Sonoma County Research Articles

A novel genetic strategy to enable rapid detection of rare non-native alleles

Established invasive species represent one of the most harmful and challenging threats to native biodiversity, necessitating methods for Early Detection and Rapid Response. Cryptic invasions are particularly challenging and often require expensive and time-consuming molecular surveys which limits their usefulness for management. We present a novel application of the Fluidigm SNP-Type Assay to identify rare non-native alleles that significantly reduces the cost and time to generate diagnostic results. We demonstrate the efficacy of this method using experimental Fluidigm pools (99% accuracy) and sequence data (96% accuracy). We apply our novel methodology to an endangered population of California tiger salamanders in Sonoma County where two individual non-native tiger salamander hybrids have previously been detected since 2008. We screened 5805 larvae in 387 sample-pools containing 15 larvae each. We did not detect any non-native hybrids in the population, a result that was verified with sequence data, though we strongly recommend additional years of sampling to confirm hybrid absence. Our success with a challenging, large-genome amphibian suggests this method may be applied to any system, and would be particularly useful when it is necessary for conservation practitioners to rapidly identify rare taxa or genes of interest.

Post-disaster housing recovery estimation: Data and lessons learned from the 2017 Tubbs and 2018 Camp Fires

Post-wildfire housing recovery is a complex process for which systematically collected data remains scarce. Consequently, our ability to anticipate obstacles and plan for housing recovery from future events is limited. This study leverages housing permit datasets collected in Santa Rosa and Unincorporated Sonoma County, impacted by the 2017 Tubbs Fire, and Paradise, impacted by the 2018 Camp Fire. Permit and tax assessor data are combined to gain insights into the recovery processes for these communities. Although the percentage of rebuilt destroyed homes varies significantly between regions, the peak construction demand occurs around 1.5 years after each wildfire, with a substantial decline in the reconstruction rate after 2.5 years. Moreover, the pace of transition from permit application to reconstruction completion is similar across all three regions. Using this finding, we propose a methodology to forecast the number of parcels rebuilt per unit of time based on observations from prior events. A proof-of-concept application of the proposed methodology indicates that it estimates long-term housing recovery patterns based on permit application data collected within one year of the event. These findings indicate that a longitudinal housing recovery data database would help forecast housing recovery from future disasters by providing a source for early empirical validation of predictive models.

Inclusive community selection for engagement in clean transportation initiatives: A multifaceted approach and case study

Community engagement is a critical step to developing clean, equitable transportation systems in the transition to a decarbonized transport sector. Understanding the needs of the people who will use and be affected by new transportation infrastructure and services can help inform the fair distribution of potential burdens and benefits. A diverse set of communities must be selected for engagement to ensure multiple perspectives are considered. There is a need for consistent processes to systematically ensure community selection is inclusive. Important community groups have been left out of engagement, leading to biases in the findings from engagement efforts and ultimately, contributing to the inequitable transportation system we see today. There is a need for careful efforts up-front to identify and elevate the voices of those who have been and continue to be underrepresented in engagement processes. In this paper, we present a multifaceted approach for the selection of communities for engagement in transportation programs and policies. The approach consists of three integrated components: building problem context, analyzing data, and understanding community dynamics. We discuss each component and the iterations between them and apply the approach to a case study in Sonoma County, California, focused on the equitable transition to electric vehicles. Conducting this approach as a dedicated workstream in Sonoma County resulted in a diverse set of communities for future engagement efforts. This approach offers a shift in the way engagement efforts are conducted to prioritize diverse perspectives and ultimately, equitable transportation systems.

Air Quality Monitoring and the Safety of Farmworkers in Wildfire Mandatory Evacuation Zones.

The increasing frequency and severity of wildfires due to climate change pose health risks to migrant farm workers laboring in wildfire-prone regions. This study focuses on Sonoma County, California, investigating the effectiveness of air monitoring and safety protections for farmworkers. The analysis employs AirNow and PurpleAir PM2.5 data acquired during the 2020 wildfire season, comparing spatial variability in air pollution. Results show significant differences between the single Sonoma County AirNow station data and the PurpleAir data in the regions directly impacted by wildfire smoke. Three distinct wildfire pollution episodes with elevated PM2.5 levels are identified to examine the regional variations. This study also examines the system used to exempt farmworkers from wildfire mandatory evacuation orders, finding incomplete information, ad hoc decision-making, and scant enforcement. In response, we make policy recommendations that include stricter requirements for employers, real-time air quality monitoring, post-exposure health screenings, and hazard pay. Our findings underscore the need for significant consideration of localized air quality readings and the importance of equitable disaster policies for protecting the health of farmworkers (particularly those who are undocumented migrants) in the face of escalating wildfire risks.

New Treatment for Childhood Asthma

The Redwood Psychology Center in Western Sonoma County discovered a new cure for childhood asthma. This article describes how it happened and the research involved.

Soundscape mapping: understanding regional spatial and temporal patterns of soundscapes incorporating remotely-sensed predictors and wildfire disturbance

Increased environmental threats require proper monitoring of animal communities to understand where and when changes occur. Ecoacoustic tools that quantify natural acoustic environments use a combination of biophony (animal sound) and geophony (wind, rain, and other natural phenomena) to represent the natural soundscape and, in comparison to anthropophony (technological human sound) can highlight valuable landscapes to both human and animal communities. However, recording these sounds requires intensive deployment of recording devices and storage and interpretation of large amounts of data, resulting in large data gaps across the landscape and periods in which recordings are absent. Interpolating ecoacoustic metrics like biophony, geophony, anthropophony, and acoustic indices can bridge these gaps in observations and provide insight across larger spatial extents and during periods of interest. Here, we use seven ecoacoustic metrics and acoustically-derived bird species richness across a heterogeneous landscape composed of densely urbanized, suburban, rural, protected, and recently burned lands in Sonoma County, California, U.S.A., to explore spatiotemporal patterns in ecoacoustic measurements. Predictive models of ecoacoustic metrics driven by land-use/land-cover, remotely-sensed vegetation structure, anthropogenic impact, climate, geomorphology, and phenology variables capture landscape and daily differences in ecoacoustic patterns with varying performance (avg. R 2 = 0.38 ± 0.11) depending on metric and period-of-day and provide interpretable patterns in sound related to human activity, weather phenomena, and animal activity. We also offer a case study on the use of the data-driven prediction of biophony to capture changes in soniferous species activity before (1–2 years prior) and after (1–2 years post) wildfires in our study area and find that biophony may depict the reorganization of acoustic communities following wildfires. This is demonstrated by an upward trend in activity 1–2 years post-wildfire, particularly in more severely burned areas. Overall, we provide evidence of the importance of climate, spaceborne-lidar-derived forest structure, and phenological time series characteristics when modeling ecoacoustic metrics to upscale site observations and map ecoacoustic biodiversity in areas without prior acoustic data collection. Resulting maps can identify areas of attention where changes in animal communities occur at the edge of human and natural disturbances.

Trends in prescribed fire weather windows from 2000 to 2022 in California

As increasing wildfire activity puts pressure on wildland fire suppression resources both nationally and within the state of California, further development of programs and infrastructure that emphasize preventative fuels treatments, e.g. prescribed burning, is critical for mitigating the impacts of wildfire at large spatial scales. Among many factors that limit the use of prescribed fire, weather and fuel moisture conditions are among the most critical. We analyzed a 2-km gridded hourly surface weather dataset over a 23-yr period to explore the relationship between climatological trends and prescribed fire weather windows. Pairing this dataset with burn prescription parameters provided by experienced regional fire practitioners, we seek to identify the timing and extent of changes in weather-related opportunities for prescribed fire in two distinct geographic regions within California. We found an increasing trend in opportunities for prescribed fire use in Sonoma County, a representative coastal Mediterranean region of CA, and a decreasing trend in Plumas County, a montane region that extends through the Northern Sierra Nevada. Seasonally, we see more nuances—increased winter opportunities in both counties, as well as increased summer opportunities in Sonoma. Most notably, we see great variation spatially in the occurrence of suitable weather windows for prescribed burning. Fire management resource availability and air quality regulations further constrain burn windows. We observed a greater influence of these factors in Sonoma County vs. Plumas. Resource availability is the greatest constraint in the Summer and Fall, during wildfire season, and air quality regulations are a greater constraint in the Winter. Our findings provide information to decision-makers and regulators at the county and other government levels to more effectively support use of prescribed fire to achieve land management and fuels reduction goals.

A new North American species of Etainia (Lepidoptera, Nepticulidae), feeding on Arbutus and Arctostaphylos species (Ericaceae).

Etainiathoraceleuca van Nieukerken, Epstein & Davis, sp. nov. is the second native American species of Etainia Beirne, 1945, and the second known Etainia species feeding on Ericaceae. The species is known from light-collected adults in the USA (California, Arizona) and Canada (Ontario). These were linked via DNA barcodes to larvae that make short leafmines on Arbutus and Arctostaphylos species, then continue feeding in stems and branches, causing damage in nurseries and planted trees in Sonoma and Marin Counties, California. The holotype was accidentally reared from Arbutusarizonica, without observing the damage. Life history and damage are described in detail. Damage in Arctostaphylosuva-ursi found in Washington State probably belongs to E.thoraceleuca, which is a sister species to the European E.albibimaculella (Larsen, 1927).

First report of Diplodia bulgarica causing black canker on apple in California.

California is the sixth largest apple-producing state in the United States with a production that reached 4,654 ha in 2021. During the late winter of 2023, black canker symptoms were observed on branches of 'Gravenstein' apple (Malus domestica) in two commercial orchards in Sonoma County, California. The prevalence of symptomatic trees ranged from 10 to 30%. External symptoms included charcoal looking-cankers with the bark peeling off from the primary and secondary branches. Internally, cankers were dark brown in color with a hard consistency. Pycnidia were observed on the surface of older cankers. Fungal isolations were performed from disinfected (70% ethanol, 30 s) symptomatic branch samples (n = 15). Small wood pieces (5 mm length) were taken from the margin of diseased and healthy tissues, and placed on potato dextrose agar acidified with 92% lactic acid at 0.5 mL per liter (APDA). Plates were incubated at room temperature (20-22 °C) for 7 days. Colonies of Botryosphaeriaceae species (Phillips et al. 2013) (n = 12) were consistently recovered and pure cultures were obtained by transferring a single hyphal tip onto fresh APDA. Colonies were light gray with irregular margins. To induce pycnidia formation, two isolates (UCD11350 and UCD11351) were grown on pistachio leaf agar for 21 days. Conidia (n = 50) were thick-walled and ovoid in shape, initially hyaline, then turned pale brown and dark brown at maturity, and some of them became 1-septate, ranging from 18.9 to 24.0 (21.9) × 11.5 to 14.7 (13.4) µm. Isolates were identified by sequencing a partial region of the beta-tubulin (tub2) gene using the primers Bt2a/Bt2b (Glass and Donaldson 1995). BLAST searches on NCBI GenBank revealed 99.5 % identity with the Diplodia bulgarica ex-type (CBS 1245254). To confirm the identity, the rRNA internal transcribed spacer (ITS) and the translation elongation factor 1-alpha (tef1) were also sequenced using ITS5/ITS4 (White et al. 1990), and EF1-688F/EF1-1251R (Alves et al. 2008), respectively. A maximum parsimony multi-locus phylogenetic analysis clustered Californian isolates with reference strains of D. bulgarica. Sequences were deposited in GenBank (nos. OR631209 to OR631210, OR637361 to OR637362, OR637363 to OR637364 for ITS, tub2, and tef1, respectively). Pathogenicity tests were conducted on 2 to 3-year-old branches (n = 5) of over 20-year-old trees by inserting a 5-mm segment of a toothpick, completely colonized with each of the two isolates mentioned above, into a 1-mm-diameter hole made with a sterile drill bit. The same number of branches where mock inoculated with a non-colonized toothpick as negative control. The experiment was performed twice. After ten weeks, inoculations resulted in dark brown necrotic lesions that ranged from 54.0 to 59.8 mm in length. Negative controls remained asymptomatic. Koch's postulates were fulfilled by successfully recovering the isolates from the lesion margins, which were confirmed by morphology. Diplodia bulgarica was first described affecting M. sylvestris in Bulgaria (Phillips et al. 2012), and then detected on M. domestica causing cankers in Iran (Abdollahzadeh 2015), India (Nabi et al. 2020), Germany (Hinrichs-Berger al. 2021) and Türkiye (Eken 2021). The pathogen was also identified causing postharvest fruit rot (Eken 2022). To our knowledge, this is the first report of D. bulgarica causing branch canker on apple in California, which provides important information for developing detection and control strategies.

Measuring mental health outcomes in Walbridge Fire 2020.

In August 2020, Sonoma County experienced the Walbridge Fire (part of the Lake-Napa Unit Complex Fire). Following the repopulation of evacuated residents, the Sonoma County Department of Emergency Management circulated a Resident Experience Survey to learn from stakeholders how the fire impacted their lives, how emergency response to the fire met their needs, and to gather information to improve future disaster response activities. A total of 1,583 English and 55 Spanish surveys were completed. This paper describes a mixed-method research using survey data to understand broader mental health implications of the Walbridge Fire on residents. This study developed a quantitative Global Worry Model to explore which survey factors contributed to poorer mental health outcomes. Quantitative analytics looked at how language, loss, emergency alerts, and family size were measured for significance with a survey reported on a mental health questionnaire. Open-ended survey responses surrounding previous disaster experience, pre-existing health issues, and environmental conditions (smoke and the coronavirus disease 2019 pandemic) were contributory to responder's stress and anxiety. Final data analysis concluded that those who faced immediate loss presented with significant self-declared stress and anxiety.

The impact of COVID-19 on CalFresh and Market Match spending at farmers markets

What barriers and opportunities did low-income consumers face in shopping at farmers markets during COVID-19? To answer this question, we observed purchasing practices in Sonoma and Marin counties in Northern California, organized focus groups, and analyzed data from CalFresh and Market Match, which are public programs to support food access. We found that expanded federal food benefits during the pandemic increased financial access to farmers markets for low-income consumers, resulting in increased CalFresh and Market Match sales. While some consumers perceived outdoor shopping as safer, others were unsure whether farmers markets were strictly following pandemic precautions. Further, broader changes to shopping practices as a result of the pandemic indirectly impacted consumers’ interest in shopping at farmers markets. To make farmers markets more accessible now and in preparation for future disasters, we recommend increasing awareness of farmers markets among low-income communities, strengthening public nutrition benefits that can be used at farmers markets, and linking public and nonprofit organizations that promote access to healthy food with farmers markets.

The complete mitochondrial genome of Aegialites californicus (Motchoulsky, 1845) (insecta: coleoptera: salpingidae)

The flightless intertidal beetle genus Aegialites (family Salpingidae) is distributed along the Northern Pacific coasts, from California to Alaska and from Northern Japan to Kamchatka. Systematics of Aegialites and its phylogenetic relationships to other members of Salpingidae are unclear, and little genetic information is available. We here present the first complete mitochondrial genome of this genus, represented by Aegialites californicus (Motchoulsky, 1845) from Sonoma County, California, U.S.A. The complete mitochondrial genome of A. californicus is 15,899 bp long and comprises 13 protein-coding (PCG), two ribosomal RNA (rRNA) and 22 transfer RNA (tRNA) genes. The phylogenetic analysis places A.californicus as sister to other members of family Salpingidae. The mitochondrial genome sequence of A. californicus will contribute to future phylogenetic and taxonomic studies of genus Aegialites, family Salpingidae and superfamily Tenebrionoidea.

Quantifying large-scale impacts of cattle grazing on annual burn probability in Napa and Sonoma Counties, California

Quantifying large-scale impacts of cattle grazing on annual burn probability in Napa and Sonoma Counties, California

Social vulnerability and climate risk assessment for agricultural communities in the United States

Floods and droughts significantly affect agricultural activities and pose a threat to food security by subsequently reducing agricultural production. The impact of flood events is distributed disproportionately among agricultural communities based on their socio-economic fabric. Understanding climate-related hazards is critical for planning mitigation measures to secure vulnerable communities. This study introduces a holistic approach for evaluating the combined risks associated with drought and flood hazards for agricultural communities in the United States. It accomplishes this by merging social vulnerability indicators with data on drought and flood exposure, enabling the identification of the most susceptible agricultural communities. The research seeks to offer valuable insights into the vulnerability of agricultural communities across the United States. It fills a vital research gap by conducting a comprehensive nationwide assessment of social vulnerability, considering expected annual losses related to both flood and drought hazards, and amalgamating social vulnerability with these expected annual losses. The analyses were conducted by adapting datasets and methodologies that are developed by federal institutions such as FEMA, USACE, and USDA. The study identified the 30 most socially vulnerable counties and assessed their exposure to drought and flooding, finding that Mendocino, Sonoma, Humboldt, El Dorado, Fresno, and Kern counties in California had the highest drought exposure and expected annual losses, with Humboldt (CA) and Montgomery (TX) having the highest combined risk. The study estimated over $1 billion in crop damage, with California experiencing the greatest losses, primarily affecting a diverse range of crops, while the Midwest was primarily impacted in terms of major crop types. The findings of this study can serve as supportive information for policymakers to better understand climate risks in agricultural communities and identify where risk mitigation activities should be allocated.

Reference genome of the bicolored carpenter ant, Camponotus vicinus.

Carpenter ants in the genus Camponotus are large, conspicuous ants that are abundant and ecologically influential in many terrestrial ecosystems. The bicolored carpenter ant, Camponotus vicinus Mayr, is distributed across a wide range of elevations and latitudes in western North America, where it is a prominent scavenger and predator. Here, we present a high-quality genome assembly of C. vicinus from a sample collected in Sonoma County, California, near the type locality of the species. This genome assembly consists of 38 scaffolds spanning 302.74 Mb, with contig N50 of 15.9 Mb, scaffold N50 of 19.9 Mb, and BUSCO completeness of 99.2%. This genome sequence will be a valuable resource for exploring the evolutionary ecology of C. vicinus and carpenter ants generally. It also provides an important tool for clarifying cryptic diversity within the C. vicinus species complex, a genetically diverse set of populations, some of which are quite localized and of conservation interest.

MAPPING FIRE SEVERITY FROM RECENT CALIFORNIA WILDFIRES USING SATELLITE IMAGERY

Abstract. Urban sprawl has become a huge concern for cities like Los Angeles, New York, and Chicago in recent years. As urban sprawl pushes urbanization into city suburbs and outskirts, forest fragmentation becomes evidently prevalent and exposes forests to high temperatures, pollution, pests, and fires that threaten forest health. A 2021 report titled Rebuilding for a Resilient Recovery affirmed that the frequency and damage potential of wildfires have been exacerbated by climate change and urban sprawl especially in California. Globally, these fires can be attributed to both natural and anthropogenic drivers such as deforestation, agriculture, mining, and industrialization. Future projections predict that these incidences of fires will only worsen as the planet continues to warm further, with emphasis on the spread and intensities of the annual California wildfires over the decade. Quantifying the consequences of these fires on global climate change has become crucial and with the emergence of advanced GIS mapping tools, focus, visualization, and interpretation of fire and burn severity has become easier. However, knowledge and understanding of wildfire dynamics is limited especially in terms of fuel load, impacts on vegetation health, aerosol release and associated movement in the atmosphere. It is therefore important to address these gaps to make better and informed actions towards forest use, protection, management, and policies and broadly towards ambitious climate goals such as the UN’s Carbon Neutral goal by 2050. This study uses Sentinel 2A data from the Copernicus fleet between 2018 and 2022 to identify and assess the burn severity of affected areas in Sonoma County, California. The aim of the study is to understand the impacts of fires of fire on vegetation health and the post-fire recovery process. The Normalized Burn Ration Index (NBRI) was used to identify and measure the extent of the burnt areas within the county and their severity and Normalized Difference Vegetation Index (NDVI) was used as a measure of forest heath. The results show that Sonoma County has become a high burn severity area with a major decrease in unburned areas between 2018 and 2022. NDVI values recorded all decrease from January to December for all the years because of pre-fire season drought. The wildfire season begins in May and before then there are seasonal droughts that occur hence accounting for the initial decline in NDVI. The least values recorded were between 0.5 and 0.57 for September, indicating sparse and unhealthy vegetation because of sharp declines during the fire season.

What is Suksdorf’s hawthorn? Revision of the Western North American 20-stamen black-fruited hawthorns (Crataegus series Douglasianae, Rosaceae subtribe Malinae)

An agamic complex of 20- and 10-stamen, black-fruited hawthorns (Crataegus subg. Sanguineae, sect. Douglasianae) occurs in western North America, with a 10-stamen taxon disjunct in the upper Great Lakes basin. Here, we recircumscribe the 20-stamen taxa at the core of this complex (C. ser. Douglasianae). This is needed in order to distinguish between a presumptively ancestral diploid and its allo- and autopolyploid derivatives, all differing in breeding system, distribution, morphology, and pattern of genetic variation. The earliest name for these 20-stamen taxa, Crataegus gaylussacia A. Heller, was given to distinctive plants of Marin and Sonoma counties in California that have recently been shown to be autotriploids. In Flora North America, however, this name was applied to all 20-stamen, black-fruited hawthorns. We recircumscribe C. gaylussacia, and also recircumscribe and typify a slightly younger name, C. suksdorfii (Sarg.) Kruschke, with a specimen from southern Washington with the diminished pollen fertility found in allopolyploid, apomictic black-fruited hawthorns occurring east of the Cascades, from northern California north to southernmost Alaska. Finally, we recognize the diploid, self-incompatible, sexual black-fruited hawthorns found west of the Cascades from northern California to southwestern Washington as Crataegus rhodamae-loveae sp. nov. Together with the 10-stamen, black-fruited hawthorns in predominantly tetraploid, apomictic, and self-fertile C. douglasii Lindl. and its segregates (discussed in detail in a companion paper), these species are linked by whole genome duplications associated in most cases with hybridization, with members of red-fruited C. subg. Americanae, and with each other. We suggest that this complex provides a model for understanding other such groups of Crataegus species that are related by whole genome duplications resulting from the fertilization of unreduced gametes (facilitated by but not necessarily dependent on occurrence of gametophytic apomixis), often together with hybridization. We note that an earlier effort at DNA barcoding these and other hawthorn species that provided limited support for our taxonomic decisions here also demonstrated some limited utility of the original plant DNA barcoding loci in groups like Crataegus. The taxonomic decisions we advocate will warrant consideration when other groups of hawthorns are revised in the light of data like those employed here.

A Victorian taste of Italy: Situating the “Italian-Swiss Colony” in California wine culture

The article focuses on Andrea Sbarboro's (1839–1923) Italian-Swiss Colony of Asti in Sonoma County and the success of his winemaking company created in 1881. By exploring the relationship between the symbolic space of the vineyard (which I refer to as a ‘winescape’) and the predominant racial narratives of the time in California, I argue that Sbarboro created an Italian space in which Italian Americans could be recognized as ‘white.’ Sbarboro's representations of winemaking as a tradition rooted in Greek/Roman civilization appealed to a Victorian cultural elite that intended to project a Classical and imperialist aesthetic into California. Even today, it is still possible to find in Sonoma and Napa Valley Italian American winemakers that link their business to a similar aesthetic with the unintended result of excising from the landscape non-white contributions to the history of winemaking in California.

An Interview with Jean Kirsch, M.D., conducted by Shoshana Fershtman, J.D., Ph.D.

Journal of Analytical PsychologyVolume 68, Issue 3 p. 479-514 Interview An Interview with Jean Kirsch, M.D., conducted by Shoshana Fershtman, J.D., Ph.D. Jean Kirsch, Jean Kirsch Palo Alto, California, USASearch for more papers by this authorShoshana Fershtman, Corresponding Author Shoshana Fershtman [email protected] orcid.org/0009-0004-9940-4351 Sonoma County, California, USASearch for more papers by this author Jean Kirsch, Jean Kirsch Palo Alto, California, USASearch for more papers by this authorShoshana Fershtman, Corresponding Author Shoshana Fershtman [email protected] orcid.org/0009-0004-9940-4351 Sonoma County, California, USASearch for more papers by this author First published: 29 May 2023 https://doi.org/10.1111/1468-5922.12920 The interview between Jean Kirsch and Shoshana Fershtman took place over several sessions during 2022 in San Francisco. It is presented in two parts. Read the full textAboutPDF ToolsRequest permissionExport citationAdd to favoritesTrack citation ShareShare Give accessShare full text accessShare full-text accessPlease review our Terms and Conditions of Use and check box below to share full-text version of article.I have read and accept the Wiley Online Library Terms and Conditions of UseShareable LinkUse the link below to share a full-text version of this article with your friends and colleagues. Learn more.Copy URL Volume68, Issue3June 2023Pages 479-514 RelatedInformation

Soundscape components inform acoustic index patterns and refine estimates of bird species richness

Ecoacoustic monitoring has proliferated as autonomous recording units (ARU) have become more accessible. ARUs provide a non-invasive, passive method to assess ecosystem dynamics related to vocalizing animal behavior and human activity. With the ever-increasing volume of acoustic data, the field has grappled with summarizing ecologically meaningful patterns in recordings. Almost 70 acoustic indices have been developed that offer summarized measurements of bioacoustic activity and ecosystem conditions. However, their systematic relationships to ecologically meaningful patterns in varying sonic conditions are inconsistent and lead to non-trivial interpretations. We used an acoustic dataset of over 725,000 min of recordings across 1,195 sites in Sonoma County, California, to evaluate the relationship between 15 established acoustic indices and sonic conditions summarized using five soundscape components classified using a convolutional neural network: anthropophony (anthropogenic sounds), biophony (biotic sounds), geophony (wind and rain), quiet (lack of emergent sound), and interference (ARU feedback). We used generalized additive models to assess acoustic indices and biophony as ecoacoustic indicators of avian diversity. Models that included soundscape components explained acoustic indices with varying degrees of performance (avg. adj-R2 = 0.61 ± 0.16; n = 1,195). For example, we found the normalized difference soundscape index was the most sensitive index to biophony while being less influenced by ambient sound. However, all indices were affected by non-biotic sound sources to varying degrees. We found that biophony and acoustic indices combined were highly predictive in modeling bird species richness (deviance = 65.8%; RMSE = 3.9 species; n = 1,185 sites) for targeted, morning-only recording periods. Our analyses demonstrate the confounding effects of non-biotic soundscape components on acoustic indices, and we recommend that applications be based on anticipated sonic environments. For instance, in the presence of extensive rain and wind, we suggest using an index minimally affected by geophony. Furthermore, we provide evidence that a measure of biodiversity (bird species richness) is related to the aggregate biotic acoustic activity (biophony). This established relationship adds to recent work that identifies biophony as a reliable and generalizable ecoacoustic measure of biodiversity.