Lynn was a dominant force for Brisbane Heat in this summer's BBL but was under a selection cloud for international duties with ongoing neck concerns.
He aggravated the injury at training last week.
"Chris will be seeing a specialist later this week and from there we will have a better understanding of the ongoing management, along with the return to play timeframes," Australian team physiotherapist Kevin Sims said.
Lynn will be replaced by the fast-scoring Dunk, who made 364 runs from just 222 balls for the Adelaide Strikers in this year's BBL.
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