Gene expression profiling of hypoxia signaling in human hepatocellular carcinoma cells

1 Department of Biochemistry and Molecular Biology 2 Graduate Program in Genetics, Michigan State University, East Lansing, Michigan 3 The Genomics Institute of the Novartis Research Foundation, San Diego, California 4 National Food Safety and Toxicology Center 5 Center for Integrative Toxicology, Michigan State University, East Lansing, Michigan Cellular, local, and organismal responses to low O 2 availability occur during processes such as anaerobic metabolism and wound healing and pathological conditions such as stroke and cancer. These responses include increases in glycolytic activity, vascularization, breathing, and red blood cell production. These responses are mediated in part by the hypoxia-inducible factors (HIFs), which receive information on O 2 levels from a group of iron- and O 2 -dependent hydroxylases. Hypoxia mimics, such as cobalt chloride, nickel chloride, and deferoxamine, act to simulate hypoxia by altering the iron status of these hydroxylases. To determine whether these mimics are appropriate substitutes for the lower O 2 tension evoked naturally, we compared transcriptional responses of a Hep3B cell line using high-density oligonucleotide arrays. A battery of core genes was identified that was shared by all four treatments (hypoxia, cobalt, nickel, and deferoxamine) including glycolytic enzymes, cell cycle regulators, and apoptotic genes. Importantly, cobalt, nickel, and deferoxamine influenced transcription of distinct sets of genes that were not affected by cellular hypoxia. These global responses to hypoxia indicate a balancing act between adaptation and programmed cell death and suggest caution in the use of hypoxia mimics as substitutes for the low O 2 tension that occurs in vivo. Affymetrix array; Hep3B; genomics; hepatocellular carcinoma