the pump sucking the air out at the top would stop working, allowing the pump to let air back in, unless you get a stupidly expensive pump, when air can get back in the water will flood out the bottom.
think about it like a straw, you suck the air out and the drink comes up, now if you put your finger over the top so no air can get in, the drink will stay at that height in the straw, as soon as you take your finger off letting air in, the drink will drop down the straw filling the cup with the extra drink.
i suppose there are ways of getting round the issue though, with one way valves, and such. if you really want to do it, then go ahead, but before you do, just imagine trying to clean in it, or trying to scape it. just think of the practicalities first.