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Fig. 1 | Plant Methods

Fig. 1

From: A novel hairpin library-based approach to identify NBS–LRR genes required for effector-triggered hypersensitive response in Nicotiana benthamiana

Fig. 1

Schematics of the procedure to identify NBS domain-containing proteins in N. benthamiana annotated genome. HMMsearch of N. benthamiana annotated proteins using the standard Pfam NBS HMM led to the identification of 309 NBS-containing candidates. The 309 NBS domains were aligned using ClustalW and used to build a N. benthamiana-specific NBS HMM, which was subsequently used to screen again the N. benthamiana annotated proteins. However, no new candidates were identified in the 268 entries generated. N. benthamiana annotated proteins were further searched by BLASTp using the 309 candidates. New R gene candidates were further selected and screened for the presence of NBS, LRR and TIR domains using HMMscan

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Plant Methods

ISSN: 1746-4811