This is a very specific example. It is not true, to say in general "The lower LOD-value, the higher analyte concentration." - indeed, without a context, it is meaningless.
In the case of ionisation suppression, what you are doing is ensuring that a higher proportion of the analyte in the detector is in the detectable form (gaseous Na atoms), so that a given amount of analyte from the sample gives a higher signal (which means that the LOD will be lower). The concentration of Na in the sample does not change.
Perhaps a better formulation of your statement would be: The greater the ratio Absorption/Concentration, the lower the LOD.
Hope this is helpful.