Data from: Extensive local gene duplication and functional divergence among paralogs in Atlantic salmon
Many organisms can generate alternative phenotypes from the same genome, enabling individuals to exploit diverse and variable environments. A prevailing hypothesis is that such adaptation has been favoured by gene duplication events, which generate redundant genomic material that may evolve divergen...
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ftdans:oai:easy.dans.knaw.nl:easy-dataset:86317 2023-07-02T03:31:42+02:00 Data from: Extensive local gene duplication and functional divergence among paralogs in Atlantic salmon Warren, Ian A. Ciborowski, Kate L. Casadei, Elisa Hazlerigg, David G. Martin, Sam A. M. Sumner, Seirian Jordan, William C. 2014-06-27T18:40:51.000+02:00 http://nbn-resolving.org/urn:nbn:nl:ui:13-qa-1oz9 https://easy.dans.knaw.nl/ui/datasets/id/easy-dataset:86317 unknown doi:10.5061/dryad.h02b3/1 doi:10.5061/dryad.h02b3/2 doi:10.5061/dryad.h02b3/3 doi:10.5061/dryad.h02b3/4 doi:10.5061/dryad.h02b3/5 doi:10.5061/dryad.h02b3/6 doi:10.5061/dryad.h02b3/7 doi:10.5061/dryad.h02b3/8 doi:10.5061/dryad.h02b3/9 doi:10.5061/dryad.h02b3/10 doi:10.5061/dryad.h02b3/11 doi:10.5061/dryad.h02b3/12 doi:10.1093/gbe/evu131 PMID:24951567 http://nbn-resolving.org/urn:nbn:nl:ui:13-qa-1oz9 doi:10.5061/dryad.h02b3 https://easy.dans.knaw.nl/ui/datasets/id/easy-dataset:86317 OPEN_ACCESS: The data are archived in Easy, they are accessible elsewhere through the DOI https://dans.knaw.nl/en/about/organisation-and-policy/legal-information/DANSLicence.pdf Life sciences medicine and health care 2014 ftdans https://doi.org/10.5061/dryad.h02b3/110.5061/dryad.h02b3/210.5061/dryad.h02b3/310.5061/dryad.h02b3/410.5061/dryad.h02b3/510.5061/dryad.h02b3/610.5061/dryad.h02b3/710.5061/dryad.h02b3/810.5061/dryad.h02b3/910.5061/dryad.h02b3/1010.5061/dryad.h02b3/1110.506 2023-06-13T13:13:41Z Many organisms can generate alternative phenotypes from the same genome, enabling individuals to exploit diverse and variable environments. A prevailing hypothesis is that such adaptation has been favoured by gene duplication events, which generate redundant genomic material that may evolve divergent functions. Vertebrate examples of recent whole genome duplications are sparse, although one example is the salmonids, which have undergone a whole genome duplication event within the last 100 million years. The life-cycle of the Atlantic salmon, Salmo salar, depends on the ability to produce alternating phenotypes from the same genome, to facilitate migration and maintain its anadromous life history. Here we investigate the hypothesis that genome-wide and local gene duplication events have contributed to the salmonid adaptation. We used high throughput sequencing to characterise the transcriptomes of three key organs involved in regulating migration in S. salar: brain, pituitary and olfactory epithelium. We identified over 10,000 undescribed S. salar sequences, and designed an analytic workflow to distinguish between paralogs originating from local duplication events or from whole genome duplication events. These data reveal that substantial local gene duplications took place shortly after the whole genome duplication event. Many of the identified paralog pairs have either diverged in function or become non-coding. Future functional genomics studies will reveal to what extent this rich source of divergence in genetic sequence is likely to have facilitated the evolution of extreme phenotypic plasticity required for an anadromous life-cycle. Other/Unknown Material Atlantic salmon Salmo salar Data Archiving and Networked Services (DANS): EASY (KNAW - Koninklijke Nederlandse Akademie van Wetenschappen) |
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Open Polar |
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Data Archiving and Networked Services (DANS): EASY (KNAW - Koninklijke Nederlandse Akademie van Wetenschappen) |
op_collection_id |
ftdans |
language |
unknown |
topic |
Life sciences medicine and health care |
spellingShingle |
Life sciences medicine and health care Warren, Ian A. Ciborowski, Kate L. Casadei, Elisa Hazlerigg, David G. Martin, Sam A. M. Sumner, Seirian Jordan, William C. Data from: Extensive local gene duplication and functional divergence among paralogs in Atlantic salmon |
topic_facet |
Life sciences medicine and health care |
description |
Many organisms can generate alternative phenotypes from the same genome, enabling individuals to exploit diverse and variable environments. A prevailing hypothesis is that such adaptation has been favoured by gene duplication events, which generate redundant genomic material that may evolve divergent functions. Vertebrate examples of recent whole genome duplications are sparse, although one example is the salmonids, which have undergone a whole genome duplication event within the last 100 million years. The life-cycle of the Atlantic salmon, Salmo salar, depends on the ability to produce alternating phenotypes from the same genome, to facilitate migration and maintain its anadromous life history. Here we investigate the hypothesis that genome-wide and local gene duplication events have contributed to the salmonid adaptation. We used high throughput sequencing to characterise the transcriptomes of three key organs involved in regulating migration in S. salar: brain, pituitary and olfactory epithelium. We identified over 10,000 undescribed S. salar sequences, and designed an analytic workflow to distinguish between paralogs originating from local duplication events or from whole genome duplication events. These data reveal that substantial local gene duplications took place shortly after the whole genome duplication event. Many of the identified paralog pairs have either diverged in function or become non-coding. Future functional genomics studies will reveal to what extent this rich source of divergence in genetic sequence is likely to have facilitated the evolution of extreme phenotypic plasticity required for an anadromous life-cycle. |
author |
Warren, Ian A. Ciborowski, Kate L. Casadei, Elisa Hazlerigg, David G. Martin, Sam A. M. Sumner, Seirian Jordan, William C. |
author_facet |
Warren, Ian A. Ciborowski, Kate L. Casadei, Elisa Hazlerigg, David G. Martin, Sam A. M. Sumner, Seirian Jordan, William C. |
author_sort |
Warren, Ian A. |
title |
Data from: Extensive local gene duplication and functional divergence among paralogs in Atlantic salmon |
title_short |
Data from: Extensive local gene duplication and functional divergence among paralogs in Atlantic salmon |
title_full |
Data from: Extensive local gene duplication and functional divergence among paralogs in Atlantic salmon |
title_fullStr |
Data from: Extensive local gene duplication and functional divergence among paralogs in Atlantic salmon |
title_full_unstemmed |
Data from: Extensive local gene duplication and functional divergence among paralogs in Atlantic salmon |
title_sort |
data from: extensive local gene duplication and functional divergence among paralogs in atlantic salmon |
publishDate |
2014 |
url |
http://nbn-resolving.org/urn:nbn:nl:ui:13-qa-1oz9 https://easy.dans.knaw.nl/ui/datasets/id/easy-dataset:86317 |
genre |
Atlantic salmon Salmo salar |
genre_facet |
Atlantic salmon Salmo salar |
op_relation |
doi:10.5061/dryad.h02b3/1 doi:10.5061/dryad.h02b3/2 doi:10.5061/dryad.h02b3/3 doi:10.5061/dryad.h02b3/4 doi:10.5061/dryad.h02b3/5 doi:10.5061/dryad.h02b3/6 doi:10.5061/dryad.h02b3/7 doi:10.5061/dryad.h02b3/8 doi:10.5061/dryad.h02b3/9 doi:10.5061/dryad.h02b3/10 doi:10.5061/dryad.h02b3/11 doi:10.5061/dryad.h02b3/12 doi:10.1093/gbe/evu131 PMID:24951567 http://nbn-resolving.org/urn:nbn:nl:ui:13-qa-1oz9 doi:10.5061/dryad.h02b3 https://easy.dans.knaw.nl/ui/datasets/id/easy-dataset:86317 |
op_rights |
OPEN_ACCESS: The data are archived in Easy, they are accessible elsewhere through the DOI https://dans.knaw.nl/en/about/organisation-and-policy/legal-information/DANSLicence.pdf |
op_doi |
https://doi.org/10.5061/dryad.h02b3/110.5061/dryad.h02b3/210.5061/dryad.h02b3/310.5061/dryad.h02b3/410.5061/dryad.h02b3/510.5061/dryad.h02b3/610.5061/dryad.h02b3/710.5061/dryad.h02b3/810.5061/dryad.h02b3/910.5061/dryad.h02b3/1010.5061/dryad.h02b3/1110.506 |
_version_ |
1770271089165860864 |