Supplemental Figure 1. Phylogenetic Relationship of OsRLCKs with Yeast Kinases.
The neighbor joining tree was generated using ClustalX for the 379 OsRLCKs and 126 yeast protein sequences and viewed using Treeview. Clades supported having bootstrap value ³50% are marked. Scale bar represents 0.1 amino acid substitutions per site. Encircled numbers are yeast kinases falling with OsRLCKs.
Supplemental Figure 2. MPSS-Based Expression Profile of 120 Differentially Expressing OsRLCKs during Biotic Stress Conditions.
The heat map was generated directly on TPM values. Gene names marked in red are up-regulated and those in green are down-regulated in both biotic and abiotic stress, while genes showing different expression patterns between these two types of stresses are marked in blue and are specific to biotic stress. MC24, mock treated for 24h; MR24, Magnoporthe grisea-treated resistant transgenic (Pi9) rice for 24 h; MS24, M. grisea-treated sensitive wild-type rice for 24 h; XC06, mock treated for 6 h; XR06, Xanthomonas oryzae-treated resistant transgenic (Xa21) rice variety for 6 h; XS06, X. oryzae-treated sensitive wild-type rice for 6 h; NLA, unwounded leaf; PLC, mechanically damaged leaf.
Supplemental Figure 3. Expression Profile of OsRLCKs Present in Segmentally Duplicated Regions of Chromosomes (A) and Tandemly Duplicated Genes (B) during Vegetative, Panicle and Seed Development As Well As Under Stress (For details, see Figures 5 and 6).
The x-axis of the area graph represents the average normalized signal intensity values of three biological replicates.
Supplemental Figure 4. Schematic Representation of Alternative Splicing in Rice OsRLCKs.
Gene names and accession numbers of alternatively spliced cDNAs are shown. Filled boxes represent the exons and lines represent introns. Relative positions, length of introns, and exons are marked. Green boxes represent the alternatively spliced regions. * represents those cDNAs that do not encode kinase domain.
Supplemental Table 1. OsRLCKs Present in Segmental Duplications of Rice Genome.
Supplemental Table 2. Tandem Duplications in the OsRLCK Gene Family.
Supplemental Table 3. MPSS Data for 17 Base Signatures.
Expression evidence from MPSS were obtained for RLCKs with undefined probesets for microarray analysis. Only those 17 base signatures that uniquely identify the individual RLCK were considered. The transcript abundance in parts per million (TPM) present in 20 mRNA libraries is listed.
Supplemental Table 4. Differential Expression Analysis of OsRLCKs during Reproductive Development and Under Abiotic Stress Conditions.
A gene is considered differentially expressed if it is up- or down-regulated at least two-fold, at P-value 0.05, with respect to all vegetative stages (seedling, mature leaf, and root) in the case of reproductive development and 7-day-old seedlings for the stress sample.
Supplemental Table 5. MPSS Data in Transcript per Million (TPM) Values for 120 OsRLCKs Involved in Different Biotic Stress Conditions As Given in Supplemental Figure 2.