Computational protocol: Characterization of a Crabs Claw Gene in Basal Eudicot Species Epimedium sagittatum (Berberidaceae)

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Protocol publication

[…] Sequences of EsCRC, ElCRC and CRC orthologs from various species () were downloaded from the GenBank database and aligned based on deduced amino acid sequences using online MUSCLE software (EMBL) followed by manual adjustments. Alignments of full length nucleotide sequences were generated using aa2dna software based on the amino acid alignment []. Maximum likelihood phylogenetic analyses were performed using Mega 5.0. A general time-reversible (GTR) model with a proportion of invariable sites was selected using Modeltest. Support for each branch was assessed using bootstrap analysis with 1000 bootstrap replicates. […]

Pipeline specifications

Software tools MUSCLE, MEGA, ModelTest-NG
Applications Phylogenetics, Nucleotide sequence alignment
Organisms Nicotiana tabacum, Arabidopsis thaliana, Epimedium sagittatum
Diseases Hammer Toe Syndrome