Genomic and Proteomic Approaches in Comparative Biochemistry and Physiology*

Emerging technologies in genomics (e.g., cDNA library screening, DNA arrays), proteomics (e.g., two‐dimensional gel electrophoresis and mass‐spectroscopy fingerprinting), and metabolic regulation (e.g., elucidating protein‐protein binding associations or signal transduction pathways) offer powerful tools for comparative biochemistry that will greatly increase our understanding of how animals adapt to environmental stress. The power of these new technologies and their potential application for physiological and ecophysiological research are illustrated with examples of recent advances in key fields. These include hypoxia/anoxia‐responsive gene expression, the actions and regulation of the hypoxia‐inducible transcription factor, the central role of the AMP‐dependent kinase in mediating cellular responses to changing energy status, mammalian target of rapamycin mediation of nutrient signals in the control of protein synthesis and growth, proteomics approaches to identifying the physiological substrates of protein kinases, and the interactions of biochemistry and physiology in determining a net organismal response to high hematocrit values stimulated by erythropoietin. In particular, gene‐ and protein‐screening technologies will drive a fundamental shift in the way that environmental stress effects on metabolism are evaluated by providing a holistic overview of the responses of a huge range of cell functions to stress and allowing researchers to identify multiple new areas of metabolic response that contribute to biochemical and physiological adaptation.

[1]  M. Goldberg,et al.  Inhibition of Hypoxia-inducible Factor 1 Activation by Carbon Monoxide and Nitric Oxide , 1999, The Journal of Biological Chemistry.

[2]  T. Haystead,et al.  Proteomic Analysis of Calcium/Calmodulin-dependent Protein Kinase I and IV in Vitro Substrates Reveals Distinct Catalytic Preferences* 210 , 2003, The Journal of Biological Chemistry.

[3]  D. Hardie,et al.  AMP-activated protein kinase: the guardian of cardiac energy status. , 2004, The Journal of clinical investigation.

[4]  K. Storey,et al.  Anoxia-induced transcriptional upregulation of sarp-19: cloning and characterization of a novel EF-hand containing gene expressed in hepatopancreas of Littorina littorea. , 2004, Biochemistry and cell biology = Biochimie et biologie cellulaire.

[5]  T. Gorr,et al.  Regulation of Drosophila Hypoxia-inducible Factor (HIF) Activity in SL2 Cells , 2004, Journal of Biological Chemistry.

[6]  M. Gassmann,et al.  Hypoxia and High Altitude , 2003 .

[7]  D. Hardie,et al.  Management of cellular energy by the AMP‐activated protein kinase system , 2003, FEBS letters.

[8]  K. Storey Strategies for exploration of freeze responsive gene expression: advances in vertebrate freeze tolerance. , 2004, Cryobiology.

[9]  Johannes Vogel,et al.  Transgenic mice overexpressing erythropoietin adapt to excessive erythrocytosis by regulating blood viscosity. , 2003, Blood.

[10]  K. Esser,et al.  Mechanotransduction and the regulation of protein synthesis in skeletal muscle , 2004, The Proceedings of the Nutrition Society.

[11]  K. Esser,et al.  Mechanical stimuli regulate rapamycin-sensitive signalling by a phosphoinositide 3-kinase-, protein kinase B- and growth factor-independent mechanism. , 2004, The Biochemical journal.

[12]  M. Gassmann,et al.  Hypoxia and high altitude. The molecular response. , 2003, Advances in experimental medicine and biology.

[13]  M. Thomashow,et al.  Arabidopsis Transcriptome Profiling Indicates That Multiple Regulatory Pathways Are Activated during Cold Acclimation in Addition to the CBF Cold Response Pathway Online version contains Web-only data. Article, publication date, and citation information can be found at www.plantcell.org/cgi/doi/10.1 , 2002, The Plant Cell Online.

[14]  Kenneth B. Storey,et al.  Accumulation and translation of ferritin heavy chain transcripts following anoxia exposure in a marine invertebrate , 2004, Journal of Experimental Biology.

[15]  Patrick F. Dillon,et al.  Functional Metabolism: Regulation and Adaptation , 2005 .

[16]  T. Gorr,et al.  Hypoxia-induced Synthesis of Hemoglobin in the Crustacean Daphnia magna Is Hypoxia-inducible Factor-dependent* , 2004, Journal of Biological Chemistry.