Article Figures & Data
Figures
- Figure 1.
NLR-Annotator step-by-step. A, A genomic sequence is dissected into 20-kb fragments overlapping by 5 kb. B, Each fragment is translated in all six reading frames. C, Amino acid sequences are screened for NLR-associated motifs (see inset). D, The positions of motifs are projected back onto their originating 20-kb genomic fragments. E, Motif-containing genomic fragments are merged, and redundant motifs resulting from overlaps are removed. F, Motif combinations associated with an NB-ARC domain (inset, right side) are identified in the genomic sequence (stippled boxes). Overlapping combinations are merged. G, The NB-ARC locus is used as a seed to search the DNA sequence upstream and downstream for additional NLR-associated motifs (e.g. those indicative of a coiled coil or LRR). H, The final NLR locus is reported.
- Figure 2.
Physical positions of NLR-associated loci for stem rust (Sr) and leaf rust (Lr) within the wheat genome. Red bars on chromosomes mark the presence of NLR-associated loci. Gray regions depict intervals between flanking markers of fine-mapped rust R genes.
- Figure 3.
Phylogenetic tree of NLR genes in wheat. Cloned R genes were added to the tree. Specific clades are marked according to certain characteristics discussed in the main text: members of clades Intron1, Intron2, and Intron3 share characteristic intron/exon structure. Clades ID1 to ID5 are enriched for members with integrated domains. Members of clade NB-ARC have a truncated NB-ARC domain preceding a complete NB-ARC domain. Clade Helper is enriched for NLRs being hypothesized to be helpers. An interactive version of this figure is available at https://itol.embl.de/shared/steuernb.
- Figure 4.
Estimated detectability of NLR transcripts in transcriptome studies. The percentage of expressed NLR transcripts (y axis) in leaves from the three-leaf stage is shown in relation to the amount of sequencing data (x axis) used as an input. A transcript is considered detectable if the combined length of mapped reads exceeds 5 times the length of the transcript. The red line indicates the maximum percentage of NLR transcripts detected with 305 Gb of RNA sequencing data.
- Figure 5.
Expression of NLRs following PAMP treatment. Ternary diagrams show the relative gene expression between samples before treatment (000), after 30 min (030), and after 180 min (180), where A represents flg22 (F) treatment, B represents chitin (C) treatment, and C represents mock (H) treatment. The ternary diagram (D) shows the difference for mock, flg22, and chitin 30 min after treatment. Color (from yellow to red) and dot size are proportional to the maximum expression value for the respective gene.
Additional Files
Supplemental Data
Supplemental Figures, Tables, and Data
Files in this Data Supplement:
- Supplemental Data - Supplemental Figures 1-9
- Supplemental Data - Supplemental Tables 1-8
- Supplemental Data - Supplemental Data
