SBS 2008 Server Reboot  With Hyper-v (Backup Installation)

I very new to server management so this may sound like a stupid question. I have a SBS 2008 server running hyper-v as the base installation and a child SBS 2008 server running inside of that. I not sure exactly how to describe it "officially".

We have been required to terminate a vendor relationship, so I'm required to uninstall Acronis and setup the builtin microsoft backup solution as a temporary solution until we have time to fully review our needs.

My questions:

After installing the Microsoft backup piece,

1. Is there a proper reboot sequence for the servers? Do I just issue a restart command and SBS stops the server and hyper-v server in the proper order or Do I have to do something manually?

2. Are there any "core" items/errors I should keep an watch on during the restart? Only two server apps are running (SharePoint and Exchange) everything else is basic file sharing

3. Since we only run one shift at work, I plan on just doing a full backup each day at the hyper-v level, which I believe will backup "EVERYTHING" including the VM server were we have all our aps and data. Will this type of backup cause any server downtime? Require the servers to reboot?

Thank you in advance for providing you support recommendations.