Hi all,
I have a question on interpretation of KEGG pathway difference between control and target bacteria strain.
I have their protein FASTA files of the translated CDS sequences through Prokka and use them for KEGG annotation.
I originally thought that if there is difference in genes/CDS of certain KEGG pathway, then that gene somehow cause malfunction or lower efficiency for that pathway. But I found out that the pathway contains multiple genes and it is mapped even though the strain doesn't have all of them.
For example, if both control and target strain have genes related with "Fatty acid synthesis" pathway, that doesn't mean they have all of genes related with "Fatty acid synthesis" pathway(https://www.kegg.jp/kegg-bin/show_pathway?1620824437126320/map00061.coords+reference), right? They only have part of genes in the pathway.
Then, here is my question: if a control strain results in having one more gene related with the pathway, can I say control strain has more likely to synthesize fatty acid compared with the target strain?
If not, what does that mean..? Is it just simply they have one more gene related with fatty acid synthesis and it should be figured out in vivo?
