From: An RNA-Seq based gene expression atlas of the common bean
Organ | Sample IDa | Sample description | Reads sequencedb | Reads mappedc | Genes expressedd |
---|---|---|---|---|---|
Leaves | YL | Fully expanded 2nd trifoliate leaf tissue from plants provided with fertilizer | 24,118,479 | 21,395,546 | 19,466 |
 | L5 | Leaf tissue collected 5 DAI with effective rhizobium | 25,297,092 | 19,762,749 | 18,966 |
 | LF | Leaf tissue from fertilized plants collected at the same time of LE and LI | 22,692,275 | 17,581,928 | 16,103 |
 | LE | Leaf tissue collected 21 DAI with effective rhizobium | 23,366,279 | 17,714,097 | 16,081 |
 | LI | Leaf tissue collected 21 DAI with ineffective rhizobium | 23,257,968 | 18,820,812 | 18,523 |
Stem | YS | All stem internodes above the cotyledon collected at the 2nd trifoliate stage | 27,696,970 | 22,718,724 | 20,299 |
 | ST | Shoot tip, including the apical meristem, collected at the 2nd trifoliate stage | 25,826,838 | 22,358,410 | 21,142 |
Flower | FY | Young flowers, collected prior to floral emergence | 23,334,037 | 16,503,930 | 20,055 |
Pods | PY | Young pods, collected 1 to 4Â days after floral senescence. Samples contain developing embryos at globular stage | 26,234,498 | 17,381,695 | 12,115 |
 | PH | Pods approximately 9 cm long, associated with seeds at heart stage (pod only) | 24,986,174 | 19,130,051 | 19,065 |
 | P1 | Pods between 10 and 11 cm long, associated with stage 1 seeds (pod only) | 24,349,622 | 16,400,591 | 15,831 |
 | P2 | Pods between 12 and 13 cm long associated with stage 2 seeds (pod only) | 21,647,774 | 18,018,224 | 18,311 |
Seeds | SH | Heart stage seeds, between 3 and 4Â mm across and ~7Â mg | 28,222,798 | 22,972,385 | 18,668 |
 | S1 | Stage 1 seeds, between 6 and 7 mm across and ~50 mg | 21,395,296 | 17,004,466 | 16,949 |
 | S2 | Stage 2 seeds, between 8 and 10 mm across and 140–150 mg | 24,696,630 | 19,949,204 | 15,363 |
Roots | RT | Root tips, 0.5Â cm of tissue, collected from fertilized plants at 2nd trifoliate stage of development | 24,536,948 | 21,680,391 | 18,514 |
 | YR | Whole roots, including root tips, collected at the 2nd trifoliate stage of development | 25,140,904 | 20,962,342 | 19,170 |
 | R5 | Whole roots separated from 5 day old pre-fixing nodules | 27,423,246 | 23,034,248 | 19,865 |
 | RF | Whole roots from fertilized plants collected at the same time as RE and RI | 25,121,968 | 21,858951 | 20,305 |
 | RE | Whole roots separated from fix + nodules collected 21 DAI | 24,449,104 | 21,325,105 | 20,450 |
 | RI | Whole roots separated from fix- nodules collected 21 DAI | 27,834,770 | 24,188,904 | 20,697 |
Nodules | N5 | Pre-fixing (fix+) nodules collected 5 DAI | 23,909,973 | 20,774,095 | 19,102 |
 | NE | Fix + nodules collected 21 DAI | 26,350,845 | 23,035,381 | 17,011 |
 | NI | Fix- nodules collected 21 DAI | 24,875,317 | 21,877,973 | 19,278 |