Phylogenetic reconstruction of the NBS-LRR proteins in Manihot esculenta. A maximum likelihood tree was constructed using 157 NBS domains. Percent bootstrap values (1000 iterations) are indicated in every branch. Each protein is encoded as follows: NB + ID number (same as phytozome ID) + Domains present (TNL, TN, NTIR, NLTIR, CNL, CN, NCC, NLCC) + chromosome assignment (if available). Red, green, purple, and blue correspond to TIR, CNL-2, RPW8, and CNL-1 clades, respectively. APAF-1 was used as an outgroup.