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Effects of removing Good Hope Mill Dam on selected physical, chemical, and biological characteristics of Conodoguinet Creek, Cumberland County, Pennsylvania

The implications of dam removal on channel characteris-tics, water quality, benthic invertebrates, and fish are not well understood because of the small number of removals that have been studied. Comprehensive studies that document the effects of dam removal are just beginning to be published, but most research has focused on larger dams or on the response of a sin-gle variable (such as benthic invertebrates). This report, pre-pared in cooperation with the Conodoguinet Creek Watershed Association, provides an evaluation of how channel morphol-ogy, bed-particle-size distribution, water quality, benthic inver-tebrates, fish, and aquatic habitat responded after removal of Good Hope Mill Dam (a small 'run of the river' dam) from Conodoguinet Creek in Cumberland County, Pa. Good Hope Mill Dam was a 6-foot high, 220-foot wide concrete structure demolished and removed over a 3-day period beginning with the initial breach on November 2, 2001, at 10:00 a.m. eastern standard time. To isolate the effects of dam removal, data were collected before and after dam removal at five monitoring stations and over selected reaches upstream, within, and downstream of the impoundment. Stations 1, 2, and 5 were at free-flowing control locations 4.9 miles upstream, 2.5 miles upstream, and 5 miles downstream of the dam, respec-tively. Stations 3 and 4 were located where the largest responses were anticipated, 115 feet upstream and 126 feet downstream of the dam, respectively Good Hope Mill Dam was not an effective barrier to sedi-ment transport. Less than 3 inches of sediment in the silt/clay-size range (less than 0.062 millimeters) coated bedrock within the 7,160-foot (1.4-mile) impoundment. The bedrock within the impoundment was not incised during or after dam removal, and the limited sediment supply resulted in no measurable change in the thalweg elevation downstream of the dam. The cross-sec-tional areas at stations 3 and 4, measured 17 days and 23 months after dam removal, were within 3 percent of the area measured before removal. Some of the impounded silt/clay at station 3 and other sed-iment in the work area downstream of the dam were initially entrained over the 3-day removal period and deposited on sub-strate at station 4. Remaining silt/clay at station 3 and deposits at station 4 were transported downstream by the flows mea-sured over the 23 months after removal (daily mean flow ranged from 38 to 5,180 cubic feet per second). The median bed-parti-cle size at station 3 increased by approximately 32 millimeters in the 23-month period after removal. Bed-particle-size distri-bution at station 4 became finer when silt/clay was initially deposited but coarsened as high flows flushed it downstream; median bed-particle size was 77.7 millimeters before removal compared to 31.3 millimeters 17 days after removal and 99 mil-limeters 23 months after removal. Good Hope Mill Dam had either no effect on water-quality characteristics or the effect was so small it was masked by sea-sonal and periodic variability. Measurements of daily mean temperature, dissolved-oxygen concentration, pH, and specific conductance on a short time scale (every 15 minutes) indicate the daily range of temperature was suppressed under impounded conditions and daily extremes of temperature, dis-solved-oxygen concentration, pH, and specific conductance at station 2 were out of phase by approximately 12 hours with station 3. Once the dam was removed, the pattern at station 3 shifted and converged with the pattern at station 2. The offset before removal may be related to a lag time resulting from a decrease in velocity through the impoundment. Total nitrogen and suspended-sediment concentrations increased upon the initial dam breach but were within the range of concentrations measured from March 2001 through April 2002 over varying flow conditions at station 1. Total nitrogen concentration at station 4 was 4.66 milligrams per liter upon the initial breach of the dam,

Pennsylvania↗

Water Quality and Biological Characteristics of the Middle Fork of the Saline River, Arkansas, 2003-06

The Middle Fork of the Saline River has many qualities that have been recognized by State and Federal agencies. The Middle Fork provides habitat for several rare aquatic species and is part of a larger stream system (the Upper Saline River) that is known for relatively high levels of species richness and relatively high numbers of species of concern. Water-quality samples were collected and streamflow was measured by the U.S. Geological Survey at three sites in the Middle Fork Basin between October 2003 and October 2006. The Arkansas Department of Environmental Quality collected discrete synoptic water-quality samples from eight sites between January 2004 and October 2006. The Arkansas Department of Environmental Quality also sampled fish (September-October 2003) and benthic macroinvertebrate communities (September 2003-December 2005) at five sites. Streamflow varied annually among the three streamflow sites from October 2003 to October 2006. The mean annual streamflow for Brushy Creek near Jessieville (MFS06) was 0.72 cubic meters per second for water years 2004-2006. The Middle Fork below Jessieville (MFS05) had a mean annual streamflow of 1.11 cubic meters per second for water years 2004-2006. The Middle Fork near Owensville (MFS02), the most downstream site, had a mean annual streamflow of 3.01 cubic meters per second. The greatest streamflows at the three sites generally occurred in the winter and spring and the least in the summer. Nutrient dynamics in the Middle Fork are controlled by activities in the basin and processes that occur in the stream. Point sources and nonpoint sources of nutrients occur in the Middle Fork Basin that could affect the water-quality. Nitrogen and phosphorus concentrations generally were greatest in Mill Creek (MFS04E) and in the Middle Fork immediately downstream from the confluence with Mill Creek (MFS04) with decreasing concentrations at sites farther downstream in Middle Fork. The site in Mill Creek is located downstream from a wastewater-treatment plant discharge and concentrations at sites farther downstream probably had lesser concentrations because of dilution effects and from algal uptake. Nutrient concentrations generally were significantly greater during high-flow conditions compared to base-flow conditions. Flow-weighted nutrient concentrations were computed for the three streamflow sites and were compared to 82 relatively undeveloped sites identified across the Nation, to the Alum Fork of the Saline River near Reform, Arkansas, and to the Illinois River south of Siloam Springs, Arkansas, a site influenced by numerous point and nonpoint sources of nutrients. Annual flow-weighted nutrient concentrations for MFS06, MFS05, and MFS02 were greater than relatively undeveloped sites, but were substantially less than the Illinois River south of Siloam Springs. Fecal indicator bacteria concentrations were slightly greater at MFS06 and MFS05 compared to concentrations at MFS02 for October 2003 to October 2006. MFS05 had the greatest E.coli concentrations and MFS06 had the greatest fecal coliform concentrations. Overall, fecal indicator bacteria concentrations were significantly greater for samples collected during high-flow conditions compared to samples collected during low-flow conditions at all three sites. Suspended-sediment concentrations did not vary significantly among MFS06, MFS05, and MFS02 for all the samples collected from October 2003 to October 2006. Suspended-sediment concentrations were significantly greater in samples collected during high-flow conditions compared to samples collected during base-flow conditions. Synoptic samples indicated varied total suspended-solids distributions from upstream to downstream in the Middle Fork between January 2004 and October 2006. Overall, total suspended-solids values were the greatest at site MFS02 and decreased at sites upstream and downstream. Turbidity measured when water-quality samples were

Scientific Investigations Report↗

Hydrological, geological, and biological site characterization of breccia pipe uranium deposits in Northern Arizona

On July 21, 2009, U.S. Secretary of the Interior Ken Salazar proposed a two-year withdrawal of about 1 million acres of Federal land near the Grand Canyon from future mineral entry. These lands are contained in three parcels: two parcels on U.S. Bureau of Land Management land to the north of the Grand Canyon (North and East Segregation Areas) and one on the Kaibab National Forest south of the Grand Canyon (South Segregation Area). The purpose of the two-year withdrawal is to examine the potential effects of restricting these areas from new mine development for the next 20 years. This proposed withdrawal initiated a period of study during which the effects of the withdrawal must be evaluated. At the direction of the Secretary, the U.S. Geological Survey began a series of short-term studies designed to develop additional information about the possible effects of uranium mining on the natural resources of the region. Dissolved uranium and other major, minor, and trace elements occur naturally in groundwater as the result of precipitation infiltrating from the surface to water-bearing zones and, presumably, to underlying regional aquifers. Discharges from these aquifers occur as seeps and springs throughout the region and provide valuable habitat and water sources for plants and animals. Uranium mining within the watershed may increase the amount of radioactive materials and heavy metals in the surface water and groundwater flowing into Grand Canyon National Park and the Colorado River, and deep mining activities may increase mobilization of uranium through the rock strata into the aquifers. In addition, waste rock and ore from mined areas may be transported away from the mines by wind and runoff.

Scientific Investigations Report↗

Anticipated sediment delivery to the lower Elwha River during and following dam removal: Chapter 2 in Coastal habitats of the Elwha River, Washington--biological and physical patterns and processes prior to dam removal

During and after the planned incremental removal of two large, century-old concrete dams between 2011 and 2014, the sediment-transport regime in the lower Elwha River of western Washington will initially spike above background levels and then return to pre-dam conditions some years after complete dam removal. Measurements indicate the upper reaches of the steep-gradient Elwha River, draining the northeast section of the Olympic Mountains, carries between an estimated 120,000 and 290,000 cubic meters of sediment annually. This large load has deposited an estimated 19 million cubic meters of sediment within the two reservoirs formed by the Elwha and Glines Canyon Dams. It is anticipated that from 7 to 8 million cubic meters of this trapped sediment will mobilize and transport downstream during and after dam decommissioning, restoring the downstream sections of the sediment-starved river and nearshore marine environments. Downstream transport of sediment from the dam sites will have significant effects on channel morphology, water quality, and aquatic habitat during and after dam removal. Sediment concentrations are expected to be between 200 and 1,000 milligrams per liter during and just after dam removal and could rise to as much as 50,000 milligrams per liter during high flows. Downstream sedimentation in the river channel and flood plain will be potentially large, particularly in the lower Elwha River, an alluvial reach with a wide flood plain. Overall aggradation could be as much as one to several meters. Not all reservoir sediment, however, will be released to the river. Some material will remain on hill slopes and flood plains within the drained reservoirs in quantities that will depend on the hydrology, precipitation, and mechanics of the incising channel. Eventually, vegetation will stabilize this remaining reservoir sediment, and the overall sediment load in the restored river will return to pre-dam levels.

Washington↗

Geomorphology of the Elwha River and its Delta: Chapter 3 in Coastal habitats of the Elwha River, Washington--biological and physical patterns and processes prior to dam removal

The removal of two dams on the Elwha River will introduce massive volumes of sediment to the river, and this increase in sediment supply in the river will likely modify the shapes and forms of the river and coastal landscape downstream of the dams. This chapter provides the geologic and geomorphologic background of the Olympic Peninsula and the Elwha River with emphasis on the present river and shoreline. The Elwha River watershed was formed through the uplift of the Olympic Mountains, erosion and movement of sediment throughout the watershed from glaciers, and downslope movement of sediment from gravitational and hydrologic forces. Recent alterations to the river morphology and sediment movement through the river include the two large dams slated to be removed in 2011, but also include repeated bulldozing of channel boundaries, construction and maintenance of flood plain levees, a weir and diversion channel for water supply purposes, and engineered log jams to help enhance river habitat for salmon. The shoreline of the Elwha River delta has changed in location by several kilometers during the past 14,000 years, in response to variations in the local sea-level of approximately 150 meters. Erosion of the shoreline has accelerated during the past 80 years, resulting in landward movement of the beach by more than 200 meters near the river mouth, net reduction in the area of coastal wetlands, and the development of an armored low-tide terrace of the beach consisting primarily of cobble. Changes to the river and coastal morphology during and following dam removal may be substantial, and consistent, long-term monitoring of these systems will be needed to characterize the effects of the dam removal project.

Washington↗

Coastal processes of the Elwha River delta: Chapter 5 in Coastal habitats of the Elwha River, Washington--biological and physical patterns and processes prior to dam removal

To understand the effects of increased sediment supply from dam removal on marine habitats around the Elwha River delta, a basic understanding of the region’s coastal processes is necessary. This chapter provides a summary of the physical setting of the coast near the Elwha River delta, for the purpose of synthesizing the processes that move and disperse sediment discharged by the river. One fundamental property of this coastal setting is the difference between currents in the surfzone with those in the coastal waters offshore of the surfzone. Surfzone currents are largely dictated by the direction and size of waves, and the waves that attack the Elwha River delta predominantly come from Pacific Ocean swell from the west. This establishes surfzone currents and littoral sediment transport that are eastward along much of the delta. Offshore of the surfzone the currents are largely influenced by tidal circulation and the physical constraint to flow provided by the delta’s headland. During both ebbing and flooding tides, the flow separates from the coast at the tip of the delta’s headland, and this produces eddies on the downstream side of the headland. Immediately offshore of the Elwha River mouth, this creates a situation in which the coastal currents are directed toward the east much more frequently than toward the west. This suggests that Elwha River sediment will be more likely to move toward the east in the coastal system.

Washington↗

Vegetation of the Elwha River estuary: Chapter 8 in Coastal habitats of the Elwha River, Washington--biological and physical patterns and processes prior to dam removal

The Elwha River estuary supports one of the most diverse coastal wetland complexes yet described in the Salish Sea region, in terms of vegetation types and plant species richness. Using a combination of aerial imagery and vegetation plot sampling, we identified 6 primary vegetation types and 121 plant species in a 39.7 ha area. Most of the estuary is dominated by woody vegetation types, with mixed riparian forest being the most abundant (20 ha), followed by riparian shrub (6.3 ha) and willow-alder forest (3.9 ha). The shrub-emergent marsh transition vegetation type was fourth most abundant (2.2 ha), followed by minor amounts of dunegrass (1.75 ha) and emergent marsh (0.2 ha). This chapter documents the abundance, distribution, and floristics of these six vegetation types, including plant species richness, life form, species origin (native or introduced), and species wetland indicator status. These data will serve as a baseline to which future changes can be compared, following the impending removal of Glines Canyon and Elwha Dams upstream on the Elwha River. Dam removals may alter many of the processes, materials, and biotic interactions that influence the estuary plant communities, including hydrology, salinity, sediment and wood transport, nutrients, and plant-microbe interactions.

Washington↗

Summary and anticipated responses to Elwha River dam removal: Chapter 9 in Coastal habitats of the Elwha River, Washington--biological and physical patterns and processes prior to dam removal

Starting in September 2011, the removal of two large dams on the Elwha River will begin an unprecedented river restoration project because of the size of the dams, the volume of sediment released, the pristine watershed upstream of the dam sites, and the potential for renewing salmon populations. Ecosystem studies of the Elwha watershed indicate that the effects of almost 100 years of damming are measurable and of consequence. These effects include smaller spawning salmon populations, massive sediment retention behind the dams, coarsening of the riverbed downstream of the dams, low nutrient concentrations in the river waters, and coastal erosion that has accelerated markedly with time. During and after the removal of these dams, the Elwha River and its ecosystems will be altered by a renewal of sediment discharge downstream of the dams and a reintroduction of salmon spawning upstream of the dams. This chapter summarizes the pre-dam and current state of the river and its coastal ecosystems, and describes the likely outcomes of river restoration on the Elwha River ecosystems.

Washington↗

Chemical and biological consequences of using carbon dioxide versus acid additions in ocean acidification experiments

Use of different approaches for manipulating seawater chemistry during ocean acidification experiments has confounded comparison of results from various experimental studies. Some of these discrepancies have been attributed to whether addition of acid (such as hydrochloric acid, HCl) or carbon dioxide (CO 2 ) gas has been used to adjust carbonate system parameters. Experimental simulations of carbonate system parameter scenarios for the years 1766, 2007, and 2100 were performed using the carbonate speciation program CO2SYS to demonstrate the variation in seawater chemistry that can result from use of these approaches. Results showed that carbonate system parameters were 3 percent and 8 percent lower than target values in closed-system acid additions, and 1 percent and 5 percent higher in closed-system CO 2 additions for the 2007 and 2100 simulations, respectively. Open-system simulations showed that carbonate system parameters can deviate by up to 52 percent to 70 percent from target values in both acid addition and CO 2 addition experiments. Results from simulations for the year 2100 were applied to empirically derived equations that relate biogenic calcification to carbonate system parameters for calcifying marine organisms including coccolithophores, corals, and foraminifera. Calculated calcification rates for coccolithophores, corals, and foraminifera differed from rates at target conditions by 0.5 percent to 2.5 percent in closed-system CO 2 gas additions, from 0.8 percent to 15 percent in the closed-system acid additions, from 4.8 percent to 94 percent in open-system acid additions, and from 7 percent to 142 percent in open-system CO 2 additions.

Scientific Investigations Report↗

Biological assessment and streambed-sediment chemistry of streams in the Indianapolis metropolitan area, Indiana, 2003–2008

During 2003–2008, the U.S. Geological Survey sampled 13 sites in the Indianapolis metropolitan area in Indiana for benthic invertebrates, fish communities, and streambed-sediment chemistry. Data from seven White River sites and six tributary sites complement surface-water chemistry data collected by the Indianapolis Department of Public Works. The information is being used to assess changes in water quality in conjunction with the City's programs to reduce combined sewer overflows and other point and nonpoint sources of pollution in the Indianapolis area. During the study, 233 benthic-invertebrate taxa were identified from which the Ephemeroptera, Plecoptera, and Trichoptera (EPT) Index, the Hilsenhoff Biotic Index (HBI), and the Invertebrate Community Index (ICI) were calculated. EPT index scores ranged from 2 to 16 on the White River and from 2 to 17 on the tributaries. EPT index scores indicate that these pollution-intolerant taxa are more prevalent upstream from and away from the combined-sewer areas of Indianapolis. HBI scores from sites on the White River ranged from 4.67 (good) to 9.55 (very poor), whereas on the tributaries, scores ranged from 4.21 (very good) to 8.14 (poor). Lower HBI scores suggest that less organic pollution was present and, like the EPT scores, indicate better conditions where combined-sewer overflows (CSOs) are not present. Similarly, ICI scores indicated better conditions upstream from the CSO outfalls on the White River. White River scores ranged from 12 to 46, where higher ICI scores indicate better conditions in the benthic-invertebrate community. ICI scores at the tributary sites ranged from 12 to 52, with the highest scores on streams without CSOs.

Indiana↗

Chemical and biological quality of water in Grand Lake St. Marys, Ohio, 2011-12, with emphasis on cyanobacteria

Grand Lake St. Marys (GLSM) is a shallow lake in northwest Ohio, which is about 9 miles long and 3 miles wide with depths averaging less than 8 feet. Cyanobacteria blooms are common in GLSM, and high concentrations of microcystins—toxins produced by cyanobacteria—have been documented therein. During 2011–12, the U.S. Geological Survey collected 11 sets of water samples at 6 locations in the lake. The water samples were analyzed for concentrations of nutrients, chlorophyll, and microcystin and to determine plankton community structure and abundance. Analysis by quantitative polymerase chain reaction (qPCR) and quantitative reverse-transcription polymerase chain reaction (qRT-PCR) was used to identify the relations between microcystin concentrations and Planktothrix and Microcystis genotypes (toxic versus non-toxic). The qPCR analysis targets deoxyribonucleic acid (DNA) genes and quantifies the potential for toxin production, whereas the qRT-PCR analysis targets ribonucleic acid (RNA) transcripts and quantifies the expression of the toxin gene. Water samples were collected six times at one site for analyses of major ions and trace elements. In addition, field measurements were made to determine transparency, temperature, dissolved oxygen, pH, and specific conductance of the water. GLSM is shallow with a long fetch, which contributes to the warm and turbid water conditions. Secchi-disk measurements generally ranged from 0.2 to 0.3 meters, and summer water temperatures in GLSM frequently exceed 25 degrees Celsius (°C), with peak temperatures greater than 30 °C. Dissolved oxygen readings below 0.5 milligrams per liter (mg/L) occurred at the lake bottom, which can lead to the internal recycling of phosphorus in the lake. Phytoplankton analyses indicated that GLSM is dominated by cyanobacteria with Planktothrix , the dominant genera during 2011–12. Nitrate ranged from 0.19 to 3.23 mg/L, although concentrations in most samples were less than 1 mg/L. Total nitrogen concentrations ranged from 1.86 to 5.42 mg/L. Orthophosphate (as P) concentrations ranged from less than 0.004 to 0.067 mg/L, although concentrations of most samples were less than 0.004 mg/L. Total phosphorus (as P) concentrations ranged from 0.12 to 0.43 mg/L. Microcystin concentrations ranged from 7.3 to 83 micrograms per liter. Microcystin concentrations were correlated to cyanobacteria biovolumes, and to concentrations of one ion (sodium) and three trace elements (molybdenum, antimony, and lithium). Concentrations of toxin genes ( mcyE ) determined by qPCR were consistently low for Microcystis and consistently high for Planktothrix throughout both sampling years. Concentrations of cyanobacteria found by qPCR were correlated to microcystin concentrations, cyanobacteria biovolumes, selected nutrient concentrations, and other parameters. Results from qRT-PCR assays showed that toxin gene expression was predominantly from the genus Planktothrix , and concentrations of the RNA transcript varied throughout the two sampling years. A number of conditions that may play a role in the dominance of Planktothrix and the production of microcystin were identified including water temperature; low-light transmission; low concentrations of silica and manganese; and relatively high concentrations of sodium, sulfate, and the trace elements of strontium, vanadium, and boron.

Ohio↗

Hydraulic and biological analysis of the passability of select fish species at the U.S. Geological Survey streamgaging weir at Blackwells Mills, New Jersey

Recent efforts to advance river connectivity for the Millstone River watershed in New Jersey have led to the evaluation of a low-flow gauging weir that spans the full width of the river. The methods and results of a desktop modelling exercise were used to evaluate the potential ability of three anadromous fish species ( Alosa sapidissima [American shad], Alosa pseudoharengus [alewife], and Alosa aestivalis [blueback herring]) to pass upstream over the U.S. Geological Survey Blackwells Mills streamgage (01402000) and weir on the Millstone River, New Jersey, at various streamflows, and to estimate the probability that the weir will be passable during the spring migratory season. Based on data from daily fishway counts downstream from the Blackwells Mills streamgage and weir between 1996 and 2014, the general migratory period was defined as April 14 to May 28. Recorded water levels and flow data were used to theoretically estimate water depths and velocities over the weir, as well as flow exceedances occurring during the migratory period. Results indicate that the weir is a potential depth barrier to fish passage when streamflows are below 200 cubic feet per second using a 1-body-depth criterion for American shad (the largest fish among the target species). Streamflows in that range occur on average 35 percent of the time during the migratory period. An increase of the depth criterion to 2 body depths causes the weir to become a possible barrier to passage when flows are below 400 cubic feet per second. Streamflows in that range occur on average 73 percent of the time during the migration season. Average cross-sectional velocities at several points along the weir do not seem to be limiting to the fish migration, but maximum theoretical velocities estimated without friction loss over the face of the weir could be potentially limiting.

New Jersey↗