Additional file 7: of TNL genes in peach: insights into the post-LRR domain

TNL-related peptides obtained with BLASTp analysis using MEME motifs of the post-LRR domain in the Plant Genome Database website. Results are shown for Populus trichocarpa, Vitis vinifera, Medicago truncatula, Arabidopsis thaliana, Solanum tuberosum, Glycine max, Oryza sativa, Prunus persica, Sorghum bicolor, and Zea mays. Identified TNL-related sequences, unrelated TNL sequences and unknown sequences are highlighted in green, blue and yellow, respectively. (DOC 138 kb

Additional file 2: of TNL genes in peach: insights into the post-LRR domain

Exon and domain structures of all predicted TNL-related peptides. Exon sizes are shown above the colour shapes reflecting the different domains. (XLSX 115 kb

Additional file 5: of TNL genes in peach: insights into the post-LRR domain

Secondary-structure prediction of the PL motif-1. The table shows the consensus sequence obtained from the alignment of the peach PL sequences, the 5 PLs of the Ma protein and the WW-domain consensus sequence obtained from Vitis vinifera sequences. H signifies a helix residue. Predicted stands for extended beta sheet (E) are surrounded by the tryptophans (in blue). (DOCX 17 kb

Fgenesh TNL transcripts predictions

This archive groups the TNL genes predictions within the peach genome made with the sofware Fgenesh. These files are only illustrative - pdf forma

Phylogenic tree of PL domains in peach

Maximum Likelihood Phylogenetic analysis of the PL sequences from predicted TNL peptides in peach genome. Itwas constructed with MEGA6 using Maximum Likelihood method with 100 Bootstrap replications and the Jones-Taylor-Thornton model. Newick format - use Mega 6 to edit i

Alignement gene-predictedmRNA in v2.0

This archive file contains the alignments between gene and predicted mRNA for all TNLs in the peach genome v2.0. Muscle/Clustal format - use text edi

Additional file :6 of TNL genes in peach: insights into the post-LRR domain

Transcribed PL sequences. Sequences of the transcribed genes ppa022336m, ppa000596m, ppa021732m, ppa024249m, ppa021703m, ppa023688m-ppa000585m, ppa026786m and ppa021808m for the peach ‘Nemared’ and plum ‘Myrabi’ (= ‘P.2032’) cultivars. (FAS 7 kb

TNL sequences in peach

This archive contains sequences of TNLs in the peach genome. PJ6 is the predicted peptides fasta file, PJ7 is the predicted mRNA fasta file and PJ8 is the predicted gene fasta file

Additional file 4: of TNL genes in peach: insights into the post-LRR domain

Physical map of the TNL-related genes in the peach genome v1.0 and revision observed in v2.0. The map position of the 195 total TNL-related proteins is depicted within the eight scaffolds (chromosomes). Accession numbers are related to the genome glossary of the v1.0. Merged predicted peptides identified through corrected predictions are underlined and highlighted with brackets. The size of each scaffold (in Mb) and the respective number of TNL-related predicted peptides are shown under each scaffold. The Ma orthologue is indicated in red upper case. Unmapped genes in the v1.0 and mapped in the v2.0 are in green boxes. The red box shows re-localisation of TNL genes in the v2.0. Predicted peptides that are not indicated in the v2.0 are labelled with an asterisk. (PDF 167 kb

Alignment of the 103 PL sequences

This alignment file contains the 103 sequences of Post LRR (PL) domains used to build the phylogenic tree. Mega format - Use MEGA 6 to edit it