Table IV. Microarray analysis of tt16 RNAi plants: genes involved in auxin signal transduction and transport in 2-DAF siliques of tt16 RNAi plants.
Microarray data were analyzed using the open-source R statistical programming language and Bioconductor packages with P < 0.01 (Gentleman et al., 2004; R Development Core Team 2010). GO, Gene Ontology categories.
| Gene Name | Gene Identifier | Arabidopsis Genome Initiative Locus Identifier | Ratio | P Value | Description |
|---|---|---|---|---|---|
| IAA27 | EV128512 | AT4G29080 | 3.49 | 0.0005 | IAA inducible27 (IAA27); GO: regulation of translation, response to auxin stimulus |
| WXR1 | TA34132_3708 | AT2G31190 | 2.95 | 0.0002 | Weak auxin response1 (WXR1); GO: auxin polar transport, response to UV-B |
| PIN3 | TC103218 | AT1G70940 | 1.62 | 0.0031 | Pin-formed3 (PIN3); GO: auxin polar transport |
| TIR3 | EV025801 | AT3G02260 | 1.57 | 0.0015 | Transport inhibitor response3 (TIR3); GO: auxin polar transport, response to auxin stimulus |
| ILR1 | TC102010 | AT3G02875 | 1.34 | 0.0026 | IAA-Leu resistant1 (ILR1); GO: auxin metabolic process, metabolic process, proteolysis |
| ARF8 | TC64476 | AT5G37020 | 1.14 | 0.0029 | Auxin response factor8 (ARF8); GO: regulation of transcription, response to auxin stimulus |
| IAA13 | CX187822 | AT2G33310.3 | 1.04 | 0.0007 | Auxin-induced protein13 (IAA13); GO: regulation of transcription, response to auxin stimulus |
| MYB15 | TC91892 | AT3G23250 | 0.84 | 0.0025 | Myb domain protein15 (MYB15); GO: regulation of transcription, response to auxin stimulus |
| ARF17 | EE455835 | AT1G77850 | −3.94 | 0.0003 | Auxin response factor17 (ARF17); GO: auxin-mediated signaling pathway, regulation of transcription |
| RBX1 | TC92162 | AT5G20570 | −2.57 | 0.0002 | RING box1 (RBX1); GO: protein ubiquitination, response to auxin stimulus |
| Auxin homeostasis gene | CD818157 | AT2G32410 | −2.07 | 0.0026 | Auxin homeostasis; GO: auxin homeostasis, auxin-mediated signaling pathway |
| BRX | EE465134 | AT1G31880 | −1.76 | 0.0018 | Brevis radix (BRX); GO: auxin-mediated signaling pathway |
| ETA3 | DY002982 | AT4G11260 | −1.26 | 0.0016 | Enhancer of tir1-1 auxin resistance3 (ETA3); GO: auxin-mediated signaling pathway |
| AXR1 | TC75767 | AT1G05180 | −1.21 | 0.0007 | Auxin resistant1 (AXR1); GO: auxin homeostasis, auxin-mediated signaling pathway |
| CNX1 | CD836602 | AT5G20990 | −1.16 | 0.0022 | Molybdopterin biosynthesis protein (CNX1); GO: auxin-mediated signaling pathway |
| GH3 | EE455254 | AT4G03400 | −1.1 | 0.0015 | Auxin-responsive GH3 family protein (GH3); GO: response to auxin stimulus, response to light stimulus |
| TIR1 | ES900600 | AT3G62980 | −0.94 | 0.0018 | Transport inhibitor response1 (TIR1); GO: auxin-mediated signaling pathway, response to auxin stimulus |