Steve7150,
As far as the complexity of DNA goes. It's actually not as complex as it seems! There is a lot of "data" in the genome but much of it is "junk" basically there for historical reasons. Now, you wouldn't expect a Designer (especially the perfect one) to put junk code into its creation?
Not all of biogenesis can be explained by science today. That much is true but to asume a supernatural cause of life on earth is certainly premature. The research in these areas is progressing very nicely. Some of the building blocks of life can be recreated in the lab. Not all of them but some. However, science has not closed the book on that yet.
As far as evolution itself goes? We do have transitional spiecies in the evolution chain. Just last month a fossil of an animal that was half land half waterborne was discovered. Anyway there are true transitional spiecies. However, I think the whole evolution debate is orthogonal to religious beliefs. Obviulsy I accept the evolution theory but so do many Catholics without rejecting the Bible. It is only certain denominations of Christianity that rejejct evolution.
As for the beginning of the Universe itself? To be honest the existing answer is "don't know" and I learned to grow comfortable with this answer. I don't have to know everything right now. However, questions such as "what happened before the Big Bang?" might make little sense. Perhaps it's like asking "what lies north of the North Pole?". Remember, there was not time before the Big Bang. Thus asking about "before" only makes sense in the 3+1 dimensions that we experience every day. Anyway, it is a big question of science and one that does not have the final answer.
Jim,
I went from being a devout Catholic, to being a pretty sceptical one (as I researched the subject for myself) to creating my own New-Age type spirituality, to eventually deciding that there is zero evidence for any of it and admitting to myself that I simply did not believe in the supernatural.
However, the transition was far from smooth or stress free. The big gaping gap of science for me was the Copenhagen interpretation of Quantum Mechanics - a very spooky phenomenon that could point to existence of consciousness outside of a physical body. But then, I looked at people with brain damage and it became clear that our consciousness appears to be generated in our brains (think about people wiht Alzheimers etc). Thus the significance of the brain in our cognition appears to point to a naturalistic explanation of consciousness.
However, if one was to construe a scientific argument for a "soul" or "spirit" then the QM interpretations leave a door open. That said, there are other Quantum Mechanics interpretations (Many Worlds for example) which do not mandate consciousness outside the material world and I gravitate towards them because such a world view is more consistent with the "consciousness in the brain" scenario.
On a different note. I expected to see a question regarding my attitude towards religion. You know whether I'm angry at God etc.
Since nobody asked I'll answer anyway

. I'm not angry at God or church. However, I must admit, religion sort of scares me. I know I'm not the only atheist to say this. People like George W Bush and Osama bin Laden while professing to hold opposite world views are actually more alike than different. Both are intolerant of non-believers. Both see themselves as "the righteous ones" and both think that the end justifies the means. I'm not an atheist who thinks that religion is the root of all evil, but I do worry about militant religiosity exhibited by both bin Laden and Bush. I also worry that Bush has the support of Christians in America given some very un-Christian things he has done since becoming president (like launching wars or condoning torture). Now, I'm not vindicating bin Laden here or the Islamic extremists because they are evil people but... I haven't a clue how so many evangelicals see Bush as "their" president. Why is that? Just because he wants to stop gay marriage? It's a phony distraction issue that Bush played up to capture the votes of the gullible. Not everyone who waves the Bible in their hands lives by the "Golden Rule" of Jesus. Think about this.