Fig. 2: Two indels in the CTB3 promoter confer different cold responses.
From: Natural variation of indels in the CTB3 promoter confers cold tolerance in japonica rice
a Candidate gene based association analysis of CTB3 using 178 rice accessions. b Transient dual-luciferase expression assay in rice protoplasts. CTB3 promoter fragments were cloned from Nip (Hap1) or 9311 (Hap2). Data are mean ± SD (n = 3 biological replicates). c Relative expression levels of ten CTB3-Hap1 accessions and ten CTB3-Hap2 accessions under CS-PT at 1 day. The expression levels of CTB3 in different accessions at 0 h were set as 1. Data are mean ± SD (n = 3 biological replicates). d Seed setting rates of the different haplotypes grown under CS-HAA conditions (n = 5 plants). For box plots, boxes represent the interquartile range (25th to 75th percentiles), center lines indicate medians, and whiskers extend to the minima and maxima. e Cold induced expression analysis of CTB3 at the booting stage in panicles of NILCBT3-Hap1 and DY17 under CS-PT conditions at different times. Data are means ± SD (n = 3 biological replicates). CS-HAA, cold stress in high-altitude area. CS-PT, cold stress in a phytotron with 16–17 °C. Nip, Nipponbare. In (a), P values were determined under the mixed linear model (MLM) using a two-sided Fisher’s exact test, implemented in TASSEL 5.0. In (b), different lowercase letters above the bars indicate statistically significant differences at P = 0.05 by one-way ANOVA with Duncan’s multiple range test. In (c-e), significant difference was determined by two-sided Student’s t-test (indicated by asterisks, *P < 0.05, **P < 0.01, ***P < 0.001). Source data are provided as a Source Data file.
