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http://hdl.handle.net/10261/134652
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Campo DC | Valor | Lengua/Idioma |
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dc.contributor.author | Muñoz, Joaquín | es_ES |
dc.contributor.author | Chaturvedi, Anurag | es_ES |
dc.contributor.author | De Meester, Luc | es_ES |
dc.contributor.author | Weider, L.J. | es_ES |
dc.date.accessioned | 2016-07-11T09:25:24Z | - |
dc.date.available | 2016-07-11T09:25:24Z | - |
dc.date.issued | 2016-06 | - |
dc.identifier.citation | Scientific Reports 6: 28569 (2016) | es_ES |
dc.identifier.issn | 2045-2322 | - |
dc.identifier.uri | http://hdl.handle.net/10261/134652 | - |
dc.description.abstract | The keystone aquatic herbivore Daphnia has been studied for more than 150 years in the context of evolution, ecology and ecotoxicology. Although it is rapidly becoming an emergent model for environmental and population genomics, there have been limited genome-wide level studies in natural populations. We report a unique resource of novel Single Nucleotide Polymorphic (SNP) markers for Daphnia pulicaria using the reduction in genomic complexity with the restriction enzymes approach, genotyping-by-sequencing. Using the genome of D. pulex as a reference, SNPs were scored for 53 clones from five natural populations that varied in lake trophic status. Our analyses resulted in 32,313 highly confident and bi-allelic SNP markers. 1,364 outlier SNPs were mapped on the annotated D. pulex genome, which identified 2,335 genes, including 565 within functional genes. Out of 885 EuKaryotic Orthologous Groups that we found from outlier SNPs, 294 were involved in three metabolic and four regulatory pathways. Bayesian-clustering analyses showed two distinct population clusters representing the possible combined effects of geography and lake trophic status. Our results provide an invaluable tool for future population genomics surveys in Daphnia targeting informative regions related to physiological processes that can be linked to the ecology of this emerging eco-responsive taxon. | es_ES |
dc.description.sponsorship | We thank the European Union (EU) Marie-Curie International Outgoing Fellowship Program (FP7-PEOPLE-2010, ADAPT-ENVGENOME, project code #271485) to J.M., A.J. Green and L.J.W., and the U.S. National Science Foundation (NSF-IOS-OEI) collaborative grants #0924289 and #1256881 to L.J.W. and grant #09244019 to P.D. Jeyasingh for funding this project. Any opinions, findings, and conclusions or recommendations expressed in this material are those of the authors and do not necessarily reflect the views of the U.S. National Science Foundation. J.M. was also supported by the European Science Foundation (ConGenOmics, project code #4810) to develop the bioinformatics part of this study. L.J.W. also acknowledges the support of the KU Leuven Research Fund (fellowship SF/12/009), which allowed him to visit KU Leuven during the course of this project. A.C. was financed by the KU Leuven Research Fund excellence center financing PF/2010/07 during this project. | es_ES |
dc.description.sponsorship | EUR 1,165 APC fee funded by the EC FP7 Post-Grant Open Access Pilot | es_ES |
dc.language.iso | eng | es_ES |
dc.publisher | Nature Publishing Group | es_ES |
dc.relation | info:eu-repo/grantAgreement/EC/FP7/271485 | es_ES |
dc.relation | FP7 post-grant Gold Open Access Pilot | - |
dc.relation.isversionof | Publisher's version | es_ES |
dc.rights | openAccess | es_ES |
dc.title | Characterization of genome-wide SNPs for the water flea Daphnia pulicaria generated by genotyping-by-sequencing (GBS) | es_ES |
dc.type | artículo | es_ES |
dc.identifier.doi | 10.1038/srep28569 | - |
dc.description.peerreviewed | Peer reviewed | es_ES |
dc.relation.publisherversion | http://dx.doi.org/10.1038/srep28569 | es_ES |
dc.rights.license | http://creativecommons.org/licenses/by/4.0/ | es_ES |
dc.contributor.funder | European Commission | es_ES |
dc.contributor.funder | National Science Foundation (US) | es_ES |
dc.contributor.funder | European Science Foundation | es_ES |
dc.contributor.funder | University of Leuven | es_ES |
dc.relation.csic | Sí | es_ES |
oprm.item.hasRevision | no ko 0 false | * |
dc.identifier.funder | http://dx.doi.org/10.13039/501100000780 | es_ES |
dc.identifier.funder | http://dx.doi.org/10.13039/100000001 | es_ES |
dc.identifier.funder | http://dx.doi.org/10.13039/501100000782 | es_ES |
dc.identifier.pmid | 27346179 | - |
dc.type.coar | http://purl.org/coar/resource_type/c_6501 | es_ES |
item.cerifentitytype | Publications | - |
item.openairecristype | http://purl.org/coar/resource_type/c_18cf | - |
item.grantfulltext | open | - |
item.openairetype | artículo | - |
item.fulltext | With Fulltext | - |
item.languageiso639-1 | en | - |
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daphnia_pulicaria_Munoz.pdf | 872,32 kB | Adobe PDF | Visualizar/Abrir |
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