Computational protocol: SPL8 Acts Together with the Brassinosteroid-Signaling Component BIM1 in Controlling Arabidopsis thaliana Male Fertility

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Protocol publication

[…] Multiple alignments of amino acid sequences were generated by the program ClustalW of the MacVector 9.5.2 software package (Accelrys Ltd., Cambridge, UK) using the Gonnet matrix with an open gap penalty of 10 and an extend gap penalty of 0.1. The phylograms based on these alignments were constructed using the neighbor-joining algorithm available in the same software package. A bootstrap analysis with 10,000 repetitions was performed with random tiebreaking and gaps in the multiple alignments ignored. […]

Pipeline specifications

Software tools Clustal W, MacVector
Application Phylogenetics
Organisms Arabidopsis thaliana