I already know that the two genes act on the same substrate but produce different products. The phylogenetic analysis indicate a direct ancestry. Any input is welcome. Thank you.
Hi Massimo,
Looks really interesting study!
I just need some details for my correct understanding.
What you want to show?
I mean, are you working at a protein level (to explain the mutations at the origin of the switch in function) or at a genetic level (show that you get a gene duplication followed by a neofunctionalization)?
Because for my point, if you showed that your genes have direct ancestry and then the 2 copies have different function (produce different products), this is matching already the definition of neofunctionalization...
Best
Guillaume
Dear Guillaume,
I have both protein and CDS sequences. Previous studies had demonstrated that gene B evolved from gene A and that gene B had a different function. I found that gene A and B are located in tandem so it is likely that a tandem gene B evolved from a tandem duplication. My doubt is how do I test my hypothesis?
Thank you for your answer
Hi Massimo,
You may want to check this link if it can be helpful: https://www.researchgate.net/post/How_to_detect_paralogs_in_a_list_of_protein_pairs_in_a_high-throughput_manner;
Hi Massimo,
Okay. For my point, you have sufficient data in hand.
You can tell me
1/Gene B evolve from gene A (previous work)
2/ Function of B is slightly different
3/Gene A and B are organized in tandem.
For testing if it's a tandem duplication that give the gene B, I have now idea on how people do... I guess that showing a tandem is already a "proof" of tandem duplication??
If your gene organisation and cis elements are conserve, how to explain this without a duplication event?
Hope i help...
Best
Guillaume
If understood correct neo-functionalization originally was proposed and predicted using the tools to detect positive selection...
http://www.sciencemag.org/content/290/5494/1151.full?sid=7a51c659-ac74-474f-96ea-f10a2b8592f4
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