As long as the metered number is not in your source code, then you will be OK.
We've been doing this for many years, and have never had a problem.
The only time I see issues, is when an IYP (internet yellow page) site, uses a metered number directly in their listing for your business. Although it's nice for their own tracking, I've always found that search engines like to see consistency in business listings across the net. In these cases, I ask the IYP to set the business's phone number in the listing back to the business's non-metered number.
<I know a company that
Hopefully that helps.
[edited by: aakk9999 at 1:44 pm (utc) on Feb 3, 2014]
[edit reason] Removed specifics [/edit]