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 (Saccostr...
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Online Access: | https://research-portal.st-andrews.ac.uk/en/researchoutput/comparative-de-novo-transcriptome-analysis-of-the-australian-blacklip-and-sydney-rock-oysters-reveals-expansion-of-repetitive-elements-in-saccostrea-genomes(f0da9e69-cfb0-43b7-9cfc-db878a819d21).html https://doi.org/10.1371/journal.pone.0206417 |
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ftunstandrewcris:oai:research-portal.st-andrews.ac.uk:publications/f0da9e69-cfb0-43b7-9cfc-db878a819d21 2024-06-23T07:56:00+00:00 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 https://research-portal.st-andrews.ac.uk/en/researchoutput/comparative-de-novo-transcriptome-analysis-of-the-australian-blacklip-and-sydney-rock-oysters-reveals-expansion-of-repetitive-elements-in-saccostrea-genomes(f0da9e69-cfb0-43b7-9cfc-db878a819d21).html https://doi.org/10.1371/journal.pone.0206417 eng eng https://research-portal.st-andrews.ac.uk/en/researchoutput/comparative-de-novo-transcriptome-analysis-of-the-australian-blacklip-and-sydney-rock-oysters-reveals-expansion-of-repetitive-elements-in-saccostrea-genomes(f0da9e69-cfb0-43b7-9cfc-db878a819d21).html info:eu-repo/semantics/restrictedAccess McDougall , C 2018 , ' Comparative De Novo transcriptome analysis of the Australian black-lip and Sydney rock oysters reveals expansion of repetitive elements in Saccostrea genomes ' , PLoS ONE , vol. 13 , no. 10 , pp. e0206417 . https://doi.org/10.1371/journal.pone.0206417 Animal Husbandry Animals DNA Repeat Expansion Gene Expression Profiling Genetic Variation Genome Ostreidae/classification Phylogeny article 2018 ftunstandrewcris https://doi.org/10.1371/journal.pone.0206417 2024-06-13T01:23:47Z 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. Article in Journal/Newspaper Pacific oyster University of St Andrews: Research Portal Pacific PLOS ONE 13 10 e0206417 |
institution |
Open Polar |
collection |
University of St Andrews: Research Portal |
op_collection_id |
ftunstandrewcris |
language |
English |
topic |
Animal Husbandry Animals DNA Repeat Expansion Gene Expression Profiling Genetic Variation Genome Ostreidae/classification Phylogeny |
spellingShingle |
Animal Husbandry Animals DNA Repeat Expansion Gene Expression Profiling Genetic Variation Genome Ostreidae/classification Phylogeny McDougall, Carmel Comparative De Novo transcriptome analysis of the Australian black-lip and Sydney rock oysters reveals expansion of repetitive elements in Saccostrea genomes |
topic_facet |
Animal Husbandry Animals DNA Repeat Expansion Gene Expression Profiling Genetic Variation Genome Ostreidae/classification Phylogeny |
description |
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 |
Article in Journal/Newspaper |
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 |
publishDate |
2018 |
url |
https://research-portal.st-andrews.ac.uk/en/researchoutput/comparative-de-novo-transcriptome-analysis-of-the-australian-blacklip-and-sydney-rock-oysters-reveals-expansion-of-repetitive-elements-in-saccostrea-genomes(f0da9e69-cfb0-43b7-9cfc-db878a819d21).html https://doi.org/10.1371/journal.pone.0206417 |
geographic |
Pacific |
geographic_facet |
Pacific |
genre |
Pacific oyster |
genre_facet |
Pacific oyster |
op_source |
McDougall , C 2018 , ' Comparative De Novo transcriptome analysis of the Australian black-lip and Sydney rock oysters reveals expansion of repetitive elements in Saccostrea genomes ' , PLoS ONE , vol. 13 , no. 10 , pp. e0206417 . https://doi.org/10.1371/journal.pone.0206417 |
op_relation |
https://research-portal.st-andrews.ac.uk/en/researchoutput/comparative-de-novo-transcriptome-analysis-of-the-australian-blacklip-and-sydney-rock-oysters-reveals-expansion-of-repetitive-elements-in-saccostrea-genomes(f0da9e69-cfb0-43b7-9cfc-db878a819d21).html |
op_rights |
info:eu-repo/semantics/restrictedAccess |
op_doi |
https://doi.org/10.1371/journal.pone.0206417 |
container_title |
PLOS ONE |
container_volume |
13 |
container_issue |
10 |
container_start_page |
e0206417 |
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