High-Throughput Functional Genomic Methods to Analyze the Effects of Dietary Lipids

Laboratory for Functional Genomics, Biological Research Center of the Hungarian Academy of Sciences, Temesvari krt. 62. Szeged, H-6726, Hungary.
Current pharmaceutical biotechnology (Impact Factor: 2.51). 01/2007; 7(6):525-9. DOI: 10.2174/138920106779116801
Source: PubMed


The applications of 'omics' (genomics, transcriptomics, proteomics and metabolomics) technologies in nutritional studies have opened new possibilities to understand the effects and the action of different diets both in healthy and diseased states and help to define personalized diets and to develop new drugs that revert or prevent the negative dietary effects. Several single nucleotide polymorphisms have already been investigated for potential gene-diet interactions in the response to different lipid diets. It is also well-known that besides the known cellular effects of lipid nutrition, dietary lipids influence gene expression in a tissue, concentration and age-dependent manner. Protein expression and post-translational changes due to different diets have been reported as well. To understand the molecular basis of the effects and roles of dietary lipids high-throughput functional genomic methods such as DNA- or protein microarrays, high-throughput NMR and mass spectrometry are needed to assess the changes in a global way at the genome, at the transcriptome, at the proteome and at the metabolome level. The present review will focus on different high-throughput technologies from the aspects of assessing the effects of dietary fatty acids including cholesterol and polyunsaturated fatty acids. Several genes were identified that exhibited altered expression in response to fish-oil treatment of human lung cancer cells, including protein kinase C, natriuretic peptide receptor-A, PKNbeta, interleukin-1 receptor associated kinase-1 (IRAK-1) and diacylglycerol kinase genes by using high-throughput quantitative real-time PCR. Other results will also be mentioned obtained from cholesterol and polyunsaturated fatty acid fed animals by using DNA- and protein microarrays.

Download full-text


Available from: László G Puskás
  • Source
    • "cancer and transcriptomics has used to study intestinal biology (Ross 2007; Culhane and Howlin 2007; Fleet 2007; Schäfer et al., 2007 ). Interrelationship between the food components and the 'omics techniques' (transcriptomics, proteomics, genomics, epigenomics and metabolomics) have a significant influence on the quality of life as measured by both physical and cognitive performance and modify the risk and severity of a variety of cancer diseases conditions (Milner 2007; He 2006; Puskás et al., 2006; Fan et al., 2006; Miles et al., 2006; Davis and Milner 2004). "
    [Show abstract] [Hide abstract]
    ABSTRACT: Genomics deals with the study of genes and their function of all organisms. It is that branch ofomics that leads to an understanding of the molecular mechanisms of genes, diseases, including thecomplex interplay of genetic and environmental factors. It is also important in the development of drugs,design of new drugs, vaccines and DNA diagnostics. Genomics-based therapeutics includes traditionalsmall chemical drugs, protein drugs, and gene therapy. It also refers to the large-scale investigation of thestructure and function of genes. This field also leads to new drug discovery and development, agriculturalsciences and other fields.
    Full-text · Article · Jan 2009
  • Source
    • "Protein microarray platforms should open new possibilities to gain novel insight into the molecular mechanisms underlying nutrient–gene or nutrient–drug interactions (such as grapefruit–cyclosporine interaction). By using the Panorama protein microarray, not only the cholesterol diet-induced protein expression could be analyzed, but also a different phosphorylation pattern could be detected as well (Puskas et al., 2006). This is of great interest in nutrition research. "
    [Show abstract] [Hide abstract]
    ABSTRACT: A key scientific objective of nutrition research is to determine the role of diet in metabolic regulation and to improve health. There are many new opportunities and challenges for the nutrition research in post-genome era. Novel omics technologies and bioinformatics tools offer enormous potential to investigate the complex relationship between nutrition and metabolism. An overview of omics technologies in nutrition research is presented in this paper, which focuses on recent applications of nutritranscriptomics, nutriproteomics and nutrimetabolomics in nutrition research. The potential limitations and future prospects are also discussed. The combination of various omics technologies, systems biology, will greatly facilitate the discovery of new biomarkers associated with specific nutrients or other dietary factors. It can be expected that the future omics-based human nutrition research can provide personalized dietary recommendations for disease prevention.
    Full-text · Article · Mar 2008 · Biotechnology Advances
  • Source

    Full-text · Article · Mar 2008 · Cytometry Part A
Show more