USGS ScienceSearch

SEARCH · USGS Science

Results for “Aqua”

Search indexed USGS publications on groundwater, aquifers, geologic maps, mineral resources and earthquakes. Explore source records by subject and place.

Quote a phrase for an exact phrase match. Source license links do not imply unrestricted reuse.

At least 37 records · Page 2Linked to original sources

Detection rates of the MODIS active fire product in the United States

MODIS active fire data offer new information about global fire patterns. However, uncertainties in detection rates can render satellite-derived fire statistics difficult to interpret. We evaluated the MODIS 1??km daily active fire product to quantify detection rates for both Terra and Aqua MODIS sensors, examined how cloud cover and fire size affected detection rates, and estimated how detection rates varied across the United States. MODIS active fire detections were compared to 361 reference fires (??? 18??ha) that had been delineated using pre- and post-fire Landsat imagery. Reference fires were considered detected if at least one MODIS active fire pixel occurred within 1??km of the edge of the fire. When active fire data from both Aqua and Terra were combined, 82% of all reference fires were found, but detection rates were less for Aqua and Terra individually (73% and 66% respectively). Fires not detected generally had more cloudy days, but not when the Aqua data were considered exclusively. MODIS detection rates decreased with fire size, and the size at which 50% of all fires were detected was 105??ha when combining Aqua and Terra (195??ha for Aqua and 334??ha for Terra alone). Across the United States, detection rates were greatest in the West, lower in the Great Plains, and lowest in the East. The MODIS active fire product captures large fires in the U.S. well, but may under-represent fires in areas with frequent cloud cover or rapidly burning, small, and low-intensity fires. We recommend that users of the MODIS active fire data perform individual validations to ensure that all relevant fires are included. ?? 2008 Elsevier Inc. All rights reserved.

Remote Sensing of Environment

Cyanobacteria reduce motility of quagga mussel (Driessena rostriformis bugensis) sperm

The temporal expansion of harmful algal blooms, primarily associated with cyanobacteria, may impact aquatic organisms at vulnerable life history stages. Broadcast spawning species release gametes into the water column for external fertilization, directly exposing sperm to potential aquatic stressors. To determine if cyanobacteria can disrupt reproduction in freshwater broadcast spawners, we evaluated sub‐lethal effects of cyanobacteria exposure on quagga mussel ( Dreissena rostriformis bugensis ) sperm. In laboratory studies, sperm were collected after inducing mussels to spawn using serotonin and exposed to 11 cultures of cyanobacteria including Anabaena flos‐aquae , Aphanizomenon flos‐aquae , Dolichospermum lemmermanii , Gloeotrichia echinulata , five cultures of Microcystis aeruginosa, M. wesenbergii , and Planktothrix suspensa . Sperm motility, using endpoints of cumulative distance traveled and mean velocity was calculated for a minimum of 10 individual sperm using a novel optical biotracking assay method. The distance and velocity at which sperm travelled decreased when exposed to Aphanizomenon flos‐aquae and two M. aeruginosa cultures. Our findings indicate that cyanobacteria impede the motility of quagga mussel sperm, which can potentially result in reproductive impairments to mussels, and potentially other broadcast spawning species.

Environmental Toxicology and Chemistry

Moderate Resolution Imaging Spectroradiometer (MODIS) Overview

The Moderate Resolution Imaging Spectroradiometer (MODIS) is an instrument that collects remotely sensed data used by scientists for monitoring, modeling, and assessing the effects of natural processes and human actions on the Earth's surface. The continual calibration of the MODIS instruments, the refinement of algorithms used to create higher-level products, and the ongoing product validation make MODIS images a valuable time series (2000-present) of geophysical and biophysical land-surface measurements. Carried on two National Aeronautics and Space Administration (NASA) Earth Observing System (EOS) satellites, MODIS acquires morning (EOS-Terra) and afternoon (EOS-Aqua) views almost daily. Terra data acquisitions began in February 2000 and Aqua data acquisitions began in July 2002. Land data are generated only as higher-level products, removing the burden of common types of data processing from the user community. MODIS-based products describing ecological dynamics, radiation budget, and land cover are projected onto a sinusoidal mapping grid and distributed as 10- by 10-degree tiles at 250-, 500-, or 1,000-meter spatial resolution. Some products are also created on a 0.05-degree geographic grid to support climate modeling studies. All MODIS products are distributed in the Hierarchical Data Format-Earth Observing System (HDF-EOS) file format and are available through file transfer protocol (FTP) or on digital video disc (DVD) media. Versions 4 and 5 of MODIS land data products are currently available and represent 'validated' collections defined in stages of accuracy that are based on the number of field sites and time periods for which the products have been validated. Version 5 collections incorporate the longest time series of both Terra and Aqua MODIS data products.

Fact Sheet

Spatial and temporal dynamics of cyanotoxins and their relation to other water quality variables in Upper Klamath Lake, Oregon, 2007-09

Phytoplankton blooms dominated by cyanobacteria that occur annually in hypereutrophic Upper Klamath Lake, Oregon, produce microcystins at concentrations that may contribute to the decline in populations of endangered Lost River ( Deltistes luxatus ) and shortnose ( Chasmistes brevirostris ) suckers. During 2007–09, water samples were collected from Upper Klamath Lake to determine the presence and concentrations of microcystins and cylindrospermopsins and to relate the spatial and temporal occurrences of microcystins to water quality and other environmental variables. Samples were analyzed for intracellular (particulate) and extracellular (dissolved) microcystins and cylindrospermopsins using enzyme-linked immunosorbent assays (ELISA). Samples contained the highest and most variable concentrations of microcystins in 2009, the year in which an earlier and heavier Aphanizomenon flos-aquae -dominated phytoplankton bloom occurred. Concentrations were lowest in 2008 when the bloom was lighter, overall, and delayed by nearly 1 month. Microcystins occurred primarily in dissolved and large (> 63 μm) particulate forms in all years of the study, and overall, concentrations were highest at MDT (the deepest site in the study) and HDB, although HDB was sampled only in 2007 and MDT was not sampled in 2008. Comparisons among daily median total microcystin concentrations; chlorophyll a concentrations; total, dissolved, and particulate nutrient concentrations; and nutrient ratios measured in 2009 and between 2007 and 2009 indicate that microcystin concentrations generally increase following the decline of the first A. flos-aquae -dominated bloom of each season in response to an increase in bioavailable nitrogen and phosphorus. Nitrogen fixation by A. flos-aquae early in the sample season appears to provide new nitrogen for growth of toxigenic Microcystis aeruginosa , whereas, later in the season, these species appear to co-exist. Understanding the ecological interactions between these species may be important for predicting periods of elevated cyanotoxin concentrations and has important implications for management of this lake.

Oregon

Controls on biochemical oxygen demand in the upper Klamath River, Oregon

A series of 30-day biochemical oxygen demand (BOD) experiments were conducted on water column samples from a reach of the upper Klamath River that experiences hypoxia and anoxia in summer. Samples were incubated with added nitrification inhibitor to measure carbonaceous BOD (CBOD), untreated to measure total BOD, which included demand from nitrogenous BOD (NBOD), and coarse-filtered to examine the effect of removing large particulate matter. All BOD data were fit well with a two-group model, so named because it considered contributions from both labile and refractory pools of carbon: BOD t = a 1 (1 − e − a 0 t ) + a 2 t . Site-average labile first-order decay rates a 0 ranged from 0.15 to 0.22/day for CBOD and 0.11 to 0.29/day for BOD. Site-average values of refractory zero-order decay rates a 2 ranged from 0.13 to 0.25 mg/L/day for CBOD and 0.01 to 0.45 mg/L/day for BOD; the zero-order CBOD decay rate increased from early- to mid-summer. Values of ultimate CBOD for the labile component a 1 ranged from 5.5 to 28.8 mg/L for CBOD, and 7.6 to 30.8 mg/L for BOD. Two upstream sites had higher CBOD compared to those downstream. Maximum measured total BOD 5 and BOD 30 during the study were 26.5 and 55.4 mg/L; minimums were 4.2 and 13.6 mg/L. For most samples, the oxygen demand from the three components considered here were: labile CBOD > NBOD > refractory CBOD, though the relative importance of refractory CBOD to oxygen demand increased over time. Coarse-filtering reduced CBOD for samples with high particulate carbon and high biovolumes of Aphanizomenon flos-aquae . There was a strong positive correlation between BOD, CBOD, and the labile component of CBOD to particulate C and N, with weaker positive correlation to field pH, field dissolved oxygen, and total N. The refractory component of CBOD was not correlated to particulate matter, instead showing weak but statistically significant correlation to dissolved organic carbon, UV absorbance at 254 nm, and total N. Particulate organic matter, especially the alga A. flos-aquae , is an important component of oxygen demand in this reach of the Klamath River, though refractory dissolved organic matter would continue to exert an oxygen demand over longer time periods and as water travels downstream.

Oregon

The history of recent limnological changes and human impact on Upper Klamath Lake, Oregon

Hypereutrophic Upper Klamath Lake has been studied for almost 50 years to evaluate the nature, cause, and effects of its very productive waters. Mitigation of undesirable effects of massive cyanobacterial blooms requires understanding their modern causes as well as their history. Knowledge of the pre-settlement natural limnology of this system can provide guidelines for lake restoration and management of land and water use strategies to maximize the benefits of this aquatic resource. This investigation uses a paleolimnological approach to document the nature and chronology of limnological and biological changes in Upper Klamath Lake for the past 200 years, covering the time when the lake was first described until today. A 45-cm gravity core, dated by 210 Pb and diatom correlations, was analyzed for diatoms, pollen, akinetes (resting spores) of the cyanobacterium Aphanizomenon flos-aquae , reworked tephra shards, and sediment magnetic characteristics. Pollen profiles show little vegetation change during this time. In contrast, diatoms indicative of increased nutrient fluxes (P and Si) increase moderately, coinciding with the settlement of the region by Euro-Americans. Numerous settlement activities, including draining of lake-margin marshes, upstream agriculture and timber harvest, road construction, and boat traffic, may have affected the lake. Magnetic properties and reworked tephra suggest riparian changes throughout the basin and increased lithogenic sediment delivery to the lake, especially after 1920 when the marshes near the mouth of the Williamson River were drained and converted to agricultural and pasture land. Drainage and channelization also decreased the ability of the marshes to function as traps and filters for upstream water and sediments. Akinetes of Aphanizomenon flos-aquae record progressive eutrophication of Upper Klamath Lake beginning in the 20th century and particularly after 1920 when lake-margin marsh reclamation more than doubled. The coincidence of limnological changes and human activities following European settlement suggests a major impact on the Upper Klamath Lake ecosystem, although ascribing specific limnological changes to specific human activities is difficult.

Oregon

Emerging investigator series: Post-wildfire sediment geochemical characterization reveals manganese reactivity and a potential link to water quality impairment in the Gallinas Creek watershed, New Mexico

Water quality post-wildfire is often impaired by increased turbidity and elevated concentrations of elements such as manganese (Mn) and iron (Fe). Precipitation events exacerbate these issues, due in part to increased erosion and transport of sediment from hillslopes to surface water. Both Mn and Fe are major redox-active elements in sediments that drive a variety of biogeochemical cycles, precipitate adsorptive phases, and can themselves be drinking water contaminants. By investigating Mn and Fe sediment geochemistry in post-wildfire sediment deposits, related water quality hazards can be assessed. To establish and strengthen this connection, we analyzed the geochemistry of sediment deposits and surface water in the Gallinas Creek watershed, New Mexico over 1.5 years post-wildfire. Analyses included particle size analysis, water extractions, sequential extractions and aqua regia extractions to determine metal partitioning in sediment deposits. Data demonstrate Mn concentrations were distributed across labile and reactive fractions, such as the exchangeable and oxyhydroxide fractions, while Fe concentrations were mainly associated with the residual fraction. Manganese concentrations in aqua regia extractions and several fractions of sequential extractions were also strongly and significantly correlated with fine-grained sediment while the same pools of Fe concentrations were not. Dissolved Mn concentrations in surface water were elevated (>50 μg L −1 ) multiple times over the 1.5 years post-wildfire, highlighting a relationship between sediment geochemistry and water quality. This work shows Mn in sediments mobilized post-wildfire has an influence on water quality and highlights how further investigation into Mn sediment redox processes and mineralogy post-wildfire can inform risk assessments and resource management.

New Mexico

Cyanobacteria reduce quagga mussel (Dreissena rostriformis bugensis) spawning and fertilization success

Quagga mussels ( Dreissena rostriformis bugensis ) are highly fecund broadcast spawners invasive to freshwaters of North America and western Europe. We hypothesized that environmental cues from phytoplankton can trigger gamete release in quagga mussels. Nutritious algae may stimulate dreissenid spawning, but less palatable food, such as bloom-forming cyanobacteria, could be a hindrance. The objective of our study was to test whether exposure to cyanobacteria can inhibit quagga mussel spawning and fertilization. We assessed spawning in the presence of serotonin, a known spawning inducer, where adult quagga mussels placed in individual vials were exposed to 13 cyanobacteria cultures and purified algal toxin (microcystin-LR) with artificial lake water as the control. Fertilization success was evaluated by combining eggs with sperm in conjunction with cyanobacteria, and enumerating zygote formation marked by cellular cleavage. Several cyanobacterial strains reduced spawning and fertilization success, but microcystin-LR had no effect. Fertilization was more sensitive to cyanobacteria than gamete release. Only 1 culture, Aphanizomenon flos-aquae , inhibited spawning, whereas 6 cultures consisting of Anabaena flos-aquae , Dolichospermum lemmermanii , Gloeotrichia echinulata , Lyngbya wollei , and 2 Microcystis aeruginosa isolates reduced fertilization rates by up to 44%. The effects of cyanobacteria on reproduction in invasive freshwater mussels in the wild have not yet been identified. However, our laboratory studies show that concentrations of cyanobacteria that are possible during bloom conditions probably limit reproduction. Reproductive consequences on wild populations may become more prevalent as cyanobacteria blooms occur earlier in the year, making overlap between blooms and mussel spawning more common. Describing the mechanism by which cyanobacteria inhibit spawning and fertilization could reveal novel control methods to limit reproduction of this invasive species.

Freshwater Science

Atmospheric correction at AERONET locations: A new science and validation data set

This paper describes an Aerosol Robotic Network (AERONET)-based Surface Reflectance Validation Network (ASRVN) and its data set of spectral surface bidirectional reflectance and albedo based on Moderate Resolution Imaging Spectroradiometer (MODIS) TERRA and AQUA data. The ASRVN is an operational data collection and processing system. It receives 50 ?? 50 km 2 ; subsets of MODIS level 1B (L1B) data from MODIS adaptive processing system and AERONET aerosol and water-vapor information. Then, it performs an atmospheric correction (AC) for about 100 AERONET sites based on accurate radiative-transfer theory with complex quality control of the input data. The ASRVN processing software consists of an L1B data gridding algorithm, a new cloud-mask (CM) algorithm based on a time-series analysis, and an AC algorithm using ancillary AERONET aerosol and water-vapor data. The AC is achieved by fitting the MODIS top-of-atmosphere measurements, accumulated for a 16-day interval, with theoretical reflectance parameterized in terms of the coefficients of the Li SparseRoss Thick (LSRT) model of the bidirectional reflectance factor (BRF). The ASRVN takes several steps to ensure high quality of results: 1) the filtering of opaque clouds by a CM algorithm; 2) the development of an aerosol filter to filter residual semitransparent and subpixel clouds, as well as cases with high inhomogeneity of aerosols in the processing area; 3) imposing the requirement of the consistency of the new solution with previously retrieved BRF and albedo; 4) rapid adjustment of the 16-day retrieval to the surface changes using the last day of measurements; and 5) development of a seasonal backup spectral BRF database to increase data coverage. The ASRVN provides a gapless or near-gapless coverage for the processing area. The gaps, caused by clouds, are filled most naturally with the latest solution for a given pixel. The ASRVN products include three parameters of the LSRT model (kL, kG, and kV), surface albedo, normalized BRF (computed for a standard viewing geometry, VZA = 0, SZA = 45??), and instantaneous BRF (or one-angle BRF value derived from the last day of MODIS measurement for specific viewing geometry) for the MODIS 500-m bands 17. The results are produced daily at a resolution of 1 km in gridded format. We also provide a cloud mask, a quality flag, and a browse bitmap image. The ASRVN data set, including 6 years of MODIS TERRA and 1.5 years of MODIS AQUA data, is available now as a standard MODIS product (MODASRVN) which can be accessed through the Level 1 and Atmosphere Archive and Distribution System website ( http://ladsweb.nascom.nasa.gov/data/search.html). It can be used for a wide range of applications including validation analysis and science research. ?? 2006 IEEE.

IEEE Transactions on Geoscience and Remote Sensing

MODIS and SeaWIFS on-orbit lunar calibration

The Moon plays an important role in the radiometric stability monitoring of the NASA Earth Observing System's (EOS) remote sensors. The MODIS and SeaWIFS are two of the key instruments for NASA's EOS missions. The MODIS Protoflight Model (PFM) on-board the Terra spacecraft and the MODIS Flight Model 1 (FM1) on-board the Aqua spacecraft were launched on December 18, 1999 and May 4, 2002, respectively. They view the Moon through the Space View (SV) port approximately once a month to monitor the long-term radiometric stability of their Reflective Solar Bands (RSB). SeaWIFS was launched on-board the OrbView-2 spacecraft on August 1, 1997. The SeaWiFS lunar calibrations are obtained once a month at a nominal phase angle of 7??. The lunar irradiance observed by these instruments depends on the viewing geometry. The USGS photometric model of the Moon (the ROLO model) has been developed to provide the geometric corrections for the lunar observations. For MODIS, the lunar view responses with corrections for the viewing geometry are used to track the gain change for its reflective solar bands (RSB). They trend the system response degradation at the Angle Of Incidence (AOI) of sensor's SV port. With both the lunar observation and the on-board Solar Diffuser (SD) calibration, it is shown that the MODIS system response degradation is wavelength, mirror side, and AOI dependent. Time-dependent Response Versus Scan angle (RVS) Look-Up Tables (LUT) are applied in MODIS RSB calibration and lunar observations play a key role in RVS derivation. The corrections provided by the RVS in the Terra and Aqua MODIS data from the 412 nm band are as large as 16% and 13%, respectively. For SeaWIFS lunar calibrations, the spacecraft is pitched across the Moon so that the instrument views the Moon near nadir through the same optical path as it views the Earth. The SeaWiFS system gain changes for its eight bands are calibrated using the geometrically-corrected lunar observations. The radiometric corrections to the SeaWiFS data, after more than ten years on orbit, are 19% at 865 nm, 8% at 765 nm, and 1-3% in the other bands. In this report, the lunar calibration algorithms are reviewed and the RSB gain changes observed by the lunar observations are shown for all three sensors. The lunar observations for the three instruments are compared using the USGS photometric model. The USGS lunar model facilitates the cross calibration of instruments with different spectra bandpasses whose measurements of the Moon differ in time and observing geometry.

Conference Paper

Klamath River Water Quality Data from Link River Dam to Keno Dam, Oregon, 2008

This report documents sampling and analytical methods and presents field data from a second year of an ongoing study on the Klamath River from Link River Dam to Keno Dam in south central Oregon; this dataset will form the basis of a hydrodynamic and water quality model. Water quality was sampled weekly at six mainstem and two tributary sites from early April through early November, 2008. Constituents reported herein include field-measured water-column parameters (water temperature, pH, dissolved oxygen concentration, specific conductance); total nitrogen and phosphorus; particulate carbon and nitrogen; total iron; filtered orthophosphate, nitrite, nitrite plus nitrate, ammonia, organic carbon, and iron; specific UV absorbance at 254 nanometers; chlorophyll a; phytoplankton and zooplankton enumeration and species identification; and bacterial abundance and morphological subgroups. Sampling program results indicated: *Most nutrient and carbon concentrations were lowest in spring, increased starting in mid-June, remained elevated in the summer, and decreased in fall. Dissolved nitrite plus nitrate had a different seasonal cycle and was below detection or at low concentration in summer. *Although total nitrogen and total phosphorus concentrations did not show large differences from upstream to downstream, filtered ammonia and orthophosphate concentrations increased in the downstream direction and particulate carbon and particulate nitrogen generally decreased in the downstream direction. *Large bacterial cells made up most of the bacteria biovolume, though cocci were the most numerous bacteria type. Cocci, with diameters of 0.1 to 0.2 micrometers, were smaller than the filter pore sizes used to separate dissolved from particulate matter. *Phytoplankton biovolumes were dominated by diatoms in spring and by the blue-green alga Aphanizomenon flos-aquae after mid-June. Another blue-green, Anabaena flos-aquae, was noted in samples from late May to late June. Phytoplankton biovolumes generally were highest at the upstream Link River and Railroad Bridge sites and decreased in the downstream direction. *Zooplankton densities were largest in late April. Populations were dominated by rotifers and copepods in early spring, and by rotifers and cladocerans in summer, with cladocerans most common at the most upstream site.

Open-File Report

eMODIS: A User-Friendly Data Source

The U.S. Geological Survey's (USGS) Earth Resources Observation and Science (EROS) Center is generating a suite of products called 'eMODIS' based on Moderate Resolution Imaging Spectroradiometer (MODIS) data acquired by the National Aeronautics and Space Administration's (NASA) Earth Observing System (EOS). With a more frequent repeat cycle than Landsat and higher spatial resolutions than the Advanced Very High Resolution Spectroradiometer (AVHRR), MODIS is well suited for vegetation studies. For operational monitoring, however, the benefits of MODIS are counteracted by usability issues with the standard map projection, file format, composite interval, high-latitude 'bow-tie' effects, and production latency. eMODIS responds to a community-specific need for alternatively packaged MODIS data, addressing each of these factors for real-time monitoring and historical trend analysis. eMODIS processes calibrated radiance data (level-1B) acquired by the MODIS sensors on the EOS Terra and Aqua satellites by combining MODIS Land Science Collection 5 Atmospherically Corrected Surface Reflectance production code and USGS EROS MODIS Direct Broadcast System (DBS) software to create surface reflectance and Normalized Difference Vegetation Index (NDVI) products. eMODIS is produced over the continental United States and over Alaska extending into Canada to cover the Yukon River Basin. The 250-meter (m), 500-m, and 1,000-m products are delivered in Geostationary Earth Orbit Tagged Image File Format (Geo- TIFF) and composited in 7-day intervals. eMODIS composites are projected to non-Sinusoidal mapping grids that best suit the geography in their areas of application (see eMODIS Product Description below). For eMODIS products generated over the continental United States (eMODIS CONUS), the Terra (from 2000) and Aqua (from 2002) records are available and continue through present time. eMODIS CONUS also is generated in an expedited process that delivers a 7-day rolling composite, created daily with the most recent 7 days of acquisition, to users monitoring real-time vegetation conditions. eMODIS Alaska is not part of expedited processing, but does cover the Terra mission life (2000-present). A simple file transfer protocol (FTP) distribution site currently is enabled on the Internet for direct download of eMODIS products (ftp://emodisftp.cr.usgs.gov/eMODIS), with plans to expand into an interactive portal environment.

Open-File Report

Plankton communities and summertime declines in algal abundance associated with low dissolved oxygen in the Tualatin River, Oregon

Phytoplankton populations in the Tualatin River in northwestern Oregon are an important component of the dissolved oxygen (DO) budget of the river and are critical for maintaining DO levels in summer. During the low-flow summer period, sufficient nutrients and a long residence time typically combine with ample sunshine and warm water to fuel blooms of cryptophyte algae, diatoms, green and blue-green algae in the low-gradient, slow-moving reservoir reach of the lower river. Algae in the Tualatin River generally drift with the water rather than attach to the river bottom as a result of moderate water depths, slightly elevated turbidity caused by suspended colloidal material, and dominance of silty substrates. Growth of algae occurs as if on a “conveyor belt” of streamflow, a dynamic system that is continually refreshed with inflowing water. Transit through the system can take as long as 2 weeks during the summer low-flow period. Photosynthetic production of DO during algal blooms is important in offsetting oxygen consumption at the sediment-water interface caused by the decomposition of organic matter from primarily terrestrial sources, and the absence of photosynthesis can lead to low DO concentrations that can harm aquatic life. The periods with the lowest DO concentrations in recent years (since 2003) typically occur in August following a decline in algal abundance and activity, when DO concentrations often decrease to less than State standards for extended periods (nearly 80 days). Since 2003, algal populations have tended to be smaller and algal blooms have terminated earlier compared to conditions in the 1990s, leading to more frequent declines in DO to levels that do not meet State standards. This study was developed to document the current abundance and species composition of phytoplankton in the Tualatin River, identify the possible causes of the general decline in algae, and evaluate hypotheses to explain why algal blooms diminish in midsummer. Plankton and water-quality sample data from 2006 to 2008 were combined with parts of a larger discrete-sample and continuous water-quality monitoring dataset and examined to identify patterns in water-quality and algal conditions since 1991, with a particular emphasis on 2003–08. Longitudinal plankton surveys were conducted in 2006–08 at six sites between river miles (RM) 24.5 and 3.4 at 2- to 3-week intervals, or 5–6 per season, and in-situ bioassay experiments were conducted in 2008 to examine the potential effects of wastewater treatment facility (WWTF) effluent and phosphorus additions on phytoplankton biomass and algal photosynthesis. Phytoplankton and zooplankton community composition, streamflow, and water-quality data were analyzed using multivariate statistical techniques to gain insights into plankton dynamics to determine what factors might be most tied to the abundance and characteristics of the phytoplankton assemblages, and identify possible causes of their declines. The connection between low-DO events and algal declines was clearly evident, as bloom crashes were nearly always followed by periods of low DO. Algal blooms occurred each year during 2006–08, producing maximum chlorophyll-a (Chl-a) values in June or July generally in the range of 50–80 micrograms per liter (µg/L). Bloom crashes and absence of sufficient algal photosynthesis in mid- to late-summer contributed to minimum DO concentrations that were less than the State standard of 6.5 milligrams per liter (mg/L) based on the 30-day mean daily concentration, for 62–74 days each year. At times, the absolute minimum State standard (4 mg/L DO) also was not met. To learn more about why low-DO events occurred, specific algal declines during 2003–08 were scrutinized to determine their likely causal factors. From this information, a series of hypotheses were formulated and evaluated in terms of their ability to explain recent declines in algal populations in the river in late summer. Meteorological, streamflow, turbidity, water temperature, and conductance conditions in the Tualatin River during the 2006–08 summer seasons were not atypical. Natural flow comprised the majority (70–80 percent) of flow each year during spring, but then reduced to 38–40 percent during midsummer when WWTF effluent—which contributed as much as 36 percent—and flow augmentation releases comprised a greater fraction of the flow. Summer 2008 was unusual, however, in the prolonged influence from the Wapato Lake agricultural area near Gaston in the upper part of the basin. The previous winter flooding and levee breach at Wapato Lake caused a much greater area of inundation. As a result, drainage from this area continued into July, much later than normal. A subsequent algal bloom in Wapato Lake then seeded the upper Tualatin River, and this drainage had a profound effect on the downstream plankton community. A large blue-green algae bloom developed—the largest in recent memory—prompting a public health advisory for recreational contact for about two weeks. Algal growths and surface blooms are a common feature of the Tualatin River. Most of the dominant algae have growth forms and morphologies that are well suited for planktonic life, employing spines and gas vacuoles to resist settling, forming colonies, and producing mucilage (or toxins) to resist zooplankton grazing. In 2006–08, 143 algal taxa were identified in 117 main-stem samples; diatoms and green algae were more diverse than blue-green, golden, and cryptophyte algae, although these later groups sometimes dominated the overall volumetric abundance (biovolume). The most frequently occurring taxa, occurring in 97–99 percent of samples, were flagellated cryptophytes Cryptomonas erosa and Rhodomonas minuta. Other important algal taxa included centric diatoms Stephanodiscus, Cyclotella, and Melosira species and colonial green algae Scenedesmus and Actinastrum. These taxa comprised the majority of the algal biovolume during much of the growing season. A general seasonal trend in the phytoplankton assemblages was observed, with dominance by filamentous centric diatoms Stephanodiscus and Melosira in spring and early summer, and flagellated cryptophytes and green algae, particularly Chlamydomonas sp., in late-summer; or, in 2008, dominance by blue-green algae Anabaena flos-aquae and Aphanizomenon flos-aquae during the Wapato Lake bloom event. There were 99 zooplankton taxa identified from the Tualatin River in 2006–08, composed primarily of cladocerans, copepods, and rotifers. A seasonal increase in zooplankton abundance was observed in early summer just as or shortly after the phytoplankton population began to increase, with populations growing to 15,000−120,000 organisms per cubic meter in the lower river. Zooplankton abundance showed a predictable and distinct longitudinal downstream increase, particularly downstream of Highway 99W (RM 11.6). Although grazing rates were not measured, the data suggest that, at times, zooplankton grazing may affect algal abundance and species composition in the Tualatin River, with diatoms becoming relatively less abundant and flagellated cryptophytes and green algae relatively more abundant during periods when zooplankton densities were highest. Multivariate statistical analyses identified soluble reactive phosphorus (SRP), natural flow, flow augmentation, and WWTF effluent as important factors influencing Tualatin River phytoplankton populations, with zooplankton density (particularly rotifers and copepods), specific conductance, chloride, and water temperature also having an important influence. Although SRP was highly correlated with the plankton communities, that correlation was likely the result of high or low algal activity (uptake) as SRP concentrations were often reduced to low levels during blooms. While previous studies have already established that phosphorus, among other factors such as flow, places a theoretical cap on the size of the phytoplankton population in the river, sometimes algal declines occur when SRP concentrations are apparently sufficient. To identify alternative causal factors, additional analyses were performed without SRP to focus on other water-quality parameters, zooplankton density, and flow factors. Considering data for all 3 years and including just those samples from the lower Tualatin River not affected by the 2008 Wapato Lake drainage event, three factors (percentage of reservoir flow augmentation, total natural flow, and rotifer density) best explained variations in the phytoplankton assemblages. Analyses focusing on the possible causes of algal declines included the above multivariate analyses, scrutiny of 10 specific instances of declines in algal populations during 2003–08 including several bloom–crash sequences, and analyses of historic routine watershed monitoring data from Clean Water Services. Six factors were hypothesized to be important in causing bloom crashes or impeding blooms from rebounding in August: (1) light limitation from cloudy weather, (2) a reduction in the plankton inocula or “seed” entering the lower river from upstream sources, (3) increased summer streamflows, (4) changes in the dominant sources of flow as the percentage of flow augmentation and WWTF discharges have increased, (5) zooplankton grazing, and (6) low concentrations of bioavailable phosphorus (<0.015 milligram per liter). All of these hypotheses are supported in some fashion by the available data and statistical analyses. Zooplankton grazing, short-term declines in photosynthesis from cloudy weather, total flow as it affects residence time, and the dominant source of flow are primary factors responsible for the low-DO events caused by declines in algae in the lower Tualatin River during late summer. Cloudy weather and increased turbidity are known to inhibit algal growth in the Tualatin River, and slight increases in turbidity in recent years may be a problem. Upstream sources of algae are critical in determining the characteristics and size of downstream populations, as illustrated by the Wapato Lake bloom in 2008, but more data are needed from upstream to fully define the importance of this connection. The sources of flow, through their differential contribution of plankton inocula (quality and amount), were, at times, important factors affecting phytoplankton populations. While SRP concentrations were often most highly correlated with phytoplankton species community, the bioavailability of phosphorus is still somewhat unknown and there are several sources to consider. Preliminary bioassay tests suggested that while treated wastewater effluent may stimulate algae at 30 percent concentrations, negative effects (or decreased stimulation) on Chl-a and DO production may occur at concentrations of 50 percent. Targeted data collection and future research will be needed to further understand the importance of these factors on Tualatin River phytoplankton. While the data and analysis completed for this report provide insights into future research and monitoring that would be useful to continue, additional monitoring of turbidity, Chl-a, and plankton abundance and species composition in the upper part of the basin would enhance our understanding of plankton dynamics and factors affecting phytoplankton abundance in the lower river. Assessment of the key upstream sources of algal inocula via surveys of the major flow sources as well as tributaries and wetlands would provide useful information for the management of river water quality. Other studies that could prove useful for developing management strategies include targeted experiments to evaluate the bioavailability of phosphorus from a variety of sources. New research on phytoplankton–zooplankton interactions, and studies of planktivorous fish, might also provide insight about food web dynamics and potential “top-down” effects of fish predation on the plankton communities. In addition, further development of neural-network or other water-quality models would help to evaluate management strategies and provide forecasts of water-quality conditions. Finally, periodic future reassessments of the available data with the multivariate statistical tools used in this study would be helpful to assess whether and how plankton communities are changing, and to continue to shed light on the importance of factors shaping the plankton. Although certain types and sizes of algal blooms are undesirable, minimum phytoplankton populations are an important part of aquatic food webs and are needed to maintain healthy levels of DO in the river. By understanding the sources, characteristics, causal factors, and responses of the plankton communities, management strategies can be developed to improve DO conditions in the lower Tualatin River during the important summer low-flow period.

Oregon

Nutrient loads in the Lost River and Klamath River Basins, south-central Oregon and northern California, March 2012–March 2015

The U.S. Geological Survey and Bureau of Reclamation collected water-quality data from March 2012 to March 2015 at locations in the Lost River and Klamath River Basins, Oregon, in an effort to characterize water quality and compute a nutrient budget for the Bureau of Reclamation Klamath Reclamation Project. The study described in this report resulted in the following significant findings: Total phosphorus (TP), total nitrogen (TN), 5-day biochemical oxygen demand (BOD5), and 5-day carbonaceous biochemical oxygen demand (CBOD5) loads, calculated using the U.S. Geological Survey LOADEST software package at the upper and lower boundaries of the Klamath Reclamation Project, indicated higher loads at the upper boundary on the southern end of Upper Klamath Lake upstream of the Bureau of Reclamation A Canal diversion compared to the lower boundary on the Klamath River downstream of Keno Dam. Accounting for the diversion of loads down A Canal, BOD5 and CBOD5 loads decreased between these two sites during irrigation season, indicating that the Klamath Reclamation Project is not a large source of oxygen-demanding material and that much of the oxygen demand at study site FMT, the northern boundary of the study area, has been expressed by the time the same water passes through site KRK, the southern boundary of the study area. An evaluation of the nutrient balance along the Klamath River flowpath from sites FMT to KRK indicated that, during irrigation season in the 3 years of the study period (March 2012–March 2015), more loads of TP, TN, BOD5, and CBOD5 were being diverted from the Klamath River than were being added to the Klamath River from the combination of Klamath Straits Drain, regulated point sources along the Klamath River, and internal loading from the bottom sediments in the river. By contrast, during non-irrigation seasons, more loads were added to the Klamath River than were diverted through Ady and North Canals, and this difference primarily was due to additional loads to the river from the Lost River Diversion Channel. At the Lost River Diversion Channel, BOD5 loads were higher during irrigation season than non-irrigation season in all three study years owing to the high concentrations of oxygen-demanding cyanobacterial biomass from the seasonal blooms of Aphanizomenon flos-aquae in the Klamath River and Upper Klamath Lake. The difference between the two seasons was particularly large in years 2 and 3, when the low flows of these two drought years resulted in smaller nonirrigation period loads than in year 1. CBOD5 loads also were higher during irrigation season in years 2 and 3 than during non-irrigation season, indicating that the largest oxygen demand was coming from senescence of Aphanizomenon flos-aquae cells that are present in the Klamath River during the summer. However, during irrigation season in year 1, CBOD5 loads were lower than in the non-irrigation season, which may indicate that at times high concentrations of ammonia or cellular organic nitrogen leaving Upper Klamath Lake contribute a large nitrogenous oxygen demand as well. The smallest loads were computed for the farthest upstream sites in the Lost River Basin, suggesting that the upper Lost River Basin does not contribute substantial loads of TP, TN, BOD5, and CBOD5 to the Klamath Reclamation Project. Median concentrations of BOD5 and CBOD5 were lowest among the upper Lost River Basin sites and highest at site PPD (however, this comparison is based on only four samples collected at site PPD over the 3-year study). Median concentrations of BOD5 and CBOD5 also were elevated at sites KSDH (6.60 and 4.70 milligrams per liter [mg/L], respectively) and KSD97 (4.47 and 3.45 mg/L, respectively). The highest maximum BOD5 and CBOD5 concentrations were reported at the Lost River Diversion Channel (39.0 and 26.5 mg/L, respectively) when water was flowing from the Klamath River toward the Klamath Reclamation Project, and site FMT (25.0 and 23.9 mg/L, respectively), the study site at the southern end of Upper Klamath Lake. Carbonaceous oxygen demand, as represented by CBOD5, typically dominated the composition of the samples at all sites. The highest concentrations of dissolved organic carbon were present at sites KSDH (the headworks of Klamath Straits Drain) and KSD97 (Klamath Straits drain before it enters the Klamath River), and PPD (outlet of Tule Lake). Median concentrations of TN and TP at the upper Lost River Basin sites in years 1 and 2 were variable, but site MCRV showed a smaller range of values in those years compared to the other upper Lost River Basins sites, and an overall lower median concentration during irrigation seasons in years 1 and 2, suggesting that Gerber Reservoir does not contribute high concentrations of nutrients to the Lost River during irrigation season. Total Maximum Daily Load (TMDL) load allocations for TP and TN in Klamath Straits Drain were exceeded in all three study years. BOD5 load allocations were exceeded in years 1 and 2, but not year 3. TMDL load allocations for TP were exceeded in the Lost River Diversion Channel for all 3 years. Load allocations for TN were exceeded in year 1, but not in years 2 and 3. BOD5 loads were less than the TMDL load allocation for all three study years. The dearth of samples collected at the Klamath Straits Drain just downstream of the Lower Klamath National Wildlife Refuge did not allow for direct assessment of the Klamath Straits Drain acting as a nutrient source or sink. TP, TN, BOD5, and CBOD5 loads estimated during the study period likely were smaller than long-term average conditions because of persistent drought conditions in the Upper Klamath Basin. The study results, therefore, fail to characterize loads from the Klamath Reclamation Project to the Klamath River that could be present in typical years, and suggest the need for load assessments during average or aboveaverage streamflow years.

California, Oregon

Relation between selected water-quality variables and lake level in Upper Klamath and Agency Lakes, Oregon

Upper Klamath Lake is a large (140 square-mile), shallow (mean depth about 8 ft) lake in south-central Oregon that the historical record indicates has been eutrophic since its discovery by non-Native Americans. In recent decades, however, the lake has had annual occurrences of near- monoculture blooms of the blue-green alga Aphanizomenon flos-aquae. In 1988 two sucker species endemic to the lake, the Lost River sucker (Deltistes luxatus) and the shortnose sucker (Chasmistes brevirostris), were listed as endangered by the U.S. Fish and Wildlife Service, and it has been proposed that the poor water quality conditions associated with extremely long and productive blooms are contributing to the decline of those species. It has also been proposed that the low lake levels made possible by the construction of a dam at the outlet from the lake in 1921 have contributed to worsening water quality through a variety of possible mechanisms (Jacob Kann, Klamath Tribes, written commun., 1995). One such mechanism would be an increase in internal phosphorus loading from resuspended sediments (Jacoby and others, 1982), resulting from an increase in bottom shear stresses at lower lake levels (Laenen and LeTourneau, 1996), leading in turn to more intense algal blooms. Another possible mechanism is an earlier triggering of algal blooms. When early spring lake levels are low, greater light intensity at the sediment surface might speed recruitment of algal cells from the sediments. Sediment recruitment has been shown to be an important contributor to water column biomass increases in A. flos aquae (Barbiero and Kann, 1994) and Gloeotrichia echinulata (Barbiero, 1993). An earlier bloom could result in poor water quality conditions occurring earlier in the year, when young-of-the-year fish may be more susceptible to those conditions. Lake level can also influence water quality directly. An increased frequency of sediment resuspension at lower lake levels could increase chemical and biological oxygen demand, resulting in decreased dissolved oxygen concentrations. Sediment oxygen demand also may be enhanced at lower lake levels because it is concentrated over a smaller volume of water. Some compensation for increased oxygen demand at lower lake levels might be provided by increased reaeration, if the water column mixes from top to bottom more frequently. Based on the analysis of data that they have been collecting for several years, the Klamath Tribes recently recommended that the Bureau of Reclamation (Reclamation) modify the operating plan for the dam to make the minimum lake levels for the June-August period more closely resemble pre-dam conditions (Jacob Kann, written commun., 1995). The U.S. Geological Survey (USGS) was asked to analyze the available data for the lake and to assess whether the evidence exists to conclude that year-to-year differences in certain lake water-quality variables are related to year-to-year differences in lake level. The results of the analysis will be used as scientific input in the process of developing an operating plan for the Link River Dam.

Oregon

Application-ready expedited MODIS data for operational land surface monitoring of vegetation condition

Monitoring systems benefit from high temporal frequency image data collected from the Moderate Resolution Imaging Spectroradiometer (MODIS) system. Because of near-daily global coverage, MODIS data are beneficial to applications that require timely information about vegetation condition related to drought, flooding, or fire danger. Rapid satellite data streams in operational applications have clear benefits for monitoring vegetation, especially when information can be delivered as fast as changing surface conditions. An “expedited” processing system called “eMODIS” operated by the U.S. Geological Survey provides rapid MODIS surface reflectance data to operational applications in less than 24 h offering tailored, consistently-processed information products that complement standard MODIS products. We assessed eMODIS quality and consistency by comparing to standard MODIS data. Only land data with known high quality were analyzed in a central U.S. study area. When compared to standard MODIS (MOD/MYD09Q1), the eMODIS Normalized Difference Vegetation Index (NDVI) maintained a strong, significant relationship to standard MODIS NDVI, whether from morning (Terra) or afternoon (Aqua) orbits. The Aqua eMODIS data were more prone to noise than the Terra data, likely due to differences in the internal cloud mask used in MOD/MYD09Q1 or compositing rules. Post-processing temporal smoothing decreased noise in eMODIS data.

Remote Sensing

The influence of nitrogen on heterocyst production in blue-green algae

A series of experiments on heterocyst production in Anabaena variabilis provides some strong indirect evidence for the role of heterocysts in nitrogen fixation. Of the algae tested ( Anabaena variabilis, A. inaequalis, A. cylindrica, A. flos-aquae, Tolypothrix distorta, Gloeotrichia echinulata, Aphanizomenon flos-aquae, Oscillatoria sp. , and Microcystis aeruginosa ), only those with heterocysts grew in a nitrate-free medium. Growth in the nitrate-free medium was accompanied by an increase in heterocysts. Heterocyst formation in A . variabilis was evident 24 hr after transfer from a nitrate-containing to a nitrate-free medium. The number of heterocysts was altered by changes in the nitrogen source. Numbers were lowest when NH 4 -N was used as a nitrogen source and highest when nitrogen (N 2 -N) was derived from the atmosphere. Heterocyst numbers could also be regulated by controlling the concentration of NO 3 -N in the medium. Heterocyst production depended on the absence of combined nitrogen and the presence of phosphate. Data are presented on the occurrence of blue-green algae (with heterocysts) in Lake Erie and the environmental conditions apparently necessary for them to become dominant.

Limnology and Oceanography

Mortality of endangered juvenile Lost River Suckers associated with cyanobacteria blooms in mesocosms in Upper Klamath Lake, Oregon

Unsustainably high mortality within the first 2 years of life prevents endangered Lost River Suckers Deltistes luxatus in Upper Klamath Lake, Oregon, from recruiting to spawning populations. Massive blooms of the cyanobacterium Aphanizomenon flos‐aquae and their subsequent death and decay in the lake (bloom‐crashes) are associated with high pH, low percent oxygen saturation, high total ammonia concentrations, and spikes in the cyanotoxin microcystin. Poor water quality within the lake is considered the most likely cause of juvenile sucker mortality, but mechanisms causing the high mortality are not known. We introduced PIT‐tagged age‐1 Lost River suckers into three continuously monitored mesocosms in Upper Klamath Lake to determine the timing of juvenile sucker mortality relative to pH, temperature, and dissolved oxygen. Mortality was inferred from a lack of movement detected on remote PIT tag detection equipment within each mesocosm. Mortality was compared among mesocosms and an indoor tank‐held control group. We fitted time‐varying Cox hazard models to test hypotheses about short‐term and chronic effects of single and co‐occurring water quality parameters on the daily hazard rate. Presumed healthy or moribund fish that were collected pre‐season, mid‐season, or at the end of the study were examined macroscopically and histologically to generate inferences about the causes of mortality. Models did not indicate a plausible association between water quality variables and mortality. Hypoxia preceded periods of higher mortality at two of three sites but did not co‐occur with mortality. Hatchery‐reared Lost River Suckers confined to mesocosms may not represent the behavior of wild fish, and it is unclear whether the same factors affect the mortality of wild age‐0 suckers.

Oregon