Grant Holt's late strike gave the visitors the win but Hughton was concerned with new signing Whittaker who went straight up the tunnel.
He said: "We will find out over the next couple of days. What he has done is rock his ankle.
"We are hoping it is not going to be too bad but generally with these things, you don't know until the next couple of days to you see how it settles down.
"But we are hoping he is not going to be too bad.
"He has settled in really well but it would be a blow, whether it is Steven or anyone at this stage to be without them for whatever period."