title: Transcriptome profiling reveals differential transcript abundance in response to chilling stress in Populus simonii.
abstract: We report global gene expression patterns of poplar in response to chilling stress. A total of 1,085 significantly differentially expressed genes, involved in photosynthesis, signal transduction, and regulation of transcription, were identified. To understand the gene network underlying the response to chilling stress in the poplar, Populus simonii, we determined the genome transcript expression profile using an Affymetrix GeneChip with 56,000 genes. Our results revealed 11,626 cold-responsive genes, with 5,267 upregulated and 6,359 downregulated. In terms of biological processes, gene ontology (GO) analysis indicated that cold-induced genes were enriched in response to temperature stimulus, reactive oxygen species, and hormone stimulus. GO terms including cellular nitrogen compound metabolic processes, photosynthesis, and generation of precursor metabolites and energy were enriched in the cold-repressed genes. The functional annotation of differentially expressed genes revealed genes involved in photosynthesis, calcium/calmodulin-mediated signal transduction, abscisic acid (ABA) homeostasis and transport, and antioxidant defense systems. Gene expression analysis showed that the majority of genes involved in photosynthesis were repressed, but the THF1 gene was induced, suggesting that it may play an important role in the production of vesicles for leaf development under low-temperature conditions. Several genes involved in calcium/calmodulin-mediated signal transduction, ABA homeostasis and transport, and antioxidant defense systems were significantly induced under chilling stress, suggesting that they may act as positive regulators in the enhanced low-temperature tolerance of poplar. Several transcription factors had divergent expression patterns, suggesting they have variable functional responses to abiotic stress. This profile of global gene expression patterns during chilling stress will be valuable for future studies on the molecular mechanisms of chilling tolerance in woody plants.
authors: National Engineering Laboratory for Tree Breeding, College of Biological Sciences and Technology, Beijing Forestry University, No. 35, Qinghua East Road, Beijing 100083, People's Republic of China. forward1985@163.com
authors: Yuepeng
authors: Y
authors: Song
authors: Qingqing
authors: Q
authors: Chen
authors: Dong
authors: D
authors: Ci
authors: Deqiang
authors: D
authors: Zhang
mesh_terms: D003080:Cold Temperature; D020869:Gene Expression Profiling; D018506:Gene Expression Regulation, Plant; D010788:Photosynthesis / Q000235:genetics; D032107:Populus / Q000235:genetics*; D015398:Signal Transduction / Q000235:genetics; D013312:Stress, Physiological; D014157:Transcription Factors / Q000235:genetics; D059467:Transcriptome
chemical_list: D014157:Transcription Factors
references: BMC Plant Biol. 2010 Jul 17;10:150
references: 20637123
references: Biochim Biophys Acta. 2012 Feb;1819(2):120-8
references: 21964328
references: Trends Plant Sci. 2003 Oct;8(10):505-12
references: 14557048
references: Annu Rev Plant Physiol Plant Mol Biol. 1999 Jun;50:571-599
references: 15012220
references: Plant J. 2003 Dec;36(5):602-15
references: 14617062
references: Trends Plant Sci. 2002 Sep;7(9):405-10
references: 12234732
references: Trends Plant Sci. 2005 Feb;10(2):63-70
references: 15708343
references: Mol Biol Evol. 2003 May;20(5):735-47
references: 12679534
references: Plant Mol Biol. 2010 Jun;73(3):251-69
references: 20157764
references: Plant J. 2009 Nov;60(4):703-15
references: 19682285
references: J Exp Bot. 2011 May;62(8):2679-89
references: 21252258
references: Silence. 2010 Jul 12;1(1):15
references: 20624295
references: Trends Plant Sci. 2002 Mar;7(3):106-11
references: 11906833
references: Plant Cell. 2010 Jan;22(1):221-33
references: 20081115
references: Plant Cell. 2002 Aug;14(8):1675-90
references: 12172015
references: Planta. 2011 Jun;233(6):1237-52
references: 21336597
references: Biochem J. 2009 Dec 14;425(1):27-40
references: 20001960
references: Plant Physiol. 2004 Nov;136(3):3594-604
references: 15516501
references: Plant J. 2004 Mar;37(6):914-39
references: 14996223
references: Plant Cell Physiol. 2001 May;42(5):462-8
references: 11382811
references: Plant Cell. 2002;14 Suppl:S15-45
references: 12045268
references: Nature. 2000 Aug 17;406(6797):731-4
references: 10963598
references: Brief Funct Genomic Proteomic. 2008 Jul;7(4):264-74
references: 18632743
references: Proc Natl Acad Sci U S A. 2004 Mar 16;101(11):3985-90
references: 15004278
references: Plant J. 2003 Feb;33(4):691-705
references: 12609042
references: J Plant Physiol. 2009 Sep 15;166(14):1544-56
references: 19464753
references: Plant J. 2006 Nov;48(3):321-41
references: 17005011
references: Plant Physiol. 2012 Feb;158(2):737-46
references: 22186608
references: Biochem Biophys Res Commun. 2009 Jan 16;378(3):483-7
references: 19032934
references: BMC Res Notes. 2012 Nov 08;5:625
references: 23134977
references: EMBO J. 2004 Jul 21;23(14):2872-81
references: 15215895
references: EMBO J. 2001 Oct 15;20(20):5556-67
references: 11597999
references: Mol Gen Genet. 1994 Aug 15;244(4):331-40
references: 8078458
references: Plant Cell Rep. 2012 Aug;31(8):1393-405
references: 22476437
references: Plant Sci. 2012 Jun;188-189:48-59
references: 22525244
references: Plant Physiol. 2009 Aug;150(4):1648-55
references: 19420325
references: Proc Natl Acad Sci U S A. 1998 Dec 8;95(25):14863-8
references: 9843981
references: J Biol Chem. 2005 Apr 1;280(13):12168-80
references: 15632145
references: Plant Cell Physiol. 2010 Nov;51(11):1821-39
references: 20980270
references: Plant Physiol. 2010 Feb;152(2):1015-29
references: 20018603
references: Trends Plant Sci. 2007 May;12(5):217-23
references: 17416545
references: Plant Cell. 2009 Sep;21(9):2624-41
references: 19794114
references: Annu Rev Plant Physiol Plant Mol Biol. 1998 Jun;49:249-279
references: 15012235
references: Plant J. 2003 Nov;36(4):457-70
references: 14617077
references: Plant J. 2006 Mar;45(6):968-81
references: 16507087
references: Plant Biol (Stuttg). 2004 Jan-Feb;6(1):81-90
references: 15095138
references: Annu Rev Plant Physiol Plant Mol Biol. 1999 Jun;50:601-639
references: 15012221
references: Tree Physiol. 2003 May;23(7):481-7
references: 12670802
references: Nat Biotechnol. 1999 Mar;17(3):287-91
references: 10096298
references: Cell. 2002 Aug 9;110(3):361-71
references: 12176323
references: Plant Cell. 1996 Mar;8(3):489-503
references: 8721751