourne, Douglas B. Rusch, Ellen Decaestecker, Jana Asselman, Karel A.C. De Schamphelaere, Dieter Ebert, Christoph R. Haag, Jouni Kvist, Christian Laforsch, Adam Petrusek, Andrew P. Beckerman, Tom J. Little, Anurag Chaturvedi, Michael E. Pfrender, Luc De Meester, Mikko J. Frilander
Institutions: University of Birmingham, Indiana University Bloomington, Indiana University, KU Leuven, Lawrence Berkeley National Laboratory, University of California, Berkeley, Ghent University, University of Basel, Centre National de la Recherche Scientifique, École Pratique des Hautes Études, Université de Montpellier, Université Paul-Valéry Montpellier, Centre d'Écologie Fonctionnelle et Évolutive, University of Helsinki, University of Bayreuth, Charles University, University of Sheffield, University of Edinburgh, University of Notre Dame
Language: English
Subfield: Molecular Biology
Domain: Life Sciences
Open Access status: gold
Estimated APC paid: $2,490
Funders: National Science Foundation, Helsingin Yliopisto, University of Notre Dame, Fonds Wetenschappelijk Onderzoek, KU Leuven, National Institutes of Health, Natural Environment Research Council, National Human Genome Research Institute, National Institute of General Medical Sciences, European Social Fund
Awards: G1418014755, Daphnia Functional Genomics Resource, G2404545420, Nonparametric methods for functional and translational genomics, G371715657, STRESSFLEA-B: How to live in a mosaic of stressors - an ecological genomics approach on the water flea Daphnia., Cracking the Code of Adaptive Evolution (deCODE), Shared Genome Database Informatics and Cyber Infrastructure
OpenAlex ID: W2366212322