But that is unrelated to this. Virgin charging the BBC is due to them not investing in their own infrastructure. Maybe if they invested some money in their network they would be able to cope with the demand.
Also if something like this was to come into play, there would be new ISP's with no limits at all.
I don't think Virgin are charging the BBC anything extra - unless it's the costs of getting the IPlayer working on the Virgin system (and i think that was a joint project).
Most large ISP's in the UK are finding the IPlayer is starting to cause problems due to it's uptake being high, and the bandwidth it uses, some (such as VM) are actively working with the BBC to lower the impact (by either putting BBC servers directly into the network backbone, or other methods), others are just complaining and sticking their heads in the sand.
Personally I think the link in the op has it the wrong way round*, at the moment most of what i've heard suggests that ISP's on the no "net neutrality" side of the fence would be more likely to limit the speed of high bandwidth commercial sites (IE those that could afford to pay towards their bandwidth on isp networks), than limit the access to small sites that use next to no bandwidth.
It's also worth remembering that they are predicting things that might happen in 4+ years time - i'm fairly young and i've seen such predictions proven wrong soo many times it's silly
For those that are saying the ISP's should invest more in their networks - are you all ready and willing to pay a considerable amount extra for your basic package?
The ISP business in many countries is based on offering connection for the lowest price possible, which doesn't tend to leave much for investment, add to that the way the average use of the internet has changed over the past few years and many ISP's across the world are playing catchup in some ways to the changes in use, and discussing possible options (many of which will never see the light of day, but cause panic when people hear snippets of the discussion).
It wouldn't even surprise me too much if the bit of news in the op link is regarding a very specific type of package.
*I also think that a lot of people are panicking over every rumour and bit of misinformation/bad reporting and screaming about the sky falling - but then I've spent the past 8 years being told continuously that a game i play is "going to be shut down" every time a member of it's dev team leaves, or a new game in the genre is announced.