The distribution and possible sources of particulate organic carbon (POC) and particulate nitrogen (PN) in seven mangroves ecosystems along the east and west coast of India were examined, to understand their contribution to coastal biogeochemistry. Suspended particulate matter (SPM) concentration in mangrove waters were about ~ 1.6-fold higher in west coast (Gulf of Kachchh (GOK), Mandovi-Zuari (MA-ZU) and Karwar-Kumta (KR-KU)], whereas the mean POC content in SPM along east coast [Sundarbans (SUN), Bhitarkanika (BHK), Coringa (COR) and Pichavaram-Muthupet (PI-MU)] was nearly two times higher than the west coast (1.97 ± 0.91% and 1.06 ± 0.29%), respectively. The results indicated that the influence of the land-based contaminants on the water quality parameters (dissolved oxygen, pH, salinity, nutrients and chlorophyll-a, etc.), which primarily regulated the distribution and transformation of organic carbon in these mangrove waters. Among the studied systems, an extremely high DOC/POC ratio (5.72 ± 1.64) with low pH and DO in COR waters clearly indicated the labile nature of the organic matter influenced by anthropogenic stress. Strong correlation between POC and PN indicated a similar origin in particulate organic matter. The ratios of POC/PN and POC/Chl-a showed significant spatial variation ranging from 5.5 to 18.7 and 126 to 1057, respectively. The results indicated that significant fraction of in-situ primary production contributed to particulate organic matter (POM) pool in all Indian mangrove waters except the GOK and the SUN waters, where sediment resuspension and mangrove derived organic matter were the dominant POM sources.