Importing Photoshop Merged layers problem

Hi. I'm trying to import a layered Photoshop file into After Effects. I'm on a new intel iMac running Leopard and both PS (extended) and AE are CS3. I chose the merged layers option because I don't want all the layers in AE, just the final composition. Am I correct in thinking that if I update my photoshop file, it'll update in AE in the merged file?
That's not really my problem, just making sure that's how it works. My problem is that this is how my image looks in photoshop:
but in AE it comes out like this:
I was having the same problem when using quicklook, so I'm assuming it's something with photoshop. I turned on save full size image preview in the file handling preferences in photoshop, which did fixed the problem when using quicklook, but didn't fix the image in After Effects. I reloaded the footage and even reimported it into a new project in AE but it's still the same.
Anyone know what's going on? Thank you so much.
Alycia

Thanks. I do realize I could do that, but I have about 60 Backgrounds. So it'd be nice to be able to import the whole photoshop file and still be able to work on it without having to flatten it every time. That's kind of what I've been doing so far.
Alright, I came up with a better workaround. I created a new psd file and put the original layered psd on a layer as a smart object and then imported that layer into After Effects. This seems to be working nicely, and I can still edit the original without having to resave a flattened file all the time.
It's still be nice to get this working properly though. It seems to only display the original layer of the photoshop file.

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