Table 2 |
|||||||||
| DEGs and highly transcribed genes related to ion transport * | |||||||||
| GeneID | C21 RPKM | T43 RPKM | Fold change | Homologous species | GeneID | C21 RPKM | T43 RPKM | Fold change | Homologous species |
| HKT1 | SOS | ||||||||
| Ug20631 | 28.6 | 9.5 | −1.6 | P. trichocarpa | Ug798 | 27.2 | 34.5 | +0.3 | C. quinoa |
| Ug4890 | 139.4 | 64.2 | −1.1 | P. trichocarpa | Ug35995 | 0.5 | 0.0 | −8.9 | C. quinoa |
| Ug27586 | 70.8 | 30.8 | −1.2 | M. crystallinum | Ug35827 | 3.4 | 0.9 | −1.9 | M. crystallinum |
| CNGC | NHX | ||||||||
| Ug3965 | 141.8 | 101.0 | −0.5 | A. thaliana | Ug20634 | 23.2 | 44.6 | +0.9 | C. reticulata |
| Ug7183 | 112.6 | 86.2 | −0.4 | G. hirsutum | Ug5272 | 10.1 | 23.7 | +1.2 | S. komarovii |
| Ug24497 | 9.8 | 4.6 | −1.1 | A. lyrata | Ug8445 | 47.3 | 39.3 | −0.3 | M. crystallinum |
| Ug61678 | 0.0 | 3.2 | +11.7 | A. lyrata | Ug752 | 28.7 | 21.7 | −0.4 | T. tetragonioides |
| Ug54762 | 0.0 | 0.8 | +9.6 | A. lyrata | Nha-like protein | ||||
| Ug39788 | 1.3 | 0.0 | −10.3 | V. vinifera | Ug16859 | 223.0 | 311.2 | +0.5 | T. octandrum |
| KUP | V-H+-ATPase | ||||||||
| Ug14170 | 231.6 | 124.1 | −0.9 | V. vinifera | Ug63112 | 0.0 | 0.3 | +8.4 | A. lyrata |
| Ug26051 | 103.6 | 63.8 | −0.7 | M. crystallinum | Ug15764 | 0.0 | 0.3 | +8.4 | A. lyrata |
| Ug41960 | 15.6 | 33.5 | +1.1 | G. hirsutum | Ug13159 | 12.2 | 23.7 | +1.0 | G. max |
| Ug65296 | 3.3 | 13.7 | +2.0 | G. hirsutum | Ug8615 | 69.1 | 112.3 | +0.7 | C. sinensis |
| Ug61613 | 3.6 | 13.3 | +1.9 | G. hirsutum | Ug32194 | 16.8 | 24.8 | +0.6 | G. max |
| Ug29610 | 4.9 | 10.5 | +1.1 | V. vinifera | Ug14517 | 149.2 | 193.3 | +0.4 | C. limon |
| Ug5469 | 3.3 | 10.1 | +1.6 | A. thaliana | Ug48766 | 86.3 | 108.1 | +0.3 | E. guineensis |
| Ug33474 | 3.3 | 9.9 | +1.6 | A. thaliana | Ug23403 | 16.4 | 20.4 | +0.3 | A. lyrata |
| Ug4060 | 5.4 | 2.0 | −1.5 | A. thaliana | Ug27100 | 86.4 | 106.0 | +0.3 | A. lyrata |
| Ug41099 | 4.2 | 0.7 | −2.5 | A. thaliana | Ug5921 | 64.1 | 78.6 | +0.3 | A. lyrata |
| AKT | Ug38012 | 38.0 | 46.3 | +0.3 | Z. mays | ||||
| Ug20360 | 3.3 | 7.0 | +1.1 | P. tenuiflora | Ug18074 | 52.5 | 63.8 | +0.3 | C. unshiu |
| Ug57424 | 0.0 | 5.6 | +12.5 | P. euphratica | Ug5444 | 35.8 | 41.4 | +0.2 | D. carota |
| Ug63704 | 3.9 | 7.8 | +1.0 | E. camaldulensis | Ug8331 | 96.0 | 104.3 | +0.1 | E. guineensis |
| Ug63924 | 1.0 | 5.9 | +2.6 | V. vinifera | Ug6864 | 97.1 | 104.6 | +0.1 | G. hirsutum |
| Ug47159 | 3.0 | 0.8 | −2.0 | S. tuberosum | Ug14833 | 77.6 | 83.3 | +0.1 | Z. mays |
| Ug4060 | 5.4 | 2.0 | −1.5 | A. thaliana | Ug32662 | 113.7 | 119.2 | +0.1 | Z. mays |
| Ug41099 | 4.2 | 0.7 | −2.5 | A. thaliana | Ug18679 | 58.5 | 59.7 | +0.0 | A. thaliana |
| HAK | Ug14939 | 58.5 | 59.7 | +0.0 | A. thaliana | ||||
| Ug27946 | 36.3 | 74.8 | +1.0 | M. crystallinum | Ug13111 | 50.8 | 51.3 | +0.0 | H. caspica |
| Ug28118 | 13.8 | 31.4 | +1.2 | A. thaliana | Ug27358 | 137.8 | 138.0 | +0.0 | C. unshiu |
| Ug65080 | 3.2 | 8.0 | +1.3 | O. sativa | Ug31534 | 107.4 | 106.3 | +0.0 | A. thaliana |
| Ug54929 | 1.9 | 7.0 | +1.9 | O. sativa | Ug31417 | 116.0 | 114.7 | +0.0 | K. foliatum |
| Ug64325 | 1.5 | 6.1 | +2.0 | V. vinifera | Ug12019 | 68.3 | 67.4 | +0.0 | G. hirsutum |
| Ug35034 | 2.0 | 4.3 | +1.1 | O. sativa | Ug46409 | 15.4 | 14.6 | −0.1 | Z. mays |
| Ug64584 | 0.0 | 4.2 | +12.1 | O. sativa | Ug31885 | 133.0 | 124.2 | −0.1 | S. salsa |
| Ug48231 | 9.3 | 2.5 | −1.9 | H. vulgare | Ug9415 | 7.9 | 7.3 | −0.1 | A. lyrata |
| CHX | Ug30783 | 220.6 | 202.0 | −0.1 | Z. marina | ||||
| Ug64193 | 2.2 | 6.1 | +1.5 | P. trichocarpa | Ug9762 | 54.3 | 48.2 | −0.2 | A. lyrata |
| Ug64762 | 0.0 | 5.3 | +12.4 | P. trichocarpa | Ug23822 | 289.1 | 241.7 | −0.3 | P. acutifolius |
| Ug22739 | 10.4 | 4.8 | −1.1 | A. thaliana | Ug28038 | 166.2 | 135.7 | −0.3 | S. oleracea |
| Ug62951 | 6.4 | 2.5 | −1.4 | M. truncatula | Ug14408 | 57.5 | 45.4 | −0.3 | G. hirsutum |
| Ug47929 | 7.6 | 1.0 | −2.9 | A. thaliana | Ug1235 | 57.5 | 45.4 | −0.3 | G. hirsutum |
| Ug47939 | 2.7 | 1.0 | −1.4 | A. thaliana | Ug14963 | 116.2 | 87.3 | −0.4 | M. crystallinum |
| Ug35886 | 1.1 | 0.5 | −1.2 | P. trichocarpa | Ug27790 | 18.8 | 14.1 | −0.4 | A. thaliana |
| KEA | Ug58281 | 139.3 | 103.6 | −0.4 | I. lactea | ||||
| Ug39703 | 3.0 | 0.8 | −2.0 | A. thaliana | Ug62214 | 45.5 | 32.7 | −0.5 | A. lyrata |
| Ug43622 | 5.5 | 2.4 | −1.2 | A. thaliana | Ug3474 | 8.4 | 5.9 | −0.5 | O. sativa |
| Ug53119 | 3.5 | 8.9 | +1.3 | A. thaliana | Ug27883 | 47.2 | 33.0 | −0.5 | M. truncatula |
| Ug54277 | 2.6 | 7.3 | +1.5 | A. thaliana | Ug26948 | 62.4 | 36.4 | −0.8 | G. hirsutum |
| KOC | PM-H+-ATPase | ||||||||
| Ug23367 | 3.0 | 6.4 | +1.1 | N. tabacum | Ug248 | 79.8 | 240.3 | +1.6 | D. carota |
| Ug37885 | 2.4 | 0.8 | −1.6 | H. brasiliensis | Ug15650 | 143.1 | 376.9 | +1.4 | P. persica |
| Ug43016 | 1.7 | 0.5 | −1.8 | -- | Ug1087 | 171.3 | 265.1 | +0.6 | S. lycopersicum |
| Ug19269 | 6.7 | 12.6 | +0.9 | P. trichocarpa | Ug47575 | 285.8 | 402.4 | +0.5 | C. sativus |
| Ug8178 | 9.1 | 10.3 | +0.2 | P. trichocarpa | Ug7564 | 205.5 | 243.9 | +0.2 | A. lyrata |
| Ug56865 | 6.4 | 8.3 | +0.4 | P. trichocarpa | Ug24901 | 199.6 | 218.9 | +0.1 | A. thaliana |
| Ug9256 | 32.1 | 55.3 | +0.8 | P. trichocarpa | V-H+-PPase | ||||
| Ug20095 | 7.3 | 7.8 | +0.1 | P. trichocarpa | Ug12515 | 188.6 | 156.3 | −0.3 | A. lyrata |
| Ug22675 | 44.6 | 25.4 | −0.8 | P. trichocarpa | Ug14495 | 251.2 | 184.2 | −0.4 | P. communis |
| Ug40263 | 4.4 | 3.4 | −0.4 | P. trichocarpa | Ug16866 | 276.0 | 268.2 | +0.0 | N. tabacum |
| Ug50188 | 3.7 | 3.5 | −0.1 | P. trichocarpa | Ug61784 | 320.3 | 237.0 | −0.4 | V. radiata |
| Ug39519 | 0.9 | 0.5 | −0.9 | P. trichocarpa | Ug8875 | 197.0 | 221.1 | +0.2 | M. truncatula |
| Ug25217 | 20.7 | 18.6 | −0.2 | P. trichocarpa | |||||
*DEG was filtered using threshold of false discovery rate (FDR) ≤ 0.001 and absolute value of log2Ratio ≥ 1. Ug represents unigene. RPKM indicates RPKM values of unigenes in C21 or T43. “Fold change” equals to log2 (T43-RPKM/C21-RPKM). “+” indicates up-regulated transcription and “-” represents down-regulated transcription. Homologous species is that identified from BLAST search of nr database using the cut-off E-value of ≤ 10-5.
Dang et al. BMC Genomics 2013 14:29 doi:10.1186/1471-2164-14-29
