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Gene expression profiling of oxidative stress response of C. elegans aging defective AMPK mutants using massively parallel transcriptome sequencing.

Shin H, Lee H, Fejes AP, Baillie DL, Koo HS, Jones SJ - BMC Res Notes (2011)

Bottom Line: Specifically, we compared the transcriptomes of aak-2 and wild type animals under normal conditions and conditions of induced oxidative stress.The analysis presented in this study has enabled us to identify potential genes involved in stress resistance that may be either directly or indirectly under the control of AAK-2.Furthermore, we have extended our current knowledge of general defense responses of C. elegans against oxidative stress supporting the function for AAK-2 in inhibition of biosynthetic processes, especially lipid synthesis, under oxidative stress and transcriptional regulation of genes involved in reproductive processes.

View Article: PubMed Central - HTML - PubMed

Affiliation: Genome Sciences Centre, BC Cancer Agency, Suite 100 570 West 7th Avenue, Vancouver, British Columbia, Canada V5Z 4S6. sjones@bcgsc.ca.

ABSTRACT

Background: A strong association between stress resistance and longevity in multicellular organisms has been established as many mutations that extend lifespan also show increased resistance to stress. AAK-2, the C. elegans homolog of an alpha subunit of AMP-activated protein kinase (AMPK) is an intracellular fuel sensor that regulates cellular energy homeostasis and functions in stress resistance and lifespan extension.

Findings: Here, we investigated global transcriptional responses of aak-2 mutants to oxidative stress and in turn identified potential downstream targets of AAK-2 involved in stress resistance in C. elegans. We employed massively parallel Illumina sequencing technology and performed comprehensive comparative transcriptome analysis. Specifically, we compared the transcriptomes of aak-2 and wild type animals under normal conditions and conditions of induced oxidative stress. This research has presented a snapshot of genome-wide transcriptional activities that take place in C. elegans in response to oxidative stress both in the presence and absence of AAK-2.

Conclusions: The analysis presented in this study has enabled us to identify potential genes involved in stress resistance that may be either directly or indirectly under the control of AAK-2. Furthermore, we have extended our current knowledge of general defense responses of C. elegans against oxidative stress supporting the function for AAK-2 in inhibition of biosynthetic processes, especially lipid synthesis, under oxidative stress and transcriptional regulation of genes involved in reproductive processes.

No MeSH data available.


Related in: MedlinePlus

Comparison of gene expression level changes against oxidative stress between wild type and aak-2 mutants. (A) Correlation between gene expression level changes of all genes identified in stressed wild type and stressed aak-2 mutants relative to unstressed wild type. (B) Correlation between gene expression level changes of genes significantly up or down-regulated commonly in stressed wild type and stressed aak-2 mutants relative to unstressed wild type (green). The commonly up or down-regulated genes in stressed wild type and stressed aak-2 mutants show much higher correlation compared to all genes indicating these genes are not only commonly regulated in wild type and aak-2 mutants against oxidative stress, but also the degree of the expression level changes is overall quite similar. The commonly up or down-regulated genes in stressed wild type and stressed aak-2 mutants and their expression level changes in unstressed aak-2 mutants (orange). A large group of collagens are commonly up-regulated in stressed wild type and stressed aak-2 mutants, but insignificantly changed in unstressed aak-2 mutants as indicated.
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Figure 2: Comparison of gene expression level changes against oxidative stress between wild type and aak-2 mutants. (A) Correlation between gene expression level changes of all genes identified in stressed wild type and stressed aak-2 mutants relative to unstressed wild type. (B) Correlation between gene expression level changes of genes significantly up or down-regulated commonly in stressed wild type and stressed aak-2 mutants relative to unstressed wild type (green). The commonly up or down-regulated genes in stressed wild type and stressed aak-2 mutants show much higher correlation compared to all genes indicating these genes are not only commonly regulated in wild type and aak-2 mutants against oxidative stress, but also the degree of the expression level changes is overall quite similar. The commonly up or down-regulated genes in stressed wild type and stressed aak-2 mutants and their expression level changes in unstressed aak-2 mutants (orange). A large group of collagens are commonly up-regulated in stressed wild type and stressed aak-2 mutants, but insignificantly changed in unstressed aak-2 mutants as indicated.

Mentions: The correlation between expression level changes of all genes in response to oxidative stress in wild type and aak-2 mutants is shown in Figure 2A (R2 = 0.58). Figure 2B shows genes commonly up or down-regulated in both wild type and aak-2 mutants in response to oxidative stress relative to wild type (as indicated in green). This correlation is very high as indicated by the linear regression (R2 = 0.92). 239 up-regulated genes and 142 down-regulated genes were common to both wild type and aak-2 mutants (Figure 3A, B), and mostly, the degree of expression level changes of these genes in response to oxidative stress were directly comparable between wild type and aak-2 mutants.


Gene expression profiling of oxidative stress response of C. elegans aging defective AMPK mutants using massively parallel transcriptome sequencing.

Shin H, Lee H, Fejes AP, Baillie DL, Koo HS, Jones SJ - BMC Res Notes (2011)

Comparison of gene expression level changes against oxidative stress between wild type and aak-2 mutants. (A) Correlation between gene expression level changes of all genes identified in stressed wild type and stressed aak-2 mutants relative to unstressed wild type. (B) Correlation between gene expression level changes of genes significantly up or down-regulated commonly in stressed wild type and stressed aak-2 mutants relative to unstressed wild type (green). The commonly up or down-regulated genes in stressed wild type and stressed aak-2 mutants show much higher correlation compared to all genes indicating these genes are not only commonly regulated in wild type and aak-2 mutants against oxidative stress, but also the degree of the expression level changes is overall quite similar. The commonly up or down-regulated genes in stressed wild type and stressed aak-2 mutants and their expression level changes in unstressed aak-2 mutants (orange). A large group of collagens are commonly up-regulated in stressed wild type and stressed aak-2 mutants, but insignificantly changed in unstressed aak-2 mutants as indicated.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC3045954&req=5

Figure 2: Comparison of gene expression level changes against oxidative stress between wild type and aak-2 mutants. (A) Correlation between gene expression level changes of all genes identified in stressed wild type and stressed aak-2 mutants relative to unstressed wild type. (B) Correlation between gene expression level changes of genes significantly up or down-regulated commonly in stressed wild type and stressed aak-2 mutants relative to unstressed wild type (green). The commonly up or down-regulated genes in stressed wild type and stressed aak-2 mutants show much higher correlation compared to all genes indicating these genes are not only commonly regulated in wild type and aak-2 mutants against oxidative stress, but also the degree of the expression level changes is overall quite similar. The commonly up or down-regulated genes in stressed wild type and stressed aak-2 mutants and their expression level changes in unstressed aak-2 mutants (orange). A large group of collagens are commonly up-regulated in stressed wild type and stressed aak-2 mutants, but insignificantly changed in unstressed aak-2 mutants as indicated.
Mentions: The correlation between expression level changes of all genes in response to oxidative stress in wild type and aak-2 mutants is shown in Figure 2A (R2 = 0.58). Figure 2B shows genes commonly up or down-regulated in both wild type and aak-2 mutants in response to oxidative stress relative to wild type (as indicated in green). This correlation is very high as indicated by the linear regression (R2 = 0.92). 239 up-regulated genes and 142 down-regulated genes were common to both wild type and aak-2 mutants (Figure 3A, B), and mostly, the degree of expression level changes of these genes in response to oxidative stress were directly comparable between wild type and aak-2 mutants.

Bottom Line: Specifically, we compared the transcriptomes of aak-2 and wild type animals under normal conditions and conditions of induced oxidative stress.The analysis presented in this study has enabled us to identify potential genes involved in stress resistance that may be either directly or indirectly under the control of AAK-2.Furthermore, we have extended our current knowledge of general defense responses of C. elegans against oxidative stress supporting the function for AAK-2 in inhibition of biosynthetic processes, especially lipid synthesis, under oxidative stress and transcriptional regulation of genes involved in reproductive processes.

View Article: PubMed Central - HTML - PubMed

Affiliation: Genome Sciences Centre, BC Cancer Agency, Suite 100 570 West 7th Avenue, Vancouver, British Columbia, Canada V5Z 4S6. sjones@bcgsc.ca.

ABSTRACT

Background: A strong association between stress resistance and longevity in multicellular organisms has been established as many mutations that extend lifespan also show increased resistance to stress. AAK-2, the C. elegans homolog of an alpha subunit of AMP-activated protein kinase (AMPK) is an intracellular fuel sensor that regulates cellular energy homeostasis and functions in stress resistance and lifespan extension.

Findings: Here, we investigated global transcriptional responses of aak-2 mutants to oxidative stress and in turn identified potential downstream targets of AAK-2 involved in stress resistance in C. elegans. We employed massively parallel Illumina sequencing technology and performed comprehensive comparative transcriptome analysis. Specifically, we compared the transcriptomes of aak-2 and wild type animals under normal conditions and conditions of induced oxidative stress. This research has presented a snapshot of genome-wide transcriptional activities that take place in C. elegans in response to oxidative stress both in the presence and absence of AAK-2.

Conclusions: The analysis presented in this study has enabled us to identify potential genes involved in stress resistance that may be either directly or indirectly under the control of AAK-2. Furthermore, we have extended our current knowledge of general defense responses of C. elegans against oxidative stress supporting the function for AAK-2 in inhibition of biosynthetic processes, especially lipid synthesis, under oxidative stress and transcriptional regulation of genes involved in reproductive processes.

No MeSH data available.


Related in: MedlinePlus