It's great to see Colony Collapse get more attention but the article fails to mention one important factor. One of the reasons many people suspect CCD has been so devastating, whatever the root cause, is the very small gene-pool from which most commercial honeybees arise. This makes the entire industry extremely vulnerable, something highlighted by destruction called by the varroa[1] mite and several viruses[2].
[1] https://en.wikipedia.org/wiki/Varroa
[2] http://www.beeologics.com/iapv.asp