Geology topics

Research about San Francisco Bay

Source-linked reports with geographic coverage including San Francisco Bay.

At least 73 records · Page 4Linked to original sources

USGS2016

Perspectives on bay-delta science and policy

The State of Bay–Delta Science 2008 highlighted seven emerging perspectives on science and management of the Delta. These perspectives had important effects on policy and legislation concerning management of the Delta ecosystem and water exports. From the collection of papers that make up the State of Bay–Delta Science 2016, we derive another seven perspectives that augment those published in 2008. The new perspectives address nutrient and contaminant concentrations in Delta waters, the failure of the Delta food web to support native species, the role of multiple stressors in driving species toward extinction, and the emerging importance of extreme events in driving change in the ecosystem and the water supply. The scientific advances that underpin these new perspectives were made possible by new measurement and analytic tools. We briefly discuss some of these, including miniaturized acoustic fish tags, sensors for monitoring of water quality, analytic techniques for disaggregating complex contaminant mixtures, remote sensing to assess levee vulnerability, and multidimensional hydrodynamic modeling. Despite these new tools and scientific insights, species conservation objectives for the Delta are not being met. We believe that this lack of progress stems in part from the fact that science and policy do not incorporate sufficiently long-term perspectives. Looking forward half a century was central to the Delta Visioning process, but science and policy have not embraced this conceptual breadth. We are also concerned that protection and enhancement of the unique cultural, recreational, natural resource, and agricultural values of the Delta as an evolving place, as required by the Delta Reform Act, has received no critical study and analysis. Adopting wider and longer science and policy perspectives immediately encourages recognition of the need for evaluation, analysis, and public discourse on novel conservation approaches. These longer and wider perspectives also encourage more attention to the opportunities provided by heavily invaded ecosystems. It is past time to turn scientific and policy attention to these issues.

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USGS2016

A century of landscape disturbance and urbanization of the San Francisco Bay region affects the present-day genetic diversity of the California Ridgway’s rail (Rallus obsoletus obsoletus)

Fragmentation and loss of natural habitat have important consequences for wild populations and can negatively affect long-term viability and resilience to environmental change. Salt marsh obligate species, such as those that occupy the San Francisco Bay Estuary in western North America, occupy already impaired habitats as result of human development and modifications and are highly susceptible to increased habitat loss and fragmentation due to global climate change. We examined the genetic variation of the California Ridgway’s rail ( Rallus obsoletus obsoletus ), a state and federally endangered species that occurs within the fragmented salt marsh of the San Francisco Bay Estuary. We genotyped 107 rails across 11 microsatellite loci and a single mitochondrial gene to estimate genetic diversity and population structure among seven salt marsh fragments and assessed demographic connectivity by inferring patterns of gene flow and migration rates. We found pronounced genetic structuring among four geographically separate genetic clusters across the San Francisco Bay. Gene flow analyses supported a stepping stone model of gene flow from south-to-north. However, contemporary gene flow among the regional embayments was low. Genetic diversity among occupied salt marshes and genetic clusters were not significantly different. We detected low effective population sizes and significantly high relatedness among individuals within salt marshes. Preserving genetic diversity and connectivity throughout the San Francisco Bay may require attention to salt marsh restoration in the Central Bay where habitat is both most limited and most fragmented. Incorporating periodic genetic sampling into the management regime may help evaluate population trends and guide long-term management priorities.

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USGS2016

Near-field receiving water monitoring of trace metals and a benthic community near the Palo Alto Regional Water Quality Control Plant in south San Francisco Bay, California; 2015

Trace-metal concentrations in sediment and in the clam Macoma petalum (formerly reported as Macoma balthica ), clam reproductive activity, and benthic macroinvertebrate community structure were investigated in a mudflat 1 kilometer south of the discharge of the Palo Alto Regional Water Quality Control Plant (PARWQCP) in South San Francisco Bay, California. This report includes data collected by U.S. Geological Survey (USGS) scientists for the period from January 2015 to December 2015. These data are appended to long-term datasets extending back to 1974, and serve as the basis for the City of Palo Alto’s Near-Field Receiving Water Monitoring Program, initiated in 1994. Following significant reductions in the late 1980s, silver (Ag) and copper (Cu) concentrations in sediment and M. petalum appear to have stabilized. Data for other metals, including chromium (Cr), mercury (Hg), nickel (Ni), selenium (Se), and zinc (Zn), have been collected since 1994. Over this period, concentrations of these elements have remained relatively constant, aside from seasonal variation that is common to all elements. In 2015, concentrations of Ag and Cu in M. petalum varied seasonally in response to a combination of site-specific metal exposures and annual growth and reproduction, as reported previously. Seasonal patterns for other elements, including Cr, Ni, Zn, Hg, and Se, were generally similar in timing and magnitude as those for Ag and Cu. In M. petalum , all observed elements showed annual maxima in January–February and minima in April, except for Zn, which was lowest in December. In sediments, annual maxima also occurred in January–February, and minima were measured in June and September. In 2015, metal concentrations in both sediments and clam tissue were among the lowest on record. This record suggests that regional-scale factors now largely control sedimentary and bioavailable concentrations of Ag and Cu, as well as other elements of regulatory interest, at the Palo Alto site. Analyses of the benthic community structure at the same mudflat over a 40-year period show that changes in the community have occurred concurrent with reduced concentrations of metals in the sediment and in the tissues of the biosentinel clam, M. petalum , from the same area. Analysis of M. petalum shows increases in reproductive activity concurrent with the decline in metal concentrations in the tissues of this organism. Reproductive activity is presently stable (2015), with almost all animals initiating reproduction in the fall and spawning the following spring. The entire infaunal community has shifted from being dominated by several opportunistic species to a community where the species are more similar in abundance, a pattern that indicates a more stable community that is subjected to fewer stressors. In addition, two of the opportunistic species ( Ampelisca abdita and Streblospio benedicti ) that brood their young and live on the surface of the sediment in tubes have shown a continual decline in dominance coincident with the decline in metals; both species had short-lived rebounds in abundance in 2008, 2009, and 2010 and showed signs of increasing abundance in 2015. Heteromastus filiformis (a subsurface polychaete worm that lives in the sediment, consumes sediment and organic particles residing in the sediment, and reproduces by laying its eggs on or in the sediment) showed an increase in dominance, concurrent with the decrease in Ag and Cu concentrations, and in the last several years before 2008, showed a stable population. H. filiformis abundance increased slightly in 2011–2012 and returned to pre-2011 abundance in 2015. An unidentified disturbance occurred on the mudflat in early 2008 that resulted in the loss of the benthic animals, except for deep-dwelling animals like M. petalum . However, within two months of this event animals returned to the mudflat. The resilience of the community suggested that the disturbance was not due to a persistent toxin or to anoxia. The reproductive mode of most species present in 2015 is reflective of species that were available either as pelagic larvae or as mobile adults. Although oviparous (live-birth) species were lower in number in this group, the authors hypothesize that these species will return slowly as more species move back into the area. The use of functional ecology was highlighted in the 2015 benthic community data, which showed that the animals that have now returned to the mudflat are those that can respond successfully to a physical, nontoxic disturbance. Today, community data show a mix of species that consume the sediment, or filter feed, have pelagic larvae that must survive landing on the sediment, and those that brood their young. USGS scientists view the 2008 disturbance event as a response by the infaunal community to an episodic natural stressor (possibly sediment accretion or a pulse of freshwater), in contrast to the long-term recovery from metal contamination. We will compare this recovery to the long-term recovery observed after the 1970s when the decline in sediment pollutants was the dominating factor.

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USGS2016

Delta smelt: Life history and decline of a once abundant species in the San Francisco Estuary

This paper reviews what has been learned about Delta Smelt and its status since the publication of The State of Bay-Delta Science, 2008 (Healey et al. 2008). The Delta Smelt is endemic to the upper San Francisco Estuary. Much of its historic habitat is no longer available and remaining habitat is increasingly unable to sustain the population. As a listed species living in the central node of California’s water supply system, Delta Smelt has been the focus of a large research effort to understand causes of decline and identify ways to recover the species. Since 2008, a remarkable record of innovative research on Delta Smelt has been achieved, which is summarized here. Unfortunately, research has not prevented the smelt’s continued decline, which is the result of multiple, interacting factors. A major driver of decline is change to the Delta ecosystem from water exports, resulting in reduced outflows and high levels of entrainment in the large pumps of the South Delta. Invasions of alien species, encouraged by environmental change, have also played a contributing role in the decline. Severe drought effects have pushed Delta Smelt to record low levels in 2014–2015. The rapid decline of the species and failure of recovery efforts demonstrate an inability to manage the Delta for the “co-equal goals” of maintaining a healthy ecosystem and providing a reliable water supply for Californians. Diverse and substantial management actions are needed to preserve Delta Smelt.

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USGS2016

Earthquake outlook for the San Francisco Bay region 2014–2043

Using information from recent earthquakes, improved mapping of active faults, and a new model for estimating earthquake probabilities, the 2014 Working Group on California Earthquake Probabilities updated the 30-year earthquake forecast for California. They concluded that there is a 72 percent probability (or likelihood) of at least one earthquake of magnitude 6.7 or greater striking somewhere in the San Francisco Bay region before 2043. Earthquakes this large are capable of causing widespread damage; therefore, communities in the region should take simple steps to help reduce injuries, damage, and disruption, as well as accelerate recovery from these earthquakes.

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USGS2016

Effects of salt pond restoration on benthic flux: Sediment as a source of nutrients to the water column

Understanding nutrient flux between the benthos and the overlying water (benthic flux) is critical to restoration of water quality and biological resources because it can represent a major source of nutrients to the water column. Extensive water management commenced in the San Francisco Bay, Beginning around 1850, San Francisco Bay wetlands were converted to salt ponds and mined extensively for more than a century. Long-term (decadal) salt pond restoration efforts began in 2003. A patented device for sampling porewater at varying depths, to calculate the gradient, was employed between 2010 and 2012. Within the former ponds, the benthic flux of soluble reactive phosphorus and that of dissolved ammonia were consistently positive (i.e., moving out of the sediment into the water column). The lack of measurable nitrate or nitrite concentration gradients across the sediment-water interface suggested negligible fluxes for dissolved nitrate and nitrite. The dominance of ammonia in the porewater indicated anoxic sediment conditions, even at only 1 cm depth, which is consistent with the observed, elevated sediment oxygen demand. Nearby openestuary sediments showed much lower benthic flux values for nutrients than the salt ponds under resortation. Allochthonous solute transport provides a nutrient advective flux for comparison to benthic flux. For ammonia, averaged for all sites and dates, benthic flux was about 80,000 kg/year, well above the advective flux range of −50 to 1500 kg/year, with much of the variability depending on the tidal cycle. By contrast, the average benthic flux of soluble reactive phosphorus was about 12,000 kg/year, of significant magnitude, but less than the advective flux range of 21,500 to 30,000 kg/year. These benthic flux estimates, based on solute diffusion across the sediment-water interface, reveal a significant nutrient source to the water column of the pond which stimulates algal blooms (often autotrophic). This benthic source may be augmented further by bioturbation, bioirrigation and episodic sediment resuspension events.

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USGS2015

2014 M=6.0 South Napa earthquake triggered widespread aftershocks and stressed several major faults and exotic fault clusters

The strongest San Francisco Bay area earthquake since the 1989 Mw 7.0 Loma Prieta shock struck near Napa on 24 August 2014. Field mapping (Dawson et al., 2014; Earthquake Engineering Research Institute [EERI], 2014; Brocher et al., 2015) and seismic and geodetic source inversions (Barnhart et al., 2015; Dreger et al., 2015; Wei et al., 2015) indicate that a 15-km-long northwest-trending section of the West Napa Valley fault ruptured in the earthquake. Remarkably, it was the first indisputable surface rupture in the Bay area since 1906. The Napa event, along with other smaller earthquakes such as the 1980 Mw 5.8 Livermore and 1984 Mw 6.2 Morgan Hill events on the Calaveras and Hayward faults over the past 3–4 decades, may indicate that the Bay area region is emerging from the stress shadow of the 1906 Mw 7.8 San Francisco earthquake (Harris and Simpson, 1998; Pollitz et al., 2004). Since 1979, there has been a 140% increase in the rate of Mw≥4.1 shocks (Fig. 1) in the broader Bay area, with most concentrated in a corridor extending north from the 1989 Loma Prieta aftershock zone through the Calaveras, Greenville, Green Valley, Napa, and Rodgers Creek faults east of the San Francisco Bay (Fig. 1a). This corridor roughly coincides with the 1906 stress shadow that is being eroded away by more than a century of stress reaccumulation. The Napa event, as well as the surrounding faults on which we calculate the resulting hazard increases, all lie within this zone.

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USGS2015

Borehole strainmeter measurements spanning the 2014, M w 6.0 South Napa Earthquake, California: The effect from instrument calibration

The 24 August 2014 M w 6.0 South Napa, California earthquake produced significant offsets on 12 borehole strainmeters in the San Francisco Bay area. These strainmeters are located between 24 and 80 km from the source and the observed offsets ranged up to 400 parts-per-billion (ppb), which exceeds their nominal precision by a factor of 100. However, the observed offsets of tidally calibrated strains differ by up to 130 ppb from predictions based on a moment tensor derived from seismic data. The large misfit can be attributed to a combination of poor instrument calibration and better modeling of the strain fit from the earthquake. Borehole strainmeters require in-situ calibration, which historically has been accomplished by comparing their measurements of Earth tides with the strain-tides predicted by a model. Although the borehole strainmeter accurately measure the deformation within the borehole, the long-wavelength strain signals from tides or other tectonic processes recorded in the borehole are modified by the presence of the borehole and the elastic properties of the grout and the instrument. Previous analyses of surface-mounted, strainmeter data and their relationship with the predicted tides suggest that tidal models could be in error by 30%. The poor fit of the borehole strainmeter data from this earthquake can be improved by simultaneously varying the components of the model tides up to 30% and making small adjustments to the point-source model of the earthquake, which reduces the RMS misfit from 130 ppb to 18 ppb. This suggests that relying on tidal models to calibrate borehole strainmeters significantly reduces their accuracy.

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USGS2015

Mechanisms of sediment flux between shallows and marshes

We conducted a field study to investigate temporal variation and forcing mechanisms of sediment flux between a salt marsh and adjacent shallows in northern San Francisco Bay. Suspended-sediment concentration (SSC), tidal currents, and wave properties were measured over the marsh, in marsh creeks, and in bay shallows. Cumulative sediment flux in the marsh creeks was bayward during the study, and was dominated by large bayward flux during the largest tides of the year. This result was unexpected because extreme high tides with long inundation periods are commonly assumed to supply sediment to marshes, and long-term accretion estimates show that the marsh in the study site is depositional. A water mass-balance shows that some landward transport bypassed the creeks, most likely across the marsh-bay interface. An estimate of transport by this pathway based on observed SSC and inferred volume indicates that it was likely much less than the observed export.

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USGS2015

Dietary mercury exposure to endangered California Clapper Rails in San Francisco Bay

California Clapper Rails ( Rallus longirostris obsoletus ) are an endangered waterbird that forage in tidal-marsh habitats that pose risks from mercury exposure. We analyzed total mercury (Hg) in six macro-invertebrate and one fish species representing Clapper Rail diets from four tidal-marshes in San Francisco Bay, California. Mercury concentrations among individual taxa ranged from lowest at Colma Creek (mean range: 0.09–0.2 μg/g dw) to highest at Cogswell (0.2–0.7), Laumeister (0.2–0.9) and Arrowhead Marshes (0.3–1.9). These spatial patterns for Hg matched patterns reported previously in Clapper Rail blood from the same four marshes. Over 25% of eastern mudsnails ( Ilyanassa obsolete ) and staghorn sculpin ( Leptocottus armatus ) exceeded dietary Hg concentrations (ww) often associated with avian reproductive impairment. Our results indicate that Hg concentrations vary considerably among tidal-marshes and diet taxa, and Hg concentrations of prey may provide an appropriate proxy for relative exposure risk for Clapper Rails.

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USGS2015

Near-field receiving water monitoring of trace metals and a benthic community near the Palo Alto Regional Water Quality Control Plant in south San Francisco Bay, California: 2014

Trace-metal concentrations in sediment and in the clam Macoma petalum (formerly reported as Macoma balthica ), clam reproductive activity, and benthic macroinvertebrate community structure were investigated in a mudflat 1 kilometer (km) south of the discharge of the Palo Alto Regional Water Quality Control Plant (PARWQCP) in South San Francisco Bay, Calif. This report includes the data collected by U.S. Geological Survey (USGS) scientists for the period January 2014 to December 2014. These append to long-term datasets extending back to 1974, and serve as the basis for the City of Palo Alto’s Near-Field Receiving Water Monitoring Program, initiated in 1994. Following significant reductions in the late 1980s, silver (Ag) and copper (Cu) concentrations in sediment and M. petalum appear to have stabilized. Data for other metals, including chromium (Cr), mercury (Hg), nickel (Ni), selenium (Se), and zinc (Zn), have been collected since 1994. Over this period, concentrations of these elements have remained relatively constant, aside from seasonal variation that is common to all elements. In 2014, concentrations of Ag and Cu in M. petalum varied seasonally in response to a combination of site-specific metal exposures and annual growth and reproduction, as reported previously. Seasonal patterns for other elements, including Cr, Ni, Zn, Hg, and Se, were generally similar in timing and magnitude as those for Ag and Cu. In M. petalum , all observed elements showed annual maxima in January–February and minima in April, except for Zn, which was lowest in December. In sediments, annual maxima also occurred in January–February, and minima were measured in June and September. In 2014, metal concentrations in both sediments and clam tissue were among the lowest on record. This record suggests that regional-scale factors now largely control sedimentary and bioavailable concentrations of Ag and Cu, as well as other elements of regulatory interest, at the Palo Alto site. Analyses of the benthic community structure of a mudflat in South San Francisco Bay over a 40-year period show that changes in the community have occurred concurrent with reduced concentrations of metals in the sediment and in the tissues of the biosentinel clam, M. petalum , from the same area. Analysis of M. petalum shows increases in reproductive activity concurrent with the decline in metal concentrations in the tissues of this organism. Reproductive activity is presently stable (2014), with almost all animals initiating reproduction in the fall and spawning the following spring. The entire infaunal community has shifted from being dominated by several opportunistic species to a community where the species are more similar in abundance, a pattern that indicates a more stable community that is subjected to fewer stressors. In addition, two of the opportunistic species ( Ampelisca abdita and Streblospio benedicti ) that brood their young and live on the surface of the sediment in tubes have shown a continual decline in dominance coincident with the decline in metals; both species had short-lived rebounds in abundance in 2008, 2009, and 2010. Heteromastus filiformis (a subsurface polychaete worm that lives in the sediment, consumes sediment and organic particles residing in the sediment, and reproduces by laying its eggs on or in the sediment) showed a concurrent increase in dominance and, in the last several years before 2008, showed a stable population. H. filiformis abundance increased slightly in 2011–2012 and returned to pre-2011 numbers in 2014. An unidentified disturbance occurred on the mudflat in early 2008 that resulted in the loss of the benthic animals, except for deep-dwelling animals like Macoma petalum . However, within two months of this event animals returned to the mudflat. The resilience of the community suggested that the disturbance was not due to a persistent toxin or to anoxia. The reproductive mode of most species present in 2014 is reflective of species that were available either as pelagic larvae or as mobile adults. Although oviparous species were lower in number in this group, the authors hypothesize that these species will return slowly as more species move back into the area. The use of functional ecology was highlighted in the 2014 benthic community data, which showed that the animals that have now returned to the mudflat are those that can respond successfully to a physical, nontoxic disturbance. Today, community data show a mix of species that consume the sediment, or filter feed, have pelagic larvae that must survive landing on the sediment, and those that brood their young. USGS scientists view the 2008 disturbance event as a response by the infaunal community to an episodic natural stressor (possibly sediment accretion or a pulse of freshwater), in contrast to the long-term recovery from metal contamination. We will compare this recovery to the long-term recovery observed after the 1970’s when the decline in sediment pollutants was the dominating factor.

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USGS2015

Collaborative decision-analytic framework to maximize resilience of tidal marshes to climate change

Decision makers that are responsible for stewardship of natural resources face many challenges, which are complicated by uncertainty about impacts from climate change, expanding human development, and intensifying land uses. A systematic process for evaluating the social and ecological risks, trade-offs, and cobenefits associated with future changes is critical to maximize resilience and conserve ecosystem services. This is particularly true in coastal areas where human populations and landscape conversion are increasing, and where intensifying storms and sea-level rise pose unprecedented threats to coastal ecosystems. We applied collaborative decision analysis with a diverse team of stakeholders who preserve, manage, or restore tidal marshes across the San Francisco Bay estuary, California, USA, as a case study. Specifically, we followed a structured decision-making approach, and we using expert judgment developed alternative management strategies to increase the capacity and adaptability to manage tidal marsh resilience while considering uncertainties through 2050. Because sea-level rise projections are relatively confident to 2050, we focused on uncertainties regarding intensity and frequency of storms and funding. Elicitation methods allowed us to make predictions in the absence of fully compatible models and to assess short- and long-term trade-offs. Specifically we addressed two questions. (1) Can collaborative decision analysis lead to consensus among a diverse set of decision makers responsible for environmental stewardship and faced with uncertainties about climate change, funding, and stakeholder values? (2) What is an optimal strategy for the conservation of tidal marshes, and what strategy is robust to the aforementioned uncertainties? We found that when taking this approach, consensus was reached among the stakeholders about the best management strategies to maintain tidal marsh integrity. A Bayesian decision network revealed that a strategy considering sea-level rise and storms explicitly in wetland restoration planning and designs was optimal, and it was robust to uncertainties about management effectiveness and budgets. We found that strategies that avoided explicitly accounting for future climate change had the lowest expected performance based on input from the team. Our decision-analytic framework is sufficiently general to offer an adaptable template, which can be modified for use in other areas that include a diverse and engaged stakeholder group.

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USGS2015

Science foundation Chapter 5 Appendix 5.1: Case study dabbling ducks

Dabbling ducks are the most abundant group of waterfowl that overwinter in the shallow wetlands and ponds of San Francisco Bay (SFB). Species within this group are primarily omnivorous, feeding on both plant material and macroinvertebrate prey by “tipping” to access benthic foods in bottom sediments or by foraging in the water column. Although the majority of these ducks are migratory, smaller numbers also nest locally in the SFB. These species vary in body size, ranging from the large mallard ( Anas platyrhynchos ) to the small green-winged teal ( Anas crecca ). Other dabbling duck species present in the SFB include American wigeon ( Anas americana ), gadwall ( Anas strepera ), cinnamon teal ( Anas cyanoptera ), northern shoveler ( Anas clypeata ), northern pintail ( Anas acuta ), and wood duck ( Aix sponsa ). Most of these dabbling duck species are known to breed in the SFB with the exception of the American wigeon and green-winged teal. However, the majority of wintering ducks originate from breeding grounds in the Central Valley of California, Pacific Coast States, Alaska, and Intermountain States/provinces, prairie potholes, and boreal forest. Their wintering populations in SFB are greatest between October and January, and dabbling duck species are found in all SFB regions. However, most dabbling duck use is associated with former salt production ponds and in the north and south bays, and managed wetlands of the Suisun Marsh.

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USGS2015

Science foundation Chapter 5 Appendix 5.1: Case study diving ducks

Diving ducks are the most abundant group of waterfowl that overwinter in the open bays and ponds of San Francisco Bay (SFB). Species within this group are primarily benthivores that dive to obtain their macroinvertebrate prey in bottom sediments, although at times they may eat plant matter or forage in the water column. These migratory species include bay ducks (lesser scaup Aythya affinis , greater scaup A. marila , canvasback A. valisineria ), sea ducks (surf scoter Melanitta perspicillata and bufflehead Bucephala albeola ), and a stiff-tailed duck (ruddy duck Oxyura jamaicensis ). These species vary from largest to smallest body mass: canvasback, greater scaup, surf scoter, lesser scaup, ruddy duck, and bufflehead. Their breeding grounds range from Central Valley grasslands, intermountain wetlands, prairie potholes, boreal forest, and Arctic tundra. Their wintering populations in SFB are most abundant between October and April, and SFB comprises up to 50% of the number counted during midwinter surveys on the lower Pacific coast. Species are found in all SFB regions, but greater scaup and surf scoter are most often seen in subtidal to intertidal waters and are not commonly found in baylands. In contrast, ruddy duck and bufflehead populations are most abundant in baylands, particularly in managed ponds. Canvasbacks are commonly found at estuaries or creek mouths.

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USGS2015

Science foundation Chapter 5 Appendix 5.1: Case study Forester's tern ( Sterna forsteri ) and California least tern ( Sternula antillarum browni )

This case study considers two tern species that breed within the San Francisco Bay Estuary, Forster’s Terns ( Sterna forsteri ) and California Least Terns ( Sternula antillarum browni ). Forster’s Terns are medium-sized (140 g) terns that breed in coastal and interior marshes of North America. Forster’s Terns can exploit ephemeral habitats, and colony locations often move among years with change in habitat suitability and resource availability. Least Terns are smaller-sized (45 g) terns that breed along beaches and major interior rivers of North America, and winter along marine coastlines in Central and South America. Forster’s Terns and California Least Terns breeding in San Francisco Bay tend to use the same nesting colony locations each years.

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USGS2015

Science foundation Chapter 5 Appendix 5.1: Case study shore birds: Western sandpipers ( Calidris mauri ) and American avocets ( Recurvirostra Americana )

Western sandpipers ( Calidris mauri ) are small (22-35 g) sexually dimorphic sandpipers, with males typically smaller than females. Western sandpipers frequently occur in mixed species flocks along with other Calidris species, including least sandpipers ( Calidris minutilla ) and dunlin ( Calidris alpina ), in the San Francisco Bay Estuary (SFBE) and are the most abundant shorebird species found from fall to spring. Western sandpipers are one of the most common shorebird species in SFBE, the Pacific Flyway, and North America overall. The largest concentrations of western sandpipers, and of most shorebirds, are found in the South Bay where large expanses of mudflats are exposed at low tide and managed and/or salt ponds are available for high tide roosting and feeding habitat (Warnock et al 2002, Warnock and Takekawa 1995). In recent years, there is some evidence that there has been a shift in shorebird numbers towards the North Bay, perhaps as large salt pond restoration projects provide interim mud flat habitat during the evolution towards tidal marsh habitat (Pitkin and Wood, 2011).

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USGS2015

Science foundation Chapter 5 Appendix 5.1: Case study california ridgway's rail ( Rallus obseoletus obsoletus )

The clapper rail ( Rallus longirostris ) recently was split into two sister groups (Chesser et al. 2014) on the basis of phylogenetic analyses (Maley and Brumfield 2013). The original grouping is now represented on the East Coast of North America by the Clapper rail ( Rallus crepitans ) and on the West Coast by the Ridgway’s rail ( Rallus obsoletus ). The California Ridgeway’s rail ( Rallus obsoletus obsoletus ; hereafter California rail) is the largest of 3 Ridgway’s rail subspecies which also include R. o. levipes (light-footed rail) and R. o. yumanensis (Yuma rail) (Eddleman and Conway 1994). The California rail is also the largest resident terrestrial vertebrate that lives solely in San Francisco Bay salt marshes. Formerly present in salt marsh along the California coast from Morro Bay to Humboldt Bay, by the early 1970s the California rail was breeding only in Elkhorn Slough and San Francisco Bay (Gill 1979). Population declines throughout the 19th and 20th centuries were attributed predominately to land conversion, development, and fragmentation of marshlands (USFWS 2013). However, exotic predators such as red fox ( Vulpes vulpes ) and Norway rat ( Rattus norvegicus ) are also implicated in population declines (USFWS 2013).

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USGS2015

Case Study, California Black Rail (Laterallus jamaicensis corturniculus): Science Foundation Chapter 5, Appendix 5.1 in The Baylands and climate change: What can we do?

The Black Rail is the smallest member of the avian family Rallidae and has a wide-ranging but highly scattered distribution throughout the New World. Of five subspecies, two occur in North America—the Eastern Black Rail ( L.j. jamaicensis ) and the California Black Rail ( L.j. coturniculus ). Throughout its range, the Black Rail is a secretive inhabitant of tidal and freshwater wetlands and rarely ventures out from the cover of dense marsh vegetation. It is more likely to be heard than seen; spontaneous vocalizations tend to be concentrated in the nesting season and are much less common during the rest of the year.

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