The official pointed to worryingly high infection rates in highly-populated areas, including 30 new cases in Al-Mazad and 20 in Shambat.
Khartoum has a critically low level of essential medications, including tests for dengue fever which could mean cases are much higher than reported to date.
Pain relievers, rehydration solutions, vitamins and tests for malaria and typhoid are also in short supply.
Residents have been urged to seek medical attention if suffering from dengue symptoms and advised against self-medicating.
Dengue is a viral infection more common in tropical and subtropical climates. The most common symptoms are high fever, headache, body aches, nausea and rash.
Severe forms of dengue, also called dengue haemorrhagic fever, are fatal in more than 50 per cent of cases, according to the WHO.
These infections exhibit a sudden onset of fever, malaise, headache, and myalgia followed by pharyngitis, vomiting, diarrhoea, skin rash, and haemorrhagic manifestations.
There is no specific treatment for dengue and the focus is on treating symptoms.
Globally, the incidence of dengue has grown dramatically in recent decades; the number of cases reported to the WHO increased from 505,430 in 2000 to 5.2 million in 2019.
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