title: Caenorhabditis elegans metabolic gene regulatory networks govern the cellular economy.
abstract: Diet greatly impacts metabolism in health and disease. In response to the presence or absence of specific nutrients, metabolic gene regulatory networks sense the metabolic state of the cell and regulate metabolic flux accordingly, for instance by the transcriptional control of metabolic enzymes. Here, we discuss recent insights regarding metazoan metabolic regulatory networks using the nematode Caenorhabditis elegans as a model, including the modular organization of metabolic gene regulatory networks, the prominent impact of diet on the transcriptome and metabolome, specialized roles of nuclear hormone receptors (NHRs) in responding to dietary conditions, regulation of metabolic genes and metabolic regulators by miRNAs, and feedback between metabolic genes and their regulators.
authors.affiliation: Program in Systems Biology, Program in Molecular Medicine, University of Massachusetts Medical School, 55 North Lake Ave, Worcester, MA, 01655, USA.
authors.forename: Emma
authors.initials: E
authors.lastname: Watson
authors.affiliation: Program in Systems Biology, Program in Molecular Medicine, University of Massachusetts Medical School, 55 North Lake Ave, Worcester, MA, 01655, USA. Electronic address: marian.walhout@umassmed.edu.
authors.forename: Albertha J M
authors.initials: AJ
authors.lastname: Walhout
mesh_terms: D000818:Animals; D017173:Caenorhabditis elegans / Q000235:genetics* / Q000502:physiology; D029742:Caenorhabditis elegans Proteins / Q000235:genetics* / Q000502:physiology; D002477:Cells / Q000378:metabolism*; D004032:Diet; D005786:Gene Expression Regulation; D053263:Gene Regulatory Networks / Q000235:genetics* / Q000502:physiology; D006801:Humans
chemical_list: D029742:Caenorhabditis elegans Proteins
keywords: C. elegans; bacteria; gene expression; gene regulatory network; life history traits; metabolic network; nuclear hormone receptors; nutrient response; transcription
references.citation: Physiol Rev. 2006 Apr;86(2):465-514
references.pmid: 16601267
references.citation: Protein Cell. 2012 Oct;3(10):726-38
references.pmid: 23055040
references.citation: Genes Dev. 2004 Sep 1;18(17):2120-33
references.pmid: 15314028
references.citation: PLoS One. 2013 Jul 26;8(7):e69956
references.pmid: 23922869
references.citation: FASEB J. 2010 Dec;24(12):4977-88
references.pmid: 20732954
references.citation: Genome Res. 2004 Oct;14(10B):2162-8
references.pmid: 15489339
references.citation: Cell. 2013 Mar 28;153(1):240-52
references.pmid: 23540701
references.citation: ACS Chem Biol. 2012 Dec 21;7(12):2012-8
references.pmid: 23043523
references.citation: Science. 2004 Jan 23;303(5657):540-3
references.pmid: 14704431
references.citation: Diabetes Care. 2004 May;27(5):1047-53
references.pmid: 15111519
references.citation: Genome Res. 2013 Jun;23(6):954-65
references.pmid: 23539137
references.citation: Curr Biol. 2013 Apr 8;23(7):607-13
references.pmid: 23499532
references.citation: Cell. 2006 Mar 24;124(6):1209-23
references.pmid: 16529801
references.citation: Steroids. 2013 Feb;78(2):127-36
references.pmid: 23178257
references.citation: Nature. 2013 May 23;497(7450):503-6
references.pmid: 23644454
references.citation: PLoS One. 2012;7(9):e46140
references.pmid: 23029411
references.citation: Genome Res. 2011 May;21(5):645-57
references.pmid: 21324878
references.citation: PLoS Biol. 2005 Feb;3(2):e53
references.pmid: 15719061
references.citation: PLoS Biol. 2011 Mar;9(3):e1000599
references.pmid: 21423649
references.citation: Curr Biol. 2012 Dec 4;22(23):2213-20
references.pmid: 23141108
references.citation: Aging Cell. 2012 Apr;11(2):192-202
references.pmid: 22081913
references.citation: BMC Biol. 2012 Jul 31;10:67
references.pmid: 22849329
references.citation: PLoS Genet. 2013 Aug;9(8):e1003737
references.pmid: 24009527
references.citation: Cell. 2014 Feb 13;156(4):759-70
references.pmid: 24529378
references.citation: Cell Metab. 2014 Jan 7;19(1):73-83
references.pmid: 24411940
references.citation: Mech Dev. 2006 Sep;123(9):689-701
references.pmid: 16920335
references.citation: PLoS Genet. 2006 Jul;2(7):e108
references.pmid: 16839188
references.citation: Proc Natl Acad Sci U S A. 2009 Nov 3;106(44):18668-73
references.pmid: 19828440
references.citation: Science. 2009 Apr 3;324(5923):95-8
references.pmid: 19342589
references.citation: Biochem Biophys Res Commun. 2008 Sep 12;374(1):49-54
references.pmid: 18616929
references.citation: Mol Genet Metab. 2014 Mar;111(3):331-341
references.pmid: 24445252
references.citation: Aging Cell. 2013 Feb;12(1):130-8
references.pmid: 23173729
references.citation: Nat Cell Biol. 2013 Jun;15(6):668-76
references.pmid: 23604316
references.citation: Arch Dis Child. 2006 Nov;91(11):896-9
references.pmid: 16690699
references.citation: Cell Metab. 2014 Feb 4;19(2):221-31
references.pmid: 24440036
references.citation: Curr Biol. 2010 Nov 23;20(22):R965-9
references.pmid: 21093785
references.citation: Cell. 2013 Mar 28;153(1):253-66
references.pmid: 23540702
references.citation: Genes Dev. 2009 Feb 15;23(4):496-511
references.pmid: 19240135
references.citation: Cell. 2013 Feb 14;152(4):818-30
references.pmid: 23415229
references.citation: Mol Cell Endocrinol. 2011 Mar 1;334(1-2):49-55
references.pmid: 20438802
references.citation: J Proteome Res. 2011 Mar 4;10(3):990-1003
references.pmid: 21275419
references.citation: Science. 2002 Aug 30;297(5586):1551-5
references.pmid: 12202830
references.citation: Nature. 2003 Jan 16;421(6920):231-7
references.pmid: 12529635
references.citation: Science. 2013 Sep 20;341(6152):1404-8
references.pmid: 24052309
references.citation: Proc Nutr Soc. 1999 Aug;58(3):609-13
references.pmid: 10604193
references.citation: Curr Diabetes Rev. 2010 Nov;6(6):400-9
references.pmid: 20879970
references.citation: PLoS One. 2009 Oct 21;4(10):e7545
references.pmid: 19844570
references.citation: Curr Opin Struct Biol. 2004 Jun;14(3):283-91
references.pmid: 15193307
references.citation: PLoS Genet. 2013;9(7):e1003651
references.pmid: 23935515
references.citation: J Gastroenterol Hepatol. 2013 Aug;28 Suppl 1:125-31
references.pmid: 23855308
references.citation: Mol Genet Metab. 2010 Jul;100(3):274-82
references.pmid: 20400348
references.citation: Mol Cell. 2013 Jul 11;51(1):116-27
references.pmid: 23791784
references.citation: Cell Metab. 2013 Aug 6;18(2):212-24
references.pmid: 23931753
references.citation: J Exp Biol. 2003 Jul;206(Pt 14):2441-57
references.pmid: 12796460
references.citation: Pharmacol Rev. 2003 Dec;55(4):649-73
references.pmid: 14657421
references.citation: PLoS Genet. 2012;8(4):e1002645
references.pmid: 22511885
references.citation: Cell. 2006 Jun 16;125(6):1193-205
references.pmid: 16777607
references.citation: Science. 1998 Dec 11;282(5396):2012-8
references.pmid: 9851916
references.citation: Mol Syst Biol. 2010 May 11;6:367
references.pmid: 20461074
references.citation: PLoS Genet. 2011 Jul;7(7):e1002179
references.pmid: 21814518
references.citation: J Exp Biol. 2006 Jan;209(Pt 1):89-102
references.pmid: 16354781
references.citation: Mol Biosyst. 2013 Jul;9(7):1632-42
references.pmid: 23475189
references.citation: BMC Genomics. 2012 Jan 20;13:36
references.pmid: 22264337
references.citation: PLoS Genet. 2009 Jun;5(6):e1000503
references.pmid: 19503598
references.citation: Nucleic Acids Res. 2001 Jan 1;29(1):82-6
references.pmid: 11125056
references.citation: Nat Rev Mol Cell Biol. 2013 Mar;14(3):133-9
references.pmid: 23361334
references.citation: PLoS Genet. 2010 Aug 05;6(8):
references.pmid: 20700440
references.citation: Adv Nutr. 2013 Jul 01;4(4):439-52
references.pmid: 23858092
references.citation: PLoS One. 2010 Mar 25;5(3):e9869
references.pmid: 20360843