Comparative De Novo transcriptome analysis of the Australian black-lip and Sydney rock oysters reveals expansion of repetitive elements in Saccostrea genomes
Ostreid oysters (the ‘true oysters’) represent a large and commercially important family of bivalve molluscs. Several species, such as the Pacific oyster (Magallana gigas), the American oyster (Crassostrea virginica), the European oyster (Ostrea edulis) and the Sydney rock oyster (Saccostrea glomera...
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ftpubmed:oai:pubmedcentral.nih.gov:6201952 2023-05-15T17:54:19+02:00 Comparative De Novo transcriptome analysis of the Australian black-lip and Sydney rock oysters reveals expansion of repetitive elements in Saccostrea genomes McDougall, Carmel 2018-10-25 http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6201952/ http://www.ncbi.nlm.nih.gov/pubmed/30359422 https://doi.org/10.1371/journal.pone.0206417 en eng Public Library of Science http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6201952/ http://www.ncbi.nlm.nih.gov/pubmed/30359422 http://dx.doi.org/10.1371/journal.pone.0206417 © 2018 Carmel McDougall 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 2018 ftpubmed https://doi.org/10.1371/journal.pone.0206417 2018-11-25T01:12:09Z Ostreid oysters (the ‘true oysters’) represent a large and commercially important family of bivalve molluscs. Several species, such as the Pacific oyster (Magallana gigas), the American oyster (Crassostrea virginica), the European oyster (Ostrea edulis) and the Sydney rock oyster (Saccostrea glomerata), are currently farmed at a large scale. However a number of other species may also be suitable for commercial-scale aquaculture. One such species is the ‘black-lip oyster’, a large Saccostrea species of uncertain taxonomic affinity found in northern Australia. Here, phylogenetic analysis of the COI gene places this oyster within a clade identified in a previous study of Japanese Saccostrea species, ‘Saccostrea lineage J’. To facilitate comparisons between this oyster and the better-studied S. glomerata, de novo transcriptomes were generated from larval stages and adult tissues of both species. Patterns of orthology indicated an expansion of repetitive elements within Saccostrea genomes when compared to M. gigas and C. virginica, which may be reflected in increased evolutionary rates and/or genome sizes. The generation of high-quality transcriptomes for these two commercially relevant oysters provides a valuable resource for gene identification and comparison of molecular processes in these and other mollusc species. Text Pacific oyster PubMed Central (PMC) Pacific PLOS ONE 13 10 e0206417 |
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Research Article McDougall, Carmel Comparative De Novo transcriptome analysis of the Australian black-lip and Sydney rock oysters reveals expansion of repetitive elements in Saccostrea genomes |
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Research Article |
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Ostreid oysters (the ‘true oysters’) represent a large and commercially important family of bivalve molluscs. Several species, such as the Pacific oyster (Magallana gigas), the American oyster (Crassostrea virginica), the European oyster (Ostrea edulis) and the Sydney rock oyster (Saccostrea glomerata), are currently farmed at a large scale. However a number of other species may also be suitable for commercial-scale aquaculture. One such species is the ‘black-lip oyster’, a large Saccostrea species of uncertain taxonomic affinity found in northern Australia. Here, phylogenetic analysis of the COI gene places this oyster within a clade identified in a previous study of Japanese Saccostrea species, ‘Saccostrea lineage J’. To facilitate comparisons between this oyster and the better-studied S. glomerata, de novo transcriptomes were generated from larval stages and adult tissues of both species. Patterns of orthology indicated an expansion of repetitive elements within Saccostrea genomes when compared to M. gigas and C. virginica, which may be reflected in increased evolutionary rates and/or genome sizes. The generation of high-quality transcriptomes for these two commercially relevant oysters provides a valuable resource for gene identification and comparison of molecular processes in these and other mollusc species. |
format |
Text |
author |
McDougall, Carmel |
author_facet |
McDougall, Carmel |
author_sort |
McDougall, Carmel |
title |
Comparative De Novo transcriptome analysis of the Australian black-lip and Sydney rock oysters reveals expansion of repetitive elements in Saccostrea genomes |
title_short |
Comparative De Novo transcriptome analysis of the Australian black-lip and Sydney rock oysters reveals expansion of repetitive elements in Saccostrea genomes |
title_full |
Comparative De Novo transcriptome analysis of the Australian black-lip and Sydney rock oysters reveals expansion of repetitive elements in Saccostrea genomes |
title_fullStr |
Comparative De Novo transcriptome analysis of the Australian black-lip and Sydney rock oysters reveals expansion of repetitive elements in Saccostrea genomes |
title_full_unstemmed |
Comparative De Novo transcriptome analysis of the Australian black-lip and Sydney rock oysters reveals expansion of repetitive elements in Saccostrea genomes |
title_sort |
comparative de novo transcriptome analysis of the australian black-lip and sydney rock oysters reveals expansion of repetitive elements in saccostrea genomes |
publisher |
Public Library of Science |
publishDate |
2018 |
url |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6201952/ http://www.ncbi.nlm.nih.gov/pubmed/30359422 https://doi.org/10.1371/journal.pone.0206417 |
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Pacific |
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Pacific |
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Pacific oyster |
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Pacific oyster |
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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6201952/ http://www.ncbi.nlm.nih.gov/pubmed/30359422 http://dx.doi.org/10.1371/journal.pone.0206417 |
op_rights |
© 2018 Carmel McDougall 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.0206417 |
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13 |
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