Autopolyploidy genome duplication preserves other ancient genome duplications in Atlantic salmon (Salmo salar)
Salmonids (e.g. Atlantic salmon, Pacific salmon, and trouts) have a long legacy of genome duplication. In addition to three ancient genome duplications that all teleosts are thought to share, salmonids have had one additional genome duplication. We explored a methodology for untangling these duplica...
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ftpubmed:oai:pubmedcentral.nih.gov:5328387 2023-05-15T15:29:09+02:00 Autopolyploidy genome duplication preserves other ancient genome duplications in Atlantic salmon (Salmo salar) Christensen, Kris A. Davidson, William S. 2017-02-27 http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5328387/ http://www.ncbi.nlm.nih.gov/pubmed/28241055 https://doi.org/10.1371/journal.pone.0173053 en eng Public Library of Science http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5328387/ http://www.ncbi.nlm.nih.gov/pubmed/28241055 http://dx.doi.org/10.1371/journal.pone.0173053 © 2017 Christensen, Davidson http://creativecommons.org/licenses/by/4.0/ This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/) , which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. CC-BY Research Article Text 2017 ftpubmed https://doi.org/10.1371/journal.pone.0173053 2017-03-12T01:08:43Z Salmonids (e.g. Atlantic salmon, Pacific salmon, and trouts) have a long legacy of genome duplication. In addition to three ancient genome duplications that all teleosts are thought to share, salmonids have had one additional genome duplication. We explored a methodology for untangling these duplications from each other to better understand them in Atlantic salmon. In this methodology, homeologous regions (paralogous/duplicated genomic regions originating from a whole genome duplication) from the most recent genome duplication were assumed to have duplicated genes at greater density and have greater sequence similarity. This assumption was used to differentiate duplicated gene pairs in Atlantic salmon that are either from the most recent genome duplication or from earlier duplications. From a comparison with multiple vertebrate species, it is clear that Atlantic salmon have retained more duplicated genes from ancient genome duplications than other vertebrates--often at higher density in the genome and containing fewer synonymous mutations. It may be that polysomic inheritance is the mechanism responsible for maintaining ancient gene duplicates in salmonids. Polysomic inheritance (when multiple chromosomes pair during meiosis) is thought to be relatively common in salmonids compared to other vertebrate species. These findings illuminate how genome duplications may not only increase the number of duplicated genes, but may also be involved in the maintenance of them from previous genome duplications as well. Text Atlantic salmon Salmo salar PubMed Central (PMC) Pacific PLOS ONE 12 2 e0173053 |
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Research Article Christensen, Kris A. Davidson, William S. Autopolyploidy genome duplication preserves other ancient genome duplications in Atlantic salmon (Salmo salar) |
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Research Article |
description |
Salmonids (e.g. Atlantic salmon, Pacific salmon, and trouts) have a long legacy of genome duplication. In addition to three ancient genome duplications that all teleosts are thought to share, salmonids have had one additional genome duplication. We explored a methodology for untangling these duplications from each other to better understand them in Atlantic salmon. In this methodology, homeologous regions (paralogous/duplicated genomic regions originating from a whole genome duplication) from the most recent genome duplication were assumed to have duplicated genes at greater density and have greater sequence similarity. This assumption was used to differentiate duplicated gene pairs in Atlantic salmon that are either from the most recent genome duplication or from earlier duplications. From a comparison with multiple vertebrate species, it is clear that Atlantic salmon have retained more duplicated genes from ancient genome duplications than other vertebrates--often at higher density in the genome and containing fewer synonymous mutations. It may be that polysomic inheritance is the mechanism responsible for maintaining ancient gene duplicates in salmonids. Polysomic inheritance (when multiple chromosomes pair during meiosis) is thought to be relatively common in salmonids compared to other vertebrate species. These findings illuminate how genome duplications may not only increase the number of duplicated genes, but may also be involved in the maintenance of them from previous genome duplications as well. |
format |
Text |
author |
Christensen, Kris A. Davidson, William S. |
author_facet |
Christensen, Kris A. Davidson, William S. |
author_sort |
Christensen, Kris A. |
title |
Autopolyploidy genome duplication preserves other ancient genome duplications in Atlantic salmon (Salmo salar) |
title_short |
Autopolyploidy genome duplication preserves other ancient genome duplications in Atlantic salmon (Salmo salar) |
title_full |
Autopolyploidy genome duplication preserves other ancient genome duplications in Atlantic salmon (Salmo salar) |
title_fullStr |
Autopolyploidy genome duplication preserves other ancient genome duplications in Atlantic salmon (Salmo salar) |
title_full_unstemmed |
Autopolyploidy genome duplication preserves other ancient genome duplications in Atlantic salmon (Salmo salar) |
title_sort |
autopolyploidy genome duplication preserves other ancient genome duplications in atlantic salmon (salmo salar) |
publisher |
Public Library of Science |
publishDate |
2017 |
url |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5328387/ http://www.ncbi.nlm.nih.gov/pubmed/28241055 https://doi.org/10.1371/journal.pone.0173053 |
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Pacific |
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Pacific |
genre |
Atlantic salmon Salmo salar |
genre_facet |
Atlantic salmon Salmo salar |
op_relation |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5328387/ http://www.ncbi.nlm.nih.gov/pubmed/28241055 http://dx.doi.org/10.1371/journal.pone.0173053 |
op_rights |
© 2017 Christensen, Davidson http://creativecommons.org/licenses/by/4.0/ This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/) , which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. |
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CC-BY |
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https://doi.org/10.1371/journal.pone.0173053 |
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PLOS ONE |
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12 |
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e0173053 |
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