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Table 1 List of TFs inferred by the linear model to play a regulatory role during cold stress with significant p-values (<1e-03)

From: Bioinformatics identification of new targets for improving low temperature stress tolerance in spring and winter wheat

TF family TFs Symbol Description References p-value
AP2/EREBP, APETALA2/Ethylene-responsive element binding protein family Ta.27144.1.S1_A_at RAP2.12 RAP2.12, RELATED TO AP2 12 New, [60] 5.0e-09
TaAffx.122374.1.A1_at CBFIVa-A2 Cluster: CBFIVa-A2; n = 1; Triticum aestivum [6, 24] 1.0e-12
TaAFFX.98930.1.A1_at CBFIIId-12 DREB1A, CBF3, ATCBF3 | dehydration response element B1A [6, 10, 24] 1.0e-12
Ta.22822.1.S1_X_at RAP2.3 RAP2.3, ATEBP, ERF72, EBP | ethylene-responsive element New, [60] 1.0e-12
TaAFFX.1024.1.A1_at CBFIIId-B19 DREB1A, CBF3, ATCBF3 | dehydration response element B1A [6, 10, 24] 1.0e-12
Ta.2781.1.S1_at CBF1 AP2/EREBP type transcription factor; n = 1 [6, 10, 24] 1.0e-12
Ta.25843.1.A1_at CBF2 C repeat-binding factor 2 [6, 10, 14, 24] 1.0e-12
Ta.13471.1.S1_at CBFII-5.2 Dehy-responsive element-binding protein 1C [6, 10, 24] 5.0e-08
TaAffx.15675.1.A1_at TmCBF7 TmCBF7; n = 1; Triticum monococcum [24] 5.0e-08
TaAffx.114399.1.S1_s_at CBFIIIc-B10 CRT/DRE binding factor 10 [6, 10, 24] 5.0e-08
TaAffx.86939.1.S1_at HvCBF7 HvCBF7; n = 1; TINY2; encodes a member of the DREB subfamily [24] 1.0e-03
Ta.350.1.A1_s_at TaCBF6 Cluster: TaCBF6; n = 1; Triticum aestivum [24] 5.0e-08
TaAffx.43752.1.A1_at CBFIIIc-D3 Cluster: CBFIIIc-D3; n = 1; Triticum aestivum [6, 10, 24] 5.0e-08
TaAffx.28024.1.S1_at CBFIVd-B9 Dehy-responsive element-binding protein 1B [6, 24] no 1.0e-03
Ta.5304.1.S1_at RAP2.1 AP2 domain containing protein RAP2.1 [6] 1.0e-03
TaAffx.23008.1.S1_at RAP2.6 related to AP2 6 l [6] 1.0e-03
bHLH,Basic Helix-Loop-Helix family TaAFFX.18844.1.S1_at ICE1 inducer of CBF expression 1 [6, 24, 51] 1.0e-12
TaAffx.12752.1.S1_s_at ICE2 SCRM2, ICE2 | basic helix-loop-helix (bHLH) [6, 51] 6.3e-08
TaAffx.12752.1.S1_at ICE2 inducer of CBF expression 2 [6, 51] 6.3e-08
HB,Homeobox TF Ta.6874.1.A1_at HOS3 HOS3 protein [66] 1.6e-10
CCAAT box binding factor TA.27414.1.S1_AT NF-YA6 NF-YA6 | nuclear factor Y, subunit A6 New 1.0e-03
TA.1817.1.S1_AT NF-YA5 NFYA5, NF-YA5 | nuclear factor Y, subunit A5 New 1.0e-03
MYB domain transcription factor family TA.5251.1.A1_AT MYBAS1 Myb-related protein MYBAS1 New 1.0e-03
TA.26049.1.S1_A_AT MYB1/MYB4 Transcription factor Myb1 [55] 1.0e-03
TA.5405.1.S1_X_AT MYB15 MYB15 | myb domain protein 15 [6, 24] 3.9e-04
MYB-related transcription factor family TA.25744.1.S1_AT EPR1 EPR1, RVE7 | Homeodomain-like superfamily New 7.9e-07
TA.7524.1.A1_AT LHY LHY | Homeodomain-like superfamily protein New 1.0e-03
TA.8661.1.S1_AT MCB2 MCB2 protein New 1.0e-03
WRKY domain transcription factor family TA.16082.1.A1_A_AT WRKY1 WRKY transcription factor; n = 1 New, [58, 59]  
TA.16082.1.A1_AT     1.0e-03
TA.4678.2.S1_AT WRKY1 WRKY transcription factor; n = 1 New, [58, 59] 1.0e-03
TAAFFX.64818.1.S1_AT WRKY48 WRKY48 | WRKY DNA-binding protein 48 New, [58, 59] 1.0e-03
Pseudo Regulatory Response (PRR ) TA.13464.1.S1_S_AT PRR1 Two-component response regulator-like PRR1 [56, 57] 1.0e-03
TA.29499.1.A1_AT PRR1 Two-component response regulator-like PRR1 [56, 57] 1.0e-03
Regulatory response (RR) Ta.10408.1.S1_at RR6 Cluster response regulator 6 [52] 7.9e-07
Ta.11777.1.S1_X_at RR2 Cluster: ZmRR2 protein [52] 7.9e-07
Chromatin Remodeling TA.16121.2.S1_AT SWI/SNF SWI/SNF-related matrix-associated actin-dependent regulator of chromatin New 1.5e-11
AS2 Ta.7384.2.S1_A_at DUF260 Seed specific protein Bn15D17A, DUF260 [6] 1.0e-03
TaAFFX.3993.1.S1_at DUF260 Cluster: Predicted protein; n = 1, DUF260 [6] 1.0e-03
C2H2 zinc finger family TA.103.1.S1_AT ZAT10 Cluster: Zinc finger protein 1; n = 1 [6] 6.3e-08
TA.29449.1.S1_S_AT ZOS3 Cluster: Zinc finger protein 1; n = 1 [6, 24] 6.3e-08
TaAffx.130052.1.S1_at ZAT12 Cluster: C2H2 zinc finger protein; n = 1 [6, 14] 1.0e-03
  TAAFFX.98004.1.S1_AT A20/AN1-like A20/AN1-like zinc finger family proteinSTRESS ASSOCIATED P1 [66] 1.0e-03
Ta.6076.1.S1_at ESK1 ESK1, TBL29 | Plant protein of unknown function (DUF828) [10, 54] 1.0e-12
Ta.7191.1.A1_at ELO2 ELO2, ABO1 | IKI3 family protein [66] 1.6e-10
Ta.26723.1.A1_at SIZ1 ATSIZ1/SIZ1, putative, expressed [6] 1.0e-03
Ta.13279.1.S1_a_at EIN3 EIN3-binding F box protein 1 [52] 1.0e-03
TaAffx.36731.1.S1_at EIN4 Protein EIN4 n = 1 Tax = Arabidopsis thaliana [52] 1.0e-03
TaAffx.32271.2.S1_at LOS2 Enolase; n = 1; Oryza sativa Indica Group [6] 1.0e-03
Ta.26244.1.S1_at MSL5 mechanosensitive channel of small conductance-like 5 New 7.9e-07
Ta.7091.1.S1_at P5CS2 P5CS2 | delta 1-pyrroline-5-carboxylate synthase 2 [10, 49] 1.0e-03
  1. “New” entry in column References indicates that the association between this TF and cold stress is a new discovery in this study