I wonder why there is sign difference in result for SVD computing in Matlab and OpenCV. I input the same matrix
3.65E+06 -2.09E+06 0
YY = -
Which version of OpenCV are you using?
From http://code.opencv.org/issues/1498 it seems recent versions of OpenCV no longer use LAPACK to do SVD (as used by Matlab, I think). So the assumption that the same algorithm is being used might not be correct.
Of course YY=USV'
If you negate the first columns of U and V:
U(:,1)=-U(:,1);
V(:,1)=-V(:,1)
You will find USV' still equals YY. This works for your particular case because YY is symmetric (YY=YY').
The results of the SVD need not be unique. For example, I = UIV' for any unitary V = U. The example you give above in particular is rank deficient, so there is no reason to expect uniqueness.
Singular Value Decomposition is only defined up to a sign; the signs of U and V are arbitrary, and if they are different between MATLAB and OpenCV that does not indicate a problem.