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Little known to the public at age 60, he would become one of the country's most honoured and successful writers despite rarely talking to the press.
Siddiqui and his colleagues Adnan Abidi, Sanna Irshad Mattoo and Amit Dave from the Reuters news agency won the award.
The renowned photojournalist, who was killed in Afghanistan two days ago, is an alumnus of Jamia Millia Islamia.
The award in the international reporting category that she shared with two colleagues from an internet media, BuzzFeed News, was announced on Friday by the Pulitzer Board.
Darnella Frazier was cited for courageously recording the murder of George Floyd, a video that spurred protests against police brutality, around the world, highlighting the crucial role of citizens in journalists' quest for truth and justice.
The journalist fraternity has also hailed the first Pulitzer winners from Jammu and Kashmir.
The New York Times won a prize for explanatory reporting of Trump's finances and tax avoidance and another for editorial writing by Brent Staples.