In September 1961, Wharton and two colleagues sent out a circular to scientists involved in freshwater research, proposing the formation of a dedicated society. A meeting to discuss this possibility was held on 21 October 1961 at the Australian National University, resulting in the formation of the Australian Society of Limnology. The society's inaugural meeting took place at Monash University in May 1962. Wharton remained a member of the society until 2002. He was also an early president of the Australian Society for Fish Biology in 1975.