Translational Science Education Through Citizen Science

Guided by the six elements of Translational Ecology (TE; i.e., decision-framing, collaboration, engagement, commitment, process, and communication), we showcase the first explicit example of a Translational Science Education (TSE) effort in the coastal redwood ecosystem of Humboldt County, CA. Using iNaturalist, a flexible and free citizen science/crowdsourcing app, we worked with students from grade school through college, and their teachers and community, to generate species lists for comparison among 19 school and non-profit locations spanning a range of urbanization. Importantly, this TSE effort resulted in both learning and data generation, highlighting the ability of a TSE framework to connect and benefit both students and researchers. Our data showed that, regardless of the age of the observers, holding organized BioBlitzes added substantially more species to local biodiversity lists than would have been generated without them. In support of current ecological theory, these data showed an urbanization gradient among sites, with rural sites containing fewer non-native species than urban ones. On the education side, qualitative assessments revealed students and educators remained engaged throughout the project. Future projects would also benefit by establishing quantifiable metrics for assessing student learning from project conception. Throughout the project, the fundamentals of TE were followed with repeated interactions and shared objectives developed over time within trusted community relationships. Such positive human interactions can lead new naturalists to think of themselves as champions of their local biodiversity (i.e., as land stewards). We anticipate that such newly empowered and locally expert naturalists will remain committed to land stewardship in perpetuity and that other scientists and educators are inspired to conduct similar work.

Using genomic epidemiology of SARS-CoV-2 to support contact tracing and public health surveillance in rural Humboldt County, California

ABSTRACTDuring the COVID-19 pandemic within the United States, much of the responsibility for diagnostic testing and epidemiologic response has relied on the action of county-level departments of public health. Here we describe the integration of genomic surveillance into epidemiologic response within Humboldt County, a rural county in northwest California. Through a collaborative effort, 853 whole SARS-CoV-2 genomes were generated, representing ∼58% of the 1,449 SARS-CoV-2-positive cases detected in Humboldt County as of mid-March 2021. Phylogenetic analysis of these data was used to develop a comprehensive understanding of SARS-CoV-2 introductions to the county and to support contact tracing and epidemiologic investigations of all large outbreaks in the county. In the case of an outbreak on a commercial farm, viral genomic data were used to validate reported epidemiologic links and link additional cases within the community who did not report a farm exposure to the outbreak. During a separate outbreak within a skilled nursing facility, genomic surveillance data were used to rule out the putative index case, detect the emergence of an independent Spike:N501Y substitution, and verify that the outbreak had been brought under control. These use cases demonstrate how developing genomic surveillance capacity within local public health departments can support timely and responsive deployment of genomic epidemiology for surveillance and outbreak response based on local needs and priorities.

Foothill yellow-legged frog breeding biology in a semiregulated river, Humboldt County, CA

River-breeding foothill yellow-legged frogs (Rana boylii) are endemic to California and Oregon. Across this wide geographic range, many populations have declined due habitat loss, non-native competitors and predators (e.g., American bullfrogs [Lithobates catesbeianus], Centrarchid fish), and disrupted water flow due to dams. Even when flow conditions are not extensively regulated, managers still require basic and region-specific information about the breeding biology of this species to prevent further decline. To document spatiotemporal dynamics of reproductive output during drought and high flow years, we surveyed a 13.5 km reach of the lower Mad River, Humboldt County, CA approximately 70 km downstream of Matthews Dam. We found relatively high densities of egg masses (39 to 59 masses / km). Egg masses were generally laid on small cobbles (mean ±SE diameter = 11 ± 0.24 cm) at depths between 0 and 20 cm, and 95% of egg masses were laid within 6 m of the wetted edge. Egg masses were disproportionately found in the tailouts of fast runs and glides, and found less often than expected in side arms, runs, and riffles than would be expected by chance. Breeding timing appeared to be more related to rapid decreases in stream flow variance than air temperature. Taken with previous information about the species, our results suggest that R. boylii rely on multiple cues to initiate breeding. Our results can be used to help inform breeding timing and habitat use by R. boylii breeding under natural flow regimes in Northern California. Our recommendations for future research include further investigating upland habitat use by post-metamorphic life stages factors that influence breeding site selection.

Assessing Geomorphic Change in Restored Coastal Dune Ecosystems Using a Multi-Platform Aerial Approach

Uncrewed aerial systems (UAS) provide an effective method to examine geomorphic and vegetation change in restored coastal dune ecosystems. Coupling structure-from-motion (SfM) photogrammetry with RGB orthomosaic imagery allows researchers to characterize spatial-temporal geomorphic responses associated with differences in vegetation cover. Such approaches provide quantitative data on landscape morphodynamics and sediment erosion and deposition responses that allow scientists and land managers to assess the efficacy of dynamic restoration efforts and, in turn, make informed decisions for future restoration projects. Two different restored coastal foredune sites in Humboldt County, California were monitored between 2016–20 with UAS (quadcopter and fixed-wing), kite aerial photogrammetry (KAP), and terrestrial laser scanning (TLS) platforms. We compared our KAP- and UAS-SfM elevation models to concurrently collected TLS bare earth models for five of our fifteen collections. The goal of this study was to inform on the potential of a multi-platform aerial approach for calculating geomorphic differences (i.e., topographic differencing), in order to quantify sediment erosion and deposition, and vegetation change over a coastal dune ecosystem. While UAS-SfM datasets were relatively well fit to their TLS counterparts (2.1–12.2% area of difference), the KAP-SfM surfaces exhibited higher deviations (23.6–27.6%) and suffered from systematic collection inconsistencies related to methods and susceptibility to external factors (e.g., the influence of wind speed and direction on variable altitude, image overlap, and coverage extent). Finally, we provide commentary on the logistical considerations regarding KAP and UAS data collection and the construction of uncertainty budgets for geomorphic change detection (GCD), while providing suggestions for standardizing methods for uncertainty budgeting. While we propose an approach that incorporates multiple levels of collection- and processing-based uncertainty, we also recognize that uncertainty is often project-specific and outline the development of potential standards for incorporating uncertainty budgets in SfM projects.

First reports of Phytophthora ramorum clonal lineages NA1 and EU1 causing Sudden Oak Death on tanoaks in Del Norte County, California

A year of forest health surveys has led to the first detection of Phytophthora ramorum in Del Norte County followed by the first wildland detection of the EU1 clonal lineage (Grunwald et al. 2009) of this pathogen in California. In July 2019, leaves were sampled from two tanoaks (Notholithocarpus densiflorus) and 16 California bay laurels (Umbellularia californica) in Jedediah Smith State Park in Del Norte County, the northernmost coastal County of California. Leaves displayed lesions normally associated with Sudden Oak Death (SOD) caused by P. ramorum and were discovered during the citizen science-based survey known as SOD Blitz (Meentemeyer et al. 2015). Samples were surface sterilized using 75% Ethanol and plated on PARPH-V8 agar (Jeffers and Martin 1986). After plating, DNA was extracted and amplified using two P. ramorum-specific assays (Hayden et al. 2006, Kroon et al. 2004). Leaves from two tanoaks exhibiting twig die-back had typical SOD lesions along the midvein, gave positive PCR results and yielded cultures with colony morphology, sporangia and chlamydospores typical of the NA1 lineage of P. ramorum originally isolated in California from tanoaks and coast live oaks (Quercus agrifolia) (Rizzo et al. 2002). The ITS locus and a portion of the Cox-1 locus were sequenced from DNA extracts of each culture using primers DC6-ITS4 (Bonants et al. 2004) and COXF4N-COXR4N (Kroon et al. 2004), respectively. ITS sequences (GB MN540639-40) were typical of P. ramorum and Cox-1 sequences (GB MN540142-3) perfectly matched the Cox-1 sequence of the NA1 lineage (GB DQ832718) (Kroon et al. 2004). Microsatellite alleles were generated as described in Croucher et al. (2013) for the two Del Norte cultures and for eight P. ramorum cultures, representative of the four main multilocus genotypes (MLGs) present in California, namely c1 (Santa Cruz/Commercial Nurseries), c3 (San Francisco Bay Area), c2 (Monterey County), and c4 (Humboldt County) (Croucher et al. 2013). The two Del Norte MLGs were identical to one another and most similar to MLG c1, with a single repeat difference at a single locus. SSR results suggest the inoculum source may not be from Humboldt County, neighboring to the South, but from a yet unidentified outbreak, possibly associated with ornamental plants. Jedediah Smith State Park was surveyed for 12 months following the initial detection, however the pathogen has yet to be re-isolated in that location. In July 2020, SOD symptomatic leaves from two tanoak trees exhibiting twig cankers were collected 8 Km north of Jedediah Smith State Park, where three additional tanoak trees displayed rapidly browned dead canopies consistent with late stage SOD. Leaves were processed as above. Colonies from these samples produced chlamydospores and sporangia typical of P. ramorum on PARPH-V8 agar, but displayed a growth rate faster than that of NA1 genotypes and were characterized by aerial hyphae, overall resembling the morphology of EU1 lineage colonies (Brasier 2003). The EU1 lineage was confirmed by the perfect match of the sequence of a portion of the Cox-1 gene (GB MW349116-7) with the Cox-1 sequence of EU1 genotypes (GB EU124926). The EU1 clonal lineage has been previously isolated from tanoaks in Oregon forests, approximately 55 Km to the North (Grünwald et al. 2016), but this is the first report for California wildlands and will require containment and government regulations. It is unknown whether the EU1 strains in Del Norte County originated from Oregon forests or elsewhere.

Resource and Load Compatibility Assessment of Wind Energy Offshore of Humboldt County, California

Floating offshore wind is being considered in northern California as indicated by the Bureau of Ocean Energy Management’s issuance of a lease consideration in the Humboldt Call Area. Humboldt County offers access to this enormous resource, but local electric load and transmission are limited. The potential impacts of offshore wind generators at three different scales were studied using a regional grid model of Humboldt County. Offshore wind generation was calculated using modeled wind speed data and 12-MW turbine specifications and integrated with projected load and historical generation. Offshore wind farms deployed in the Humboldt Call Area achieve annual capacity factors between 45% and 54% after losses and maintenance. Power output is variable between and within seasons, with full power output 30% of the time and no output approximately 20% of the time. Electricity from a 48-MW wind farm provides 22% of regional load with limited exports. A 144-MW wind farm serves 38% of local load, exporting 40% of its electricity with the extant 70-MW transmission capacity. A full build-out of 1836 MW would result in 88% curtailment with existing transmission. Across scenarios, offshore wind variability necessitates reliance on existing power plants to meet local demand in periods of low wind.

Steep increases in fentanyl-related mortality west of the Mississippi River: synthesizing recent evidence from county and state surveillance

ABSTRACTBackground and AimsOverdose deaths from synthetic opioids (e.g., fentanyl), increased 10-fold in the United States from 2013-2018, despite 88% of deaths occurring east of the Mississippi River. Public health professionals have long feared that further spread of fentanyl could greatly exacerbate the opioid epidemic. We aimed to measure and characterize recent fentanyl deaths in jurisdictions west of the Mississippi River.DesignSystematic search of states and counties in the Western U.S. for publicly available data on fentanyl-related deaths since the most recently published Centers for Disease Control and Prevention (CDC) statistics, which cover through December 2018. Longitudinal study using 2019 and 2020 mortality records to identify changes in fentanyl-involved mortality since most recent CDC statistics.SettingsU.S. states west of the Mississippi River.MeasurementsAnnual rate of fentanyl-involved deaths per 100,000 population. Proportion of fatal heroin-, stimulant, and prescription pill overdoses also involving fentanyl.FindingsWe identified nine jurisdictions with publicly available fentanyl death data through December 2019 or later - State of Arizona; Denver County, CO; Harris County, TX; Humboldt County, CA; King County, WA; Los Angeles County, CA; San Francisco County, CA; Siskiyou County, CA; Dallas-Fort Worth, TX metro area (Denton, Johnson, Parker, Tarrant counties. Fentanyl deaths increased in each jurisdiction. Their collective contribution to national synthetic narcotics mortality tripled from 2017 to 2019. First quarter 2020 data (available from all but San Francisco County) showed a 33% growth in fentanyl-mortality over 2019. Fentanyl-involvement in heroin, stimulant, and prescription pill deaths has grown substantially over time.ConclusionsFentanyl has spread westward, which could dramatically worsen the nation’s already severe opioid epidemic. Increasing standard-dose of naloxone, expanding Medicaid, improving coverage of addiction treatment, and public health educational campaigns should be prioritized.

Factors Influencing Movement of the Manila Dunes and Its Impact on Establishing Non-Native Species

Unmanned aerial vehicles (UAVs) are being widely used to monitor microtopographic and vegetation changes in coastal habitats using remote sensing techniques. Sand dune habitats are vital ecosystems along the North coast of Humboldt County in California. This study was conducted at the Manila Dunes, west of the Humboldt Coastal Nature Center, in Manila, California. Various factors influence dune movements, including vegetative stabilization and the creation of social trails. The purpose of this paper is to understand the dune movements in relation to social vs. established trails, vegetation density, topography, and also, mapping invasive vs. native species in the Mal-le’l Dunes area of the Humboldt Bay National Wildlife Refuge. A DJI Mavic Pro multicopter small unmanned aerial vehicle (UAV) was used to fly a 22.5-acre plot of the Manila Dunes. The images from this flight were used to create an orthomosaic image using a photogrammetry process (Structure-from-Motion (SfM)). From our analysis, the installation of trails lessened the impact of dune movements. Social trails digitized within the study site were found to have more local movements than the established trails when compared to movements across the entire site. We compared two methods of classification, viz., the object-based feature extraction method and a pixel-based supervised maximum likelihood classification method, in order to identify the best way to classify dune vegetation. In conclusion, this study is useful for providing baseline dune movement information that can aid in informing how trail and infrastructure constructions can be impacted in land management or in areas with dynamic communities of flora and fauna.

Masters, Apprentices, and Kidnappers

Although it was admitted to the Union as a free state in 1850, labor-starved gold-rush California permitted employers to bind Native Americans as unfree leased convicts, minor custodial wards, debt peons, and, between 1860 and 1863, indentured servants or “apprentices.” As a key component of California's elaborate system of unfree Native American labor, Indian apprenticeship flourished for three years until its abolition during the Civil War in the wake of the Emancipation Proclamation. Little remembered today, much remains obscure regarding the essential details of Indian apprenticeship and the illegal slave trade that emerged to supply the considerable market demand for bound labor. This essay focuses on Humboldt County in northwestern California, where significant numbers of white residents made extensive use of Native American apprentices at the same time that many of their neighbors demanded—and began carrying out—the forced removal and outright extermination of local Indian peoples. Building on valuable data that the anthropologist Robert Heizer extracted in 1971 from the unique but now missing cache of over a hundred surviving indentures discovered in 1915 by the historian Owen C. Coy, this study offers two detailed group profiles of Humboldt County's white employers and their legally bound Native American workers. These collective portraits reveal the social, economic, and demographic compositions of frontier California's master and servant classes while simultaneously tracing both the rise and the fall of Indian apprenticeship within the violent racial context of Humboldt County during the gold rush and the Civil War.

How do tree- and stand-level factors influence belowground biomass and carbon storage in tanoak (Notholithocarpus densiflorus)?

Tanoak (Notholithocarpus densiflorus) is the most common hardwood in northern California forests, yet its capacity for belowground carbon storage is unknown. To study relationships between coarse roots and tree and stand variables, we destructively sampled twelve tanoak root systems in Humboldt County, California. To estimate belowground biomass, we summed measured biomass of the root ball and a subsample of lateral roots along with predicted biomass of unmeasured coarse roots. Tree size was the best linear predictor of belowground biomass and carbon, indicating that a 25-cm diameter tanoak, for example, stored 70 kg of biomass and 34 kg of carbon in its root system. Stand density was also influential: a doubling of stand density index reduced belowground carbon by 22% for the average tanoak. The mean root-toshoot ratio of 0.35 varied between 0.11 and 0.65, with larger tanoak at high stand densities allocating proportionally less biomass belowground than small open-grown tanoak. The findings highlight the importance of accounting for stand density effects, otherwise belowground carbon will be under predicted in low-density stands managed for tree health, vigor, and resistance to drought and wildfire, or overestimated in forests managed at high densities for high carbon sequestration.