Computational protocol: MALDI-TOF MS for identification of Tsukamurella species: Tsukamurella tyrosinosolvens as the predominant species associated with ocular infections

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Protocol publication

[…] The sequences of the PCR products were compared with sequences of all currently recognized Tsukamurella species by multiple sequence alignment using MUSCLE 3.8 and the aligned sequences were trimmed using BioEdit 7.2.0. Comparative gene sequence analysis was performed using BioEdit 7.2.0. Phylogenetic tree was constructed by maximum-likelihood method using MEGA version 6. […]

Pipeline specifications

Software tools MUSCLE, BioEdit, MEGA
Applications Phylogenetics, Nucleotide sequence alignment
Organisms Bacteria, Paramesotriton hongkongensis, Camellia sinensis, Homo sapiens