Should you use AWS Route 53 for both your domains and subdomains or use it only for one of them?

We have a domain on GoDaddy and planning on routing the traffic to it through Route 53 and later will be creating subdomains using Route 53 too. So I wanted to know what are the pros and cons and also the security concerns for both scenarios of using GoDaddy for only the domain and Route 53 for subdomains and vice versa.