Table 2.
aSelected differentially expressed trichome-related leaf ESTs detected by RNA sequencing of hairy AtGL3+ B. napus and ultra-hairy K-5-8 relative to semi-glabrous Westar
| Gene ID | Arabidopsis homologue | bFPKM Hairy line (Sample 1) | FPKM Westar (Sample 2) | clog2 (FC-S1/S2) | P_value |
|---|---|---|---|---|---|
| Hairy AtGL3+ B. napus relative to semi-glabrous Westar | |||||
| Bra016164 | AT1G71030,ATMYBL2,MYBL2, MYB like 2 | 91.65 | 7.27 | 3.66 | 5.63E-04 |
| Bo7g096780 | AT5G24520,TTG1,TTG,URM23,ATTTG1, Transducin WD40 repeat like superfamily protein | 7.26 | 0.58 | 3.64 | 2.95E-03 |
| Bo6g014160 | AT1G71030,ATMYBL2,MYBL2, MYB like 2 | 32.04 | 2.91 | 3.46 | 6.66E-04 |
| Bo6g046840 | AT1G79840,GL2, HD ZIP IV family of homeo, leucine zipper protein with lipid binding START domain | 7.61 | 0.86 | 3.14 | 9.69E-03 |
| Bo3g025000 | AT2G31110, Plant protein of unknown function DUF828 | 2.20 | 19.66 | −3.16 | 1.97E-03 |
| Bra016578 | AT1G17920,HDG12, homeodomain GLABROUS 12 | 0.38 | 6.02 | −4.00 | 2.94E-03 |
| Ultra-hairy K-5-8 relative to semi-glabrous Westar | |||||
| Bra003535 | AT1G79840,GL2, HD ZIP IV family of homeo, leucine zipper protein with lipid binding START domain | 1.60 | 0.31 | 2.38 | 6.03E-03 |
| Bra016164 | AT1G71030,ATMYBL2,MYBL2, MYB like 2 | 88.18 | 7.27 | 3.60 | 0.00E+00 |
| Bo6g014160 | AT1G71030,ATMYBL2,MYBL2, MYB like 2 | 30.33 | 2.91 | 3.38 | 3.95E-10 |
| Bo6g046840 | AT1G79840,GL2, HD ZIP IV family of homeo, leucine zipper protein with lipid binding START domain | 3.37 | 0.86 | 1.96 | 4.15E-03 |
| Bo2g070770 | AT1G71030,ATMYBL2,MYBL2, MYB like 2 | 10.86 | 2.86 | 1.93 | 3.70E-04 |
| Bo9g083130 | AT5G52510,SCL8, SCARECROW like 8 | 9.11 | 2.41 | 1.92 | 1.45E-09 |
| Bra028312 | AT5G52510,SCL8, SCARECROW like 8 | 5.34 | 1.61 | 1.73 | 9.64E-05 |
| Bo8g080200 | AT3G50800, unknown protein | 13.53 | 4.47 | 1.60 | 4.35E-03 |
| Bra036862 | AT3G50800, unknown protein | 24.99 | 11.63 | 1.10 | 2.16E-03 |
| Bra024875 | AT2G01570,RGA1,RGA, GRAS family transcription factor family protein | 33.57 | 20.95 | 0.68 | 1.11E-03 |
| Bo3g013120 | AT5G18410,PIR,KLK,PIR121,SRA1,PIRP,ATSRA1, transcription activators | 6.06 | 9.65 | −0.67 | 1.01E-02 |
| Bo4g039020 | AT2G35110,GRL,NAP1,NAPP, transcription activators | 9.66 | 15.68 | −0.70 | 2.44E-03 |
| Bo1g078380 | AT3G48750,CDKA;1,CDC2AAT,CDK2,CDC2,CDC2A,CDKA1, cell division control 2 | 12.99 | 22.38 | −0.78 | 1.01E-02 |
| Bra018866 | AT1G50660, unknown protein | 3.55 | 6.17 | −0.80 | 2.53E-03 |
| Bo6g010070 | AT1G73360,HDG11,EDT1,ATHDG11, homeodomain GLABROUS 11 | 6.82 | 11.97 | −0.81 | 3.04E-03 |
| Bra009218 | AT5G06700,TBR, Plant protein of unknown function DUF828 | 4.02 | 7.27 | −0.86 | 7.21E-04 |
| Bo8g077280 | AT3G48750,CDKA;1,CDC2AAT,CDK2,CDC2,CDC2A,CDKA1, cell division control 2 | 8.26 | 15.62 | −0.92 | 6.49E-04 |
| Bra036731 | AT1G33240,AT GTL1,AT GTL2,GTL1, GT 2 like 1 AT1G33240,AT GTL1,AT GTL2,GTL1, GT 2 like 1 AT1G33240,AT GTL1,AT GTL2,GTL1, GT 2 like 1 AT1G33240,AT GTL1,AT GTL2,GTL1, GT 2 like 1 | 5.78 | 10.96 | −0.92 | 1.90E-03 |
| Bo2g096060 | AT1G80350,ERH3,AAA1,FRA2,LUE1,ATKTN1,KTN1,FRC2, FTR, P loop containing nucleoside triphosphate hydrolases superfamily protein | 9.78 | 19.03 | −0.96 | 8.26E-03 |
| Bra018036 | AT3G48750,CDKA;1,CDC2AAT,CDK2,CDC2,CDC2A,CDKA1, cell division control 2 | 6.23 | 12.17 | −0.97 | 7.66E-04 |
| Bo8g027460, Bo8g027470 | AT1G33240,AT GTL1,AT GTL2,GTL1, GT 2 like 1 | 11.99 | 23.41 | −0.97 | 2.44E-03 |
| Bo6g077400 | AT1G33240,AT GTL1,AT GTL2,GTL1, GT 2 like 1 AT1G33240,AT GTL1,AT GTL2,GTL1, GT 2 like 1 AT1G33240,AT GTL1,AT GTL2,GTL1, GT 2 like 1 AT1G33240,AT GTL1,AT GTL2,GTL1, GT 2 like 1 | 20.53 | 40.86 | −0.99 | 3.56E-05 |
| Bo7g040300 | AT3G23590,RFR1,MED33A, REF4 related 1 | 5.03 | 10.02 | −0.99 | 2.13E-04 |
| Bra040010 | AT1G33240,AT GTL1,AT GTL2,GTL1, GT 2 like 1 AT1G33240,AT GTL1,AT GTL2,GTL1, GT 2 like 1 AT1G33240,AT GTL1,AT GTL2,GTL1, GT 2 like 1 AT1G33240,AT GTL1,AT GTL2,GTL1, GT 2 like 1 | 9.77 | 21.52 | −1.14 | 1.30E-05 |
| Bo6g049350 | AT3G61150,HDG1,HD GL2 1, homeodomain GLABROUS 1 | 3.11 | 7.35 | −1.24 | 4.85E-07 |
| Bra003439 | AT3G61150,HDG1,HD GL2 1, homeodomain GLABROUS 1 | 2.67 | 6.62 | −1.31 | 8.62E-06 |
| Bo7g116660 | AT4G34160,CYCD3;1,CYCD3, CYCLIN D3 | 1.86 | 4.68 | −1.33 | 2.01E-03 |
| Bra005177 | AT2G37630,ATPHAN,AS1,ATMYB91,MYB91, myb like HTH transcriptional regulator family protein | 5.35 | 13.47 | −1.33 | 1.04E-08 |
| Bo5g021100 | AT1G15570,CYCA2;3, CYCLIN A2 | 6.64 | 17.09 | −1.36 | 7.19E-06 |
| Bo5g136400 | AT3G11540,SPY, Tetratricopeptide repeat TPR like superfamily protein | 8.20 | 21.31 | −1.38 | 2.98E-08 |
| Bra035000 | AT3G44200,ATNEK6,NEK6,NIMA never in mitosis, gene A related 6 | 1.09 | 2.85 | −1.39 | 1.68E-05 |
| Bra026120 | AT1G15570,CYCA2;3, CYCLIN A2 | 1.96 | 5.24 | −1.42 | 1.13E-05 |
| Bo8g039430 | AT4G14970, unknown protein | 0.91 | 2.52 | −1.47 | 2.17E-03 |
| Bo3g001470 | AT5G01360,TBL3, Plant protein of unknown function DUF828 | 0.69 | 2.39 | −1.79 | 2.15E-03 |
| Bo7g093130 | AT5G28640,AN3,GIF,GIF1,ATGIF1, SSXT family protein | 1.55 | 5.52 | −1.83 | 3.19E-03 |
| Bo1g007590 | AT4G34160,CYCD3;1,CYCD3, CYCLIN D3 | 2.71 | 10.20 | −1.91 | 1.34E-08 |
| Bra011501 | AT4G34160,CYCD3;1,CYCD3, CYCLIN D3 | 1.27 | 4.78 | −1.92 | 6.07E-06 |
| Bo8g067530 | AT1G17920,HDG12, homeodomain GLABROUS 12 | 1.26 | 5.93 | −2.24 | 3.38E-11 |
| Bra022827 | AT2G31110, Plant protein of unknown function DUF828 | 0.73 | 3.66 | −2.32 | 4.54E-04 |
| Bo3g024610 | AT2G30432,TCL1, Homeodomain like superfamily protein | 8.99 | 49.82 | −2.47 | 6.37E-05 |
| Bra016578 | AT1G17920,HDG12, homeodomain GLABROUS 12 | 1.09 | 6.02 | −2.47 | 1.07E-06 |
| Bra000011 | AT2G37630,ATPHAN,AS1,ATMYB91,MYB91, myb like HTH transcriptional regulator family protein | 2.77 | 17.22 | −2.64 | 1.41E-09 |
| Bo3g025000 | AT2G31110, Plant protein of unknown function DUF828 | 1.82 | 19.66 | −3.43 | 0.00E+00 |
aGenes were selected by screening RNA sequencing data for 50 common trichome genes described in [61]. Expression changes in 65 less common differentially expressed trichome genes are also found in Additional file 2: Table S2A (statistically different expression from Westar) and Additional file 2: Table S2B (not statistically different). b FPKM Fragment Per Kilobase of exon per Million fragments mapped. clog2 FC-S1/S2, log2 of the fold change (hairy leaf sample 1/semi-glabrous leaf sample 2). P_value indicates significant differences of the means of a hairy line relative to the semi-glabrous Westar line