Logo file format help??

Hi
I have created a logo in Illustrator, the logo contains 2 pieces of text in 2 different colours, and a symbol made up of 3 of the same shapes all different colours, they all overlap each other, 2 of the shapes have a soft light blending mode, and the 3rd overlay blending mode, (all shapes are 100% opacity) With a transparent background.
My question is.. what is the best file format to save the logo as, so that I can then place the logo in an Indesign file (for a packaging design) as to keep the transparent background, colours, etc...
I have also grouped and then flattened the 3 shapes in the logo in Illustrator in order to keep the blending modes just within the logo and not effect the Indesign layout.
is this the correct way to go about this?
Thanks for your help
Ruth

I concur with Scott: .ai file with PDF compatibility.

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