Figure 1.
Rhizoboxes used in the Rhizoscope phenotyping platform.
a. With beads. b. After bead removal.
Figure 2.
General view of the Rhizoscope phenotyping system.
Figure 3.
Distribution of selected traits.
SB =shoot biomass; NBT = Tiller number; DRB = deep root biomass; NBR_30 = number of roots below 30 cm; R_S = root/shoot mass ratio; LENGTH = maximum root length .
Figure 4.
Circle of correlations from the principal component analysis of all traits.
LLGTH = leaf length; NBT = tiller number, SB = shoot biomass; DEPTH = maximum depth reached by the roots in position; LENGTH = maximum root length; ANGLE = root cone angle; NBR_30 = number of roots below 30 cm; RB0020 = root mass in the 0-20 cm layer; RB2030 = root mass in the 20-30 cm layer; RBB30 = root mass below 30 cm; DRB = deep root biomass; DRP = deep root proportion; RB = root biomass; PB = plant biomass; R_S = root to shoot mass ratio .
Figure 5.
Quantile-quantile plots for four models for three selected traits.
A. Model without correction. B. GLM (correction for population structure). C. MLM1 (correction for kinship). D. MLM2 (correction for both population structure and kinship).
DRB = deep root biomass (red); LENGTH = maximum root length (blue); NBR_30 = number of roots below 30 cm (green).
Figure 6.
Manhattan plots for four selected root traits.
The negative log10-transformed p-values of each test are plotted against the marker position in the genome. Full line: P=1e-05; dotted line: P=5e-04.
RBB30 = root mass below 30 cm; DRB = deep root biomass; NBR_30 = number of roots below 30 cm; LENGTH = maximum root length; .
Figure 7.
Relative positions of significant markers, genes and QTLs for corresponding root traits.
Significant markers are in black and genes in blue on the chromosome bodies .QTLs in orange and pink were detected in japonica x japonica and indica x indica mapping populations respectively. QTLs in grey were detected in other population types (indica x japonica, japonica x indica or japonica x aus). MRL = Maximum root length DRB= deep root biomass; RB = root biomass; R_S =root to shoot ratio.
Data were extracted from the rice module from TropgeneDB for the root genes ("EURoot genes" set) and the QTLs (http://tropgenedb.cirad.fr/tropgene/JSP/interface.jsp?module=RICE). The QTL numbers correspond to their ID in this database.