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Questions to ask:

1) What vaccine protocol do you recommend (most will give distemper/parvo in several boosters)?

2) Is there any particular food that the vet recommends (I personally recommend Science Diet Puppy)?

3) Report to your vet any abnormal coughing/sneezing, vomiting/diarrhea.

4) It is recommended to have a fecal float analysis to rule out any parasites the pup might have.

Most vets will check for congenital defects with a physical exam of the puppy. They will look for open fontanel, cleft palate, heart murmurs, and luxating patellas (along with other things)

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Q: Hi you just bought a yorkie he is 9 weeks old you want to take him to a vet to be checked out as soon as possible What questions should you ask the vet and how will they check for congenital defects?
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