Help with publishing in layers

I am trying to update my site by publishing an update to one of my layers, but it is not working

My site is designed like this

layer 1 backround
layer 2 pg numbers and ads
layer 3 content

I am publishing the page.html that contains my pg numbers. When I do this my regular index pages are not updateing? So I tryed to republish the original index page and then publishing the page.html that contains my updated pg numbers that I want displayed on every page of the site?

Can someone suggest why this does not work or how I can do this