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Yee, D.; Franz, A. 2005. Castro Valley Atmospheric Deposition Study. SFEI Contribution No. 430. Brake Pad Partnership.
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Yee, D.; McKee, L. J. .; Oram, J. J. 2010. A Regional Mass Balance of Methylmercury in San Francisco Bay, California, USA. Environmental Toxicology and Chemistry . SFEI Contribution No. 619.
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Yee, D. 2008. Mercury and Methylmercury in North Bay Tidal Marshes. RMP Mercury Coordination Meeting: Oakland,Ca.
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Yee, D. 2015. 2014 RMP Bivalve Samples Quality Assurance Report. San Francisco Estuary Institute: Richmond, CA.
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Yee, D. 2015. 2013 RMP Water Samples Quality Assurance Report. San Francisco Estuary Institute: Richmond, CA.
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Yee, D. 2015. 2014 RMP Sediment Samples Quality Assurance Report. San Francisco Estuary Institute: Richmond, CA.
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Yee, D. 2017. 2016 RMP Bird Egg Samples Quality Assurance Report. San Francisco Estuary Institute: Richmond, CA.
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Yee, D. 2017. 2016 RMP Bivalve Samples Quality Assurance Report. San Francisco Estuary Institute : Richmond, CA.
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Yee, D.; Wong, A.; Shimabuku, I.; Trowbridge, P. 2017. Characterization of Sediment Contamination in Central Bay Margin Areas. SFEI Contribution No. 829. San Francisco Estuary Institute: Richmond, CA.
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Yee, D. 2018. 2017 RMP Water Samples Quality Assurance Report. San Francisco Estuary Institute: Richmond, CA.
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Yee, D. 2018. 2017 RMP Bay Margins Sediment Samples Quality Assurance Report. San Francisco Estuary Institute: Richmond, CA.
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Yee, D.; Wong, A.; Hetzel, F. 2018. Current Knowledge and Data Needs for Dioxins in San Francisco Bay. SFEI Contribution No. 926. San Francisco Estuary Institute : Richmond, CA.
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Yee, D.; Wong, A. 2019. Evaluation of PCB Concentrations, Masses, and Movement from Dredged Areas in San Francisco Bay. SFEI Contribution No. 938. San Francisco Estuary Institute: Richmond, CA.
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Yee, D.; Wong, A.; Buzby, N. 2019. Characterization of Sediment Contamination in South Bay Margin Areas. SFEI Contribution No. 962. San Francisco Estuary Institute: Richmond, CA.

The Bay margins (i.e., mudflats and adjacent shallow areas of the Bay) are important habitats where there is high potential for wildlife to be exposed to contaminants. However, until recently, these areas had not been routinely sampled by the Regional Monitoring Program for Water Quality in San Francisco Bay (RMP) due to logistical considerations. In 2015, the RMP conducted a spatially-distributed characterization of surface sediment contamination and ancillary characteristics within the RMP-defined Central San Francisco Bay margin areas. This was repeated in 2017 within South Bay, which for this report refers to the area collectively encompassing Upper South Bay (usually just called the “South Bay” segment in the Bay RMP, “Upper” added here to distinguish from the combined area), Lower South Bay, and “Extreme” Lower South Bay (previously named “Southern Sloughs”) margin areas.

Ambient margins data in South Bay provide a context against which the severity of contamination at specific sites can be compared. The baseline data could also be useful in setting targets and tracking improvements in watershed loads and their nearfield receiving waters, or for appropriate assessment of re-use or disposal of dredged sediment. These spatially distributed data also provide improved estimates of mean concentrations and contaminant inventories in margins. Based on data from this study, contamination in the margin areas accounts for 35% of PCB mass in the upper 15 cm of surface sediments in South Bay, which is approximately proportional to the relative area of the margin (34% of the region). In contrast, margins only contain 30% of the mercury mass in South Bay, somewhat less than their proportional area.

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Yee, D.; Gilbreath, A. N.; McKee, L. J. .; Davis, J. A. 2019. Conceptual Model to Support PCB Management and Monitoring in the San Leandro Bay Priority Margin Unit - Final Report. SFEI Contribution No. 928. San Francisco Estuary Institute: Richmond, CA.

The goal of RMP PCB special studies over the next few years is to inform the review and possible revision of the PCB TMDL and the reissuance of the Municipal Regional Permit for Stormwater, both of which are tentatively scheduled to occur in 2020. Conceptual model development for a set of four representative priority margin units will provide a foundation for establishing an effective and efficient monitoring plan to track responses to load reductions, and will also help guide planning of management actions. The Emeryville Crescent was the first PMU to be studied in 2015-2016. The San Leandro Bay PMU is second (2016-2018), Steinberger Slough in San Carlos is third (2018), and Richmond Harbor will be fourth (2018-2019).

This document is Phase Three of a report on the conceptual model for San Leandro Bay. A Phase One report (Yee et al. 2017) presented analyses of watershed loading, initial retention, and long-term fate, including results of sediment sampling in 2016. A Phase Two data report (Davis et al. 2017) documented the methods, quality assurance, and all of the results of the 2016 field study. This Phase Three report is the final report that incorporates all of the results of the 2016 field study, and includes additional discussion of the potential influence of contaminated sites in the
watershed, the results of passive sampling by Stanford researchers and a comparative analysis of long-term fate in San Leandro Bay and the Emeryville Crescent, a section on bioaccumulation, and a concluding section with answers to the management questions that were the impetus for the work.

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Yee, D. 2019. 2018 RMP Tissue Data Quality Assurance Report. San Francisco Estuary Institute: Richmond, CA.

In 2018, bivalve tissue samples were collected from six Bay/Delta stations and a reference site for the Regional Monitoring Program for Water Quality in San Francisco Bay. Bird egg tissue samples were collected from two sites for cormorants, and four sites for terns. General descriptions of the sample collection methods are provided in the RMP Quality Assurance Program Plan, cruise plans, cruise reports, and sampling reports. These documents are available from the SFEI website (http://www.sfei.org/content/status-and-trends-monitoring-documents)

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Yee, D. 2019. 2018 RMP Sediment Data Quality Assurance Report. San Francisco Estuary Institute: Richmond, CA.

In 2018, sediment samples were collected from 27 stations (7 historical sites, with the rest from the GRTS random draw panels) for the Regional Monitoring Program for Water Quality in San Francisco Bay. The details of the cruise and sample collection methods are described in the RMP Quality Assurance Program Plan, cruise plans, cruise reports, and field sampling reports. These documents are available from the SFEI website (http://www.sfei.org/content/status-and-trends-monitoring-documents).

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Yee, D. 2021. 2019 RMP Data Quality Assurance Report. San Francisco Estuary Institute: Richmond, CA.

This memo provides a high-level summary of the quality assurance assessment for data reported by the RMP.  In 2019, fish tissue samples were collected from nine Bay/Delta areas and three additional wetland/slough areas for the Regional Monitoring Program for Water Quality in San Francisco Bay (RMP). General descriptions of the sample collection methods are provided in the RMP Quality Assurance Program Plan, cruise plans, cruise reports, and field sampling reports. These documents are available from the SFEI website (http://www.sfei.org/content/status-and-trends-monitoring-documents).

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Yee, D.; Wong, A.; Weaver, M. 2021. 2021 Quality Assurance Program Plan for the Regional Monitoring Program for Water Quality in San Francisco Bay. SFEI Contribution No. 1048. San Francisco Estuary Institute: Richmond, California.
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Yee, D.; Ross, J. 2017. San Francisco Bay California Toxics Rule Priority Pollutant Ambient Water Monitoring Report. SFEI Contribution No. 814. San Francisco Estuary Institute: Richmond.
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Yee, D.; Wong, A. 2023. Re-evaluation of the Floating Percentile Method for Deriving Dredged Sediment Screening Guidelines. SFEI Contribution No. 1143. San Francisco Estuary Institute: Richmond, California.

This document summarizes a study conducted for the Regional Monitoring Program for Water Quality in San Francisco Bay (RMP) to re-evaluate the use of the Floating Percentile Method
(FPM) to derive sediment screening guidelines for dredged material reuse in the San Francisco Bay Region. The Long Term Management Strategy (LTMS) has a goal to use at least 40% of the sediment dredged from San Francisco Bay for beneficial reuse (USACE, 1998). The suitability of dredged sediment for beneficial reuse is in part determined by concentrations of toxic pollutants.The San Francisco Regional Water Quality Control Board (SFB-RWQCB) issued draft screening criteria in 2000 to categorize the suitability of sediment for reuse as either “surface” sediment, that may be placed near the surface for re-use in wetlands, or “foundation” sediment, that is buried under sediment that meets surface criteria. Contaminant concentration guidelines for surface sediment are lower than foundation sediment, based on the assumption that biota are more likely to be exposed to surface sediment than deeper foundation sediment.

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