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Plant pathogen detection
Fast and automatic online tool to screen for most suitable diagnostic targets in genomes using novel sliding-window approach
Masking all taxon-specific polymorphisms, insertions and deletions directly in multiple sequence alignment of orthologs
Complete set of input and output files including publication-quality plots is available for download and further analysis
Plant pathogen detection
The user should to prepare a set of any potential targets in genome of interest, for example highly conserved genes or regions
To catch statistically reliable mutations, it is necessary to find closest orthologs for the target of interest using NCBI BLAST
Each set of pre-formatted orthologous target sequences is submitted to Clustal Omega with an "Input" value of the order option
Multiple sequence alignment of orthologous sequences is submitted to MorphoCatcher in accordance with type of operating system
Output text files with masked target sequence for each taxon can be directly submitted to PrimerExplorer
The user can to download a detailed manual with two case studies, tutorial files, and a command line version of the tool here
Algorithm developer
Python coder
Scientific advisor
We hope that future versions of the MorphoCatcher will automatize some steps from the pipeline to provide high-throughput target screening and processing. If you have any further questions, please do not hesitate to contact our technical support at shrshkv@ya.ru
