Computational protocol: Functional Characterization of New Polyketide Synthase Genes Involved in Ochratoxin A Biosynthesis in Aspergillus Ochraceus fc-1

Similar protocols

Protocol publication

[…] To identify the KS and AT domains, the amino acid sequences of the putatively analogous PKSs were analyzed with the CDD [] and the SMART []. The amino acid sequences of the KS and AT domains were aligned with the ClustalW algorithm using MEGA 6 software []. Genealogy of the KS and AT domains on the basis of the obtained alignment was inferred by a maximum likelihood analysis using MEGA 6. A phylogeny test was run using the bootstrap method with 1,000 replications. [...] All the statistics were analyzed by SPSS Statistics 21.0 (version 21.0, IBM, Armonk, NY, USA). The OTA contents and pks gene expression analyses were evaluated using one-way analysis of variance (ANOVA). Mean differences were determined by Tukey’s post-hoc tests (p = 0.01). All the figures were plotted by GraphPad Prism 6 (version 6.02, La Jolla, CA, USA). […]

Pipeline specifications

Software tools Clustal W, MEGA, SPSS
Applications Miscellaneous, Phylogenetics
Organisms Guizotia abyssinica
Chemicals Amino Acids