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Facebook automatically place ads in your instant articles, or you can place the ads manually. Facebook will pay you.
Also you can use Adsense in the instant articles, but I never used this.
If you question was to run ads to promote the instant articles, yes you can.
Yes, you can do Boost direct from page and you can also do ads from Ads Manager, in the same way you advertise a normal link. It will appear as Instant everywhere on Facebook.