Definitions of Water Quality: A Survey of Lake-Users of Water Quality-Compromised Lakes

Understanding and defining water quality is an important precursor for influencing pro-environmental behavior and accurately assessing potential outcomes of human–lake interactions. This study surveyed 82 lake-users in Nebraska regarding their definitions of water quality and the importance of various water quality features to determine if lake-users’ definitions align with complex and multi-faceted governmental and scientific definitions. Survey sites included two recreational reservoirs (e.g., boating and fishing), Holmes Lake (urban watershed) and Branched Oak Lake (agricultural watershed). The biological and chemical parameters are similar between the lakes and both lakes were listed as “impaired” on the Section 303(d) (United States Environmental Protection Agency,Washington, DC, USA) list of impaired waters of the US at the time of the surveys. The results of our survey suggest that the overwhelming majority of lake-users’ self-generated definitions of water quality did not include more than one feature of water quality found in the relevant policy and regulatory definitions and they focused primarily on water clarity. Further, when provided a list of specific water quality features, the participants rated all provided features of water quality as highly important. This suggests that the failure to include those features in a self-generated definition is not the consequence of perceiving that feature as low importance

The NSF Scientific Collections Survey: A Brief Overview of Findings

This white paper describes the state of digital collections resulting from NSF funded research in biodiversity, ecology, environmental health, environmental education, and environmental resource management

Upwelling couples chemical and biological dynamics across the littoral and pelagic zones of Lake Tanganyika, East Africa

We studied the effects of upwelling on nutrient and phytoplankton dynamics in the pelagic and littoral zones of Lake Tanganyika near Kigoma, Tanzania. During the dry season of 2004, a rise in the thermocline and sudden drop in surface water temperatures indicated a substantial upwelling event. Increases in concentrations of nitrate, soluble reactive phosphorus, and silica in the surface waters occurred simultaneously after the temperature drop. Within days, chlorophyll a concentrations increased and remained elevated, while inorganic nutrient concentrations returned to preupwelling levels and organic nutrient concentrations peaked. We observed parallel temporal patterns of water temperature, nutrient concentrations, and phytoplankton chlorophyll in both the pelagic and the littoral zones, demonstrating that upwelling strongly affects the nearshore ecosystem as well as the pelagic zone. Concurrent records from 12 littoral sites indicated spatial variation in the timing, magnitude, and biological response to upwelling. There was no discernable latitudinal pattern in the timing of upwelling, suggesting that mixing did not result from a progressive wave. Our monitoring, as well as other multiyear studies, suggests that dry-season upwelling occurs during most years in northern Lake Tanganyika. The observed sensitivity of littoral nutrients and phytoplankton to upwelling suggests that reductions in upwelling due to global climate change could strongly affect the dynamics of the spectacular nearshore ecosystem of Lake Tanganyika, as has been proposed for the pelagic zone

Harmful Algal Blooms Threaten the Health of Peri-Urban Fisher Communities: A Case Study in Kisumu Bay, Lake Victoria, Kenya

Available guidance to mitigate health risks from exposure to freshwater harmful algal blooms (HABs) is largely derived from temperate ecosystems. Yet in tropical ecosystems, HABs can occur year-round, and resource-dependent populations face multiple routes of exposure to toxic components. Along Winam Gulf, Lake Victoria, Kenya, fisher communities rely on lake water contaminated with microcystins (MCs) from HABs. In these peri-urban communities near Kisumu, we tested hypotheses that MCs exceed exposure guidelines across seasons, and persistent HABs present a chronic risk to fisher communities through ingestion with minimal water treatment and frequent, direct contact. We tested source waters at eleven communities across dry and rainy seasons from September 2015 through May 2016. We measured MCs, other metabolites, physicochemical parameters, chlorophyll-a, phytoplankton abundance and diversity, and fecal indicators. We then selected four communities for interviews about water sources, usage, and treatment. Greater than 30% of source water samples exceeded WHO drinking water guidelines for MCs (1 µg/L), and over 60% of source water samples exceeded USEPA guidelines for children and immunocompromised individuals. 50% of households reported a sole source of raw lake water for drinking and household use, with alternate sources including rain and boreholes. Household chlorination was the most widespread treatment utilized. At this tropical, eutrophic lake, HABs pose a year-round health risk for fisher communities in resource -limited settings. Community-based solutions and site-specific guidance for Kisumu Bay and similarly impacted regions is needed to address a chronic health exposure likely to increase in severity and duration with global climate change

Impacts of algal blooms and microcystins in fish on small-scale fishers in Winam Gulf, Lake Victoria: implications for health and livelihood

Lake Victoria, bordered by Kenya, Tanzania, and Uganda, provides one of the largest freshwater fisheries in the world and supports millions in small-scale fishing communities. Historical environmental change, including population growth, nutrient loading, introduced invasive species, and rising temperatures, has resulted in eutrophication and persistent cyanobacterial harmful algae blooms (cyanoHABs) over recent decades, particularly in the shallower gulfs, bays, and inlets. CyanoHABs impact fisheries and food web dynamics and compromise food and water security for nearshore fisher populations. In this study, we examine the socialecological impact of freshwater blooms on fisher health in one of these eutrophic regions, Winam Gulf in Lake Victoria. CyanoHABs persist for months and produce microcystins and hepatotoxins at levels unsafe for human health. We assessed potential risk and contribution of microcystin exposure through fish consumption, in addition to exposure through water source, and conducted 400 fisher and 400 household surveys. Average microcystin concentrations exceeded the World Health Organization (WHO) guideline for drinking water consistently during the long dry season, and cyanobacterial cell counts surpassed WHO standards for recreational risk in 84% of samples. Hazard quotients for fish consumed by young children were 5 to 10 times higher than permissible levels. In addition, fishers chronicled profound ecosystem changes with direct impact on livelihood, fisheries, and water quality with 77.4% reporting a decline in profit or catch, 83.1% reporting adverse impacts of cyanoHABs on fish in the lake, and 98.2% reporting indicators of declining water quality in the lake overall. Through the application of a social-ecological lens to a public health model, we identified spheres of influence that modify how fishers experience HABs related stressors and risks to provide a starting point at which to identify sustainable strategies to improve food and water security and livelihood for the millions in nearshore communities

LakeMetabolizer: An R package for estimating lake metabolism from free-water oxygen using diverse statistical models

Metabolism is a fundamental process in ecosystems that crosses multiple scales of organization from individual organisms to whole ecosystems. To improve sharing and reuse of published metabolism models, we developed LakeMetabolizer, an R package for estimating lake metabolism from in situ time series of dissolved oxygen, water temperature, and, optionally, additional environmental variables. LakeMetabolizer implements 5 different metabolism models with diverse statistical underpinnings: bookkeeping, ordinary least squares, maximum likelihood, Kalman filter, and Bayesian. Each of these 5 metabolism models can be combined with 1 of 7 models for computing the coefficient of gas exchange across the air–water interface (k). LakeMetabolizer also features a variety of supporting functions that compute conversions and implement calculations commonly applied to raw data prior to estimating metabolism (e.g., oxygen saturation and optical conversion models). These tools have been organized into an R package that contains example data, example use-cases, and function documentation. The release package version is available on the Comprehensive R Archive Network (CRAN), and the full open-source GPL-licensed code is freely available for examination and extension online. With this unified, open-source, and freely available package, we hope to improve access and facilitate the application of metabolism in studies and management of lentic ecosystems

Consequences of gas flux model choice on the interpretation of metabolic balance across 15 lakes

Ecosystem metabolism and the contribution of carbon dioxide from lakes to the atmosphere can be estimated from free-water gas measurements through the use of mass balance models, which rely on a gas transfer coefficient (k) to model gas exchange with the atmosphere. Theoretical and empirically based models of k range in complexity from wind-driven power functions to complex surface renewal models; however, model choice is rarely considered in most studies of lake metabolism. This study used high-frequency data from 15 lakes provided by the Global Lake Ecological Observatory Network (GLEON) to study how model choice of k influenced estimates of lake metabolism and gas exchange with the atmosphere. We tested 6 models of k on lakes chosen to span broad gradients in surface area and trophic states; a metabolism model was then fit to all 6 outputs of k data. We found that hourly values for k were substantially different between models and, at an annual scale, resulted in significantly different estimates of lake metabolism and gas exchange with the atmosphere

SARS-CoV-2 variant Alpha has a spike-dependent replication advantage over the ancestral B.1 strain in human cells with low ACE2 expression

Epidemiological data demonstrate that Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) variants of concern (VOCs) Alpha and Delta are more transmissible, infectious, and pathogenic than previous variants. Phenotypic properties of VOC remain understudied. Here, we provide an extensive functional study of VOC Alpha replication and cell entry phenotypes assisted by reverse genetics, mutational mapping of spike in lentiviral pseudotypes, viral and cellular gene expression studies, and infectivity stability assays in an enhanced range of cell and epithelial culture models. In almost all models, VOC Alpha spread less or equally efficiently as ancestral (B.1) SARS-CoV-2. B.1. and VOC Alpha shared similar susceptibility to serum neutralization. Despite increased relative abundance of specific sgRNAs in the context of VOC Alpha infection, immune gene expression in infected cells did not differ between VOC Alpha and B.1. However, inferior spreading and entry efficiencies of VOC Alpha corresponded to lower abundance of proteolytically cleaved spike products presumably linked to the T716I mutation. In addition, we identified a bronchial cell line, NCI-H1299, which supported 24-fold increased growth of VOC Alpha and is to our knowledge the only cell line to recapitulate the fitness advantage of VOC Alpha compared to B.1. Interestingly, also VOC Delta showed a strong (595-fold) fitness advantage over B.1 in these cells. Comparative analysis of chimeric viruses expressing VOC Alpha spike in the backbone of B.1, and vice versa, showed that the specific replication phenotype of VOC Alpha in NCI-H1299 cells is largely determined by its spike protein. Despite undetectable ACE2 protein expression in NCI-H1299 cells, CRISPR/Cas9 knock-out and antibody-mediated blocking experiments revealed that multicycle spread of B.1 and VOC Alpha required ACE2 expression. Interestingly, entry of VOC Alpha, as opposed to B.1 virions, was largely unaffected by treatment with exogenous trypsin or saliva prior to infection, suggesting enhanced resistance of VOC Alpha spike to premature proteolytic cleavage in the extracellular environment of the human respiratory tract. This property may result in delayed degradation of VOC Alpha particle infectivity in conditions typical of mucosal fluids of the upper respiratory tract that may be recapitulated in NCI-H1299 cells closer than in highly ACE2-expressing cell lines and models. Our study highlights the importance of cell model evaluation and comparison for in-depth characterization of virus variant-specific phenotypes and uncovers a fine-tuned interrelationship between VOC Alpha- and host cell-specific determinants that may underlie the increased and prolonged virus shedding detected in patients infected with VOC Alpha

Development of a World Health Organization International Reference Panel for different genotypes of hepatitis E virus for nucleic acid amplification testing.

Globally, hepatitis E virus (HEV) is a major cause of acute viral hepatitis. Epidemiology and clinical presentation of hepatitis E vary greatly by location and are affected by the HEV genotype. Nucleic acid amplification technique (NAT)-based assays are important for the detection of acute HEV infection as well for monitoring chronic cases of hepatitis E. The aim of the study was to evaluate a panel of samples containing different genotypes of HEV for use in nucleic NAT-based assays. The panel of samples comprises eleven different members including HEV genotype 1a (2 strains), 1e, 2a, 3b, 3c, 3e, 3f, 4c, 4g as well as a human isolate related to rabbit HEV. Each laboratory assayed the panel members directly against the 1 World Health Organization (WHO) International Standard (IS) for HEV RNA (6329/10) which is based upon a genotype 3 a strain. The samples for evaluation were distributed to 24 laboratories from 14 different countries and assayed on three separate days. Of these, 23 participating laboratories returned a total of 32 sets of data; 17 from quantitative assays and 15 from qualitative assays. The assays used consisted of a mixture of in-house developed and commercially available assays. The results showed that all samples were detected consistently by the majority of participants, although in some cases, some samples were detected less efficiently. Based on the results of the collaborative study the panel (code number 8578/13) was established as the "1st International Reference Panel (IRP) for all HEV genotypes for NAT-based assays" by the WHO Expert Committee on Biological Standardization. This IRP will be important for assay validation and ensuring adequate detection of different genotypes and clinically important sub-genotypes of HEV

Harnessing the NEON data revolution to advance open environmental science with a diverse and data-capable community

It is a critical time to reflect on the National Ecological Observatory Network (NEON) science to date as well as envision what research can be done right now with NEON (and other) data and what training is needed to enable a diverse user community. NEON became fully operational in May 2019 and has pivoted from planning and construction to operation and maintenance. In this overview, the history of and foundational thinking around NEON are discussed. A framework of open science is described with a discussion of how NEON can be situated as part of a larger data constellation—across existing networks and different suites of ecological measurements and sensors. Next, a synthesis of early NEON science, based on >100 existing publications, funded proposal efforts, and emergent science at the very first NEON Science Summit (hosted by Earth Lab at the University of Colorado Boulder in October 2019) is provided. Key questions that the ecology community will address with NEON data in the next 10 yr are outlined, from understanding drivers of biodiversity across spatial and temporal scales to defining complex feedback mechanisms in human–environmental systems. Last, the essential elements needed to engage and support a diverse and inclusive NEON user community are highlighted: training resources and tools that are openly available, funding for broad community engagement initiatives, and a mechanism to share and advertise those opportunities. NEON users require both the skills to work with NEON data and the ecological or environmental science domain knowledge to understand and interpret them. This paper synthesizes early directions in the community’s use of NEON data, and opportunities for the next 10 yr of NEON operations in emergent science themes, open science best practices, education and training, and community building