If I have 10 strains genome of a bacteria from NCBI. Firstly, I want to analyze to find a list of genes that are homologous in these strains. (I have done this work on MBGD, but I don't know how to retrieve the gene list?) Secondly, I wonder to screen size below to 30-50 kDa and annotate their functions in efficiency way. Which bioinformatic tools should I use?
Hi,
I have not done it on bacteria genome but only in viral genome (which is approximately 10kb in size, which is much smaller than any bacterial genome). The program I used is Geneious.
Basically if the complete genome is available for download, one just need to import the FASTA (or txt or any other formats recognised by Geneious, do an alignment, then annotate the homolohous regions manually for the genes.
Hope this helps!
Cheers
Hi,
I have made global alignment of bacterial genomes and I have listed orthologous genes using the software MAUVE. (http://gel.ahabs.wisc.edu/mauve/).
Hope this helps.
i think your sequences are non-homologous regions, regardless of annotation. you are asking in second thing the complete genome is available for download in the site correct FASTA sequence respectively, and then annotate the gene homologous regions.
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