Computational protocol: The Arabidopsis PLAT Domain Protein1 Is Critically Involved in Abiotic Stress Tolerance

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Protocol publication

[…] To identify members of the PLAT-plant-stress family from other plant species, multiple database searches were performed using the Basic Local Alignment Search Tool (BLAST) algorithms BLASTp and tBLASTn available on the public databases, PLAZA 2.0 ( and Phytozome v8.0 ( with cutoff value of E<10−5. We used nucleotide and amino acid sequences of PLAT1 from the TAIR database ( to BLAST all databases. Phylogenetic analysis was performed by using CLUSTALW alignment in PHYLIP format clustal algorithm, and displayed in a phylogram tree format with locus name of each protein. Bootstrap values were presented as a percent of 100 resampled trees at each tree node using default settings of the TreeTop-Phylogenetic Tree ( […]

Pipeline specifications

Software tools BLASTN, BLASTP, TBLASTN, Clustal W, PHYLIP
Databases TAIR Phytozome
Applications Phylogenetics, Amino acid sequence alignment
Organisms Arabidopsis thaliana
Chemicals Abscisic Acid, Triglycerides