title: Effects of abiotic stress on plants: a systems biology perspective.
abstract: The natural environment for plants is composed of a complex set of abiotic stresses and biotic stresses. Plant responses to these stresses are equally complex. Systems biology approaches facilitate a multi-targeted approach by allowing one to identify regulatory hubs in complex networks. Systems biology takes the molecular parts (transcripts, proteins and metabolites) of an organism and attempts to fit them into functional networks or models designed to describe and predict the dynamic activities of that organism in different environments. In this review, research progress in plant responses to abiotic stresses is summarized from the physiological level to the molecular level. New insights obtained from the integration of omics datasets are highlighted. Gaps in our knowledge are identified, providing additional focus areas for crop improvement research in the future.
authors.affiliation: Department of Biochemistry and Molecular Biology, Mail Stop 330, University of Nevada, Reno, Nevada 89557, USA. cramer@unr.edu
authors.forename: Grant R
authors.initials: GR
authors.lastname: Cramer
authors.forename: Kaoru
authors.initials: K
authors.lastname: Urano
authors.forename: Serge
authors.initials: S
authors.lastname: Delrot
authors.forename: Mario
authors.initials: M
authors.lastname: Pezzotti
authors.forename: Kazuo
authors.initials: K
authors.lastname: Shinozaki
mesh_terms: D018556:Crops, Agricultural / Q000254:growth & development; D004777:Environment; D055442:Metabolome; D063245:Plant Development; D010937:Plant Growth Regulators / Q000502:physiology; D018521:Plant Physiological Phenomena; D020543:Proteome; D013312:Stress, Physiological; D049490:Systems Biology; D059467:Transcriptome
chemical_list: D010937:Plant Growth Regulators; D020543:Proteome
references.citation: Curr Opin Plant Biol. 2010 Jun;13(3):274-9
references.pmid: 20056477
references.citation: Plant Physiol. 2009 Apr;149(4):2000-12
references.pmid: 19211703
references.citation: Science. 2009 May 22;324(5930):1068-71
references.pmid: 19407142
references.citation: Plant Physiol. 2010 Feb;152(2):1096-106
references.pmid: 19923236
references.citation: Plant Cell. 2005 Dec;17(12):3470-88
references.pmid: 16284313
references.citation: EMBO Rep. 2007 Sep;8(9):864-70
references.pmid: 17721444
references.citation: Plant Cell Physiol. 2008 Aug;49(8):1135-49
references.pmid: 18625610
references.citation: Science. 2002 Mar 1;295(5560):1662-4
references.pmid: 11872829
references.citation: Nature. 2007 Aug 23;448(7156):938-42
references.pmid: 17671505
references.citation: Plant Cell. 2006 Jan;18(1):40-54
references.pmid: 16361392
references.citation: BMC Genomics. 2007 Jun 21;8:187
references.pmid: 17584945
references.citation: Plant J. 2009 Jun;58(6):1068-82
references.pmid: 19222804
references.citation: Proc Natl Acad Sci U S A. 2006 Aug 29;103(35):12987-92
references.pmid: 16924117
references.citation: Plant Cell. 2002 Aug;14(8):1675-90
references.pmid: 12172015
references.citation: Plant J. 2008 Feb;53(4):636-44
references.pmid: 18269573
references.citation: Plant Physiol. 2009 Aug;150(4):1972-80
references.pmid: 19502356
references.citation: Plant Physiol. 2010 May;153(1):99-113
references.pmid: 20200070
references.citation: Proc Natl Acad Sci U S A. 2011 Jul 26;108(30):12521-6
references.pmid: 21746919
references.citation: Plant Physiol. 2005 Oct;139(2):806-21
references.pmid: 16183842
references.citation: Plant J. 2010 Sep;63(5):715-27
references.pmid: 20553421
references.citation: Mol Plant. 2010 Mar;3(2):361-73
references.pmid: 20080816
references.citation: Plant Physiol. 2009 Jun;150(2):996-1005
references.pmid: 19339507
references.citation: Proc Natl Acad Sci U S A. 2007 Oct 16;104(42):16450-5
references.pmid: 17923671
references.citation: Curr Opin Biotechnol. 2010 Apr;21(2):197-203
references.pmid: 20363612
references.citation: J Plant Physiol. 2009 Aug 15;166(12):1241-1252
references.pmid: 19307046
references.citation: J Exp Bot. 2007;58(7):1873-92
references.pmid: 17443017
references.citation: Plant Cell Physiol. 2009 Mar;50(3):447-62
references.pmid: 19131357
references.citation: Plant Cell Environ. 2011 Sep;34(9):1488-506
references.pmid: 21554326
references.citation: Proc Natl Acad Sci U S A. 2004 Jul 6;101(27):10205-10
references.pmid: 15199185
references.citation: Plant Physiol. 2003 Jun;132(2):440-52
references.pmid: 12805577
references.citation: J Plant Res. 2011 Jul;124(4):539-48
references.pmid: 21461660
references.citation: Proc Natl Acad Sci U S A. 2010 Sep 7;107(36):15986-91
references.pmid: 20733066
references.citation: Plant Physiol. 1975 Apr;55(4):778-81
references.pmid: 16659166
references.citation: Plant Physiol. 1997 Oct;115(2):317-9
references.pmid: 9342857
references.citation: BMC Bioinformatics. 2009 Oct 21;10:346
references.pmid: 19845953
references.citation: Plant Physiol. 2009 Jul;150(3):1368-79
references.pmid: 19429605
references.citation: Annu Rev Plant Biol. 2006;57:781-803
references.pmid: 16669782
references.citation: J Integr Plant Biol. 2008 Oct;50(10):1187-95
references.pmid: 19017106
references.citation: Plant Physiol. 2005 Jun;138(2):847-57
references.pmid: 15923327
references.citation: Science. 2008 May 16;320(5878):942-5
references.pmid: 18436742
references.citation: Plant Physiol. 2009 Jun;150(2):772-85
references.pmid: 19346439
references.citation: Plant J. 2007 Feb;49(3):463-91
references.pmid: 17217462
references.citation: Plant Physiol. 2004 Dec;136(4):4159-68
references.pmid: 15557093
references.citation: Genome Biol. 2009;10(9):R96
references.pmid: 19754933
references.citation: Trends Plant Sci. 2011 Jun;16(6):300-9
references.pmid: 21482172
references.citation: J Biol Chem. 2010 May 28;285(22):16893-911
references.pmid: 20233714
references.citation: Proc Natl Acad Sci U S A. 1998 Aug 18;95(17):10294-9
references.pmid: 9707641
references.citation: Plant J. 2008 Aug;55(3):526-42
references.pmid: 18419781
references.citation: Mol Syst Biol. 2008;4:193
references.pmid: 18463617
references.citation: BMC Plant Biol. 2008 Dec 24;8:134
references.pmid: 19108716
references.citation: Science. 2011 Jul 29;333(6042):616-20
references.pmid: 21551030
references.citation: Plant Cell Environ. 2009 Dec;32(12):1633-51
references.pmid: 19712066
references.citation: Mol Cell Proteomics. 2008 Sep;7(9):1725-36
references.pmid: 18445580
references.citation: Proc Natl Acad Sci U S A. 2007 Apr 10;104(15):6478-83
references.pmid: 17420480
references.citation: Plant J. 2007 Apr;50(2):347-63
references.pmid: 17376166
references.citation: Nucleic Acids Res. 2006 Jun 28;34(11):3267-78
references.pmid: 16807317
references.citation: BMC Genomics. 2011 May 24;12:264
references.pmid: 21609476
references.citation: Annu Rev Plant Physiol Plant Mol Biol. 1998 Jun;49:199-222
references.pmid: 15012233
references.citation: Plant Physiol. 1995 Mar;107(3):895-904
references.pmid: 7716246
references.citation: Trends Plant Sci. 2009 May;14(5):270-9
references.pmid: 19375376
references.citation: Curr Opin Plant Biol. 2009 Oct;12(5):548-55
references.pmid: 19709924
references.citation: Proteomics. 2009 May;9(9):2503-28
references.pmid: 19343710
references.citation: Plant Cell. 2010 Sep;22(9):2930-42
references.pmid: 20876830
references.citation: BMC Biochem. 2010 Aug 04;11:29
references.pmid: 20684782
references.citation: Genome Res. 2003 Nov;13(11):2498-504
references.pmid: 14597658
references.citation: Plant Physiol. 2009 Jan;149(1):445-60
references.pmid: 18987216
references.citation: Plant J. 2004 Jun;38(6):982-93
references.pmid: 15165189
references.citation: Proc Natl Acad Sci U S A. 2011 Aug 2;108(31):12955-60
references.pmid: 21768351
references.citation: Nat Biotechnol. 2008 Jun;26(6):659-67
references.pmid: 18536691
references.citation: BMC Genomics. 2009 May 08;10:212
references.pmid: 19426499
references.citation: Plant Mol Biol. 2004 Sep;56(1):29-55
references.pmid: 15604727
references.citation: BMC Plant Biol. 2010 Jan 25;10:16
references.pmid: 20100339
references.citation: Proc Natl Acad Sci U S A. 2007 Sep 18;104(38):15150-5
references.pmid: 17823244
references.citation: Plant Physiol. 1997 Jun;114(2):501-509
references.pmid: 12223723
references.citation: Plant J. 2009 Jul;59(2):316-28
references.pmid: 19302419
references.citation: Plant Cell. 2003 Sep;15(9):2165-80
references.pmid: 12953118
references.citation: Plant J. 2009 Mar;57(6):1065-78
references.pmid: 19036030
references.citation: Crit Rev Biotechnol. 2007 Apr-Jun;27(2):63-75
references.pmid: 17578703
references.citation: Proc Natl Acad Sci U S A. 2004 Oct 19;101(42):15243-8
references.pmid: 15383661
references.citation: Bioinformatics. 2010 Dec 1;26(23):2995-6
references.pmid: 20947524
references.citation: Ann Bot. 2010 Feb;105(2):197-203
references.pmid: 20007158
references.citation: Plant J. 2010 Jul 1;63(1):1-17
references.pmid: 20374526
references.citation: Genes Dev. 2000 Aug 15;14(16):2085-96
references.pmid: 10950871
references.citation: FEMS Yeast Res. 2010 Dec;10(8):1046-59
references.pmid: 20977625
references.citation: Plant Cell Physiol. 2010 Nov;51(11):1821-39
references.pmid: 20980270
references.citation: Theor Appl Genet. 2007 Jun;115(1):35-46
references.pmid: 17426956
references.citation: J Agric Food Chem. 2011 Jan 12;59(1):289-97
references.pmid: 21128664
references.citation: Cell. 2006 Sep 22;126(6):1189-201
references.pmid: 16949657
references.citation: Plant J. 2010 Feb;61(4):672-85
references.pmid: 19947981
references.citation: Curr Opin Plant Biol. 2002 Feb;5(1):26-32
references.pmid: 11788304
references.citation: Curr Opin Plant Biol. 2010 Jun;13(3):280-87
references.pmid: 20097120
references.citation: Plant Cell. 2006 May;18(5):1292-309
references.pmid: 16617101
references.citation: Bioinformatics. 2011 Jun 1;27(11):1587-8
references.pmid: 21478195
references.citation: BMC Bioinformatics. 2010 Dec 22;11:607
references.pmid: 21176199
references.citation: Plant Cell Physiol. 2002 Dec;43(12):1473-83
references.pmid: 12514244
references.citation: Science. 2009 May 22;324(5930):1064-8
references.pmid: 19407143
references.citation: Plant J. 2011 Sep;67(5):869-84
references.pmid: 21575090
references.citation: Proteomics. 2011 Feb;11(4):744-55
references.pmid: 21241020
references.citation: Plant Cell. 2002 Feb;14(2):343-57
references.pmid: 11884679
references.citation: J Proteomics. 2011 Dec 10;75(1):100-15
references.pmid: 21835278
references.citation: Plant Physiol. 1967 Mar;42(3):361-5
references.pmid: 16656515
references.citation: Trends Plant Sci. 2009 Sep;14(9):488-96
references.pmid: 19716744
references.citation: Plant Cell Environ. 2008 Apr;31(4):518-47
references.pmid: 18088337
references.citation: Plant J. 2005 Jan;41(1):95-106
references.pmid: 15610352
references.citation: Plant Physiol. 2010 Nov;154(3):1439-59
references.pmid: 20826702
references.citation: Funct Integr Genomics. 2007 Apr;7(2):111-34
references.pmid: 17136344
references.citation: Science. 1982 Oct 29;218(4571):443-8
references.pmid: 17808529
references.citation: BMC Syst Biol. 2008 Feb 04;2:16
references.pmid: 18248680
references.citation: Plant J. 2003 Aug;35(4):490-500
references.pmid: 12904211
references.citation: Plant Signal Behav. 2011 Feb;6(2):210-4
references.pmid: 21325889
references.citation: Plant J. 2008 Oct;56(2):207-218
references.pmid: 18573191
references.citation: Plant Physiol. 2010 Sep;154(1):357-72
references.pmid: 20631317
references.citation: Funct Plant Biol. 2009 May;36(5):383-394
references.pmid: 32688655
references.citation: Plant J. 2011 Jul;67(1):105-18
references.pmid: 21426425
references.citation: Genes Dev. 2010 Aug 15;24(16):1695-708
references.pmid: 20713515
references.citation: Plant Cell. 2010 Aug;22(8):2660-79
references.pmid: 20798329
references.citation: Plant Cell. 2002 Dec;14(12):3089-99
references.pmid: 12468729
references.citation: Trends Plant Sci. 2008 Sep;13(9):474-82
references.pmid: 18701338
references.citation: Plant Sci. 2011 Apr;180(4):604-11
references.pmid: 21421408
references.citation: Funct Integr Genomics. 2007 Oct;7(4):317-33
references.pmid: 17578611
references.citation: Plant Cell Environ. 2010 Apr;33(4):510-25
references.pmid: 19843256
references.citation: Dev Biol. 2007 Apr 1;304(1):367-81
references.pmid: 17258192
references.citation: BMC Syst Biol. 2010 Aug 12;4:111
references.pmid: 20704717
references.citation: Plant Physiol. 2010 Jul;153(3):1161-74
references.pmid: 20466843
references.citation: J Exp Bot. 2002 Mar;53(368):489-503
references.pmid: 11847248
references.citation: BMC Plant Biol. 2010 Nov 22;10:257
references.pmid: 21092180
references.citation: Mol Plant. 2010 May;3(3):469-90
references.pmid: 20507936
references.citation: J Exp Bot. 2011 Jan;62(3):869-82
references.pmid: 21172816
references.citation: Plant J. 2011 Jul;67(2):354-69
references.pmid: 21466600
references.citation: Annu Rev Plant Biol. 2010;61:561-91
references.pmid: 20192751
references.citation: Plant Mol Biol. 2009 Nov;71(4-5):403-23
references.pmid: 19653104