Computational protocol: Two members of TaRLK family confer powdery mildew resistance in common wheat

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Protocol publication

[…] Signal peptide, transmembrane and kinase domains were predicted using the SMART software (http://smart.embl-heidelberg.de/) []. The ATP binding site, Ser/Thr kinase active site and twin arginine translocation (Tat) signal domain were predicted by the ScanProsite software (http://prosite.expasy.org/scanprosite/).Phylogenetic trees were constructed based on the full length amino acid sequences of TaRLK1, TaRLK2, and other LRR-RLKs. Full length of TaRLK1 and TaRLK2 were used as query sequences to identify their orthologs by the BLASTP in the Phytozome proteome database (http://www.phytozome.net/search.php?show=blast&method=Org_Cpapaya). Phylogenetic analysis was performed using MEGA 4 based on the Neighbor-Joining method and a bootstrap test of 1000 replicates []. […]

Pipeline specifications

Software tools ScanProsite, BLASTP, MEGA
Databases PROSITE Phytozome ExPASy
Applications Phylogenetics, Protein sequence analysis
Organisms Flavobacterium sp., Triticum aestivum, Triticum timopheevii
Diseases Mycoses
Chemicals Amino Acids, Hydrogen Peroxide, Salicylic Acid