Table 3.
Genes associated with the adaptation of Kenshin to HT based on microarray analysis. The selection criteria were (1) intrinsic levels of expression in Kenshin at 22 °C over 2-fold higher than those in Chiifu; and (2) expression levels under both warming and minor-warming conditions at least 2-fold higher in Kenshin than in Chiifu. HSR, heat shock response; TF, transcription factor; SF, splicing factor.
| Classification | At_Locus | Gene Description | Br_SEQ_ID | Expression Level (Probe Intensity) | Fold Change | ||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Chiifu (C) | Kenshin (K) | Intrinsic | Warming | Warming | Minor-W | ||||||||
| 22 °C | 12 °C | 28 °C | 22 °C | 12 °C | 28 °C | K22/C22 | K28/K12 | C28/C12 | K28/K22 | ||||
| HSR | AT2G26150 | Heat shock transcription factor A2 (HSFA2) | Bra000557 * | 68 | 223 | 1256 | 256 | 542 | 1786 | 3.8 | 3.3 | 5.6 | 7.0 |
| AT5G62020 | Heat shock transcription factor B2A (HSFB2A) | Bra029292 * | 385 | 374 | 3164 | 875 | 587 | 3814 | 2.3 | 6.5 | 8.5 | 4.4 | |
| AT4G25200 | Mitochondrion-localized small heat shock protein 23.6 (HSP23.6-MITO) | Bra013872 * | 333 | 323 | 1308 | 984 | 265 | 3551 | 3.0 | 13.4 | 4.0 | 3.6 | |
| AT4G10250 | HSP20-like chaperones superfamily protein (HSP22.0) | Bra027999 * | 27 | 71 | 378 | 85 | 37 | 677 | 3.2 | 18.1 | 5.3 | 7.9 | |
| AT1G54050 | HSP20-like chaperones superfamily protein | Bra030910 * | 827 | 945 | 4041 | 2406 | 2649 | 9204 | 2.9 | 3.5 | 4.3 | 3.8 | |
| AT2G29500 | HSP20-like chaperones superfamily protein | Bra018383 * | 1870 | 2774 | 11,166 | 5211 | 2428 | 19,026 | 2.8 | 7.8 | 4.0 | 3.7 | |
| Bra018384 | 2575 | 5095 | 6789 | 5906 | 5362 | 14,692 | 2.3 | 2.7 | 1.3 | 2.5 | |||
| Bra031725 | 1996 | 4409 | 5909 | 6292 | 5275 | 13,450 | 3.2 | 2.5 | 1.3 | 2.1 | |||
| AT5G51440 | HSP20-like chaperones superfamily protein | Bra029174 * | 406 | 376 | 5772 | 1657 | 292 | 7627 | 4.1 | 26.1 | 15.3 | 4.6 | |
| AT5G59720 | Heat shock protein 18.2 (HSP18.2) | Bra002539 * | 73 | 259 | 747 | 206 | 58 | 5114 | 2.8 | 88.5 | 2.9 | 24.8 | |
| AT5G12020 | 17.6 kDa class II heat shock protein (HSP17.6II) | Bra006137 * | 52 | 271 | 2513 | 909 | 310 | 2036 | 17.6 | 6.6 | 9.3 | 2.2 | |
| AT5G48570 | FKBP-type peptidyl-prolyl cis-trans isomerase family protein (ROF2) | Bra037477 * | 309 | 283 | 4967 | 1632 | 352 | 6607 | 5.3 | 18.8 | 17.6 | 4.0 | |
| AT1G72660 | P-loop containing nucleoside triphosphate hydrolases superfamily protein | Bra016043 * | 212 | 185 | 2034 | 967 | 889 | 2723 | 4.6 | 3.1 | 11.0 | 2.8 | |
| AT5G47830 | Unknown protein | Bra020728 * | 523 | 544 | 4910 | 1310 | 1076 | 4854 | 2.5 | 4.5 | 9.0 | 3.7 | |
| AT3G14200 | Chaperone DnaJ-domain superfamily protein | Bra027363 * | 1333 | 2129 | 5365 | 2857 | 2634 | 7477 | 2.1 | 2.8 | 2.5 | 2.6 | |
| TF | AT2G23690 | HTH-type transcriptional regulator | Bra039208 | 1122 | 1383 | 3449 | 2567 | 1072 | 6076 | 2.3 | 5.7 | 2.5 | 2.4 |
| AT5G56840 | MYB-like transcription factor family protein | Bra002790 * | 89 | 154 | 589 | 251 | 144 | 767 | 2.8 | 5.3 | 3.8 | 3.0 | |
| AT5G52600 | MYB domain protein 82 (MYB82) | Bra029113 | 64 | 334 | 132 | 205 | 371 | 1579 | 3.2 | 4.3 | 0.4 | 7.7 | |
| AT2G24645 | Transcriptional factor B3 family protein | Bra032079 | 43 | 85 | 77 | 182 | 244 | 1013 | 4.3 | 4.2 | 0.9 | 5.6 | |
| AT1G70270 | Transcription factor | Bra007905 | 246 | 797 | 368 | 1127 | 952 | 3529 | 4.6 | 3.7 | 0.5 | 3.1 | |
| AT5G15150 | Homeobox 3 (HB3) | Bra023506 | 197 | 389 | 165 | 389 | 372 | 1184 | 2.0 | 3.2 | 0.4 | 3.0 | |
| AT5G66940 | Dof-type zinc finger DNA-binding family protein | Bra012119 | 488 | 1459 | 209 | 1159 | 983 | 2746 | 2.4 | 2.8 | 0.1 | 2.4 | |
| AT3G62090 | Phytochrome interacting factor 3-like 2 (PIL2/PIF6) | Bra007660 * | 218 | 239 | 537 | 426 | 684 | 1883 | 2.0 | 2.8 | 2.2 | 4.4 | |
| AT5G10970 | C2H2 and C2HC zinc fingers superfamily protein | Bra009000 | 303 | 776 | 668 | 823 | 878 | 2180 | 2.7 | 2.5 | 0.9 | 2.6 | |
| AT1G23380 | KNOTTED1-like homeobox gene 6 (KNAT6) | Bra016348 | 140 | 970 | 475 | 273 | 1004 | 2202 | 2.0 | 2.2 | 0.5 | 8.1 | |
| AT4G18610 | Light-dependent short hypocotyl 9 (LSH9) | Bra021000 | 83 | 85 | 77 | 189 | 112 | 605 | 2.3 | 5.4 | 0.9 | 3.2 | |
| AT2G42610 | Light-dependent short hypocotyl 10 (LSH10) | Bra016865 | 422 | 617 | 197 | 1008 | 1013 | 2079 | 2.4 | 2.1 | 0.3 | 2.1 | |
| SF | AT1G65660 | Pre-mRNA splicing Prp18-interacting factor (SMP1) | Bra023741 | 141 | 232 | 1190 | 664 | 589 | 1712 | 4.7 | 2.9 | 5.1 | 2.6 |
| Others | AT4G36430 | Peroxidase superfamily protein | Bra017761 | 125 | 381 | 182 | 543 | 686 | 2278 | 4.4 | 3.3 | 0.5 | 4.2 |
| AT1G16530 | ASYMMETRIC LEAVES 2-like 9 (LBD3/ASL9) | Bra026042 | 171 | 393 | 272 | 522 | 824 | 1729 | 3.1 | 2.1 | 0.7 | 3.3 | |
| Bra026716 | 209 | 325 | 291 | 454 | 534 | 1063 | 2.2 | 2.0 | 0.9 | 2.3 | |||
| AT5G59670 | Leucine-rich repeat protein kinase family protein | Bra020300 | 129 | 93 | 80 | 288 | 147 | 622 | 2.2 | 4.2 | 0.9 | 2.2 | |
| AT4G19530 | Disease resistance protein (TIR-NBS-LRR class) family | Bra027594 | 158 | 206 | 202 | 532 | 536 | 1591 | 3.4 | 3.0 | 1.0 | 3.0 | |
| AT2G32660 | Receptor like protein 22 (RLP22) | Bra021803 | 163 | 72 | 201 | 960 | 963 | 2013 | 5.9 | 2.1 | 2.8 | 2.1 | |
| AT1G51860 | Leucine-rich repeat protein kinase family protein | Bra030411 | 92 | 75 | 41 | 874 | 1051 | 1992 | 9.5 | 1.9 | 0.5 | 2.3 | |
| AT1G53350 | Disease resistance protein (CC-NBS-LRR class) family | Bra037453 * | 185 | 155 | 420 | 539 | 706 | 1425 | 2.9 | 2.0 | 2.7 | 2.6 | |
| AT4G08570 | Heavy metal transport/detoxification superfamily protein | Bra037865 | 37 | 45 | 505 | 255 | 67 | 2044 | 6.9 | 30.5 | 11.1 | 8.0 | |
| AT5G66110 | Heavy metal transport/detoxification superfamily protein (HIPP27) | Bra009662 | 115 | 329 | 449 | 1102 | 1195 | 7086 | 9.5 | 5.9 | 1.4 | 6.4 | |
| AT1G79360 | Organic cation/carnitine transporter 2 (OCT2) | Bra035111 | 53 | 37 | 23 | 135 | 111 | 568 | 2.5 | 5.1 | 0.6 | 4.2 | |
| AT2G04100 | MATE efflux family protein | Bra015133 | 78 | 181 | 255 | 350 | 510 | 1175 | 4.5 | 2.3 | 1.4 | 3.4 | |
| AT2G35460 | Late embryogenesis abundant (LEA) hydroxyproline-rich glycoprotein family | Bra028562 | 215 | 78 | 879 | 575 | 123 | 2595 | 2.7 | 21.1 | 11.3 | 4.5 | |
| AT2G25450 | 2-oxoglutarate (2OG) and Fe(II)-dependent oxygenase superfamily protein | Bra021671 | 246 | 68 | 240 | 530 | 644 | 5146 | 2.2 | 8.0 | 3.5 | 9.7 | |
| AT1G28030 | 2-oxoglutarate (2OG) and Fe(II)-dependent oxygenase superfamily protein | Bra021552 | 59 | 73 | 121 | 129 | 169 | 1079 | 2.2 | 6.4 | 1.7 | 8.4 | |
| AT2G39310 | Jacalin-related lectin 22 (JAL22) | Bra005053 | 16 | 99 | 45 | 36 | 109 | 826 | 2.3 | 7.6 | 0.5 | 23.1 | |
| AT3G16900 | LURP-one-like protein | Bra021211 | 217 | 205 | 358 | 1035 | 524 | 2674 | 4.8 | 5.1 | 1.7 | 2.6 | |
| AT4G36380 | Cytochrome P450 superfamily protein (ROT3) | Bra011678 * | 52 | 139 | 350 | 395 | 205 | 842 | 7.6 | 4.1 | 2.5 | 2.1 | |
| AT4G24110 | NADP-specific glutamate dehydrogenase | Bra013763 | 92 | 79 | 129 | 204 | 176 | 637 | 2.2 | 3.6 | 1.6 | 3.1 | |
| AT3G51000 | Alpha/beta-Hydrolases superfamily protein | Bra036841 | 69 | 21 | 23 | 676 | 873 | 3074 | 9.8 | 3.5 | 1.1 | 4.5 | |
| AT4G22460 | Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin superfamily protein | Bra013619 | 152 | 251 | 304 | 541 | 555 | 1932 | 3.6 | 3.5 | 1.2 | 3.6 | |
| AT4G13410 | Nucleotide-diphospho-sugar transferases superfamily protein (CSLA15) | Bra008638 | 276 | 385 | 600 | 656 | 523 | 1384 | 2.4 | 2.6 | 1.6 | 2.1 | |
| AT5G40650 | Succinate dehydrogenase 2-2 (SDH2-2) | Bra028469 | 468 | 531 | 545 | 2517 | 2395 | 6064 | 5.4 | 2.5 | 1.0 | 2.4 | |
| AT5G05390 | Laccase 12 (LAC12) | Bra009111 | 279 | 1072 | 1201 | 1118 | 1176 | 2906 | 4.0 | 2.5 | 1.1 | 2.6 | |
| AT3G17820 | Glutamine synthetase 1.3 (GLN1.3) | Bra021276 * | 1197 | 1053 | 2579 | 2798 | 3121 | 7326 | 2.3 | 2.3 | 2.4 | 2.6 | |
| AT5G61260 | Plant calmodulin-binding protein-related | Bra029324 | 256 | 194 | 163 | 811 | 1078 | 2480 | 3.2 | 2.3 | 0.8 | 3.1 | |
| AT5G64870 | SPFH/Band 7/PHB domain-containing membrane-associated protein family | Bra024333 | 270 | 569 | 701 | 559 | 484 | 1113 | 2.1 | 2.3 | 1.2 | 2.0 | |
| AT1G20575 | Nucleotide-diphospho-sugar transferases superfamily protein | Bra025828 | 1293 | 888 | 2710 | 3467 | 3248 | 7310 | 2.7 | 2.3 | 3.1 | 2.1 | |
| AT4G39140 | RING/U-box superfamily protein | Bra025860 | 27 | 27 | 59 | 2422 | 2404 | 5394 | 88.5 | 2.2 | 2.2 | 2.2 | |
| AT3G09260 | Glycosyl hydrolase superfamily protein (BGLU23) | Bra034060 | 278 | 412 | 393 | 1034 | 995 | 2106 | 3.7 | 2.1 | 1.0 | 2.0 | |
| AT3G06550 | O-acetyltransferase family protein | Bra040276 | 250 | 250 | 310 | 492 | 762 | 1570 | 2.0 | 2.1 | 1.2 | 3.2 | |
| AT1G29590 | Eukaryotic initiation factor 4E protein (eIF4E3) | Bra032325 | 299 | 445 | 486 | 1304 | 1365 | 2571 | 4.4 | 1.9 | 1.1 | 2.0 | |
| AT4G19430 | Unknown protein | Bra013396 | 103 | 16 | 42 | 252 | 17 | 726 | 2.5 | 41.6 | 2.7 | 2.9 | |
| NA | NA | Bra012220 | 183 | 112 | 97 | 5190 | 4062 | 11,440 | 28.4 | 2.8 | 0.9 | 2.2 | |
| NA | NA | Bra025861 | 53 | 59 | 147 | 1979 | 1928 | 4522 | 37.3 | 2.3 | 2.5 | 2.3 | |
| NA | NA | Bra010352 | 596 | 604 | 1785 | 4135 | 4187 | 9370 | 6.9 | 2.2 | 3.0 | 2.3 | |
* Gene in Table S13 (genes upregulated in both Chiifu and Kenshin under both minor-warming and warming conditions).