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Modeling behavior of prescribed fires in Yosemite National Park

The National Fire Danger Rating System and the Fire Behavior Prediction System were tested on prescribed fires burning underneath canopies in six fuel types in Yosemite National Park, California. The mean error for rate of spread was +0.03 foot per minute for the NFDRS and -0.15 foot for the FBPS. For flame length the mean error was -0.38 foot for both systems. Regressions provided factors for correcting predicted values. Burning prescriptions based on the models have been adjusted for the variation in their predictive capability.

Journal of Forestry

Yosemite toad (Anaxyrus canorus) transcriptome reveals interplay between speciation genes and adaptive introgression

Genomes are heterogeneous during the early stages of speciation, with small ‘islands’ of DNA appearing to reflect strong adaptive differences, surrounded by vast seas of relative homogeneity. As species diverge, secondary contact zones between them can act as an interface and selectively filter through advantageous alleles of hybrid origin. Such introgression is another important adaptive process, one that allows beneficial mosaics of recombinant DNA (‘rivers’) to flow from one species into another. Although genomic islands of divergence appear to be associated with reproductive isolation, and genomic rivers form by adaptive introgression, it is unknown whether islands and rivers tend to be the same or different loci. We examined three replicate secondary contact zones for the Yosemite toad ( Anaxyrus canorus ) using two genomic data sets and a morphometric data set to answer the questions: (1) How predictably different are islands and rivers, both in terms of genomic location and gene function? (2) Are the adaptive genetic trait loci underlying tadpole growth and development reliably islands, rivers or neither? We found that island and river loci have significant overlap within a contact zone, suggesting that some loci are first islands, and later are predictably converted into rivers. However, gene ontology enrichment analysis showed strong overlap in gene function unique to all island loci, suggesting predictability in overall gene pathways for islands. Genome-wide association study outliers for tadpole development included LPIN3, a lipid metabolism gene potentially involved in climate change adaptation, that is island-like for all three contact zones, but also appears to be introgressing (as a river) across one zone. Taken together, our results suggest that adaptive divergence and introgression may be more complementary forces than currently appreciated.

Molecular Ecology

Preliminary report on the Late Pleistocene and Holocene diatoms of Swamp Lake, Yosemite National Park, California, USA

Swamp Lake, Yosemite National Park, is the only known lake in California containing long sequences of varved sediments and thus has the potential to provide a high-resolution record of climate variability. This preliminary analysis of the diatom assemblages from a 947-cm-long composite sediment core (freeze core FZ02–05; 0–67 cm, Livingstone core 02–05; 53–947 cm) shows that the lake has been freshwater, oligotrophic, and circumneutral to alkaline throughout its ~16,000-year-long history. The first sediments deposited in the lake show that the vegetation in the watershed was sparse, allowing organic matter-poor silt and clay to be deposited in the basin. The basin filled quickly to a depth of at least 5 m and remained at least that deep for most of the sediment record. Several short intervals provided evidence of large fluctuations in lake level during the Holocene. The upper 50 cm of the core contains evidence of the Medieval Climate Anomaly and Little Ice Age.

California

The distribution of woody species in relation to climate and fire in Yosemite National Park, California, USA

Background The effects of climate on plant species ranges are well appreciated, but the effects of other processes, such as fire, on plant species distribution are less well understood. We used a dataset of 561 plots 0.1 ha in size located throughout Yosemite National Park, in the Sierra Nevada of California, USA, to determine the joint effects of fire and climate on woody plant species. We analyzed the effect of climate (annual actual evapotranspiration [AET], climatic water deficit [Deficit]) and fire characteristics (occurrence [BURN] for all plots, fire return interval departure [FRID] for unburned plots, and severity of the most severe fire [dNBR]) on the distribution of woody plant species. Results Of 43 species that were present on at least two plots, 38 species occurred on five or more plots. Of those 38 species, models for the distribution of 13 species (34%) were significantly improved by including the variable for fire occurrence (BURN). Models for the distribution of 10 species (26%) were significantly improved by including FRID, and two species (5%) were improved by including dNBR. Species for which distribution models were improved by inclusion of fire variables included some of the most areally extensive woody plants. Species and ecological zones were aligned along an AET-Deficit gradient from cool and moist to hot and dry conditions. Conclusions In fire-frequent ecosystems, such as those in most of western North America, species distribution models were improved by including variables related to fire. Models for changing species distributions would also be improved by considering potential changes to the fire regime.

California

Diagnostic histological findings in Yosemite toads (Bufo canorus) from die-off in the 1970s

Twelve adult and 25 larval Yosemite toad ( Bufo canorus ) specimens from the eastern Sierra Nevada of California were examined histologically for evidence of infectious, toxicological, and degenerative diseases. The preserved toads were selected from 21 that had been salvaged or collected during a die-off in 1976-1979 that immediately preceded a population decline. Causes of death of four toads were determined histologically; clinical signs and field observations suggested causes of death of three more. Four toads died of infectious diseases, including chytridiomycosis of the skin ( N = 1), bacillary septicemia ( N = 2), and combined chytridiomycosis and bacterial septicemia ( N = 1). Infections by a funguslike organism ( Dermosporidium penneri ), renal myxozoa ( Leptotheca ohlmacheri ), larval Rhabdias, various gastrointestinal nematodes, urinary bladder flukes, and lung flukes were detected in five specimens. No evidence of degenerative diseases, virus infections, or intoxications was found. The variety of lethal diseases and our inability to determine the causes of death of five specimens suggests that one or more histologically undetectable diseases or intoxications may have also contributed to the deaths and population decline.

California

Emergency assessment of post-fire debris-flow hazards for the 2013 Rim Fire, Stanislaus National Forest and Yosemite National Park, California

Wildfire can significantly alter the hydrologic response of a watershed to the extent that even modest rainstorms can produce dangerous flash floods and debris flows. In this report, empirical models are used to predict the probability and magnitude of debris-flow occurrence in response to a 10-year rainstorm for the 2013 Rim fire in Yosemite National Park and the Stanislaus National Forest, California. Overall, the models predict a relatively high probability (60–80 percent) of debris flow for 28 of the 1,238 drainage basins in the burn area in response to a 10-year recurrence interval design storm. Predictions of debris-flow volume suggest that debris flows may entrain a significant volume of material, with 901 of the 1,238 basins identified as having potential debris-flow volumes greater than 10,000 cubic meters. These results of the relative combined hazard analysis suggest there is a moderate likelihood of significant debris-flow hazard within and downstream of the burn area for nearby populations, infrastructure, wildlife, and water resources. Given these findings, we recommend that residents, emergency managers, and public works departments pay close attention to weather forecasts and National-Weather-Service-issued Debris Flow and Flash Flood Outlooks, Watches and Warnings and that residents adhere to any evacuation orders.

California

Water quality in the Merced River above and below the El Portal sewage treatment plant near Yosemite National Park, California, 1975-77

A study was made to evaluate the effects that treated sewage has on some characteristics of water quality in a reach of the Merced River near Yosemite National Park. Streamflow and water-quality data were collected from July through October 1975 and from July through November 1977 at five stations on the river and at an auxiliary station on the South Fork of the Merced River before and after a sewage treatment plant near El Portal began discharging treated effluent into the river in January 1977. Data collected in 1977 coincided with drought conditions in the Merced River drainage basin. On-site measurements included streamflow, water temperature, specific conductance, pH, total alkalinity, and dissolved oxygen. Diel measurements were made at selected stations to determine the daily fluctuations of dissolved oxygen, temperature, alkalinity, pH, and specific conductance. Water samples were analyzed for nitrogen, phosphorus, and silica. Periphyton samples were collected from artificial substrates for taxonomic and biomass determinations. Chemical analyses of water for plant nutrients indicated (1) an increase in the concentration of inorganic nitrogen immediately below the treated sewage effluent, (2) uniformly low phosphorus concentrations above and below the effluent, and (3) silica concentrations above and below the effluent greatly exceeding the minimum concentrations required for diatom growth and production. Diel measurements of dissolved oxygen in the reach below the effluent showed substantial sag during the night with supersaturation during the day, indicating considerable in-stream primary production. Measured and observed periphyton growth suggest that sufficient quantities of plant nutrients were available to support periphytic diatom blooms in the Merced River prior to the operation of the treatment plant during near-normal flow conditions. Nutrient availability was also sufficient to support both periphytic diatom and green-algal blooms above and below the treated sewage effluent during drought conditions. Greatest algal production was observed in early autumn

California

Rock falls from Glacier Point above Camp Curry, Yosemite National Park, California

A series of rock falls from the north face of Glacier Point above Camp Curry, Yosemite National Park, California, have caused reexamination of the rock-fall hazard because beginning in June, 1999 a system of cracks propagated through a nearby rock mass outlining a future potential rock fall. If the estimated volume of the potential rock fall fails as a single piece, there could be a risk from rock-fall impact and airborne rock debris to cabins in Camp Curry. The role of joint plane orientation and groundwater pressure in the fractured rock mass are discussed in light of the pattern of developing cracks and potential modes of failure.

Open-File Report

Streambank erosion and related geomorphic change in Tuolumne Meadows, Yosemite National Park, California

Landscape change in Tuolumne Meadows, Yosemite National Park, California, was characterized using data derived from four lidar surveys: one airborne survey in 2006 and three terrestrial surveys in 2016, 2017, and 2018. These surveys were used to generate a better quantitative understanding of changes associated with fluvial processes along the reach of the Tuolumne River within Tuolumne Meadows. This research was performed to provide a scientific basis for restoration and management decisions made by the National Park Service in accordance with the Tuolumne Wild and Scenic River Final Comprehensive Management Plan. A total of 15 reaches of the streambanks along the Tuolumne River in Tuolumne Meadows were subject to measurable streambank erosion between 2006 and 2018. In these areas, streambank retreat rates ranged between 0 and 2.7 meters per year (m/yr), recorded as an average retreat distance along the length of changing streambank position, with most retreat rates being less than 0.50 m/yr. The highest streambank retreat rates are associated with a year of high spring streamflow in 2017. Based on the data available, it was concluded that deposition on channel and point bars balances streambank erosion over a period of 12 years along the Tuolumne River in Tuolumne Meadows. As such, the river could be considered to be in a state of dynamic equilibrium during this period; erosion and sedimentation occur in distinct pulses in response to hydrological forcing but it is not clear that there is a trend towards sediment accumulation or removal in Tuolumne Meadows nor is there an obvious trend toward channel widening or narrowing. The existence of visible paleochannels in the meadow are an indication that more dramatic channel planform geometry changes have occurred in Tuolumne Meadows over an undetermined period and may occur again in the future. Geomorphic change rates relate to hydrology; during the study period, the high water in 2017 led to the highest rates of geomorphic change. Land managers should anticipate that floods with discharge rates greater than the peak flow in 2017 may cause more substantial landscape change than what was observed in this study, but erosion resulting from these events may be balanced by channel and point-bar deposition over a period of years.

California

Great gray owls ( Strix nebulosa ) in Yosemite National Park: on the importance of food, forest structure, and human disturbance

We studied great gray owls (Strix nebulosa Forster) in Yosemite National Park, California, measuring variables that could potentially influence patterns of occurrence and conservation of this stateendangered species. We found that owl presence was closely tied to habitat (red fir (Abies magnified A. Murray) and the abundance of meadows), prey, and snags across the landscape. We also found that indicators of human recreational activities negatively influenced owl distribution and habitat use. Great gray owls appear to prefer mid-elevation red fir forest with meadows that are drier and more productive in terms of small mammal populations. That these areas also have the highest human activity presents a paradox, both for individual owls and for the future conservation and management of this California endangered species. The extent to which human recreation in natural areas affects animal behavior, species distribution, and productivity is a growing issue in natural area management. We present information that will allow land managers to better understand how existing natural resources, coupled with human recreation, influence the distribution and habitat use of the great gray owl.

California

Gene pool boundaries for the Yosemite toad (Anaxyrus canorus) reveal asymmetrical migration within meadow neighborhoods

The Yosemite toad ( Anaxyrus [ Bufo ] canorus ) is a federally threatened species of meadow-specializing amphibian endemic to the high-elevation Sierra Nevada Mountains of California. The species is one of the first amphibians to undergo a large demographic collapse that was well-documented, and is reputed to remain in low abundance throughout its range. Recent phylogeographic work has demonstrated that Pleistocene toad lineages diverged and then admixed to differing extents across an elevational gradient. Although lineage divisions may have significant effects on evolutionary trajectories over large spatial and temporal scales, present-day population dynamics must be delineated in order to manage and conserve the species effectively. In this study, we used a double-digest RADseq dataset to address three primary questions: (1) Are single meadows or neighborhoods of nearby meadows most correlated with population boundaries? (2) Does asymmetrical migration occur among neighborhoods of nearby meadows? (3) What topographic or hydrological variables predict such asymmetrical migration in these meadow neighborhoods? Hierarchical STRUCTURE and AMOVA analyses suggested that populations are typically circumscribed by a single meadow, although 84% of meadows exist in neighborhoods of at least two meadows connected by low levels of migration, and over half (53%) of neighborhoods examined display strong asymmetrical migration. Meadow neighborhoods often contain one or more large and flat “hub” meadows that experience net immigration, surrounded by smaller and topographically rugged “satellite” meadows with net emigration. Hubs tend to contain more genetic diversity and could be prioritized for conservation and habitat management and as potential sources for reestablishment efforts.

California

Sequoia groves of Yosemite: Visitor use and impacts monitoring

Despite being long-lived and massive, giant sequoias ( Sequoiadendron giganteum (Lindl.) J. Bucholz) are susceptible to erosion given their relatively shallow root structure. Human-caused soil compaction and vegetation loss through social trails are primary drivers of erosion in giant sequoia groves, particularly for trees that are near formal trails and access roads. We develop a method to observe and quantify the near-tree impacts from park visitors and to relate the overall amount of use with ground cover impact parameters to assess whether the desired conditions of each grove are being met for the park to maintain a spectrum of recreational opportunities. We collected data on visitation, ground cover, soil compaction, and social trailing using a combination of targeted surveys and observations at the three giant sequoia groves in Yosemite National Park. The Mariposa Grove receives the most visitation, and use levels among groves were consistent with relative size and facilities available. Selected parameters for ground cover data were analyzed by comparing values within undisturbed versus trampling-disturbed subplots at both 0–2 m and 2–8 m. Exposed soil cover and compaction were generally higher in anthropogenically disturbed subplots versus undisturbed subplots, and vegetation cover was reduced in some disturbed subplots. Each grove had one surveyed tree where average soil compaction was ≥2.2 kg/cm 2 , which may limit root growth and impact seedling regeneration. Each of the three groves had some trees with social trail presence, yet less than 7% of mature trees within any grove were impacted by social trails, and most social trails were rated as having low impairment. Coupling soil compaction measurements and estimates of trampling-disturbed areas with mapping of social trail conditions within groves provides a general assessment of visitor-associated impacts to sequoia groves and can facilitate a relatively rapid way to track hotspot (i.e., increasingly impacted) trees over time.

California

Continuous 1985-2012 Landsat monitoring to assess fire effects on meadows in Yosemite National Park, California

To assess how montane meadow vegetation recovered after a wildfire that occurred in Yosemite National Park, CA in 1996, Google Earth Engine image processing was applied to leverage the entire Landsat Thematic Mapper archive from 1985 to 2012. Vegetation greenness (normalized difference vegetation index [NDVI]) was summarized every 16 days across the 28-year Landsat time series for 26 meadows. Disturbance event detection was hindered by the subtle influence of low-severity fire on meadow vegetation. A hard break (August 1996) was identified corresponding to the Ackerson Fire, and monthly composites were used to compare NDVI values and NDVI trends within burned and unburned meadows before, immediately after, and continuously for more than a decade following the fire date. Results indicate that NDVI values were significantly lower at 95% confidence level for burned meadows following the fire date, yet not significantly lower at 95% confidence level in the unburned meadows. Burned meadows continued to exhibit lower monthly NDVI in the dormant season through 2012. Over the entire monitoring period, the negative-trending, dormant season NDVI slopes in the burned meadows were also significantly lower than unburned meadows at 90% confidence level. Lower than average NDVI values and slopes in the dormant season compared to unburned meadows, coupled with photographic evidence, strongly suggest that evergreen vegetation was removed from the periphery of some meadows after the fire. These analyses provide insight into how satellite imagery can be used to monitor low-severity fire effects on meadow vegetation.

California

The use of geographic information for fire management planning in Yosemite National Park

Fire has played a critical role in the ecosystems of Yosemite National park for millennia. Before the advent of Euro-Americans, lightning fires and fires set by Native Americans burned freely across the landscape. These fires burned periodically, with the interval between fires dependent on the availability of ignition sources, adequate fuels, and weather conducive to burning. As a result, different vegetation types burned at different intervals.

The George Wright Forum

Ferguson rock slide buries California State Highway near Yosemite National Park

During spring 2006, talus from the toe area of a rock-block slide of about 800,000 m 3 buried California State Highway 140, one of the main routes into heavily-visited Yosemite National Park, USA. Closure of the highway for 92 days caused business losses of about 4.8 million USD. The rock slide, composed of slate and phyllite, moved slowly downslope from April to June 2006, creating a fresh head scarp with 9-12 m of displacement. Movement of the main rock slide, a re-activation of an older slide, was triggered by an exceptionally wet spring 2006, following a very wet spring 2005. As of autumn 2006, most of the main slide appeared to be at rest, although rocks occasionally continued to fall from steep, fractured rock masses at the toe area of the slide. Future behavior of the slide is difficult to predict, but possible scenarios range from continued scattered rock fall to complete rapid failure of the entire mass. Although unlikely except under very destabilizing circumstances, a worst-case, rapid failure of the entire rock slide could extend across the Merced River, damming the river and creating a reservoir. As a temporary measure, traffic has been rerouted to the opposite side of the Merced River at about the same elevation as the buried section of Highway 140. A state-of-the-art monitoring system has been installed to detect movement in the steep talus slope, movement of the main slide mass, local strong ground motion from regional earthquakes, and sudden changes in stream levels, possibly indicating damming of the river by slide material.

California

Bufo canorus Camp 1916, Yosemite Toad.

Yosemite toads ( Bufo canorus ) are endemic to the Sierra Nevada, California, from Ebbetts Pass, Alpine County to the Spanish Mountain area, Fresno County (Karlstrom 1962, 1973; Stebbins 1966; unpublished Sierra National Forest survey data, 1995, 2002). Sites occur from 1,950–3,444 m elevation, with the majority of sites between 2,590–3,048 m (Karlstrom, 1962). Jennings and Hayes (1994a) estimate that populations have disappeared from 50% of historically reported sites, although the overall range of the species may have only contracted in the far north and in western Fresno County. Disappearances have been concentrated at lower elevation sites on the western edge of the range, with greater persistence at higher elevation sites (Davidson et al., 2002).

Book chapter

Wetland occupancy of pond-breeding amphibians in Yosemite National Park, USA

We estimated wetland occupancy and population trends for three species of pond-breeding anurans in Yosemite National Park from 2007-2011. We used a double survey technique in which two observers independently surveyed each site on the same day. Double surveys allowed us to calculate detectability for the three most common anurans within the park: Rana sierrae, Anaxyrus canorus, and Pseudacris regilla. Annual estimates of detectability were generally high; mean detectability ranged from 73.7% + 0.6 (SE) for any life history stage of A. canorus to 86.7% + 0.7 for sites with P. regilla reproduction (eggs or larvae present). Detectability was most variable for Anaxyrus canorus, which ranged from 45.9% to 99.7%. The probability of occupancy for R. sierrae was highest in larger, low-elevation wetlands that lacked fish. Anaxyrus canorus were more common in shallow high-elevation ponds; their occurrence was minimally impacted by the presence of fish. Finally, occurrence of P. regilla was largely unrelated to wetland size and elevation, but like R. sierrae, they were less likely to occupy sites with fi sh. Occupancy showed no trend over the five years of our study for R. sierrae or A. canorus when considering either sites with any life stage or only sites with reproduction. However, P. regilla showed a modest downward trend for sites with any life stage and sites with reproduction. Our results for R. sierrae run counter to expectations given recent concern about the decline of this species, while our findings for P. regilla raise concerns for this widespread and generally common species.

California

A walk through the hydroclimate network in Yosemite National Park: River chemistry

Visitors to Yosemite National Park (YNP) are fully aware of the weather, snowmelt, waterfalls (Photo 1), and river discharge and river and lake water temperature. They are not, however, thinking about river chemistry because you can’t see, hear, or feel it. So a river chemistry article in Nature Notes needs a familiar background before we break out the instruments.

Sierra Nature Notes