Synodontis khartoumensis is a species of upside-down catfish that is native to the Democratic Republic of the Congo, Sudan and Uganda where it occurs in Lake Albert and the Nile basin. It was first described by Yousif Babiker Abu Gideiri in 1967. The original specimens were obtained in the Blue Nile, about 2 miles away from the confluence of the Blue Nile and the White Nile, near Khartoum, Sudan. The species name khartoumensis is derived from the city of Khartoum, where the type species was originally found.

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