QUOTE(Dayssweetdaze @ Oct 9 2007, 10:18 PM)

It's not impossible that along the line somewhere the Company got the virus from Shanti... we don't know the entire story, I'm sure. And now they are just using it for their own ends. We don't even know if you can catch it from another person, since then everyone in contact with Niki, Molly and the Hatian at least would have it; a lot of people!
Maybe someone intentionally gives it to certain people... people they deem too powerful, or of no more use? Molly, Niki and the Hatian have all been in contact with Company operatives, and Sylar has as well.
And why wouldn't the virus cancel out Sylar's "intelligence" powers? He would lose knowledge of how to use past powers, and how to aquire new ones.
I think the "I know how things work / I know what makes things tick.." is not purely ability alone..
You also need to have a basic understanding and from that point you're able to know the most advanced stuff as almost all things in the universe requires a basic standing then from that point on it goes advanced.
Sylar had the basic and from that point he was able to go further and knew how the abilities worked.
He couldnt just always have the basic, he must have learned like normal people how things work but his ability of how things work as to explain it simple magnified his intelligence.
So Sylar was supersmart with his ability of how things work etc.
Without his ability he is still smart but not super smart if you get what I mean

This is just my apprehension of how things work with his ability but there hasnt been any fact of what or how his basic ability worked. So you cant say that much about Sylar's original ability.
Shanti died from the virus yes..
But what you're saying that the people at the Company got infected... but that means the people with abilities wouldve died in at least a few years...
And Shanti died I dont know 20+ years ago?
So it couldnt have come from the Company (although there might be the possibility no one knows).
And to suggest my thoughts:
Bob said the virus is spreading... If it were to come from the Company..
Shouldnt they like know a pattern that wherever they go or met new people with abilities affected those people aswell ?
So its not the Company to clarify in my opinion

(I could be wrong).