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| Main Authors: | , , , , , , |
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| Format: | Dataset Open Access |
| Language: | en |
| Published: |
PANGAEA
2014
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| Subjects: | |
| Online Access: | https://doi.org/10.1594/PANGAEA.836026 |
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| _version_ | 1867169094928695296 |
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| author | Rusek, Jakub Ayan, Gokce Turko, Patrick Tellenbach, Christoph Giessler, Sabine Spaak, Piet Wolinska, Justyna |
| author_facet | Rusek, Jakub Ayan, Gokce Turko, Patrick Tellenbach, Christoph Giessler, Sabine Spaak, Piet Wolinska, Justyna |
| collection | Datos científicos de ciencias marinas y ambientales |
| contents | In order to trace population community dynamics and reticulate evolution in hybrid species complexes, long-term comparative studies of natural populations are necessary and thus, tools for fine-scale genetic analyses are needed. In the present study, we developed species-diagnostic SNP markers for hybridizing freshwater crustaceans: the multispecies Daphnia longispina complex. Specifically, we took advantage of transcriptome data from a key species of this hybrid complex, the annotated genome of a related Daphnia species and well-defined reference genotypes from three parental species. Altogether eleven nuclear loci with several species-specific SNP sites were identified in sequence alignments of 22 individuals of three parental species and their hybrids. A PCR-RFLP assay was developed for cost-efficient large population screening by SNP-genotyping. Taxon assignment by RFLP-patterns was nearly perfectly concordant with microsatellite genotyping across several screened populations from Europe. Finally, we were able to amplify two short regions of these loci in formaldehyde-preserved samples dating back to the year 1960. The species-specific SNP markers developed here provide valuable tools to study hybridization over time, including the long-term impact of various environmental factors on hybridization and biodiversity changes. SNP-based genotyping will finally allow for revealing eco-evolutionary dynamics at different time scales. |
| format | Dataset Open Access |
| id | pangaea_https___doi_org_10_1594_PANGAEA_836026 |
| institution | PANGAEA |
| language | en |
| publishDate | 2014 |
| publisher | PANGAEA |
| record_format | pangaea |
| spellingShingle | New possibilities arise for studies of hybridization: SNP-based markers for the multi-species Daphnia longispina complex derived from transcriptome data Rusek, Jakub Ayan, Gokce Turko, Patrick Tellenbach, Christoph Giessler, Sabine Spaak, Piet Wolinska, Justyna In order to trace population community dynamics and reticulate evolution in hybrid species complexes, long-term comparative studies of natural populations are necessary and thus, tools for fine-scale genetic analyses are needed. In the present study, we developed species-diagnostic SNP markers for hybridizing freshwater crustaceans: the multispecies Daphnia longispina complex. Specifically, we took advantage of transcriptome data from a key species of this hybrid complex, the annotated genome of a related Daphnia species and well-defined reference genotypes from three parental species. Altogether eleven nuclear loci with several species-specific SNP sites were identified in sequence alignments of 22 individuals of three parental species and their hybrids. A PCR-RFLP assay was developed for cost-efficient large population screening by SNP-genotyping. Taxon assignment by RFLP-patterns was nearly perfectly concordant with microsatellite genotyping across several screened populations from Europe. Finally, we were able to amplify two short regions of these loci in formaldehyde-preserved samples dating back to the year 1960. The species-specific SNP markers developed here provide valuable tools to study hybridization over time, including the long-term impact of various environmental factors on hybridization and biodiversity changes. SNP-based genotyping will finally allow for revealing eco-evolutionary dynamics at different time scales. |
| title | New possibilities arise for studies of hybridization: SNP-based markers for the multi-species Daphnia longispina complex derived from transcriptome data |
| topic | |
| url | https://doi.org/10.1594/PANGAEA.836026 |