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Table S1. Location of sites sampled in America's Cup, Harbor Island West and Harbor Island East, San Diego Bay, California, and their sediment properties.

Table S2. Mean density (No individuals 20.4 cm-2 core) ±1 SE of macrofaunal taxa at sites of America's Cup, Harbor Island West, and Harbor Island East, San Diego Bay, California.

Table S3. Mean density (No individual 20.4 cm-2 core) ±1 SE of macrofauna taxa at sites with and without boats in America's Cup, San Diego Bay, California.

Table S4. Mean density (No individual 20.4 cm-2 core) ±1 SE of macrofauna taxa at sites with and without boats in Harbor Island West, San Diego Bay, California.

Table S5. Mean density (No individual 20.4 cm-2 core) ±1 SE of macrofauna taxa at sites with and without boats in Harbor Island East, San Diego Bay, California.

Table S6. Redundancy analysis (RDA) describing relationships between community structureand the environmental variables (sediment Cu, dissolved Cu in bottom water, free Cu++ in bottom water, free Cu++ in porewater, mud, sand, chl a, phaeopigments, redox potential, total organic matter) identified by a forward stepwise selection.

Table S7. Partial redundancy analysis (pRDA) describing relationships between macrofaunal structure and variables of interest (sediment Cu, dissolved Cu in bottom water, free Cu++ in bottom water, free Cu++ in porewater, after removing effects of the non Cu variables.

Table S8. Tissue Cu concentrations in invertebrate species at sites with and without boats in America's Cup (AC), Harbor Island West (HW), and Harbor Island East (HE), San Diego Bay, California. Background Cu concentrations sediment are indicated at the last column.

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