That's one we haven't heard before and we've heard a lot of stupid things that people are told by their 'pool store supposed experts!'
I'll let someone else address your question about the water under the liner but can help you get the chemistry started.
1. What kind of pool is it? What is the volume?
2. What size pump and what kind and size of filter?
3. Exactly what all have you added to the pool, meaning ingredients and not just product names like 'shock.'
4. What does the water look like?
5. Do you have a drops-based test kit? If so, what kind? Post current numbers.
If you don't have a good drops-based test kit:
The test kit that we think is by far the best is the Taylor K2006 or 2006C (better buy). Not available locally but you can get it through this link that takes you to Amazon: http://pool9.net/tk/
But, in the meantime, go to Walmart and see if they have the HTH 6-Way drops-based kit (no test strips!) and get that. If they don't, get an OTO/Phenol Red kit (yellow and red drops) instead. Use it to test and then post your numbers. Also while you are at WallyWorld, get several jugs of their generic 8.25% bleach and a couple of boxes of 20 Mule Team Borax (laundry aisle).
We have a Super Simple Start-up Recipe that would perfect for you to use to get your chemistry going. You can read about it here:>
http://pool9.net/ssr/
Repost with requested info and then someone here can try and help you.
Welcome to the Pool Forum, by the way!
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