On January 6, 2009, CNN announced that Gupta had been considered for the position of Surgeon General by President Barack Obama. Some doctors said that his communication skills and high profile would allow him to highlight medical issues and prioritize medical reform. However, others raised concerns about potential conflicts of interest with drug companies who have sponsored his broadcasts and his lack of skepticism in weighing the costs and benefits of medical treatments. Representative John Conyers, Jr. (D-MI), wrote a letter opposing Gupta's nomination. Conyers supports a single-payer health care system, the sort that Conyers' filmmaker friend Michael Moore advocated in his documentary Sicko; Gupta has criticized Moore and the film. Others, such as liberal commentator Jane Hamsher, defended the appointment, noting that Gupta's responsibilities as a surgeon general would be not that different from those of his CNN position, and that Gupta's media presence would make him ideal for the position. From the medical community, Donna Wright, of Creative Health Care Management, a regular commentator on medicine and politics, also defended the appointment on the grounds of his media presence, combined with his medical qualifications, which she viewed as an ideal combination for the post of surgeon general. Likewise, Fred Sanfilippo, executive vice president for health affairs at Emory University, supported Gupta's nomination by issuing a press release saying: "He has the character, training, intelligence and communications skills needed to help the United States improve its health and health care delivery systems in the next Administration." The American Council on Exercise, listed by PR Newswire as "America's leading authority on fitness and one of the largest fitness certification, education and training organizations in the world", endorsed the nomination of Gupta "because of his passion for inspiring Americans to lead healthier, more active lives". The ACE sent a letter of support to senator Edward M. Kennedy. Former surgeon general Joycelyn Elders also supported Gupta's nomination, saying: "He has enough well-trained, well-qualified public health people to teach him the things he needs to do the job." In March 2009 Gupta withdrew his name from consideration for the post, citing his family and his career.

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Former surgeon general Joycelyn Elders also supported Gupta's nomination, saying: "He has enough well-trained, well-qualified public health people to teach him the things he needs to do the job."