Relationship between wetland size and CRAM condition scores for depressional wetlands

San Francisco Estuary Institute (SFEI) | March 28th, 2016

Resilient landscape vision for Lower Walnut Creek

San Francisco Estuary Institute (SFEI) | November 30th, 2016

Lower Walnut Creek (Contra Costa County, CA) and its surrounding landscape have undergone considerable land reclamation and development since the mid-nineteenth century.

Lower Walnut Creek (Contra Costa County, CA) and its surrounding landscape have undergone considerable land reclamation and development since the mid-nineteenth century. In 1965, the lower 22 miles of Walnut Creek and the lower reaches of major tributaries were converted to flood control channels to protect the surrounding developed land. In the recent past, sediment was periodically removed from the lower Walnut Creek Flood Control Channel to provide flow capacity and necessary flood protection. Due to the wildlife impacts and costs associated with this practice, the Contra Costa County Flood Control and Water Conservation District (District) is now seeking a new channel management approach that works with natural processes and benefits people and wildlife in a cost-effective manner. Flood Control 2.0 project scientists and a Regional Science Advisory Team (RSAT) worked with the District to develop a long-term management Vision for lower Walnut Creek that could result in a multi-benefit landscape that restores lost habitat and is resilient under a changing climate. Development of the Vision began with technical analyses focused on understanding past and present landscape functioning and the changes to key processes and landscape features over the past 150 to 200 years. The key findings from these analyses include the following: • Landscape change – During the mid-19th century, lower Walnut Creek was surrounded by a continuous expanse of tidal wetlands occupying approximately 5,000 acres. Perennial freshwater marsh, willow thicket, and alkali meadow formed a large non-tidal wetland complex that adjoined the tidal marsh on its southern end. Over the past century and a half, the non-tidal wetland complex has been lost completely and the tidal wetland area has decreased by 40%. The remaining marsh areas are highly fragmented and cut-off from Walnut Creek by engineered levees. The loss of tidal wetland area has resulted in a substantial decrease in tidal prism and contributed to current in-channel sediment accumulation issues. Around the mouth of Walnut Creek, sediment accumulation has caused the position of the shoreline to expand into the Bay by up to half a mile. • Sediment accumulation – Since 1965, approximately 1.4M cubic yards of sediment have been removed from lower Walnut Creek, with approximately 70% coming from the tidal zone downstream of head of tide (i.e., the inland extent of tidal inundation at mean higher high water). Repeat channel cross-section surveys indicate that the channel quickly fills in with sediment following dredging events (due in large part to decreased tidal prism and associated channel scour capacity) and that the channel bed elevation is currently at or near “quasi-equilibrium.” A channel sediment budget for 1965-2007 indicates that approximately 80% of the watershed-derived sediment made it through lower Walnut Creek and out to the Bay, while the remaining 20% was likely deposited directly following channel construction and subsequent dredging events.

Restoration Vision for the Laguna de Santa Rosa

San Francisco Estuary Institute (SFEI) | April 1st, 2020

The Laguna de Santa Rosa, located in the Russian River watershed in Sonoma County, CA, is an expansive freshwater wetland complex that hosts a rich diversity of plant a

The Laguna de Santa Rosa, located in the Russian River watershed in Sonoma County, CA, is an expansive freshwater wetland complex that hosts a rich diversity of plant and wildlife species, many of which are federally or state listed as threatened, endangered, or species of special concern. The Laguna is also home to a thriving agricultural community that depends on the land for its livelihood. Since the mid-19th century, development within the Laguna and its surrounding watershed have had a considerable impact on the landscape, affecting both wildlife and people. Compared to predevelopment conditions, the Laguna currently experiences increased stormwater runoff and flooding, increased delivery and accumulation of fine sediment and nutrients, spread of problematic invasive species, and decreased habitat for native fish and wildlife species. Predicted changes in future precipitation patterns and summertime air temperatures, combined with expanding development pressure, could exacerbate these problems. People who manage land and regulate land management decisions in and around the Laguna, including landowners; federal, state, and local agencies; and local stakeholders, are seeking a long-term management approach for the Laguna that improves conditions for the wildlife and people that call the Laguna home. The California Department of Fish and Wildlife and Sonoma Water funded the Laguna-Mark West Creek Watershed Master Restoration Planning Project to develop such a management approach, focusing on the need to identify restoration and management actions that enhance desired ecological functions of the Laguna, while also supporting the area’s agriculture and its local residents.

Reversal in estuarine sand supply driven by Holocene sea level rise: A model for sand transport in large structural estuaries, San Francisco Bay, California, USA

Elsevier | July 26th, 2024

Coastal sand supply is a critical component of shoreline stability in the face of modern threats to coastal zones such as sea level rise or anthropogenic sediment extract

Coastal sand supply is a critical component of shoreline stability in the face of modern threats to coastal zones such as sea level rise or anthropogenic sediment extraction. Understanding the natural and anthropogenically perturbed dynamics of coastal systems has become a pressing challenge for coastal communities, such as the San Francisco Bay area in the United Sates, a large structurally controlled estuary system where stakeholders seek to balance the extraction of coastal sand resources for economic use and ensure sufficient sand supply for sustaining natural coastal environments. Developing accurate and comprehensive models of sand inputs and transport pathways in different types of coastal systems is imperative to balancing these competing needs. While estuarine sediment transport has been well-studied in many systems globally, structurally controlled estuaries in tectonically active settings have received relatively less attention. The prevailing hypothesis for sediment transport through San Francisco Bay describes active input and transport of sand from a large integrated regional catchment, through multiple subembayments, and out to Pacific coast beaches; a model contrary to prevailing understanding of highstand estuarine sediment transport in most settings. We test this model by applying comprehensive sand provenance analysis to surface and near-surface sand deposits in and around San Francisco Bay coupled with sand residence time data from optically stimulated luminescence (OSL) dating. New provenance results include sand petrography modal abundances, bulk geochemistry, and U-Pb detrital zircon geochronology from 27 Holocene samples throughout the San Francisco Bay region. Collectively, these new results highlight marked sediment provenance and residence time differences between San Francisco Bay structural subembayments. In particular, distinct compositional differences and OSL ages exist between sand in the bayhead region of the estuary (OSL ages ca. 4 ka; Sacramento River/local provenance) and sand from the more distal bay regions and the Pacific coast (OSL ages ca. 1 ka; integrated Sierra Nevada provenance). These provenance differences better support a revised sand input and transport model with disconnected depocenters across three structurally restricted subembayments from bayhead to the Pacific coast. New data suggest that at present the bayhead region receives limited supply from the Sacramento-San Joaquin Delta drainage with subsidiary supply from local circum-bay drainages. Sand deposited in the region from the Pacific coast through the inlet (Golden Gate) and into the estuary consists of a combination of tidal winnowing and reworking of “relic” sand from lowstand periods combined with sand eroded from Pacific coast sea cliffs, and sand supply from local Coast Range drainages. These results suggest that sand is likely not transported directly to the Pacific coast from the Sacramento-San Joaquin Delta under modern conditions. Moreover, it is likely that structural constrictions between the main estuary and outer coast and between estuary subembayments cause abrupt cessation of sediment input from the main regional drainage during marine flooding, a feature likely common to large structurally controlled estuaries globally. This revised model for San Francisco Bay sand transport illustrates the need for research targeted at interpreting natural sand transport pathways in coastal systems where coarse sediment supply is a sustainability concern.

RipZET: Documentation of Tool Demonstration in Marin County

San Francisco Estuary Institute (SFEI) | March 31st, 2015

The San Francisco Estuary Institute and Aquatic Science Center (SFEI‐ASC) has developed the Riparian Zone Estimation Tool (RipZET) to help the California community of

The San Francisco Estuary Institute and Aquatic Science Center (SFEI‐ASC) has developed the Riparian Zone Estimation Tool (RipZET) to help the California community of riparian interests visualize and characterize riparian areas as habitat unto themselves as well as their capacity to function as buffers for protecting the ecosystem services of the state’s streams, lakes and wetlands. RipZET is a tool used with Geographic Information System (GIS) and spreadsheet software to estimate “functional riparian width,” or the width associated with different riparian functions (e.g., large woody debris input, shading, floodwater storage), which varies with channel type and watershed location. The concept of functional riparian width is central to the riparian definition recommended by the National Research Council (NRC 2002) and is integral in many recently developed riparian design and management guidelines around the country.

Salton Sea Management Program Phase 1: 10-Year Plan Imperial and Riverside Counties, California Draft Environmental Assessment

U.S. Army Corps of Engineers (USACE) | June 21st, 2022

This Environmental Assessment (EA) was prepared pursuant to the National Environmental Policy Act (NEPA) and analyzes and discloses the effects of the implementation of t

This Environmental Assessment (EA) was prepared pursuant to the National Environmental Policy Act (NEPA) and analyzes and discloses the effects of the implementation of the Salton Sea Management Program’s (SSMP’s) Phase 1: 10-Year Plan (SSMP 10-Year Plan or Applicant’s Proposed Project) being proposed by CNRA (California Natural Resource Agency), California Department of Water Resources (DWR), and the California Department of Fish and Wildlife (CDFW), collectively known as the SSMP team. The SSMP team is seeking Department of the Army (DA) authorization from the United States Army Corps of Engineers (Corps), Los Angeles District, pursuant to Section 404 of the Clean Water Act (CWA; 33 USC §1344). The SSMP 10-Year Plan proposes to implement a total of 29,800 acres of aquatic habitat restoration and dust suppression projects around the perimeter of the Salton Sea. At least 50 percent of the project acreage will be created as habitat for fish and wildlife that depend on the Salton Sea ecosystem and the remainder will be projects to suppress dust.

San Francisco Bay Shore Inventory Mapping for Sea Level Rise Planning

San Francisco Estuary Institute (SFEI) | April 5th, 2016

With rising sea levels and the increased likelihood of extreme weather events, it is important for regional agencies and local municipalities in the San Francisco Bay Are

With rising sea levels and the increased likelihood of extreme weather events, it is important for regional agencies and local municipalities in the San Francisco Bay Area to have a clear understanding of the status, composition, condition, and elevation of our current Bay shore, including both natural features and built infrastructure. The purpose of this Bay shore inventory is to create a comprehensive and consistent picture of today’s Bay shore features to inform regional planning. This dataset includes both structures engineered expressly for flood risk management (such as accredited levees) and features that affect flooding at the shore but are not designed or maintained for this purpose (such as berms, road embankments, and marshes). This mapping covers as much of the ‘real world’ influence on flooding and flood routing as possible, including the large number of non-accredited structures. This information is needed to: 1. identify areas vulnerable to flooding; 2. identify adaptation constraints due to present Bay shore alignments; and 3. suggest opportunities where beaches, wetlands, and floodplains can be maintained or restored and integrated into flood risk management strategies.

San Francisco Bay: A Freshwater Starved Estuary

Bay Institute | September 1st, 2016

How Reducing Flows Harms the Ecosystems of San Francisco Bay and Coastal Waters The Bay Institute’s major new study, San Francisco Bay: The Freshwater – Starved Estu

How Reducing Flows Harms the Ecosystems of San Francisco Bay and Coastal Waters The Bay Institute’s major new study, San Francisco Bay: The Freshwater – Starved Estuary, documents how the ecological health of San Francisco Bay and the nearby ocean is at high risk because large-scale water diversion in the Bay’s watershed severely limits the amount of fresh water that reaches the Bay and alters the timing of that flow. Inflow to the Bay from its Central Valley watershed now averages less than half of what it would be without diversions; in some years just one-third of the runoff makes it to the Bay. The result is a nearly permanent drought for the Bay’s fish, wildlife, and their habitats. This radical alteration creates severe consequences for the Bay and marine ecosystems – and Bay Area residents pay the price. The study shows how unsustainable diversion of the Bay’s freshwater inflow: Dramatically cuts production of fish and shrimp that are the food source for marine mammals, like Orca Whales, and birds; Allows pollutants to accumulate to dangerous levels and encourages blooms of toxic algae; Reduces sediment supply to Bay Area wetlands and beaches; Makes it easier for undesirable non-native species to successfully invade the Bay Estuary. The San Francisco Bay Estuary is created by the mixing of fresh water from the Central Valley’s rivers with salt water from the Pacific Ocean. Dramatically reducing the inflow of fresh water generates cascading effects in the Bay’s watershed, the Bay itself, and coastal ocean waters. The report’s major findings include: On average, since 1975 more than half (53%) of runoff from the Central Valley watershed has been diverted, stored, or exported before it can reach the Bay – and in many years two-thirds or more of the Bay’s inflow is captured; As a result of intensive water diversions, the Bay experiences catastrophically dry years almost half the time (only one “supercritically dry” year occurred naturally between 1975-2014, but the Bay experienced nineteen supercritical years during that period); Numerous unrelated fish species – from sharks to salmon, from sturgeon to smelt – show strong positive correlations with Bay Inflow; many of these species are now endangered, and even commercially viable fisheries are in decline; Predators that feed on flow-dependent fish and shrimp are feeling the pinch – for example, dwindling supplies of Central Valley Chinook salmon may restrict the recovery of the local Orca whale population; Blooms of toxic “algae” (cyanobacteria) are becoming more frequent, and other pollutants are becoming more concentrated, as a result of reductions in freshwater flows from the Bay’s watershed; Bay Area beaches and tidal wetlands are deprived of sediment that was once transported by high river flows. The study reports that local businesses are likely to suffer from the Bay’s continued decline, including those related to commercial fishing and tourism. As our Bay, beaches, wetlands, and fish and wildlife populations deteriorate, the quality of life for many Bay Area residents will also be severely – and perhaps permanently – damaged. The study identifies four important approaches to improving Bay inflows: Update the State’s 21 year old water quality standards for the Bay Estuary to ensure adequate inflow Require all those who divert water destined for the Bay, not just a subset, to contribute their fair share of fresh water to support benefits enjoyed by all Californians Invest in local water supplies around the state including conservation, and recycling, that can generate millions of acre-feet of water and reduce reliance on water diverted from the Estuary and its watershed Coordinate management of flows with wetland and beach restoration to more effectively protect shorelines The study was prepared for the San Francisco Estuary Partnership, a coalition of resource agencies, non-profits, citizens, and scientists working to protect, restore, and enhance water quality and fish and wildlife habitat in and around the San Francisco Bay Delta Estuary, which also provided the majority of funding for the project.

San Francisquito Creek Baylands Landscape Change Metrics Analysis

San Francisco Estuary Institute (SFEI) | June 21st, 2016

The goal of this study is to develop a high level overview of the physical and ecological changes to lower San Francisquito Creek and the surrounding tidal marshes and mu

The goal of this study is to develop a high level overview of the physical and ecological changes to lower San Francisquito Creek and the surrounding tidal marshes and mudflats (referred to here as “baylands”) since the beginning of intensive European-American settlement. Building upon a previous reconnaissance-level historical ecology study (Hermstad et al. 2009), this study analyzes the changes in key landscape features (or landscape metrics) within lower San Francisquito Creek and baylands through comparisons of reconstructed historical (mid-1800s) and contemporary (2011/2012) conditions. The results from this study are intended to provide baseline information that can be used to help with developing restoration and flood control redesign alternatives and appropriate habitat restoration targets. This study is one component of the Flood Control 2.0 project, a regional effort funded by the U.S. EPA to help design flood control channels at the Bay interface that support tidal habitats while maintaining the required level of flood protection. Emerging strategies for flood protection focus on reconnecting channels to floodplains and tidal marshes and using available dredged sediment as a resource to increase marsh elevations and help keep pace with sea level rise. Lower San Francisquito Creek is one of three implementation projects that have partnered with Flood Control 2.0 to assess the benefits of an integrated approach for flood control and habitat management at the Bay interface.

San Luis National Wildlife Refuge Complex Final Comprehensive Conservation Plan and Environmental Assessment

U.S. Fish and Wildlife Service (FWS) | July 31st, 2024

This Comprehensive Conservation Plan (CCP) will guide the management of the Merced National Wildlife Refuge (NWR), San Luis NWR and Grasslands Wildlife Management Area (W

This Comprehensive Conservation Plan (CCP) will guide the management of the Merced National Wildlife Refuge (NWR), San Luis NWR and Grasslands Wildlife Management Area (WMA) for the next 15 years. Located in Merced County, California (Figure 1-1), these three units are managed and administered by the San Luis National Wildlife Refuge Complex (the Complex). A fourth unit, the San Joaquin River NWR, is also managed and administered by the Complex but already has a CCP for its management, which was completed in 2006 and amended in 2022. For the sake of this document, the term Complex refers to the San Luis NWR, Merced NWR and Grasslands WMA only. The Complex comprises just four of the 568 refuges that currently make up the U.S. Fish and Wildlife Service (USFWS or the Service) National Wildlife Refuge System (NWRS or Refuge System). The mission of the NWRS is to conserve a network of lands and water for the conservation and management of fish, wildlife and plant resources of the United States for the benefit of present and future generations. As part of the Refuge System, the three units—Merced NWR, San Luis NWR and Grasslands WMA—addressed in this CCP provide important habitat for a unique assemblage of both wetland- (particularly waterfowl and other waterbirds) and upland-dependent wildlife species of California’s Central Valley. This CCP is divided into five chapters: Chapter 1, Introduction and Background; Chapter 2, Comprehensive Conservation Planning Process; Chapter 3, Refuge Resources; Chapter 4, Refuge Management Direction; and Chapter 5, Implementation. Click here for full appendices.