Table 5 Subfunctionalization of B. rapa genes involved in root and leaf developments
From: Functional innovations of three chronological mesohexaploid Brassica rapa genomes
B. rapa | A. thaliana | K a /K s | Leafa | Roota | Stema | Poola | Organb | Absolute expression in A. thalianac | Description |
|---|---|---|---|---|---|---|---|---|---|
Root development | |||||||||
Bra033865 | AT1G31930 | 0.10 | 1 | 8.1e-06 | 0.08 | 1 | root | seed, shoot | Extra-large G protein 3 |
Bra002904 | AT5G55480 | 0.21 | 0.9 | 1.1e-04 | 8.1e-03 | 1 | root | seed, shoot | Glycerophosphoryl diester phosphodiesterase-like protein (GDPD) |
Bra006834 | AT5G57090 | 0.07 | 1 | 1.5e-07 | 1 | 1 | stamen, root | seed, root | Auxin efflux carrier, root specific role |
Bra030785 | AT1G09560 | 0.18 | 1 | 1.3e-15 | 1 | 9.4e-06 | root | root | Germin-like protein 5 (GLP5) |
Bra007924 | AT1G70560 | 0.10 | 0.99 | 2.9e-04 | 0.92 | 0.83 | flower, primary root, root, embryo, leaf, gynoecium, cotyledon, | carpel | Tryptophan aminotransferase of Arabidopsis 1 (TAA1) |
Bra005011 | AT2G39830 | 0.10 | 0.99 | 6.4e-05 | 0.93 | 1 | root, phloem | shoot, petal | DA1-related protein |
Bra007863 | AT2G24260 | 0.27 | 1 | 4.1e-16 | 1 | 0.96 | root hair cell | seed | Basic helix-loop-helix (bHLH) |
Bra005325 | AT2G35610 | 0.10 | 0.97 | 1.1e-04 | 0.21 | 1 | root hair cell | seed, root, silique | Arabinosyltransferase |
Bra002227 | AT5G19320 | 0.14 | 1 | 1.1e-05 | 1.4e-04 | 1 | lateral root | root, seed, shoot, flower | RAN GTPase activating protein 2 (RANGAP2) |
Bra008898 | AT5G12330 | 0.13 | 1 | 5.0e-05 | 0.41 | 1 | root | shoot, root | Lateral root primordium 1 (LRP1) |
Bra011079 | AT4G29040 | 0.02 | 1 | 1.2e-06 | 0.01 | 1 | root, root cap, phloem, seedling | sepal, petal, senescent leaf | Regulatory particle AAA-ATPase 2A (RPT2A) |
Bra022183 | AT3G16857 | 0.09 | 1 | 7.7e-04 | 0.43 | 0.91 | primary root, root | seed | Response regulator 1 (RR1) |
Bra030695 | AT1G07630 | 0.19 | 1 | 1.5e-24 | 1 | 1 | lateral root, leaf | sepal, senescent leaf | Protein phosphatase 2C like gene |
Bra014436 | AT3G61440 | 0.16 | 0.98 | 2.6e-04 | 1.3e-14 | 1 | root hair cell | cotyledons | Cysteine synthase isomer (CysC1) |
Bra016173 | AT1G70940 | 0.20 | 1 | 4.2e-06 | 0.16 | 1 | root | petal, stamen | PIN3, regulator of auxin efflux |
Bra034623 | AT4G34390 | 0.26 | 0.88 | 5.6e-04 | 0.98 | 0.89 | lateral root | leaf, sepal | Extra-large GTP-binding protein 2 (XLG2) |
Bra019821 | AT1G13260 | 0.11 | 0.81 | 1.7e-04 | 3.0e-05 | 1 | flower, lateral root, leaf | root, leaf | EDF4 |
Bra022459 | AT3G19820 | 0.05 | 1 | 3.6e-24 | 1.9e-10 | 1 | anther, root | shoot, root flower, | Enhanced very-low-fluence responses 1 (EVE1) |
Bra023219 | AT1G31880 | 0.09 | 0.98 | 2.4e-04 | 0.87 | 1 | lateral root, root | shoot, seed | BRX, cell proliferation and elongation in the root |
Bra034413 | AT1G35580 | 0.04 | 1 | 4.5e-06 | 0.97 | 0.27 | root | root | Cytosolic invertase 1 |
Bra003506 | AT3G62680 | 0.35 | 1 | 1.9e-04 | 1 | 1 | lateral root | root | Proline-rich protein 3 (PRR3) |
Bra015906 | AT1G74500 | 0.07 | 1 | 4.6e-05 | 1 | 1 | root | root | bHLH, root initiation |
Bra032503 | AT1G04550 | 0.19 | 1 | 4.5e-10 | 0.98 | 1 | root | shoot, carpel, hypocotyl, flower | BDL, auxin-mediated processes |
Bra010735 | AT4G38630 | 0.05 | 0.91 | 6.6e-04 | 1.0e-04 | 1 | leaf, post-embryonic root, pollen | seed | Multiubiquitin chain binding protein 1 (MCB1) |
Bra021117 | AT3G15540 | 0.16 | 1 | 1.1e-04 | 0.61 | 0.96 | lateral root, stamen filament | seed, stamen | IAA19, primary auxin-response genes |
Bra029267 | AT5G62340 | 0.49 | 8.2e-14 | 8.4e-06 | 1 | 1 | lateral root | root | Plant invertase/pectin methylesterase inhibitor superfamily |
Leaf development | |||||||||
Bra012600 | AT4G18390 | 0.09 | 1.5e-04 | 5.4e-04 | 0.95 | 1 | leaf | vegetative rosette | Cycloidea and PCF transcription factor 2 (TCP2) |
Bra027284 | AT3G15030 | 0.20 | 1.4e-05 | 1 | 0.01 | 1 | embryo, leaf | petal | TCP4 |