The plants don't use enough C02 during and after germination to need any extra air than what's in the flask, so sow away and seal it up tight!
When it's time to replate the seeds into another flask so they can grow bigger, you want to use a 'vented' flask, which is just a flask with a hole in the lid, with the hole covered with cotton, Tyvek, micropore tape, or something else that lets air in while filter mold spores out. That should give the slightly larger plants enough C02 to grow while in the flask.
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