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| Status |
Public on Nov 15, 2013 |
| Title |
Cancer-induced Muscle Wasting is IKKβ-dependent and NF-kappaB-independent |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by array
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| Summary |
Existing data suggest that NF-kappaB signaling is a key regulator of cancer-induced skeletal muscle wasting. However, identification of the components of this signaling pathway and of the NF-κB transcription factors that regulate wasting is far from complete. In muscles of C26 tumor bearing mice, overexpression of d.n. IKKβ blocked muscle wasting by 69%, the IκBα-super repressor blocked wasting by 41%. In contrast, overexpression of d.n. IKKα or d.n. NIK did not block C26-induced wasting. Surprisingly, overexpression of d.n. p65 or d.n. c-Rel did not significantly block muscle wasting. Genome-wide mRNA expression arrays showed upregulation of many genes previously implicated in muscle atrophy. To test if these upregulated genes were direct targets of NF-κB transcription factors, we compared genome-wide p65 or p50 binding to DNA in control and cachectic muscle using ChIP-sequencing. Bioinformatic analysis of ChIP-seq data from control and C26 muscles showed increased p65 and p50 binding to a few regulatory and structural genes but only two of these genes were upregulated with atrophy. The p65 and p50 ChIP-seq data are consistent with our finding of no significant change in protein binding to an NF-κB oligo in a gel shift assay. Taken together, these data support the idea that although inhibition of IκBα, and particularly IKKβ, blocks cancer-induced wasting, the alternative NF-κB signaling pathway is not required. In addition, the downstream NF-κB transcription factors do not regulate the transcriptional changes. These data are consistent with the growing body of literature showing that there are NF-κB-independent substrates of IKKβ and IκBα that regulate physiological processes.
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| Overall design |
To compare gene expression changes in atrophied muscles from C26 tumor bearing mice, gastrocnemius/plantaris muscles were harvested from 4 C26 tumor-bearing mice, and 3 control non tumor-bearing mice. Total RNA were isolated and pooled (2-3 muslces in the same group per RNA sample ) to make equal amount of total RNA per sample. Three pooled total RNA samples from healthy control muscles and 3 pooled total RNA from muscles of C26 tumor bearing mice were labelled and hybridized on 6 Mouse Affyemtrix Gene 1.0 ST arrays. Two-side t-tests and multiple test corrections were performed to identify differentially expressed genes due to C26 tumor bearing induced cachexia.
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| Contributor(s) |
Cornwell EW, Mirbod A, Wu C, Kandarian SC, Jackman RW |
| Citation(s) |
24489962 |
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| Submission date |
Jun 27, 2013 |
| Last update date |
Feb 14, 2014 |
| Contact name |
Susan Kandarian |
| E-mail(s) |
[email protected]
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| Organization name |
Boston University
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| Department |
Health Sciences
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| Lab |
Kandarianlab
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| Street address |
635commonwealth ave, Rm444
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| City |
Boston |
| State/province |
MA |
| ZIP/Postal code |
02215 |
| Country |
USA |
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| Platforms (1) |
| GPL11078 |
[MoGene-1_0-st] Affymetrix Mouse Gene 1.0 ST Array [CDF: MoGene10stv1_Mm_ENTREZG_13] |
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| Samples (6)
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| Relations |
| BioProject |
PRJNA209857 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE48363_RAW.tar |
43.3 Mb |
(http)(custom) |
TAR (of CEL) |
| Processed data included within Sample table |
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