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["Table S19. List of the “guide genes” of nine subnetwork, and their related information."]
["Module","GO term and discriptin","Guide genes","Putative homologue","Function of homologue","Reference"]
["Cyan","BP_GO:0010208: pollen wall assembly (10), 6.77×10-13","TabHLH216","OsbHLH005/TDR1","Regulate Pollen Development","(1)"]
[null,null,"TabHLH217","OsbHLH005/TDR1"]
[null,null,"TabHLH218","OsbHLH005/TDR1"]
[null,null,"TabHLH219","OsbHLH005/TDR1"]
[null,null,"TabHLH220","OsbHLH005/TDR1"]
[null,null,"TabHLH221","OsbHLH005/TDR1"]
[null,null,"TabHLH333","OsbHLH141/EAT1/DTD1","Promotes tapetal cell death","(2)"]
[null,null,"TabHLH335","OsbHLH141/EAT1/DTD1"]
["Darkmagenta","BP_GO:0006952: defense response (45), 2.75×10-15","TabHLH156","OsbHLH036; AtbHLH051"]
[null,null,"TabHLH157","OsbHLH036; AtbHLH051"]
[null,null,"TabHLH337","AtbHLH095/ZOU; ZmbHLH139/ZmZHOUPI","Control embryonic cuticle formation","(3, 4)"]
[null,null,"TabHLH479","OsbHLH172/BU1/ILI4","Involved in Brassinosteroid Signaling","(5, 6)"]
["Darkorange","BP_GO:0009059: macromolecule biosynthetic process (906), 1.23×10-147","TabHLH096","OsbHLH084"]
[null,null,"TabHLH097","OsbHLH084"]
[null,null,"TabHLH203","AtbHLH093/NFL","Promotes flowering","(7)"]
[null,null,"TabHLH204","AtbHLH093/NFL"]
[null,null,"TabHLH205","AtbHLH093/NFL"]
[null,null,"TabHLH340","OsbHLH142/TIP2","Regulate Pollen Development","(1, 8)"]
[null,null,"TabHLH516"]
[null,null,"TabHLH530","AtbHLH156/LHW","Regulation of the root vascular initial population","(9)"]
[null,null,"TabHLH531","AtbHLH156/LHW"]
[null,null,"TabHLH532","AtbHLH156/LHW"]
["Ivory","BP_GO:0006568: tryptophan metabolic process (20), 9.07×10-17","TabHLH324","OsbHLH030"]
["Lightgreen","BP_GO:0030417: nicotianamine metabolic process (24), 2.21×10-27","TabHLH171","OsbHLH037","Response to drought stress","(10)"]
[null,null,"TabHLH173","OsbHLH037"]
[null,null,"TabHLH311","AtbHLH029/FIT","Regulate Iron Homeostasis","(11)"]
[null,null,"TabHLH312","AtbHLH029/FIT"]
[null,null,"TabHLH313","AtbHLH029/FIT"]
[null,null,"TabHLH342","OsbHLH073; AtbHLH068","Regulate ABA homeostasis and drought stress tolerance","(12)"]
[null,null,"TabHLH355","OsbHLH068"]
[null,null,"TabHLH356","OsbHLH068"]
[null,null,"TabHLH357","OsbHLH068"]
[null,null,"TabHLH454","OsbHLH056/IRO2","Improve iron utilization","(13)"]
[null,null,"TabHLH455","OsbHLH056/IRO2"]
[null,null,"TabHLH456","OsbHLH056/IRO2"]
[null,null,"TabHLH457","OsbHLH056/IRO2"]
[null,null,"TabHLH458","OsbHLH056/IRO2"]
[null,null,"TabHLH459","OsbHLH056/IRO2"]
["Lightsteelblue1","BP_GO:0006468: protein phosphorylation (114), 6.27×10-11","TabHLH298","ZmbHLH097","Required for anthocyanin upregulation","(14)"]
[null,null,"TabHLH565","OsbHLH187","EnhAnce drought tolerance","(15)"]
["Magenta","BP_GO:0042545: cell wall modification (18), 6.77×10-12","TabHLH225","OsbHLH167; AtbHLH014"]
["Orange","BP_GO:0034641: cellular nitrogen compound metabolic process (318), 1.49×10-62","TabHLH246","OsbHLH013; OsbHLH014; AtbHLH001; AtbHLH002; AtbHLH012","Regulate Jasmonate-Mediated Anthocyanin Accumulation","(16)"]
[null,null,"TabHLH554","OsbHLH187","Enhance drought tolerance","(15)"]
[null,null,"TabHLH559","OsbHLH187"]
["Purple","BP_GO:0006979: response to oxidative stress (173), 2.63×10-72","TabHLH259"]
[null,null,"TabHLH317","OsbHLH025/DPF ","biosynthesis of diterpenoid phytoalexins","(24)"]
[null,null,"TabHLH343","OsbHLH073; AtbHLH068","Regulate ABA homeostasis and drought stress tolerance","(12)"]
[null,null,"TabHLH471","OsbHLH173/ILI7","Mediate Brassinosteroid Regulation of Cell Elongation","(16)"]
[null,null,"TabHLH473","OsbHLH173/ILI7"]
[null,null,"TabHLH527","OsbHLH188"]
[null,null,"TabHLH550","OsbHLH187","EnhAnce drought tolerance","(15)"]
["Turquoise","BP_GO:0009628: response to abiotic stimulus (42), 9.24×10-07","TabHLH052","AtbHLH043/HEC3","Regulate female reproductive tract development","(17)"]
[null,null,"TabHLH053","AtbHLH043/HEC3"]
[null,null,"TabHLH054","AtbHLH043/HEC3"]
[null,null,"TabHLH080","AtPIF4/5; OsbHLH101","Promote hypocotyl growth","(18, 19)"]
[null,null,"TabHLH081","AtPIF4/5; OsbHLH101"]
[null,null,"TabHLH142","AtbHLH130/AKS3/FBH4","Regulate stomatal Opening;   Control expression of flowering regulator (CO)","(20, 21, 22)"]
[null,null,"TabHLH143","AtbHLH130/AKS3/FBH4"]
[null,null,"TabHLH369","OsbHLH065; AtbHLH154","Could be targeget by DELLA","(23)"]
[null,null,"TabHLH370","OsbHLH065; AtbHLH154"]
[null,null,"TabHLH402","OsbHLH058; AtbHLH105/ILR3","Regulate Iron Homeostasis","(11)"]
[]
[]
["(1) The bHLH142 Transcription Factor Coordinates with TDR1 to Modulate the Expression of EAT1 and Regulate Pollen Development in Rice."]
["(2) EAT1 promotes tapetal cell death by regulating aspartic proteases during male reproductive development in rice."]
["(3) ZHOUPI controls embryonic cuticle formation via a signalling pathway involving the subtilisin protease ABNORMAL LEAF-SHAPE1 and the receptor kinases GASSHO1 and GASSHO2."]
["(4) ZmZHOUPI, an endosperm-specific basic helix–loop–helix transcription factor involved in maize seed development."]
["(5) BRASSINOSTEROID UPREGULATED1, Encoding a Helix-Loop-Helix Protein, Is a Novel Gene Involved in Brassinosteroid Signaling and Controls Bending of the Lamina Joint in Rice."]
["(6) Antagonistic HLH/bHLH Transcription Factors Mediate Brassinosteroid Regulation of Cell Elongation and Plant Development in Rice and Arabidopsis."]
["(7) NO FLOWERING IN SHORT DAY (NFL) is a bHLH transcription factor that promotes flowering specifically under short-day conditions in Arabidopsis."]
["(8) The Rice Basic Helix-Loop-Helix Transcription Factor TDR INTERACTING PROTEIN2 Is a Central Switch in Early Anther Development."]
["(9) Regulation of the Arabidopsis root vascular initial population by LONESOME HIGHWAY."]
["(10) Comparative transcriptome sequencing of tolerant rice introgression line and its parents in response to drought stress."]
["(11) Two bHLH Transcription Factors, bHLH34 and bHLH104, Regulate Iron Homeostasis in Arabidopsis thaliana."]
["(12) AtbHLH68 transcription factor contributes to the regulation of ABA homeostasis and drought stress tolerance in Arabidopsis thaliana."]
["(13) OsIRO2 is responsible for iron utilization in rice and improves growth and yield in calcareous soil."]
["(14) A full-length R-like basic-helix-loop-helix transcription factor is required for anthocyanin upregulation whereas the N-terminal region regulates epidermal hair formation."]
["(15) A novel gene OsAHL1 improves both drought avoidance and drought tolerance in rice."]
["(16) The Jasmonate-ZIM-Domain Proteins Interact with the WD-Repeat/bHLH/MYB Complexes to Regulate Jasmonate-Mediated Anthocyanin Accumulation and Trichome Initiation in Arabidopsis thaliana."]
["(17) The HECATE genes regulate female reproductive tract development in Arabidopsis thaliana."]
["(18) PIF4-controlled auxin pathway contributes to hybrid vigor in Arabidopsis thaliana."]
["(19) HOS1 Facilitates the Phytochrome B-Mediated Inhibition of PIF4 Function during Hypocotyl Growth in Arabidopsis."]
["(20) bHLH Transcription Factors That Facilitate K+ Uptake During Stomatal Opening Are Repressed by Abscisic Acid Through Phosphorylation."]
["(21) CFLAP1 and CFLAP2 Are Two bHLH Transcription Factors Participating in Synergistic Regulation of AtCFL1-Mediated Cuticle Development in Arabidopsis."]
["(22) FLOWERING BHLH transcriptional activators control expression of the photoperiodic flowering regulator CONSTANS in Arabidopsis."]
["(23) The ERF11 Transcription Factor Promotes Internode Elongation by Activating Gibberellin Biosynthesis and Signaling."]
["(24) Diterpenoid phytoalexin factor, a bHLH transcription factor, plays a central role in the biosynthesis of diterpenoid phytoalexins in rice."]