You are talking about some fairly technical lab techniques here. If you can jump right into the scientific literature, you can certainly skip over the Christ White book. But, if you can't, it might be the thing that helps get you there. Certainly, it won't teach you to do all of the things you are talking about here.
The starting place for you will be to get some equipment to let you plate out single colonies of yeast. Once you've got pure cultures, there are some heuristics you can do to identify strains, measure healthy, etc. Recognizing the presence of bacteria is easy, but pinpointing a specific species is quite a bit harder and will usually involve some metabolic tests.
As for yeast:bacteria and killing off bacteria, many people will use acid washing, but if your lab samples are contaminated your best bet really is to just get new samples (or to harvest from single colonies on plates).