This has already been answered but I should like to add that you can still use whichever theme you want with invisible blocks, and then set the colors to make blocks apparent. In the preamble you could include those parameters for instance,
\setbeamercolor{block body alerted}{bg=alerted text.fg!10}
\setbeamercolor{block title alerted}{bg=alerted text.fg!20}
\setbeamercolor{block body}{bg=structure!10}
\setbeamercolor{block title}{bg=structure!20}
\setbeamercolor{block body example}{bg=green!10}
\setbeamercolor{block title example}{bg=green!20}
With these settings you would get green blocks for examples, blocks of the color of the alert text for alert boxes, and the color of the structure for the default boxes, so it follows somehow the theme you're using.
Ah, and you might want to add this line to round the edges of your blocks and cast a shadow. Some templates with invisible block contours might not have included this.
\setbeamertemplate{blocks}[rounded][shadow]