Multiple transcription-factor genes are early targets of phytochrome A signaling - PubMed (original) (raw)

Putative transcription factor genes are the predominant functional class of early-response genes. The expression profile for each of the early-response genes identified here is presented in a separate panel and grouped vertically under functional category (see Table 1 for abbreviations). (A) Induced genes; (B) repressed genes. The 24-h time-course profiles for each gene are shown on the right of each panel for wild-type (blue) and_phyA_-null mutant (red). All profiles are normalized to the maximum value in the time course for that gene. The histograms to the left of each panel show the expression level for each gene at 1 h of FRc in wild-type (blue) and phyA mutant (red) compared with the time-zero dark control wild-type (white) and_phyA_ mutant (yellow). The histogram data represent the means ± standard errors (bars) of triplicate microarray measurements performed on three RNA samples independently prepared from separate tissue samples. All data have been normalized to the maximum value for that gene in the histogram dataset. Encoded-protein names and accession nos.: (A) Early induced genes: TOC1-L, timing of CAB1-like (AAC33497); CCA1, circadian clock-associated protein1 (AAC33507); LHY, late elongated hypocotyl (CAB42406); DOF, H-protein promoter-binding factor-2a (AAC28390); CBF2, CRT/DRE-binding factor 2 (AAD15976); ZF4, putative zinc-finger protein (CAB38816); RAV2-L,_r_elated to_A_BI3/_V_P1–2-like (AAD26965); WRKY6-L, WRKY transcription factor-like (AAB60774); ZF5, zinc-finger protein (CAA67232); CO, constans (CAA71588); CBF1-L, CRT/DRE-binding factor 1-like (CAA18178); ZF2, constans-like zinc finger protein (CAA64819); HY5, (BAA21327); AP2D, putative AP2 domain transcription factor (AAD21489); ZF3, putative CONSTANS-like B-box zinc-finger protein (AAD26481); MYB106, putative Myb-related transcription factor (AAF26160); RPT2, root phototropism 2 (AAB63085); ZF1, zinc-finger protein 1 (AAD33769); FtsH, chloroplast FtsH protease (CAA68141); PRT, choloroplast prenyltransferase (AAD30584); PSY, phytoene synthase (AAA32836); PSII, putative protein 1 photosystem II oxygen-evolving complex (CAB42911); CAB, Lhcb2 protein (AAD28769); βAMY, β-amylase (CAB58423); MgCh, magnesium chelatase subunit (CAA92802); FH3, flavanone 3-hydroxylase (CAB62646); SQE, squalene epoxidase-like protein (CAB38924); GLT, putative glucosyl transferase (AAD20156); PDC, pyruvate decarboxylase (AAB16855); pβAMY, putative β-amylase (CAB58423); SPA1, phyA suppressor (AAD30124); PKS1, phy kinase substrate 1 (AAD38033); EP1, strong similarity to glycoprotein EP1 (AAC83044); PK, putative protein kinase (AAC31848); PEPT, putative peptide transporter (CAB41143); NBDL, NBD-like protein (AAD20643); ATP, ATPase (CAA73318); Pth2, phosphate transporter 2 (CAA66116); NaPiT, putative Na+-dependent inorganic phosphate cotransporter (AAC35230); NO3T, nitrate transporter (CAB38706); GH3L, GH3-like protein (AAD14468); GST, glutathione_S_-transferase (AAD32887); C6.6, cold regulated (CAA38894). Hypothetical and unknown proteins are identified by the last four digits of their protein accession numbers. Full accession numbers are: CAB36531, AAC18798, AAC28507, CAB10322, AAD30224, AAD23044, CAB10248, CAB38264, AAB95293, AAB64331, AAD39279, AAC78524, and AAD32774. (B) Early repressed genes: HAT4 (CAA79670); ATB4, homeodomain transcription factor (ATHB-4) (AAC31833); bHLH, (AAC34226); RIP, ripening-like protein (CAA23067); βEXP, β-expansin (AAD20920). Hypothetical/unknown: (AAD21722). See Tables 2–5, supplemental material, for links to the separate time-course curves for each individual early-response gene, at