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Meta-analysis of studies using suppression subtractive hybridization and microarrays to investigate the effects of environmental stress on gene transcription in oysters.

Anderson K, Taylor DA, Thompson EL, Melwani AR, Nair SV, Raftos DA - PLoS ONE (2015)

Bottom Line: To address this shortfall, we conducted a meta-analysis of 14 studies that investigated the effects of different environmental stressors on gene expression in oysters.We found that the expression of over 400 genes in a range of oyster species changed significantly after exposure to environmental stress.In light of these findings, we put forward a consensus model of sub-cellular stress responses in oysters.

View Article: PubMed Central - PubMed

Affiliation: Sydney Institute of Marine Science, Chowder Bay, NSW, Australia; Department of Biological Sciences, Macquarie University, North Ryde, NSW, Australia.

ABSTRACT
Many microarray and suppression subtractive hybridization (SSH) studies have analyzed the effects of environmental stress on gene transcription in marine species. However, there have been no unifying analyses of these data to identify common stress response pathways. To address this shortfall, we conducted a meta-analysis of 14 studies that investigated the effects of different environmental stressors on gene expression in oysters. The stressors tested included chemical contamination, hypoxia and infection, as well as extremes of temperature, pH and turbidity. We found that the expression of over 400 genes in a range of oyster species changed significantly after exposure to environmental stress. A repeating pattern was evident in these transcriptional responses, regardless of the type of stress applied. Many of the genes that responded to environmental stress encoded proteins involved in translation and protein processing (including molecular chaperones), the mitochondrial electron transport chain, anti-oxidant activity and the cytoskeleton. In light of these findings, we put forward a consensus model of sub-cellular stress responses in oysters.

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The percentage of genes within discrete intracellular process categories that were reported as either up- or down-regulated by the original authors [6, 13, 15, 18, 20, 21].Bars = SEM (n = 6 different studies that verifiably reported direction of change), * denotes a significant difference between up- and down-regulation for that category (t-test, p < 0.05).
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pone.0118839.g003: The percentage of genes within discrete intracellular process categories that were reported as either up- or down-regulated by the original authors [6, 13, 15, 18, 20, 21].Bars = SEM (n = 6 different studies that verifiably reported direction of change), * denotes a significant difference between up- and down-regulation for that category (t-test, p < 0.05).

Mentions: The direction of change (up- or down- regulation) of genes comprising the different functional categories is shown in Fig. 3 (using data from [6, 13, 15, 18, 20, 21]). The proportion of genes that were up-regulated, relative to down-regulation, was significantly greater (t-test, p < 0.05) in the cellular stress response, cytoskeleton and electron transport chain categories.


Meta-analysis of studies using suppression subtractive hybridization and microarrays to investigate the effects of environmental stress on gene transcription in oysters.

Anderson K, Taylor DA, Thompson EL, Melwani AR, Nair SV, Raftos DA - PLoS ONE (2015)

The percentage of genes within discrete intracellular process categories that were reported as either up- or down-regulated by the original authors [6, 13, 15, 18, 20, 21].Bars = SEM (n = 6 different studies that verifiably reported direction of change), * denotes a significant difference between up- and down-regulation for that category (t-test, p < 0.05).
© Copyright Policy
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4358831&req=5

pone.0118839.g003: The percentage of genes within discrete intracellular process categories that were reported as either up- or down-regulated by the original authors [6, 13, 15, 18, 20, 21].Bars = SEM (n = 6 different studies that verifiably reported direction of change), * denotes a significant difference between up- and down-regulation for that category (t-test, p < 0.05).
Mentions: The direction of change (up- or down- regulation) of genes comprising the different functional categories is shown in Fig. 3 (using data from [6, 13, 15, 18, 20, 21]). The proportion of genes that were up-regulated, relative to down-regulation, was significantly greater (t-test, p < 0.05) in the cellular stress response, cytoskeleton and electron transport chain categories.

Bottom Line: To address this shortfall, we conducted a meta-analysis of 14 studies that investigated the effects of different environmental stressors on gene expression in oysters.We found that the expression of over 400 genes in a range of oyster species changed significantly after exposure to environmental stress.In light of these findings, we put forward a consensus model of sub-cellular stress responses in oysters.

View Article: PubMed Central - PubMed

Affiliation: Sydney Institute of Marine Science, Chowder Bay, NSW, Australia; Department of Biological Sciences, Macquarie University, North Ryde, NSW, Australia.

ABSTRACT
Many microarray and suppression subtractive hybridization (SSH) studies have analyzed the effects of environmental stress on gene transcription in marine species. However, there have been no unifying analyses of these data to identify common stress response pathways. To address this shortfall, we conducted a meta-analysis of 14 studies that investigated the effects of different environmental stressors on gene expression in oysters. The stressors tested included chemical contamination, hypoxia and infection, as well as extremes of temperature, pH and turbidity. We found that the expression of over 400 genes in a range of oyster species changed significantly after exposure to environmental stress. A repeating pattern was evident in these transcriptional responses, regardless of the type of stress applied. Many of the genes that responded to environmental stress encoded proteins involved in translation and protein processing (including molecular chaperones), the mitochondrial electron transport chain, anti-oxidant activity and the cytoskeleton. In light of these findings, we put forward a consensus model of sub-cellular stress responses in oysters.

Show MeSH
Related in: MedlinePlus