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Genomic and proteomic profiling of oxidative stress response in human diploid fibroblasts

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Abstract

A number of lines of evidence suggest that senescence of normal human diploid fibroblasts (HDFs) in culture is relevant to the process of aging in vivo. Using normal human skin diploid fibroblasts, we examine the changes in genes and proteins following treatment with a mild dose of H2O2, which induces premature senescence. Multidimensional Protein Identification Technology (MudPIT) in combination with mass spectrometry analyses of whole cell lysates from HDFs detected 65 proteins in control group, 48 proteins in H2O2-treated cells and 109 proteins common in both groups. In contrast, cDNA microarray analyses show 173 genes up-regulated and 179 genes down-regulated upon H2O2 treatment. Both MudPIT and cDNA microarray analyses indicate that H2O2 treatment caused elevated levels of thioredoxin reductase 1. Semi-quantitative RT-PCR and Western-blot were able to verify the finding. Out of a large number of genes or proteins detected, only a small fraction shows the overlap between the outcomes of microarray versus proteomics. The low overlap suggests the importance of considering proteins instead of transcripts when investigating the gene expression profile altered by oxidative stress.

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Acknowledgments

Work in our laboratory has been supported by NIH ES010826, HL076530 and ES007091 (QMC). We thank the Proteomics Facility Core of Southwest Environmental Health Sciences Center (ES06694) for LC-MS/MS analyses, and the Genomics and Bioinformatics facilities supported jointly by the Arizona Cancer Center (P30CA23074) and the Southwest Environmental Health Sciences Center (ES06694) for microarray analyses.

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Authors and Affiliations

  1. Department of Pharmacology, College of Medicine, University of Arizona, 1501 N. Campbell Ave., Tucson, AZ, 85724, USA

    Lifang Xie, Beibei Xu & Qin M. Chen

  2. Bioinformatics Core, Arizona Cancer Center, Tucson, AZ, 85724, USA

    Ritu Pandey

  3. Proteomics Core Facility, Southwest Environmental Health Sciences Center, Tucson, AZ, 85721, USA

    George Tsaprailis

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  1. Lifang Xie
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  2. Ritu Pandey
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Correspondence to Qin M. Chen.

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Xie, L., Pandey, R., Xu, B. et al. Genomic and proteomic profiling of oxidative stress response in human diploid fibroblasts. Biogerontology 10, 125–151 (2009). https://doi.org/10.1007/s10522-008-9157-3

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