Dynamic Resolution of Functionally Related Gene Sets in Response to Acute Heat Stress

Overview

Journal BMC Mol Biol

Publisher Biomed Central

Specialty Molecular Biology

Date 2007 Jun 7

PMID 17550601

Citations 10

Authors

Joseph D Szustakowski

Penelope A Kosinski

Christine A Marrese

Jee-Hyung Lee

Stephen J Elliman

Nanguneri Nirmala

Daniel M Kemp

Affiliations

Soon will be listed here.

Abstract

Background: Using a gene clustering strategy we determined intracellular pathway relationships within skeletal myotubes in response to an acute heat stress stimuli. Following heat shock, the transcriptome was analyzed by microarray in a temporal fashion to characterize the dynamic relationship of signaling pathways.

Results: Bioinformatics analyses exposed coordination of functionally-related gene sets, depicting mechanism-based responses to heat shock. Protein turnover-related pathways were significantly affected including protein folding, pre-mRNA processing, mRNA splicing, proteolysis and proteasome-related pathways. Many responses were transient, tending to normalize within 24 hours.

Conclusion: In summary, we show that the transcriptional response to acute cell stress is largely transient and proteosome-centric.

Citing Articles

Effects of thermal interventions on skeletal muscle adaptations and regeneration: perspectives on epigenetics: a narrative review.

Normand-Gravier T, Solsona R, Dablainville V, Racinais S, Borrani F, Bernardi H Eur J Appl Physiol. 2024; 125(2):277-301.

PMID: 39607529 PMC: 11829912. DOI: 10.1007/s00421-024-05642-9.

Cis-regulatory control of transcriptional timing and noise in response to estrogen.

Ginley-Hidinger M, Abewe H, Osborne K, Richey A, Kitchen N, Mortenson K Cell Genom. 2024; 4(5):100542.

PMID: 38663407 PMC: 11099348. DOI: 10.1016/j.xgen.2024.100542.

-regulatory control of transcriptional timing and noise in response to estrogen.

Ginley-Hidinger M, Abewe H, Osborne K, Richey A, Kitchen N, Mortenson K bioRxiv. 2023; .

PMID: 36993565 PMC: 10054948. DOI: 10.1101/2023.03.14.532457.

Identification of Novel mRNA Isoforms Associated with Acute Heat Stress Response Using RNA Sequencing Data in Sprague Dawley Rats.

Dou J, Sammad A, Canovas A, Schenkel F, Usman T, Muniz M Biology (Basel). 2022; 11(12).

PMID: 36552250 PMC: 9774719. DOI: 10.3390/biology11121740.

Transcriptome response to heat stress in a chicken hepatocellular carcinoma cell line.

Sun L, Lamont S, Cooksey A, McCarthy F, Tudor C, Vijay-Shanker K Cell Stress Chaperones. 2015; 20(6):939-50.

PMID: 26238561 PMC: 4595433. DOI: 10.1007/s12192-015-0621-0.

References

Zahradka P, Harding G, Litchie B, Thomas S, Werner J, Wilson D . Activation of MMP-2 in response to vascular injury is mediated by phosphatidylinositol 3-kinase-dependent expression of MT1-MMP. Am J Physiol Heart Circ Physiol. 2004; 287(6):H2861-70. DOI: 10.1152/ajpheart.00230.2004. View

Hunter R, Kandarian S . Disruption of either the Nfkb1 or the Bcl3 gene inhibits skeletal muscle atrophy. J Clin Invest. 2004; 114(10):1504-11. PMC: 525738. DOI: 10.1172/JCI21696. View

Conboy I, Rando T . Aging, stem cells and tissue regeneration: lessons from muscle. Cell Cycle. 2005; 4(3):407-10. DOI: 10.4161/cc.4.3.1518. View

Collins C, Olsen I, Zammit P, Heslop L, Petrie A, Partridge T . Stem cell function, self-renewal, and behavioral heterogeneity of cells from the adult muscle satellite cell niche. Cell. 2005; 122(2):289-301. DOI: 10.1016/j.cell.2005.05.010. View

Tsujino H, Kondo E, Fukuoka T, Dai Y, Tokunaga A, Miki K . Activating transcription factor 3 (ATF3) induction by axotomy in sensory and motoneurons: A novel neuronal marker of nerve injury. Mol Cell Neurosci. 2000; 15(2):170-82. DOI: 10.1006/mcne.1999.0814. View

Sehl P, Tai J, Hillan K, Brown L, Goddard A, Yang R . Application of cDNA microarrays in determining molecular phenotype in cardiac growth, development, and response to injury. Circulation. 2000; 101(16):1990-9. DOI: 10.1161/01.cir.101.16.1990. View

Bodine S, Latres E, Baumhueter S, Lai V, Nunez L, Clarke B . Identification of ubiquitin ligases required for skeletal muscle atrophy. Science. 2001; 294(5547):1704-8. DOI: 10.1126/science.1065874. View

Gomes M, Lecker S, Jagoe R, Navon A, GOLDBERG A . Atrogin-1, a muscle-specific F-box protein highly expressed during muscle atrophy. Proc Natl Acad Sci U S A. 2001; 98(25):14440-5. PMC: 64700. DOI: 10.1073/pnas.251541198. View

Katagiri T, Imada M, Yanai T, Suda T, Takahashi N, Kamijo R . Identification of a BMP-responsive element in Id1, the gene for inhibition of myogenesis. Genes Cells. 2002; 7(9):949-60. DOI: 10.1046/j.1365-2443.2002.00573.x. View

10.

Storey J, Tibshirani R . Statistical methods for identifying differentially expressed genes in DNA microarrays. Methods Mol Biol. 2003; 224:149-57. DOI: 10.1385/1-59259-364-X:149. View

11.

Nakagomi S, Suzuki Y, Namikawa K, Kiryu-Seo S, Kiyama H . Expression of the activating transcription factor 3 prevents c-Jun N-terminal kinase-induced neuronal death by promoting heat shock protein 27 expression and Akt activation. J Neurosci. 2003; 23(12):5187-96. PMC: 6741209. View

12.

Mootha V, Lindgren C, Eriksson K, Subramanian A, Sihag S, Lehar J . PGC-1alpha-responsive genes involved in oxidative phosphorylation are coordinately downregulated in human diabetes. Nat Genet. 2003; 34(3):267-73. DOI: 10.1038/ng1180. View

13.

Patti M, Butte A, Crunkhorn S, Cusi K, Berria R, Kashyap S . Coordinated reduction of genes of oxidative metabolism in humans with insulin resistance and diabetes: Potential role of PGC1 and NRF1. Proc Natl Acad Sci U S A. 2003; 100(14):8466-71. PMC: 166252. DOI: 10.1073/pnas.1032913100. View

14.

Storey J, Tibshirani R . Statistical significance for genomewide studies. Proc Natl Acad Sci U S A. 2003; 100(16):9440-5. PMC: 170937. DOI: 10.1073/pnas.1530509100. View

15.

Mason M, Lieberman A, Anderson P . Corticospinal neurons up-regulate a range of growth-associated genes following intracortical, but not spinal, axotomy. Eur J Neurosci. 2003; 18(4):789-802. DOI: 10.1046/j.1460-9568.2003.02809.x. View

16.

Charge S, Rudnicki M . Cellular and molecular regulation of muscle regeneration. Physiol Rev. 2004; 84(1):209-38. DOI: 10.1152/physrev.00019.2003. View

17.

Zhao P, Hoffman E . Embryonic myogenesis pathways in muscle regeneration. Dev Dyn. 2004; 229(2):380-92. DOI: 10.1002/dvdy.10457. View

18.

Sandri M, Sandri C, Gilbert A, Skurk C, Calabria E, Picard A . Foxo transcription factors induce the atrophy-related ubiquitin ligase atrogin-1 and cause skeletal muscle atrophy. Cell. 2004; 117(3):399-412. PMC: 3619734. DOI: 10.1016/s0092-8674(04)00400-3. View

19.

Stitt T, Drujan D, Clarke B, Panaro F, Timofeyva Y, Kline W . The IGF-1/PI3K/Akt pathway prevents expression of muscle atrophy-induced ubiquitin ligases by inhibiting FOXO transcription factors. Mol Cell. 2004; 14(3):395-403. DOI: 10.1016/s1097-2765(04)00211-4. View

20.

Kamei Y, Miura S, Suzuki M, Kai Y, Mizukami J, Taniguchi T . Skeletal muscle FOXO1 (FKHR) transgenic mice have less skeletal muscle mass, down-regulated Type I (slow twitch/red muscle) fiber genes, and impaired glycemic control. J Biol Chem. 2004; 279(39):41114-23. DOI: 10.1074/jbc.M400674200. View