Extracting functional trends from whole genome duplication events using comparative genomics
Abstract Background The number of species with completed genomes, including those with evidence for recent whole genome duplication events has exploded. The recently sequenced Atlantic salmon genome has been through two rounds of whole genome duplication since the divergence of teleost fish from the...
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ftdatacite:10.6084/m9.figshare.c.3637316 2023-05-15T15:31:22+02:00 Extracting functional trends from whole genome duplication events using comparative genomics Hermansen, Russell Hvidsten, Torgeir Sandve, Simen Liberles, David 2016 https://dx.doi.org/10.6084/m9.figshare.c.3637316 https://figshare.com/collections/Extracting_functional_trends_from_whole_genome_duplication_events_using_comparative_genomics/3637316 unknown Figshare https://dx.doi.org/10.1186/s12575-016-0041-2 CC BY 4.0 https://creativecommons.org/licenses/by/4.0 CC-BY Biochemistry Medicine Genetics FOS Biological sciences Evolutionary Biology 69999 Biological Sciences not elsewhere classified 110309 Infectious Diseases FOS Health sciences Collection article 2016 ftdatacite https://doi.org/10.6084/m9.figshare.c.3637316 https://doi.org/10.1186/s12575-016-0041-2 2021-11-05T12:55:41Z Abstract Background The number of species with completed genomes, including those with evidence for recent whole genome duplication events has exploded. The recently sequenced Atlantic salmon genome has been through two rounds of whole genome duplication since the divergence of teleost fish from the lineage that led to amniotes. This quadrupoling of the number of potential genes has led to complex patterns of retention and loss among gene families. Results Methods have been developed to characterize the interplay of duplicate gene retention processes across both whole genome duplication events and additional smaller scale duplication events. Further, gene expression divergence data has become available as well for Atlantic salmon and the closely related, pre-whole genome duplication pike and methods to describe expression divergence are also presented. These methods for the characterization of duplicate gene retention and gene expression divergence that have been applied to salmon are described. Conclusions With the growth in available genomic and functional data, the opportunities to extract functional inference from large scale duplicates using comparative methods have expanded dramatically. Recently developed methods that further this inference for duplicated genes have been described. Article in Journal/Newspaper Atlantic salmon DataCite Metadata Store (German National Library of Science and Technology) |
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DataCite Metadata Store (German National Library of Science and Technology) |
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Biochemistry Medicine Genetics FOS Biological sciences Evolutionary Biology 69999 Biological Sciences not elsewhere classified 110309 Infectious Diseases FOS Health sciences |
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Biochemistry Medicine Genetics FOS Biological sciences Evolutionary Biology 69999 Biological Sciences not elsewhere classified 110309 Infectious Diseases FOS Health sciences Hermansen, Russell Hvidsten, Torgeir Sandve, Simen Liberles, David Extracting functional trends from whole genome duplication events using comparative genomics |
topic_facet |
Biochemistry Medicine Genetics FOS Biological sciences Evolutionary Biology 69999 Biological Sciences not elsewhere classified 110309 Infectious Diseases FOS Health sciences |
description |
Abstract Background The number of species with completed genomes, including those with evidence for recent whole genome duplication events has exploded. The recently sequenced Atlantic salmon genome has been through two rounds of whole genome duplication since the divergence of teleost fish from the lineage that led to amniotes. This quadrupoling of the number of potential genes has led to complex patterns of retention and loss among gene families. Results Methods have been developed to characterize the interplay of duplicate gene retention processes across both whole genome duplication events and additional smaller scale duplication events. Further, gene expression divergence data has become available as well for Atlantic salmon and the closely related, pre-whole genome duplication pike and methods to describe expression divergence are also presented. These methods for the characterization of duplicate gene retention and gene expression divergence that have been applied to salmon are described. Conclusions With the growth in available genomic and functional data, the opportunities to extract functional inference from large scale duplicates using comparative methods have expanded dramatically. Recently developed methods that further this inference for duplicated genes have been described. |
format |
Article in Journal/Newspaper |
author |
Hermansen, Russell Hvidsten, Torgeir Sandve, Simen Liberles, David |
author_facet |
Hermansen, Russell Hvidsten, Torgeir Sandve, Simen Liberles, David |
author_sort |
Hermansen, Russell |
title |
Extracting functional trends from whole genome duplication events using comparative genomics |
title_short |
Extracting functional trends from whole genome duplication events using comparative genomics |
title_full |
Extracting functional trends from whole genome duplication events using comparative genomics |
title_fullStr |
Extracting functional trends from whole genome duplication events using comparative genomics |
title_full_unstemmed |
Extracting functional trends from whole genome duplication events using comparative genomics |
title_sort |
extracting functional trends from whole genome duplication events using comparative genomics |
publisher |
Figshare |
publishDate |
2016 |
url |
https://dx.doi.org/10.6084/m9.figshare.c.3637316 https://figshare.com/collections/Extracting_functional_trends_from_whole_genome_duplication_events_using_comparative_genomics/3637316 |
genre |
Atlantic salmon |
genre_facet |
Atlantic salmon |
op_relation |
https://dx.doi.org/10.1186/s12575-016-0041-2 |
op_rights |
CC BY 4.0 https://creativecommons.org/licenses/by/4.0 |
op_rightsnorm |
CC-BY |
op_doi |
https://doi.org/10.6084/m9.figshare.c.3637316 https://doi.org/10.1186/s12575-016-0041-2 |
_version_ |
1766361866702946304 |