These diseases, the global health body said, affect the most marginalised and neglected population, pushing them further into poverty and a life marred by deformity and stigma.
Among the six WHO regions, South-East Asia continues to bear the second highest burden of NTDs.
It has the highest burden of lymphatic filariasis, accounting for 53 per cent of global population requiring preventive chemotherapy.
The region also accounts for 74 per cent of new leprosy cases reported globally, nearly 41 per cent of global kala- azar cases and 42 per cent of children who require preventive chemotherapy for soil-transmitted helminths.
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"WHO South-East Asia made the battle against NTDs a regional health priority and a flagship programme in 2014. We are seeing significant progress.
"Last year alone India was declared yaws-free, and Maldives and Sri Lanka eliminated lymphatic filariasis as a public health problem. Our region continues to undertake the largest preventive chemotherapy campaign in the world," said Poonam Khetrapal Singh, Regional Director, the WHO SEAR.
The call stressed on promoting innovation and research to improve surveillance, diagnosis and treatment for further reducing NTD diseases burden.
The WHO South-East Asia Region is targeting elimination of lymphatic filariasis, kala-azar, schistosomiasis, trachoma and leprosy as a public health problem and is also seeking to end yaws.
Out of the nine countries endemic for lymphatic filariasis (LF) in the region, Maldives and Sri Lanka have eliminated the disease as a public health problem.
Thailand and Bangladesh have completed mass drug administration (key initiative for LF elimination) in all endemic areas, while India became the first country globally to be verified for yaws elimination and formally acknowledged to be yaws free in 2016.
The Jakarta Call also sought innovative approaches to increase community participation and monitor progress on a real time basis at the lowest possible administrative level and introduce new tools as soon as they are made available.
"Though more countries are getting closer to eliminating various NTDs, challenges remain, which need to be dealt with on a priority," the Regional Director said.