Agricultural Losses from Salinity in California’s Sacramento-San Joaquin Delta

University of California, Davis (UC Davis) | April 5th, 2014

Sea level rise, large-scale flooding, and new conveyance arrangements for water exports may increase future water salinity for local agricultural production in California

Sea level rise, large-scale flooding, and new conveyance arrangements for water exports may increase future water salinity for local agricultural production in California’s Sacramento–San Joaquin Delta. Increasing salinity in crop root zones often decreases crop yields and crop revenues. Salinity effects are nonlinear and vary with crop choice and other factors including drainage and residence time of irrigation water. Here, we explore changes in agricultural production in the Delta under various combinations of water management, large-scale flooding, and future sea level rise. Water management alternatives include through-Delta water exports (current conditions), dual conveyance (through-Delta and a 6,700 Mm3 yr?1 [or 7500 cfs] capacity peripheral canal or tunnel) and the flooding of five western islands with and without peripheral exports. We employ results from previous hydrodynamic simulations of likely changes in salinity for irrigation water at points in the Delta. We connect these irrigation water salinity values into a detailed agro-economic model of Delta agriculture to estimate local crop yield and farm revenue losses. Previous hydrodynamic modeling work shows that sea level rise is likely to increase salinity from 4% to 130% in this century, depending on the increase in sea level and location. Changes in water management under dual conveyance increase salinity mostly in the western Delta, and to a lesser extent in the north, where current salinity levels are now quite low. Because locations likely to experience the largest salinity increases already have a lower-value crop mix, the worst-case losses are less than 1% of total Delta crop revenues. This result also holds for salinity increases from permanent flooding of western islands that serve as a salinity barrier. Our results suggest that salinity increases could have much smaller economic effects on Delta farming than other likely changes in the Delta such as the retirement of agricultural lands after large-scale flooding and habitat development. Integrating hydrodynamic, water salinity, and economic models can provide insights into controversial management issues.

Alternative Flame Retardants in San Francisco Bay: Synthesis and Strategy

San Francisco Estuary Institute (SFEI) | September 3rd, 2018

The RMP Small Tributaries Loading Strategy (STLS) Team and the Sources, Pathways and Loadings Workgroup (SPLWG) developed and funded a $13,000 special study in 2018 to re

The RMP Small Tributaries Loading Strategy (STLS) Team and the Sources, Pathways and Loadings Workgroup (SPLWG) developed and funded a $13,000 special study in 2018 to review available data and previously developed conceptual models for polybrominated diphenyl ethers (PBDEs) to support a stormwater-related alternative flame retardants conceptual model. This technical report summarizes the results of the study. 

Alternatives for Delta Water Transfers

California Department of Water Resources (DWR) | November 1st, 1983

Aluminum- and iron-based coagulation for in-situ removal of dissolved organic carbon, disinfection byproducts, mercury and other constituents from agricultural drain water

Journal of Geochemical Exploration (Elsevier) | May 9th, 2019

Agricultural production on wetland soils can be significant sources of dissolved organic carbon (DOC), disinfection byproduct precursors, mercury and nutrients to downst

Agricultural production on wetland soils can be significant sources of dissolved organic carbon (DOC), disinfection byproduct precursors, mercury and nutrients to downstream water bodies and accelerate land subsidence. Presented as a potential solution for in-situ water quality improvement and land subsidence mitigation, chemically enhanced treatment wetlands (CETWs) were used to leverage both coagulation and wetland processes. In this study, we evaluated the performance of coagulants ferric sulfate (Fe dosing) and polyaluminum chloride (Al dosing) to remove pollutants from agricultural drain water using the coagulation system designed for CETWs. Both coagulation treatments removed over 70% DOC from source waters, resulting in removal efficiencies (mg-DOC removed per mg-metal dosed) of 1 under Al dosing and 0.5 under Fe dosing. Coagulation by both treatments preferentially removed UV254 active compounds compared to the bulk DOC concentration, suggesting coagulation targeted aromatics more effectively. Phosphates and haloacetic acids were also removed more readily, whereas trihalomethanes, dissolved organic nitrogen and filtered mercury species were removed at similar or lower rates than DOC. Dissolved inorganic nitrogen was not amenable to coagulation and removal was not observed. Freundlich, Langmuir and Monod models explained 33% of the variance in DOC removal for Al dosing and 78–89% of the variance for Fe dosing. All three models indicated Al dosing had higher removal efficiency and affinity for DOC than Fe dosing under study conditions, but when used to predict maximum removal efficiency there was no cohesiveness between the three models due to different model assumptions. Consideration of fluorescence dissolved organic matter and UV254 as surrogates for DOC concentration showed both were equally suitable before coagulant application, but as surrogates after coagulant application, neither could be deemed more fit as a surrogate since both were shown suitable for different treatment scenarios.

American and Sacramento Rivers, California, Erodibility Measurements and Model

U.S. Geological Survey (USGS) | August 11th, 2021

A previous report by the authors described sediment sampling and drilling by the U.S. Geological Survey (USGS) beside the American and Sacramento Rivers near Sacramento,

A previous report by the authors described sediment sampling and drilling by the U.S. Geological Survey (USGS) beside the American and Sacramento Rivers near Sacramento, California, in support of a U.S. Army Corps of Engineers project focused on regional flood control. The drilling was performed to define lithology, extract samples for laboratory testing, and perform borehole erosion tests (BETs). The U.S. Department of Agriculture (USDA) performed jet erodibility tests (JETs) near each drilling site, and a team from Texas A&M University performed laboratory tests with an erosion function apparatus (EFA). Collectively, the effort was intended to reveal spatial variations in sediment erodibility and provide data for use in a model to simulate morphological response to a major flood. The data collected by the USGS are available in a public data release. This report, developed in cooperation with the U.S. Army Corps of Engineers, provides comparisons of the three types of measurements of the erodibility of riverbed sediments. The BET is performed in the field and reveals erodibility of sediments below the bed surface. The JET is likewise performed in the field but reveals only erodibility of exposed sediments. The EFA test is done in the laboratory and was performed on soils extracted from different depths beneath the bed surface, in many cases reconstituted for laboratory testing. Tests were performed at nominally similar locations but differed by meters to tens of meters in horizontal locations. The comparison was undertaken to investigate differences among results obtained by the individual measurement approaches and to elucidate pros and cons of each method. The critical shear stress to initiate erosion and the rate of change of erosion rate per unit increase of excess shear stress, sometimes referred to as the erosion coefficient, served as the primary basis for comparison. The three test methods in some cases resulted in order of magnitude differences in estimates of these parameters. Some differences could be attributed to variances in site location or result from testing surface sediment versus a deeper layer, but systematic differences are also evident in the results. The tests performed in the laboratory using the EFA resulted in much lower values of critical shear stress and much higher values of the erosion coefficient compared to the JET tests performed by the USDA team on surface sediments. Critical shear stress was poorly resolved in the BET results because of the limited number of results per site, but the erosion coefficients derived from BET results were systematically lower than those obtained using the EFA. A new, simplified approach is also proposed to estimate the increase in channel cross-sectional area during a large flood, given data describing the initial river cross section, riverbed erodibility parameters, and peak flood discharge and duration. The model runs until the cross section erodes to an equilibrium condition or the flood ends. Output describes the area of the cross section at the end of the simulation and the time required to reach equilibrium if it was reached within the simulated period. The model assumes unique, constant values for both the critical shear stress and the erosion coefficient and represents the fluid mechanics in a simplified way, making it of limited value for quantitative predictions. It does, however, provide an indication of which cross sections are most likely to undergo the greatest change in the design event and can be used to investigate sensitivity of erosion predictions to variability in sediment erodibility measurements.

American shad — the Delta’s most-abundant and least-considered anadromous fish

Center for California Water Resources Policy & Management | February 21st, 2022

American shad are the Chinook salmon of herring. Like Chinook salmon, adult American shad spend several years in the ocean before returning to rivers for spawning — the

American shad are the Chinook salmon of herring. Like Chinook salmon, adult American shad spend several years in the ocean before returning to rivers for spawning — they’re anadromous. Also, like salmon, anglers love shad because they’re fun to catch and good to eat. Well, okay, shad are not as good to eat as ocean caught salmon, but they are delicious when prepared well. American shad are native to the east coast of North American. They were introduced to the Sacramento River after repeated releases of shad fry — transported via the then newly completed transcontinental railroad — between 1871 and 1880. Shad quickly became abundant in the Sacramento River and proceeded to colonize many other rivers along the West Coast. In the Columbia River system, shad are now the most abundant anadromous fish species migrating upstream through impoundments on the lower Columbia River. At Bonneville Dam — 140 river miles upstream of the Columbia River mouth — an average of 2.2 million adult shad migrated upstream each year between 1992 and 2003. In contrast, an average of 940,000 adult salmonids migrated annually past Bonneville Dam during the same period.

An Alternative Technique to Quantify the Incidental Take of Listed Anadromous Fishes at the Federal and State Water Export Facilities in the San Francisco Bay-Delta Estuary

National Marine Fisheries Service (NMFS) | July 1st, 2011

An assessment of future tidal marsh resilience in the San Francisco Estuary through modeling and quantifiable metrics of sustainability

Frontiers in Environmental Science (Frontiers) | November 25th, 2022

Quantitative, broadly applicable metrics of resilience are needed to effectively manage tidal marshes into the future. Here we quantified three metrics of temporal marsh

Quantitative, broadly applicable metrics of resilience are needed to effectively manage tidal marshes into the future. Here we quantified three metrics of temporal marsh resilience: time to marsh drowning, time to marsh tipping point, and the probability of a regime shift, defined as the conditional probability of a transition to an alternative super-optimal, suboptimal, or drowned state. We used organic matter content (loss on ignition, LOI) and peat age combined with the Coastal Wetland Equilibrium Model (CWEM) to track wetland development and resilience under different sea-level rise scenarios in the Sacramento-San Joaquin Delta (Delta) of California. A 100-year hindcast of the model showed excellent agreement (R2 = 0.96) between observed (2.86 mm/year) and predicted vertical accretion rates (2.98 mm/year) and correctly predicted a recovery in LOI (R2 = 0.76) after the California Gold Rush. Vertical accretion in the tidal freshwater marshes of the Delta is dominated by organic production. The large elevation range of the vegetation combined with high relative marsh elevation provides Delta marshes with resilience and elevation capital sufficiently great to tolerate centenary sea-level rise (CLSR) as high as 200 cm. The initial relative elevation of a marsh was a strong determinant of marsh survival time and tipping point. For a Delta marsh of average elevation, the tipping point at which vertical accretion no longer keeps up with the rate of sea-level rise is 50 years or more. Simulated, triennial additions of 6 mm of sediment via episodic atmospheric rivers increased the proportion of marshes surviving from 51% to 72% and decreased the proportion drowning from 49% to 28%. Our temporal metrics provide critical time frames for adaptively managing marshes, restoring marshes with the best chance of survival, and seizing opportunities for establishing migration corridors, which are all essential for safeguarding future habitats for sensitive species.

An Evaluation of Juvenile Salmonid Routing and Barrier Effectiveness, Predation, and Predatory Fishes at the Head of Old River, 2009–2012

California Department of Water Resources (DWR) | February 2nd, 2015

The California Department of Water Resources (DWR) and the U.S. Bureau of Reclamation (Reclamation) manage the State Water Project (SWP) and Central Valley Project (CVP),

The California Department of Water Resources (DWR) and the U.S. Bureau of Reclamation (Reclamation) manage the State Water Project (SWP) and Central Valley Project (CVP), respectively, and are charged to do so in a manner that maintains the survival of anadromous salmonids subject to the terms of the National Marine Fisheries Service’s (NMFS) 2009 Biological Opinion (BO) and 2011 amendments regarding the Long-Term Central Valley Project and State Water Project Operations Criteria and Plan (OCAP). Action IV.1.3 of the NMFS’s 2009 BO instructs these agencies to “consider engineering solutions to further reduce diversion of emigrating juvenile salmonids to the interior and southern Delta, and reduce exposure to CVP and SWP export facilities.” Specifically, one objective of Action IV.1.3 is to “prevent emigrating salmonids from entering channels in the south Delta (e.g., Old River, Turner Cut) that increase entrainment risk to Central Valley steelhead migrating from the San Joaquin River through the Delta.”

An Introduction to EcoAtlas: Applied Aquatic Science

San Francisco Estuary Institute (SFEI) | September 14th, 2016

The term “EcoAtlas” has been in use for over 20 years in association with the study, assessment, and reporting of aquatic resources in California. What began as “W

The term “EcoAtlas” has been in use for over 20 years in association with the study, assessment, and reporting of aquatic resources in California. What began as “Wetland Tracker” in 2000, with its goal of recording essential information about wetland restoration projects in the greater Bay Area, later blossomed into a broad technological ecosystem of interrelated tools, each focused on delivering specialized, program-focused features, as defined by key stakeholder groups. Having evolved over time, EcoAtlas comprises a diverse toolset, but the collection shares common libraries, common approaches, and common development methodologies. Though each emerged from different funding opportunities and requirement drivers, the toolset collectively addresses a synthesized “whole watershed approach.” Whether estimating the ideal riparian buffer width for a given stream or assessing the health of a wetland at the edge of the estuary, the EcoAtlas tools allow practitioners to deploy the right tool for the job across the entire watershed, thereby producing a complete picture through composite outputs.