
They are popular with humans as well. Currently about 60% of the world's population lives along estuaries and the coast. Consequently, they are also subject to degradation from sedimentation, pollutants present in agricultural, domestic, and industrial runoff, and eutrophication due to nutrient overload.

Compared to test results from Grizzly Flat (upper watershed) and the junction of Corralitos and Salsipuedes Creeks (lower watershed), oxygen levels were lower and both nitrate and phosphate levels were higher. Students hypothesized that the cumulative impact of agricultural practices in the region is negatively affecting the quality of the Pajaro River.
This estuary is also home to a population of Western Snowy Plovers, a threatened shorebird that nests on the beach.
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