Friday, January 13, 2012

The reason why VP62 is a stupid diversion

Sorry to rehash this old stuff, but it needs to be said. Some patients go around claiming that it was not VP62 that was found by Mikovits and Lombardi et al 2009. Well, doh, it is VP62, and nothing else.
This lack of detection has nothing to do with 'sequence diversity' according to WPIs own reported sequences
A frequent excuse for why so many other labs cannot find XMRV via PCR is that there is 'so much sequence diversity' in XMRV, that other labs primers designed in-house cannot detect the variants in patients.

And here is the bigger problem: There is no sequence diversity in the WPIs reported sequences. They are all the same relative to one another, and relative to a laboratory plasmid VP62 that everyone is using as positive controls in the negative studies. This is beyond obvious to even the most casual observers:
There is no excuse for why primers directed towards VP62 would not be able to detect the very sequences the Judy Mikovits herself as uploaded into GenBank. There is no diversity. The uploaded sequences of 'XMRV from patients' are VP62.

The sequences of viruses found in different patients at different times from different parts of the country (world?) are virtually identical not only to one another, but a XMRV plasmid routinely used in labs.

Just to really drive home how absurd this is, here is an alignment made from the exact same region of XMRV in HIV-1, from only a small subset of HIV-1, Group M, Subtype C viruses found in different patients at different times from South Africa only:
In the WPIs liek, totally diverse sequences, there are only a handful of variations (strong majority of which are in one sequence, 1317, while others dont differ at all)-- look for the black dots. Contrast that with the HIV sequences of the same region of gag-- at almost every point, there is diversity in sequence. Think its a numbers game? Pick two HIV sequences at random-- there is more diversity between those *two* sequences than there is in the entirety of WPIs 'patient sequences' and a laboratory clone.

If someone says other labs cannot 'find' XMRV via PCR because XMRV is 'too diverse', they are lying or stupid beyond repair.
My money is on lying – but we will see.

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