Table_4_Comparative Transcriptome Analysis Reveals Molecular Basis Underlying Fast Growth of the Selectively Bred Pacific Oyster, Crassostrea gigas.xlsx
Fast growth is one of the most desired traits for all food animals, which affects the profitability of animal production. The Pacific oyster, Crassostrea gigas, is an important aquaculture shellfish around the world with the largest annual production. Growth of the Pacific oyster has been greatly im...
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ftfrontimediafig:oai:figshare.com:article/8343959 2023-05-15T15:59:07+02:00 Table_4_Comparative Transcriptome Analysis Reveals Molecular Basis Underlying Fast Growth of the Selectively Bred Pacific Oyster, Crassostrea gigas.xlsx Fuqiang Zhang Boyang Hu Huiru Fu Zexin Jiao Qi Li Shikai Liu 2019-06-28T15:46:15Z https://doi.org/10.3389/fgene.2019.00610.s004 https://figshare.com/articles/Table_4_Comparative_Transcriptome_Analysis_Reveals_Molecular_Basis_Underlying_Fast_Growth_of_the_Selectively_Bred_Pacific_Oyster_Crassostrea_gigas_xlsx/8343959 unknown doi:10.3389/fgene.2019.00610.s004 https://figshare.com/articles/Table_4_Comparative_Transcriptome_Analysis_Reveals_Molecular_Basis_Underlying_Fast_Growth_of_the_Selectively_Bred_Pacific_Oyster_Crassostrea_gigas_xlsx/8343959 CC BY 4.0 CC-BY Genetics Genetic Engineering Biomarkers Developmental Genetics (incl. Sex Determination) Epigenetics (incl. Genome Methylation and Epigenomics) Gene Expression (incl. Microarray and other genome-wide approaches) Genome Structure and Regulation Genomics Genetically Modified Animals Livestock Cloning Gene and Molecular Therapy Pacific oyster RNA-Seq growth DEGs Ka/Ks alternative splicing Dataset 2019 ftfrontimediafig https://doi.org/10.3389/fgene.2019.00610.s004 2019-07-03T23:01:49Z Fast growth is one of the most desired traits for all food animals, which affects the profitability of animal production. The Pacific oyster, Crassostrea gigas, is an important aquaculture shellfish around the world with the largest annual production. Growth of the Pacific oyster has been greatly improved by artificial selection breeding, but molecular mechanisms underlying growth remains poorly understood, which limited the molecular integrative breeding of fast growth with other superior traits. In this study, comparative transcriptome analyses between the fast-growing selectively bred Pacific oyster and unselected wild Pacific oysters were conducted by RNA-Seq. A total of 1,303 protein-coding genes differentially expressed between fast-growing oysters and wild controls were identified, of which 888 genes were expressed at higher levels in the fast-growing oysters. Functional analysis of the differentially expressed genes (DEGs) indicated that genes involved in microtubule motor activity and biosynthesis of nucleotides and proteins are potentially important for growth in the oyster. Positive selection analysis of genes at the transcriptome level showed that a significant number of ribosomal protein genes had undergone positive selection during the artificial selection breeding process. These results also indicated the importance of protein biosynthesis and metabolism for the growth of oysters. The alternative splicing (AS) of genes was also compared between the two groups of oysters. A total of 3,230 differential alternative splicing events (DAS) were identified, involved in 1,818 genes. These DAS genes were associated with specific functional pathways related to growth, such as “long-term potentiation,” “salivary secretion,” and “phosphatidylinositol signaling system.” The findings of this study will be valuable resources for future investigation to unravel molecular mechanisms underlying growth regulation in the oyster and other marine invertebrates and to provide solid support for breeding application to ... Dataset Crassostrea gigas Pacific oyster Frontiers: Figshare Pacific |
institution |
Open Polar |
collection |
Frontiers: Figshare |
op_collection_id |
ftfrontimediafig |
language |
unknown |
topic |
Genetics Genetic Engineering Biomarkers Developmental Genetics (incl. Sex Determination) Epigenetics (incl. Genome Methylation and Epigenomics) Gene Expression (incl. Microarray and other genome-wide approaches) Genome Structure and Regulation Genomics Genetically Modified Animals Livestock Cloning Gene and Molecular Therapy Pacific oyster RNA-Seq growth DEGs Ka/Ks alternative splicing |
spellingShingle |
Genetics Genetic Engineering Biomarkers Developmental Genetics (incl. Sex Determination) Epigenetics (incl. Genome Methylation and Epigenomics) Gene Expression (incl. Microarray and other genome-wide approaches) Genome Structure and Regulation Genomics Genetically Modified Animals Livestock Cloning Gene and Molecular Therapy Pacific oyster RNA-Seq growth DEGs Ka/Ks alternative splicing Fuqiang Zhang Boyang Hu Huiru Fu Zexin Jiao Qi Li Shikai Liu Table_4_Comparative Transcriptome Analysis Reveals Molecular Basis Underlying Fast Growth of the Selectively Bred Pacific Oyster, Crassostrea gigas.xlsx |
topic_facet |
Genetics Genetic Engineering Biomarkers Developmental Genetics (incl. Sex Determination) Epigenetics (incl. Genome Methylation and Epigenomics) Gene Expression (incl. Microarray and other genome-wide approaches) Genome Structure and Regulation Genomics Genetically Modified Animals Livestock Cloning Gene and Molecular Therapy Pacific oyster RNA-Seq growth DEGs Ka/Ks alternative splicing |
description |
Fast growth is one of the most desired traits for all food animals, which affects the profitability of animal production. The Pacific oyster, Crassostrea gigas, is an important aquaculture shellfish around the world with the largest annual production. Growth of the Pacific oyster has been greatly improved by artificial selection breeding, but molecular mechanisms underlying growth remains poorly understood, which limited the molecular integrative breeding of fast growth with other superior traits. In this study, comparative transcriptome analyses between the fast-growing selectively bred Pacific oyster and unselected wild Pacific oysters were conducted by RNA-Seq. A total of 1,303 protein-coding genes differentially expressed between fast-growing oysters and wild controls were identified, of which 888 genes were expressed at higher levels in the fast-growing oysters. Functional analysis of the differentially expressed genes (DEGs) indicated that genes involved in microtubule motor activity and biosynthesis of nucleotides and proteins are potentially important for growth in the oyster. Positive selection analysis of genes at the transcriptome level showed that a significant number of ribosomal protein genes had undergone positive selection during the artificial selection breeding process. These results also indicated the importance of protein biosynthesis and metabolism for the growth of oysters. The alternative splicing (AS) of genes was also compared between the two groups of oysters. A total of 3,230 differential alternative splicing events (DAS) were identified, involved in 1,818 genes. These DAS genes were associated with specific functional pathways related to growth, such as “long-term potentiation,” “salivary secretion,” and “phosphatidylinositol signaling system.” The findings of this study will be valuable resources for future investigation to unravel molecular mechanisms underlying growth regulation in the oyster and other marine invertebrates and to provide solid support for breeding application to ... |
format |
Dataset |
author |
Fuqiang Zhang Boyang Hu Huiru Fu Zexin Jiao Qi Li Shikai Liu |
author_facet |
Fuqiang Zhang Boyang Hu Huiru Fu Zexin Jiao Qi Li Shikai Liu |
author_sort |
Fuqiang Zhang |
title |
Table_4_Comparative Transcriptome Analysis Reveals Molecular Basis Underlying Fast Growth of the Selectively Bred Pacific Oyster, Crassostrea gigas.xlsx |
title_short |
Table_4_Comparative Transcriptome Analysis Reveals Molecular Basis Underlying Fast Growth of the Selectively Bred Pacific Oyster, Crassostrea gigas.xlsx |
title_full |
Table_4_Comparative Transcriptome Analysis Reveals Molecular Basis Underlying Fast Growth of the Selectively Bred Pacific Oyster, Crassostrea gigas.xlsx |
title_fullStr |
Table_4_Comparative Transcriptome Analysis Reveals Molecular Basis Underlying Fast Growth of the Selectively Bred Pacific Oyster, Crassostrea gigas.xlsx |
title_full_unstemmed |
Table_4_Comparative Transcriptome Analysis Reveals Molecular Basis Underlying Fast Growth of the Selectively Bred Pacific Oyster, Crassostrea gigas.xlsx |
title_sort |
table_4_comparative transcriptome analysis reveals molecular basis underlying fast growth of the selectively bred pacific oyster, crassostrea gigas.xlsx |
publishDate |
2019 |
url |
https://doi.org/10.3389/fgene.2019.00610.s004 https://figshare.com/articles/Table_4_Comparative_Transcriptome_Analysis_Reveals_Molecular_Basis_Underlying_Fast_Growth_of_the_Selectively_Bred_Pacific_Oyster_Crassostrea_gigas_xlsx/8343959 |
geographic |
Pacific |
geographic_facet |
Pacific |
genre |
Crassostrea gigas Pacific oyster |
genre_facet |
Crassostrea gigas Pacific oyster |
op_relation |
doi:10.3389/fgene.2019.00610.s004 https://figshare.com/articles/Table_4_Comparative_Transcriptome_Analysis_Reveals_Molecular_Basis_Underlying_Fast_Growth_of_the_Selectively_Bred_Pacific_Oyster_Crassostrea_gigas_xlsx/8343959 |
op_rights |
CC BY 4.0 |
op_rightsnorm |
CC-BY |
op_doi |
https://doi.org/10.3389/fgene.2019.00610.s004 |
_version_ |
1766394902478848000 |