We can never escape it, try as we might. Natural science might cause us to doubt our religion, but it can only change the form of our religion, never rob us of it. By and through the doubts we have about our religion do we develop and perfect our religious ideas. It is tempting to adopt a position of religious relativism where all religions are equal and whatever religion you have is fine by me. This might be the best way to conduct interpersonal exchanges and get along with your fellows at the office, but it does not follow that all religions are equal just as it is not true that all theories are equally effective in accounting for phenomena.
Some theories have more explanatory power than other.
The same is true with religion. The best religion is the one which is the most wholistic in its vision of human life. Out of all the world's religions I will focus on Christianity and show how it is suited for answering the challenges of natural science. I choose Christianity as the subject for many reasons, the first of which is that I am most familiar with it. However, the most important criterion for this selection is the fact that Christianity makes a unique claim.