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USGS1996

Nutrient sources and analysis of nutrient water-quality data, Apalachicola-Chattahoochee-Flint River basin, Georgia, Alabama, and Florida, 1972-90

In 1991, the U.S. Geological Survey began full-scale implementation of the National Water-Quality Assessment (NAWQA) program. One of the initial tasks of the NAWQA program is to compile and evaluate existing data from individual study units. Available nutrient data from 1972 through 1990 water years were used to estimate nutrient sources to the Apalachicola–Chattahoochee–Flint (ACF) River basin and describe the presence, distribution, and transport of nutrients in surface and ground waters. In 1990, about 2,500 tons of nitrogen and 1,100 tons of phosphorus were discharged as point-source loads by 127 municipal wastewater-treatment facilities (WWTF). Nonpoint-source inputs, an unknown percentage of which entered the hydrologic system, included about 120,000 tons of nitrogen and 28,000 tons of phosphorus from animal manure; 82,000 tons of nitrogen and 20,000 tons of phosphorus applied as fertilizer; and 24,000 tons of nitrogen from atmospheric deposition. Estimates of nutrient input to the ACF River basin were not made for natural sources and for the following anthropogenic sources: industrial-wastewater effluent; storm drains; sanitary and combined sewer outflows; and runoff from agricultural, urban, and suburban areas. Nutrient outflow from the Apalachicola River into Apalachicola Bay, Fla., was about 13 percent of estimated nitrogen sources and about 3 percent of estimated total-phosphorus sources in the ACF River basin. For 1972–90, nutrient concentrations in surface water were high enough to warrant concerns about accelerated eutrophication based on total-phosphorus concentrations and to warrant concerns intermittently about toxicity to fish based on dissolved-ammonia concentrations downstream of wastewater-treatment outfalls from Metropolitan Atlanta and LaGrange, Ga. Many improvements to the water quality of the Chattahoochee and Flint Rivers in the 1980’s and early 1990’s can be directly attributed to improvements in WWTF, legislation directed at decreasing point-source loads of phosphorus, and changes in locations of wastewater-treatment outfalls. However, limited data indicate that nonpoint-source inputs increased upstream of Atlanta and in the Chipola River watershed. Significant increases in nutrient concentrations, loads, and yields occurred from upstream to downstream of the metropolitan areas of Atlanta, Ga.; Columbus, Ga., and Phenix City, Ala.; and Albany, Ga. The highest mean-annual yields estimated in the ACF River basin for total nitrogen (2.9 tons per square mile (tons/mi 2 )), total-inorganic nitrogen (2.0 tons/mi 2 ), dissolved ammonia (1.1 tons/mi 2 ), and total phosphorus (0.75 tons/mi 2 ) were downstream of Atlanta. Most significant trends in nutrient-concentration data from 1980–90 in the Chattahoochee River and the Middle and Lower Flint River basins were increasing, except dissolved ammonia which decreased at several sampling sites in reaches downstream of Atlanta, Columbus and Phenix City, and Albany. At sampling sites on the Chattahoochee and Flint Rivers downstream of Atlanta and Albany, decreasing trends in dissolved-ammonia concentration and increasing trends in dissolved-nitrate concentration were the result of improved wastewater treatment at WWTF. Dissolved-ammonia concentrations decreased and dissolved-nitrate concentrations increased along river reaches downstream of wastewater-treatment facility outfalls for Atlanta and Albany because of nitrification of ammonia to nitrate. Increasing trends in total-phosphorus concentrations are an accurate representation of data for the period 1980–90. However, legislated restrictions on the use of phosphate detergents and improvements to WWTF in the late 1980’s and early 1990’s, resulted in substantial reductions of phosphorus concentrations in wastewater effluent and in rivers at many locations in the 1990’s. Reservoirs affect nutrient transport because of uptake by phytoplankton and aquatic plants, denitrification,and accumulation of phosphorus associated with sediment in reservoirs. Yields of total-inorganic nitrogen, dissolved ammonia, dissolved nitrate, and total phosphorus decreased between sampling sites upstream and downstream of four reservoirs on the Chattahoochee River. The only exception was the yield of dissolved ammonia increased slightly from upstream to downstream of Lake Sidney Lanier. Much of the nutrient load in the Chattahoochee River downstream of Atlanta is utilized by algae or settles out primarily in West Point Lake, and to a lesser extent, in Lake Harding and Walter F. George Reservoir. In general, the Flint River arm of Lake Seminole had significantly higher concentrations of nutrients than the Chattahoochee River arm of Lake Seminole, which may be the result of the large percentage of the Middle and Lower Chattahoochee River in backwater from reservoirs, the absence of reservoirs on the Flint River downstream of Albany until Lake Seminole, and nonpoint-source inputs of nutrients from intensively farmed areas in the Lower Flint River basin. Decreases in dissolved-ammonia, dissolved-nitrate, and total-phosphorus concentrations in reservoirs and backwater along the Chattahoochee River from West Point Lake to Lake Seminole during summer months are related to the seasonality of phytoplankton production. The Chipola River had the highest yields of dissolved nitrate (1.2 tons/mi 2 ) estimated in the ACF River basin. Estimated loads of dissolved nitrate increased fairly steadily from 500 to 1,500 tons per year from 1972–90. These factors strongly suggest an agricultural nonpoint source of elevated dissolved-nitrate concentrations from increased irrigated agriculture and fertilizer applications in the Chipola River watershed. Analyses of nutrients in ground water within the ACF River basin for 1972–90 water years were restricted because of limited available data. The distribution of nitrate concentrations in the ACF River basin for 1972–90 water years included 10 percent of wells and 6 percent of springs with concentrations that probably have elevated nitrate concentrations (3.1 to 10 milligrams per liter (mg/L)), and 1 percent of wells with median nitrate concentrations exceeding the maximum contaminant level of 10 mg/L. Dissolved-nitrate concentrations were significantly lower in the Providence aquifer than in the Floridan aquifer system and the crystalline-rock aquifers. Dissolved-nitrate concentrations in wells used for public supply were significantly lower than in wells used for domestic use or unused wells.

Alabama, Florida, Georgia↗

USGS2018

Punctuated sediment discharge during early Pliocene birth of the Colorado River: Evidence from regional stratigraphy, sedimentology, and paleontology

The Colorado River in the southwestern U.S. provides an excellent natural laboratory for studying the origins of a continent-scale river system, because deposits that formed prior to and during river initiation are well exposed in the lower river valley and nearby basinal sink. This paper presents a synthesis of regional stratigraphy, sedimentology, and micropaleontology from the southern Bouse Formation and similar-age deposits in the western Salton Trough, which we use to interpret processes that controlled the birth and early evolution of the Colorado River. The southern Bouse Formation is divided into three laterally persistent members: basal carbonate, siliciclastic, and upper bioclastic members. Basal carbonate accumulated in a tide-dominated marine embayment during a rise of relative sea level between ~ 6.3 and 5.4 Ma, prior to arrival of the Colorado River. The transition to green claystone records initial rapid influx of river water and its distal clay wash load into the subtidal marine embayment at ~ 5.4–5.3 Ma. This was followed by rapid southward progradation of the Colorado River delta, establishment of the earliest through-flowing river, and deposition of river-derived turbidites in the western Salton Trough (Wind Caves paleocanyon) between ~ 5.3 and 5.1 Ma. Early delta progradation was followed by regional shut-down of river sand output between ~ 5.1 and 4.8 Ma that resulted in deposition of marine clay in the Salton Trough, retreat of the delta, and re-flooding of the lower river valley by shallow marine water that deposited the Bouse upper bioclastic member. Resumption of sediment discharge at ~ 4.8 Ma drove massive progradation of fluvial-deltaic deposits back down the river valley into the northern Gulf and Salton Trough. These results provide evidence for a discontinuous, start-stop-start history of sand output during initiation of the Colorado River that is not predicted by existing models for this system. The underlying controls on punctuated sediment discharge are assessed by comparing the depositional chronology to the record of global sea-level change. The lower Colorado River Valley and Salton Trough experienced marine transgression during a gradual fall in global sea level between ~ 6.3 and 5.5 Ma, implicating tectonic subsidence as the main driver of latest Miocene relative sea-level rise. A major fall of global sea level at 5.3 Ma outpaced subsidence and drove regional delta progradation, earliest flushing of Colorado River sand into the northern Gulf of California, and erosion of Bouse basal carbonate and siliciclastic members. The lower Colorado River valley was re-flooded by shallow marine waters during smaller changes in global sea level ~ 5.1–4.8 Ma, after the river first ran through it, which requires a mechanism to stop delivery of sand to the lower river valley. We propose that tectonically controlled subsidence along the lower Colorado River, upstream of the southern Bouse study area, temporarily trapped sediment and stopped delivery of sand to the lower river valley and northern Gulf of California for ~ 200–300 kyr. Massive progradation of the fluvial-deltaic system back down the river valley into the Salton Trough starting ~ 4.8–4.5 Ma apparently was driven by a huge increase in sediment discharge that overwhelmed the sediment-storage capacity of sub-basins along the lower river corridor and established the fully integrated river channel network.

Colorado River↗

USGS2009

Water-quality monitoring in response to young-of-the-year smallmouth bass (Micropterus dolomieu) mortality in the Susquehanna River and major tributaries, Pennsylvania: 2008

Mortalities of young-of-the-year (YOY) smallmouth bass ( Micropterus dolomieu ) recently have occurred in the Susquehanna River due to Flavobacterium columnare , a bacterium that typically infects stressed fish. Stress factors include but are not limited to elevated water temperature and low dissolved oxygen during times critical for survival and development of smallmouth bass (May 1 through July 31). The infections were first discovered in the Susquehanna River and major tributaries in the summer months of 2005 but also were prevalent in 2007. The U.S. Geological Survey, Pennsylvania Fish and Boat Commission, Pennsylvania Department of Environmental Protection, and PPL Corporation worked together to monitor dissolved oxygen, water temperature, pH, and specific conductance on a continuous basis at seven locations from May through mid October 2008. In addition, nutrient concentrations, which may affect dissolved-oxygen concentrations, were measured once in water and streambed sediment at 25 locations. Data from water-quality meters (sondes) deployed as pairs showed daily minimum dissolved-oxygen concentration at YOY smallmouth-bass microhabitats in the Susquehanna River at Clemson Island and the Juniata River at Howe Township Park were significantly lower (p-value < 0.0001) than nearby main-channel habitats. The average daily minimum dissolved-oxygen concentration during the critical period (May 1–July 31) was 1.1 mg/L lower in the Susquehanna River microhabitat and 0.3 mg/L lower in the Juniata River. Daily minimum dissolved-oxygen concentrations were lower than the applicable national criterion (5.0 mg/L) in microhabitat in the Susquehanna River at Clemson Island on 31 days (of 92 days in the critical period) compared to no days in the corresponding main-channel habitat. In the Juniata River, daily minimum dissolved-oxygen concentration in the microhabitat was lower than 5.0 mg/L on 20 days compared to only 5 days in the main-channel habitat. The maximum time periods that dissolved oxygen was less than 5.0 mg/L in microhabitats of the Susquehanna and Juniata Rivers were 8.5 and 5.5 hours, respectively. Dissolved-oxygen concentrations lower than the national criterion generally occurred during nighttime and early-morning hours between midnight and 0800. The lowest instantaneous dissolved-oxygen concentrations measured in microhabitats during the critical period were 3.3 mg/L for the Susquehanna River at Clemson Island (June 11, 2008) and 4.1 mg/L for the Juniata River at Howe Township Park (July 22, 2008). Comparison of 2008 data to available continuous-monitoring data from 1974 to 1979 in the Susquehanna River at Harrisburg, Pa., indicates the critical period of 2008 had an average daily mean dissolved-oxygen concentration that was 1.1 mg/L lower (p-value < 0.0001) than in the 1970s and an average daily mean water temperature that was 0.8 °C warmer (p-value = 0.0056). Streamflow was not significantly different (p-value = 0.0952) between the two time periods indicating that it is not a likely explanation for the differences in water quality. During the critical period in 2008, dissolved-oxygen concentrations were lower in the Susquehanna River at Harrisburg, Pa., than in the Delaware River at Trenton, N.J., or Allegheny River at Acmetonia near Pittsburgh, Pa. Daily minimum dissolved-oxygen concentrations were below the national criterion of 5.0 mg/L on 6 days during the critical period in the Susquehanna River at Harrisburg compared to no days in the Delaware River at Trenton and the Allegheny River at Acmetonia. Average daily mean water temperature in the Susquehanna River at Harrisburg was 1.8 °C warmer than in the Delaware River at Trenton and 3.4 °C warmer than in the Allegheny River at Acmetonia. These results indicate that any stress induced by dissolved oxygen or other environmental conditions is likely to be magnified by elevated temperature in the Susquehanna River at Harrisburg compared to the Delaware River at Trenton or the Allegheny River at Acmetonia.

Pennsylvania↗

USGS2013

Geomorphic and vegetation processes of the Willamette River floodplain, Oregon: current understanding and unanswered science questions

This report summarizes the current understanding of floodplain processes and landforms for the Willamette River and its major tributaries. The area of focus encompasses the main stem Willamette River above Newberg and the portions of the Coast Fork Willamette, Middle Fork Willamette, McKenzie, and North, South and main stem Santiam Rivers downstream of U.S. Army Corps of Engineers dams. These reaches constitute a large portion of the alluvial, salmon-bearing rivers in the Willamette Basin. The geomorphic, or historical, floodplain of these rivers has two zones - the active channel where coarse sediment is mobilized and transported during annual flooding and overbank areas where fine sediment is deposited during higher magnitude floods. Historically, characteristics of the rivers and geomorphic floodplain (including longitudinal patterns in channel complexity and the abundance of side channels, islands and gravel bars) were controlled by the interactions between floods and the transport of coarse sediment and large wood. Local channel responses to these interactions were then shaped by geologic features like bedrock outcrops and variations in channel slope. Over the last 150 years, floods and the transport of coarse sediment and large wood have been substantially reduced in the basin. With dam regulation, nearly all peak flows are now confined to the main channels. Large floods (greater than 10-year recurrence interval prior to basinwide flow regulation) have been largely eliminated. Also, the magnitude and frequency of small floods (events that formerly recurred every 2–10 years) have decreased substantially. The large dams trap an estimated 50–60 percent of bed-material sediment—the building block of active channel habitats—that historically entered the Willamette River. They also trap more than 80 percent of the estimated bed material in the lower South Santiam River and Middle and Coast Forks of the Willamette River. Downstream, revetments further decrease bed-material supply by an unknown amount because they limit bank erosion and entrainment of stored sediment. The rivers, geomorphic floodplain, and vegetation within the study area have changed noticeably in response to the alterations in floods and coarse sediment and wood transport. Widespread decreases have occurred in the rates of meander migration and avulsions and the number and diversity of landforms such as gravel bars, islands, and side channels. Dynamic and, in some cases, multi-thread river segments have become stable, single-thread channels. Preliminary observations suggest that forest area has increased within the active channel, further reducing the area of unvegetated gravel bars. Alterations to floods and sediment transport and ongoing channel, floodplain, and vegetation responses result in a modern Willamette River Basin. Here, the floodplain influenced by the modern flow and sediment regimes, or the functional floodplain, is narrower and inset with the broader and older geomorphic floodplain. The functional floodplain is flanked by higher elevation relict floodplain features that are no longer inundated by modern floods. The corridor of present- day active channel surfaces is narrower, enabling riparian vegetation to establish on formerly active gravel bar surfaces. The modern Willamette River Basin with its fundamental changes in the flood, sediment transport, and large wood regimes has implications for future habitat conditions. System-wide future trends probably include narrower floodplains and a lower diversity of landforms and habitats along the Willamette River and its major tributaries compared to historical patterns and today. Furthermore, specific conditions and future trends will probably vary between geologically stable, anthropogenically stable, and dynamic reaches. The middle and lower segments of the Willamette River are geologically stable, whereas the South Santiam and Middle Fork Willamette Rivers were historically dynamic, but are now largely stable in response to flow regulation and revetment construction. The upper Willamette and North Santiam Rivers retain some dynamic characteristics, and provide the greatest diversity of aquatic and riparian habitats under the current flow and sediment regime. The McKenzie River has some areas that are more dynamic, whereas other sections are stable due to geology or revetments. Historical reductions in channel dynamism also have implications for ongoing and future recruitment and succession of floodplain forests. For instance, the succession of native plants like black cottonwood is currently limited by (1) fewer low-elevation gravel bars for stand initiation; (2) altered streamflow during seed release, germination, and stand initiation; (3) competition from introduced plant species; and (4) frequent erosion of young vegetation in some locations because scouring flows are concentrated within a narrow channel corridor. Despite past alterations, the Willamette River Basin has many of the physical and ecological building blocks necessary for highly functioning rivers. Management strategies, including environmental flow programs, river and floodplain restoration, revetment modifications, and reclamation of gravel mines, are underway to mitigate some historical changes. However, there are some substantial gaps in the scientific understanding of the modern Willamette basin that is needed to efficiently integrate these blocks and to establish realistic objectives for future conditions. Unanswered questions include: 1. What is the distribution and diversity of landforms and habitats along the Willamette River and its tributaries? 2. What is the extent of today’s functional floodplain—the part of the river corridor actively formed and modified by fluvial processes? 3. How are landforms and habitats in the Willamette River Basin created and sustained by present-day flow and sediment conditions? 4. How is the succession of native floodplain vegetation shaped by present-day flow and sediment conditions? Answering these questions will produce baseline data on the current distributions of landforms and habitats (question 1), the extent of the functional floodplain (question 2), and the effects of modern flow and sediment regimes on future floodplain landforms, habitats, and vegetation succession (questions 3 and 4). Addressing questions 1 and 2 is a logical next step because they underlie questions 3 and 4. Addressing these four questions would better characterize the modern Willamette Basin and help in implementing and setting realistic targets for ongoing management strategies, demonstrating their effectiveness at the site and basin scales, and anticipating future trends and conditions.

Oregon↗

USGS2006

Concentrations, and estimated loads and yields of nutrients and suspended sediment in the Little River basin, Kentucky, 2003-04

Nutrients, primarily nitrogen and phosphorus compounds, naturally occur but also are applied to land in the form of commercial fertilizers and livestock waste to enhance plant growth. Concentrations, estimated loads and yields, and sources of nitrite plus nitrate, total phosphorus, and orthophosphate were evaluated in streams of the Little River Basin to assist the Commonwealth of Kentucky in developing 'total maximum daily loads' (TMDLs) for streams in the basin. The Little River Basin encompasses about 600 square miles in Christian and Trigg Counties, and a portion of Caldwell County in western Kentucky. Water samples were collected in streams in the Little River Basin during 2003-04 as part of a study conducted in cooperation with the Kentucky Department of Agriculture. A total of 92 water samples were collected at four fixed-network sites from March through November 2003 and from February through November 2004. An additional 20 samples were collected at five synoptic-network sites during the same period. Median concentrations of nitrogen, phosphorus, and suspended sediment varied spatially and seasonally. Concentrations of nitrogen were higher in the spring (March-May) after fertilizer application and runoff. The highest concentration of nitrite plus nitrate-5.7 milligrams per liter (mg/L)-was detected at the South Fork Little River site. The Sinking Fork near Cadiz site had the highest median concentration of nitrite plus nitrate (4.6 mg/L). The North Fork Little River site and the Little River near Cadiz site had higher concentrations of orthophosphate in the fall and lower concentrations in the spring. Concentrations of orthophosphate remained high during the summer (June-August) at the North Fork Little River site possibly because of the contribution of wastewater effluent to streamflow. Fifty-eight percent of the concentrations of total phosphorus at the nine sites exceeded the U.S. Environmental Protection Agency recommended maximum concentration limit of 0.1 mg/L. Concentrations of suspended sediment were highest in the spring during runoff and lowest in the fall. The highest concentration of suspended sediment (1,020 mg/L) was observed at the Sinking Fork near Cadiz site. The median concentration of suspended sediment for all sites sampled was 12 mg/L. A nonparameteric statistical test (Wilcoxson rank-sum) showed that the median concentrations of suspended sediment were not different among any of the fixed-network sites. The Little River near Cadiz site contributed larger estimated mean annual loads of nitrite plus nitrate (2,500,000 pounds per year (lb/yr)) and total phosphorus (160,000 lb/yr) than the other three fixed-network sites. Of the two main upstream tributaries from the Little River near Cadiz site, the North Fork Little River was the greatest contributor of total phosphorus to the study area with an estimated mean annual load of 107,000 lb/yr or about 64 percent of the total estimated mean annual load at the Little River near Cadiz site. The other main upstream tributary, South Fork Little River, had an estimated mean annual load of total phosphorus that was about 20 percent of the mean annual load at the Little River near Cadiz site. Estimated loads of suspended sediment were largest at the Little River near Cadiz site, where the estimated mean annual load for 2003-04 was about 84,000,000 lb/yr. The North Fork Little River contributed an estimated 36 percent of the mean annual load of suspended sediment at the Little River near Cadiz site, while the South Fork Little River contributed an estimated 18 percent of the mean annual load at the Little River near Cadiz site. The North Fork Little River site had the largest estimated mean annual yield of total phosphorus (1,600 pounds per year per square mile (lb/yr/mi2)) and orthophosphate (1,100 lb/yr/mi2). A principal source of phosphorus for the North Fork Little River is discharge from wastewater-treatment facilities. The largest estimated mean annual yield of nitrite plus nitrate was observed at the South Fork Little River site. The North Fork Little River site had the largest estimated mean annual yield of suspended sediment (450,000 lb/yr/mi2). Inputs of nitrogen and phosphorus to streams from point and nonpoint sources were estimated for the Little River Basin. Commercial fertilizer and livestock-waste applications on row crops are a principal source of nutrients for most of the Little River Basin. Sources of nutrients in the urban areas of the basin mainly are from effluent discharge from wastewater-treatment facilities and fertilizer applications to lawns and golf courses.

Scientific Investigations Report↗

USGS2010

Channel-conveyance capacity, channel change, and sediment transport in the lower Puyallup, White, and Carbon Rivers, western Washington

Draining the volcanic, glaciated terrain of Mount Rainier, Washington, the Puyallup, White, and Carbon Rivers convey copious volumes of water and sediment down to Commencement Bay in Puget Sound. Recent flooding in the lowland river system has renewed interest in understanding sediment transport and its effects on flow conveyance throughout the lower drainage basin. Bathymetric and topographic data for 156 cross sections were surveyed in the lower Puyallup River system by the U.S. Geological Survey (USGS) and were compared with similar datasets collected in 1984. Regions of significant aggradation were measured along the Puyallup and White Rivers. Between 1984 and 2009, aggradation totals as measured by changes in average channel elevation were as much as 7.5, 6.5, and 2 feet on the Puyallup, White, and Carbon Rivers, respectively. These aggrading river sections correlated with decreasing slopes in riverbeds where the rivers exit relatively confined sections in the upper drainage and enter the relatively unconstricted valleys of the low-gradient Puget Lowland. Measured grain-size distributions from each riverbed showed a progressive fining downstream. Analysis of stage-discharge relations at streamflow-gaging stations along rivers draining Mount Rainier demonstrated the dynamic nature of channel morphology on river courses influenced by glaciated, volcanic terrain. The greatest rates of aggradation since the 1980s were in the Nisqually River near National (5.0 inches per year) and the White River near Auburn (1.8 inches per year). Less pronounced aggradation was measured on the Puyallup River and the White River just downstream of Mud Mountain Dam. The largest measured rate of incision was measured in the Cowlitz River at Packwood (5.0 inches per year). Channel-conveyance capacity estimated using a one-dimensional hydraulic model decreased in some river reaches since 1984. The reach exhibiting the largest decrease (about 20-50 percent) in channel-conveyance capacity was the White River between R Street Bridge and the Lake Tapps return, a reach affected by recent flooding. Conveyance capacity also decreased in sections of the Puyallup River. Conveyance capacity was mostly unchanged along other study reaches. Bedload transport was simulated throughout the entire river network and consistent with other observations and analyses, the hydraulic model showed that the upper Puyallup and White Rivers tended to accumulate sediment. Accuracy of the bedload-transport modeling, however, was limited due to a scarcity of sediment-transport data sets from the Puyallup system, mantling of sand over cobbles in the lower Puyallup and White Rivers, and overall uncertainty in modeling sediment transport in gravel-bedded rivers. Consequently, the output results from the model were treated as more qualitative in value, useful in comparing geomorphic trends within different river reaches, but not accurate in producing precise predictions of mass of sediment moved or deposited. The hydraulic model and the bedload-transport component were useful for analyzing proposed river-management options, if surveyed cross sections adequately represented the river-management site and proposed management options. The hydraulic model showed that setback levees would provide greater flood protection than gravel-bar scalping after the initial project construction and for some time thereafter, although the model was not accurate enough to quantify the length of time of the flood protection. The greatest hydraulic benefit from setback levees would be a substantial increase in the effective channel-conveyance area. By widening the distance between levees, the new floodplain would accommodate larger increases in discharge with relatively small incremental increases in stage. Model simulation results indicate that the hydraulic benefit from a setback levee also would be long-lived and would effectively compensate for increased deposition within the setback reach

Scientific Investigations Report↗

USGS2013

Determination of flow losses in the Cape Fear River between B. Everett Jordan Lake and Lillington, North Carolina, 2008-2010

During 2008-2010, the U.S. Geological Survey conducted a hydrologic investigation in cooperation with the Triangle J Council of Governments Cape Fear River Flow Study Committee and the North Carolina Division of Water Resources to collect hydrologic data in the Cape Fear River between B. Everett Jordan Lake and Lillington in central North Carolina to help determine if suspected flow losses occur in the reach. Flow loss analyses were completed by summing the daily flow releases at Jordan Lake Dam with the daily discharges at Deep River at Moncure and Buckhorn Creek near Corinth, then subtracting these values from the daily discharges at Cape Fear River at Lillington. Examination of long-term records revealed that during 10,227 days of the 1983-2010 water years, 408 days (4.0 percent) had flow loss when conditions were relatively steady with respect to the previous day's records. The flow loss that occurred on these 40 days ranged from 0.49 to 2,150 cubic feet per second with a median flow loss of 37.2 cubic feet per second. The months with the highest number of days with flow losses were June (16. percent), September (16.9 percent), and October (19.4 percent). A series of synoptic discharge measurements made on six separate days in 2009 provided "snapshots" of overall flow conditions along the study reach. The largest water diversion is just downstream from the confluence of the Haw and Deep Rivers, and discharges substantially decrease in the main stem downstream from the intake point. Downstream from Buckhorn Dam, minimal gain or loss between the dam and Raven Rock State Park was noted. Analyses of discharge measurements and ratings for two streamgages-one at Deep River at Moncure and the other at Cape Fear River at Lillington-were completed to address the accuracy of the relation between stage and discharge at these sites. The ratings analyses did not indicate a particular time during the 1982-2011 water years in which a consistent bias occurred in the computations of discharge records that would indicate false flow losses. A total of 34 measured discharges at a streamgage on the Haw River below B. Everett Jordan Lake near Moncure were compared with the reported hourly flow releases from Jordan Lake Dam. Because 28 of 34 measurements were within plus or minus 10 percent of the hourly flow releases reported by the U.S Army Corps of Engineers, use of the current discharge computation tables for reporting Jordan Lake Dam flow releases is generally supported. A stage gage was operated on the Cape Fear River at Buckhorn Dam near Corinth to collect continuous stage-only records. Throughout the study period, flow over the dam was observed along its length, and flow loss within the study reach is not attributed to river-level fluctuations at the dam. Water-use information and (or) data were obtained for five industrial facilities, a regional power utility, two municipalities, one small hydropower facility on the Deep River, and one quarry operation also adjacent to the Deep River. The largest water users are the regional power producer, a small hydropower operation, and the two municipalities. The total water-use diversions for these facilities range from almost 25.5 to 38.5 cubic feet per second (39.5 to 59.5 million gallons per day) during the winter and summer periods, respectively. This range is equivalent to 69 to 104 percent of the 37 cubic feet per second median flow loss. The Lockville hydropower station is on the Deep River about 1 mile downstream from the streamgage near Moncure. Run-of-river operations at the facility do not appear to affect flow losses in the study reach. The largest water user in the study area is a regional power producer at a coal-fired power-generation plant located immediately adjacent to the Cape Fear River just downstream from the confluence of the Haw an Deep Rivers. Comparisons of daily water withdrawals, sup-plied by the regional power producer, and discharge records at a streamgage on the diversion canal indicated many days when consumption exceeded the producer's estimates for the cooling towers. Uncertainty surrounding reasonable estimates of consumption remained in effect at the end of the study. Data concerning evaporative losses were compiled using two approaches-an analysis of available pan-evaporation data from a National Weather Service cooperative observer station in Chapel Hill, North Carolina; and a compilation of reference open-water evaporation computed by the State Climate Office of North Carolina. The potential flow loss by evaporation from the main stem and the Deep River was estimated to be in the range of 4 to 14 cubic feet per second during May through October, equivalent to 10 to 38 percent of the 37 cubic feet per second median flow loss. Daily water-use diversions and evaporation losses were compared to flow-loss occurrences during the period April 2008 through September 2010. In comparing the surface-water, water-use, and evaporation data compiled for 2008-2010, it is evident that documented water diversions combined with flow losses by open-water evaporation can exceed the net flow gain in the study area and result in flow losses from the reach. Analysis of data from a streamgage downstream from the regional power plant on the diversion canal adjacent to the Cape Fear River provided insight into the occurrence of an apparent flow loss at the streamgage at Lillington. Assessment of the daily discharges and subsequent hydrographs for the canal streamgage indicated at least 24 instances during the study when the flows suddenly changed by magnitudes of 100 to more that 200 cubic feet per second, resulting in a noted time-lag effect on the downstream discharges at the Lillington streamgage, beginning 8 to 16 hours after the sudden flow change. A fiber-optic distributed temperature-sensing survey was conducted on the Cape Fear River at the Raven Rock State Park reach August 12-14, 2009, to determine if the presence of diabase dikes were preferentially directing groundwater discharge. No temperature anomalies of colder water were measured during the survey, which indicated that at the time of the survey that particular reach of the Cape Fear River was a "no-flow" or losing stream. An aerial thermal-infrared survey was conducted on the Haw and Cape Fear Rivers on February 27, 2010, from Jordan Lake Dam to Lillington to qualitatively delineate areas of groundwater discharge on the basis of the contrast between warm groundwater discharge and cold surface-water temperatures. Dis-charge generally was noted as diffuse seepage, but in a few cases springs were detected as inflow at a discrete point of discharge. Two reaches of the Cape Fear River (regional power plant and Bradley Road reaches) were selected for groundwater monitoring with a transect of piezometers installed within the flood plain. Groundwater-level altitudes at these reaches were analyzed for 1 water year (October 1, 2009, to September 30, 2010). Data collected as part of this study represent only a brief period of time and may not represent all conditions and all years; however, the data indicate that, during the dry summer months, the Cape Fear River within the study area is losing an undetermined quantity of water through seepage. Analyses completed during this investigation indicate a study reach with complex flow patterns affected by numerous concurrent factors resulting in flow losses. The causes of flow loss could not be solely attributed to any one factor. Among the factors considered, the occurrences of water diversions and evaporative losses were determined to be sufficient on some days (particularly during the base-flow period) to exceed the net gain in flows between the upstream and downstream ends of the study area. Losses by diversions and evaporation can exceed the median flow loss of 3 cubic feet per second, which indicates that flow loss from the study reach is real. Groundwater data collected during 2009-2010 indicate the possibility of localized flow loss during the summer, particularly in the impounded reach above Buckhorn Dam. However, no indication of unusual patterns was noted that would cause substantial flow loss by groundwater and surface-water interaction at the river bottom.

North Carolina↗

USGS2016

Ecological requirements for pallid sturgeon reproduction and recruitment in the Missouri River—A synthesis of science, 2005 to 2012

This report is intended to synthesize the state of the scientific understanding of pallid sturgeon ecological requirements to provide recommendations for future science directions and context for Missouri River restoration and management decisions. Recruitment of pallid sturgeon has been low to non-existent throughout its range. Emerging understanding of the genetic structure of pallid sturgeon populations sets a broad framework for species and river management decisions, including decisions about managing the future genetic diversity of the species, but also decisions about where and what type of river restoration actions will be effective for subpopulations of this highly migratory species. Adult pallid sturgeon may migrate hundreds of kilometers (km) to spawn and their progeny may disperse even greater distances downstream as drifting free embryos. As a result of their complex life history pallid sturgeon naturally exploit a wide range of habitats during their life cycles. The construction of dams and reservoirs has fragmented habitats and may have shifted Missouri River subpopulations downstream. Research has not identified one primary biological or ecological constraint that appears to limit populations of the pallid sturgeon. With the present (2013) state of knowledge many life stages and life-stage transitions cannot be ruled out as contributing to recruitment failure. Biological opinions in 2000 (and amended in 2003) presented the dominant hypotheses for recruitment failure that existed at that time. Emphasis was on the role of the flow regime, specifically spring flow pulses (“spring rises”), to condition spawning substrate and cue reproductive aggregations and migrations, and on low flows and additional slow, shallow-water area to serve as rearing habitat for age-0 to juvenile pallid sturgeon. Studies on spawning habitat dynamics have documented that habitat patches selected for spawning by fish in the Lower Missouri River (Missouri River downstream from Gavins Point Dam to the confluence with the Mississippi River) are dominantly on outside, revetted bends in the deepest, fastest, and most turbulent water. Studies in more natural habitat on the Yellowstone River have documented spawning in convergent flow in the middle of the channel on discrete patches of gravel within a sand-dominated channel, an arrangement that may be more effective in attracting aggregations of reproductive fish compared to the nearly continuous revetment on the Lower Missouri River. Pallid sturgeon spawn in the spring and early summer during periods of increasing day length. Water temperature consistently exerts a threshold effect for spawning at 16–18 °C. In addition, the role of water temperature is indicated by pauses and reversals in upstream migrations that have been associated with cold weather fronts that create a transient decrease in water temperature. From 2005 to 2012 on the Lower Missouri River, no obvious relations between flow pulses and fish movements and spawning behaviors have been apparent. However, pallid sturgeon tracking at the Upper Missouri–Yellowstone confluence indicates that in most years, most telemetered pallid sturgeon migrate out of the Missouri River and into the Yellowstone River in the June–July timeframe in association with the spring pulse. This pattern was disrupted in 2011 when a high flow pulse with warm temperatures and high turbidity emanated from the Milk River, followed by record releases from Fort Peck Dam, and 36–39 percent of the telemetered population migrated up the Upper Missouri. This result supports the hypothesis that sufficiently large flow pulses may trigger migration and aggregation but it is not clear that functional pulses are within reservoir management authorities. Notably, a pallid sturgeon free embryo was captured on the Upper Missouri River in 2011 and another single, genetically confirmed embryo was captured on the Yellowstone River in 2012. Research on free-embryo drift has indicated the potential for hundreds of miles of downstream dispersal. Lack of distance to accommodate the extended downstream dispersal period of free embryos on the Upper Missouri and Yellowstone Rivers is the predominant hypothesis for recruitment failure in the upper basin. Long drift distances in the Lower Missouri River may be responsible for shifting Lower Missouri River sub-populations further into the Middle Mississippi River. Physical understanding of drift processes indicates that mean velocities could be slowed through decreased discharges or increased channel hydraulic radius (width and topographic diversity) to reduce free-embryo dispersal distances. In addition, the probability that free embryos are transported into and retained in channel-margin habitats is theoretically amenable to channel re-engineering that would increase cross-channel secondary currents in bends or channel expansions. Considerable uncertainty persists, however, about whether extended drift of Lower Missouri River larvae is responsible for recruitment failure. If drift distance is limiting, it is important to discern whether it would be advisable to retain larvae within the Missouri River, and where along the river restoration projects should be placed to optimize survival and growth of age-0 and juvenile sturgeon. Longitudinal differences in female pallid sturgeon fecundity lend support to the hypothesis that recruitment failure may be due, in part, to fish having insufficient nutrition to produce the numbers of gametes needed for the population to grow, perhaps because of simultaneous declines in prey-fish populations and their habitats. Establishing a chain of causality from habitat decline, to prey-fish populations, to sturgeon diets, to sturgeon fecundity, and to pallid sturgeon population growth presents a considerable scientific challenge. In addition to the dominant hypotheses relating pallid sturgeon populations to changes in flow regime and channel morphology, other factors have been identified that might be sources of stress and contribute to recruitment failure. Among these are water quality and contaminants. Ambient water-quality monitoring on the Missouri River has demonstrated summer episodes when dissolved oxygen dips below 5 milligrams per liter, a threshold that may be stressful especially to age-0 and juvenile sturgeon. Documented cases of intersex in shovelnose and pallid sturgeon indicate that agricultural and municipal sources of endocrine disrupting chemicals also may have a role in pallid sturgeon recruitment failure. Scientific understanding of the ecological requirements of pallid sturgeon has increased almost exponentially in the last two decades, and efforts are now turning from understanding fundamental biology of the species to quantifying how population dynamics relate to potential management actions. Progress in developing the science needed to inform management actions on the Missouri River may benefit from continuation of monitoring of reproductive cycles, reproductive movements, growth, and survival of telemetry tagged adults, increased emphasis on focused, complementary field and laboratory studies of factors influencing early life history, implementation of studies to resolve the role of food limitations in growth, survival, and reproductive condition, and implementation of studies designed specifically to parameterize models linking management to populations.

Missouri River↗

USGS2017

Performance measures for a Mississippi River reintroduction into the forested wetlands of Maurepas Swamp

The use of freshwater diversions (river reintroductions) from the Mississippi River as a restoration tool to rehabilitate Louisiana coastal wetlands has been promoted widely since the first such diversion at Caernarvon became operational in the early 1990s. To date, aside from the Bonnet Carré Spillway (which is designed and operated for flood control), there are only four operational Mississippi River freshwater diversions (two gated structures and two siphons) in coastal Louisiana, and they all target salinity intrusion, shellfish management, and (or) the enhancement of the integrity of marsh habitat. River reintroductions carry small sediment loads for various design reasons, but they can be effective in delivering freshwater to combat saltwater intrusion and increase the delivery of nutrients and suspended fine-grained sediments to receiving wetlands. River reintroductions may be an ideal restoration tool for targeting coastal swamp forest habitat; much of the area of swamp forest habitat in coastal Louisiana is undergoing saltwater intrusion, high rates of submergence, and lack of riverine flow leading to reduced concentrations of important nutrients and suspended sediments, which sustain growth and regeneration, help to aerate swamp soils, and remove toxic compounds from the rhizosphere. The State of Louisiana Coastal Protection and Restoration Authority (CPRA) has made it a priority to establish a small freshwater river diversion into a coastal swamp forest located between Baton Rouge and New Orleans, Louisiana, to reintroduce Mississippi River water to Maurepas Swamp. While a full understanding of how a coastal swamp forest will respond to new freshwater loading through a Mississippi River reintroduction is unknown, this report provides guidance based on the available literature for establishing performance measures that can be used for evaluating the effectiveness of a Mississippi River reintroduction into the forested wetlands of Maurepas Swamp (project PO-29 of the Coastal Wetlands Planning, Protection and Restoration Act) and aid in adaptive management of the project. PO-29 is a small river reintroduction in scope, and through its operation, it will provide information about the feasibility and reasonable expectations for future river reintroduction projects targeting coastal swamp forests in Louisiana. Located near Garyville, Louisiana, the Mississippi River reintroduction into Maurepas Swamp project is being designed to deliver a maximum flow of 57 cubic meters per second (m 3 /s) (or about 2,000 cubic feet per second [ft 3 /s]) directly from the river, but with a maximum flow through the outflow channel of 42 m 3 /s (or 1,500 ft 3 /s) available for at least half of the year. The river reintroduction will divert Mississippi River water through channelized flow and surface water to impact approximately 16,583 hectares (ha) of wetland habitat, much of which is swamp forest and swamp forest transitioning into marsh habitat. The Mississippi River reintroduction into Maurepas Swamp and associated outfall management features collectively should facilitate connectivity of water between the Mississippi River and the entire project area. At any given location, hydrologic connectivity should occur at intervals between twice yearly and once per decade, and hydrologic management must allow the potential for water drawdowns to foster tree regeneration every 3–13 years. The river reintroduction is also anticipated to maintain salinity in swamp forests dominated by Taxodium distichum (baldcypress) to less than 1.3 practical salinity units (psu) and maintain salinity in mixed baldcypress and Nyssa aquatica (water tupelo) swamp forests to less than 0.8 psu. The river reintroduction should promote soil surface elevation gains of 8–9 millimeters per year (mm/yr) (range, 4.9–12.1 mm/yr) to offset relative sea-level rise and keep total river water nitrate (NO 3 - ) loading into Maurepas Swamp to about 11.25 grams (g) of nitrogen (N) per square meter per year (m -2 yr -1 ) (range, 7.1–15.4 g N m -2 yr -1 ) to promote near complete uptake of NO 3 - by the vegetation in the receiving wetlands and reduce impacts to water quality in adjacent and connected water ways (for example, Blind River) and Lake Maurepas. With these performance measures maintained over time, we further expect swamp forest stands to realize improvements in stand density index of as much as 30–45 percent of maximum values for the stand type while maintaining an overstory leaf area index of 2.0–2.9 square meters per square meter or higher as swamp forests recover from decades of low flow, saltwater intrusion, reduced nutrients, and surface elevation deficits associated with isolation from the Mississippi River. Associated with these performance measures are two major uncertainties: (1) an assumption that we can rely on existing data, literature, and modeling from coastal swamp forests to establish these performance measures and (2) an unknown time frame for evaluating these performance measures. Some performance measures can be assessed quickly, such as those associated with hydrology and nutrient uptake. Some performance measures, such as changes in soil surface elevation and forest structural integrity, could take longer to assess. Once performance measures are assessed across different time scales, however, adjustments to operations of the Mississippi River reintroduction into Maurepas Swamp can be swift. The proposed performance measures are ideal targets, mostly without specific consideration of practical, operational constraints. The measures are intended to be the basis by which adaptive management of the diversion structures can be evaluated. The measures are defined without regard to current conditions so that project success can be evaluated on net outcomes rather than specific change from existing conditions. We expect that the Mississippi River reintroduction into Maurepas Swamp will slow degradation and extend the life of the swamp for decades to centuries.

Louisiana↗

USGS2020

Hydrogeology, numerical simulation of groundwater flow, and effects of future water use and drought for reach 1 of the Washita River alluvial aquifer, Roger Mills and Custer Counties, western Oklahoma, 1980–2015

The Washita River alluvial aquifer is a valley-fill and terrace alluvial aquifer along the valley of the Washita River in western Oklahoma that provides a productive source of groundwater for agricultural irrigation and water supply. The Oklahoma Water Resources Board (OWRB) has designated the westernmost section of the aquifer in Roger Mills and Custer Counties, Okla., as reach 1 of the Washita River alluvial aquifer; reach 1 is the focus of this report. The OWRB issued an order on November 13, 1990, that established the maximum annual yield (MAY; 120,320 acre-feet per year [acre-ft/yr]) and equal-proportionate-share (EPS) pumping rate (2.0 acre-feet per acre per year [(acre-ft/acre)/yr]) for reach 1 of the Washita River alluvial aquifer. The MAY and EPS were based on hydrologic investigations that evaluated the effects of potential groundwater withdrawals on groundwater availability in the Washita River alluvial aquifer. Every 20 years, the OWRB is statutorily required to update the hydrologic investigation on which the MAY and EPS were based. Because 30 years have elapsed since the last order was issued, the U.S. Geological Survey, in cooperation with the OWRB, conducted a new hydrologic investigation and evaluated the effects of potential groundwater withdrawals on groundwater flow and availability in the Washita River alluvial aquifer. The Washita River is the primary source of inflow to Foss Reservoir, a Bureau of Reclamation reservoir constructed in 1961 for flood control, water supply, and recreation. Foss Reservoir provides water for Bessie, Clinton, New Cordell, and Hobart, Okla. Nearly 98 percent of the total groundwater use from the Washita River alluvial aquifer during 1967 to 2015 was for irrigation; other uses of groundwater in the study area include public supply, mining, and agriculture. A hydrogeologic framework was developed for the Washita River alluvial aquifer and included the physical characteristics of the aquifer, the geologic setting, the hydraulic properties of hydrogeologic units, the potentiometric surface (water table), and groundwater-flow directions at a scale that captures the regional controls on groundwater flow. The Washita River alluvial aquifer consists of alluvium and terrace deposits that were transported primarily by water and range from clay to gravel in size. The terrace includes windblown deposits of silt size and, in some cases, contains gravel laid down at several levels along former courses of present-day rivers. A conceptual flow model is a simplified description of the aquifer system that includes hydrologic boundaries, major inflow and outflow sources of the groundwater-flow system, and a conceptual water budget with the estimated mean flows between those hydrologic boundaries. During the study period 1980–2015, mean annual groundwater withdrawals, predominantly used for agricultural irrigation, totaled 5,502 acre-ft/yr, or 14 percent of aquifer outflows. When applied across the 132-square-mile aquifer area used for modeling purposes (84,366 acres), mean annual recharge of 3.15 inches per year corresponds to a mean annual recharge volume of 22,169 acre-ft/yr, or 56 percent of aquifer inflows. The annual saturated-zone evapotranspiration outflow was 11,828 acre-ft/yr for the Washita River alluvial aquifer, or about 30 percent of aquifer outflows. For the Washita River alluvial aquifer, lateral flow was 17,157 acre-ft/yr, or 44 percent of the aquifer inflows. The conceptual flow model and hydrogeologic framework were used to conceptualize, design, and build the numerical groundwater-flow model. A numerical groundwater-flow model of the Washita River alluvial aquifer was constructed by using MODFLOW-2005. The Washita River alluvial aquifer groundwater-model grid was spatially discretized into 350-foot (ft) cells and two layers. Layer 1 represented the undifferentiated alluvium and terrace deposits of Quaternary age, and layer 2 represented the bedrock of Permian age, which was given a uniform nominal thickness of 100 ft. The groundwater-simulation period was temporally discretized into 433 monthly transient stress periods, representing January 1980 to December 2015. An initial 365-day steady-state stress period was configured to represent mean annual inflows and outflows from the Washita River alluvial aquifer for the study period. The groundwater-flow model was calibrated manually and by automated adjustment of model inputs by using PEST++. Calibration targets for the Washita River alluvial aquifer model included groundwater-level observations and reservoir-stage observations, as well as base-flow and stream-seepage estimates. Three groundwater-availability scenarios were used in the calibrated groundwater model to (1) estimate the EPS pumping rate that retains the saturated thickness that meets the minimum 20-year life of the aquifer, (2) quantify the effects of projected pumping rates on groundwater storage over a 50-year period, and (3) evaluate how projected pumping rates extended 50 years into the future and sustained hypothetical drought conditions over a 10-year period affect base flow and groundwater in storage. The results of the groundwater-availability scenarios could be used by the OWRB to reevaluate the established MAY of groundwater from the Washita River alluvial aquifer. EPS scenarios for the Washita River alluvial aquifer were run for periods of 20, 40, and 50 years. The 20-, 40-, and 50-year EPS pumping rates under normal recharge conditions were 1.7, 1.6, and 1.6 (acre-ft/acre)/yr, respectively. Given the aquifer area used for modeling purposes (84,366 acres), these rates correspond to annual yields of 142,579, 134,986, and 134,986 acre-ft/yr, respectively. Groundwater storage at the end of the 20-year EPS scenario was about 281,000 acre-feet (acre-ft), or about 306,000 acre-ft (52 percent) less than the starting storage. Considering the land-surface area of the Washita River alluvial aquifer and using a specific yield of 0.12, this decrease in storage was equivalent to a mean groundwater-level decline of about 30 ft. The Washita River downstream from Foss Reservoir and most of the streams in the study area were dry at the end of the 20-year EPS scenario. Foss Reservoir stage was below the dead-pool stage of 1,597 ft after about 7 years of pumping in the 20-year EPS scenario. Four projected 50-year groundwater-use scenarios were used to simulate the effects of selected well withdrawal rates on groundwater storage in the Washita River alluvial aquifer. These four scenarios used (1) no groundwater use, (2) groundwater use at the 2015 pumping rate, (3) mean groundwater use for the simulation period, and (4) increasing groundwater use. Groundwater storage after 50 years with no groundwater use was 545,249 acre-ft, or 693 acre-ft (0.1 percent) greater than the initial groundwater storage; this groundwater storage increase is equivalent to a mean groundwater-level increase of 0.1 ft. Groundwater storage at the end of the 50-year period with 2015 pumping rates was 543,831 acre-ft, or 723 acre-ft (0.1 percent) less than the initial storage; this groundwater storage decrease is equivalent to a mean groundwater-level decrease of 0.1 ft. Groundwater storage after 50 years with the mean pumping rate for the study period was 543,202 acre-ft, or 1,349 acre-ft (0.2 percent) less than the initial groundwater storage; this groundwater storage decrease is equivalent to a mean groundwater-level decrease of 0.1 ft. Groundwater storage at the end of the 50-year period with an increasing demand groundwater-pumping rate, which was 38 percent greater than the 2015 groundwater-pumping rate, was 542,584 acre-ft, or 1,967 acre-ft (0.4 percent) less than the initial storage; this groundwater storage decrease is equivalent to a mean groundwater-level decrease of 0.2 ft. A hypothetical 10-year-drought scenario was used to simulate the effects of a prolonged period of reduced recharge on groundwater storage in the Washita River alluvial aquifer and Foss Reservoir stage and storage. To simulate the hypothetical drought, recharge in the calibrated model was reduced by 50 percent during the simulated drought period (1983–1992). Groundwater storage at the end of the drought period in December 1992 was 562,000 acre-ft, or 36,000 acre-ft (6 percent) less than the groundwater storage of the calibrated groundwater model (598,000 acre-ft). At the end of the hypothetical drought, the largest changes in saturated thickness (as great as 43.5 ft) were in the area upgradient from Foss Reservoir, particularly in the terrace at the model boundary. Substantial decreases in the Foss Reservoir stage began during the fall of 1985 in conjunction with base-flow decreases of up to 100 percent at U.S. Geological Survey streamgage 07324200 Washita River near Hammon, Okla. These lake-stage declines outpaced groundwater-level declines in the surrounding aquifer. The minimum Foss Reservoir storage simulated during the drought period was 77,954 acre-ft, which was a decrease of 46 percent from the nondrought storage.

Oklahoma↗

USGS1996

Influences of environmental settings on aquatic ecosystems in the Apalachicola-Chattahoochee-Flint River basin

The watershed boundary of the Apalachicola-Chattahoochee-Flint (ACF) River basin defines an aquatic ecosystem whose water quality is the result of complex interactions of natural and human influences on land and water resources. Topics relating to the basin's environmental setting-its physical, biological, and cultural characteristics-are summarized to provide an understanding of factors that influence water quality and the health of aquatic ecosystems. The ACF River basin lies partly in southwestern Georgia, southeastern Alabama, and northwestern Florida and covers 19,800 square miles in the Blue Ridge, the Piedmont, and the Coastal Plain Provinces. The basin includes the drainages of the Chattahoochee River and the Flint River, which meet to form the Apalachicola River. The Apalachicola River flows into the Gulf of Mexico at Apalachicola Bay. Basin hydrology and water quality are influenced by 16 mainstem reservoirs, 13 of which are on the Chattahoochee River. Ground water in the basin is contained in six aquifers-the surficial aquifer system, the Floridan aquifer system, the Claiborne aquifer, the Clayton aquifer, the Providence aquifer, and the crystalline-rock aquifer. Physiography, climate, and hydrology of the ACF River basin provide natural conditions that support a rich and abundant diversity of plants and animals. Although most of the ACF River basin has been altered by human activities, the basin's environment is noteworthy for its remaining biological diversity and the role it plays in sustaining biological productivity in Apalachicola Bay. The Bay produces 90 percent of Florida's and 13 percent of the Nation's oyster harvest; and functions as a nursery for penaeid shrimp, blue crabs, and a variety of fin fish. The diversity of the basin's aquatic fauna is noteworthy because the basin is home to (1) the largest number of fish species among Gulf Coast drainages east of the Mississippi River, (2) the largest assemblage of freshwater fish in Florida, (3) the largest number of mollusc species among western Florida drainages, and (4) the highest species density of amphibians and reptiles on the continent north of Mexico. Population of the ACF River basin in 1990 was estimated at 2.6 million. Nearly 90 percent of the total population lived in Georgia, and nearly 60 percent lived in the Metropolitan Atlanta area. The 1990 basin population is projected to increase by 15 percent to 3.0 million by the year 2000, and by 30 percent to 3.4 million by 2010. The largest increases in populations are projected for the Metropolitan Atlanta area. In 1972-76, approximately 59 percent of the basin was covered by forest, 29 percent was agricultural, 5 percent was wetland, 4 percent was urban, and 3 percent was water or barren land. Most of the original land cover of the basin has been transformed by human activity. Timber is the basin's largest cash crop and most forests consist of second-growth stands or large acreages of planted pine. The dominant agricultural land use in the Piedmont Province is pasture and confined feeding for dairy, livestock, and poultry production. Row-crop agriculture, orchards, and silviculture are most common in the Coastal Plain Province. The top five crops in order from most to least acres harvested in 1990 were peanuts, corn, soybeans, wheat, and cotton. The water in the basin is used for public and industrial supply, irrigation, power generation, navigation, and recreation. Although most public-supply withdrawals in the Blue Ridge and Piedmont Provinces are from surface-water sources, with the exception of counties near or immediately below the Fall Line, all publicly supplied water in the Coastal Plain is withdrawn from ground-water sources. Ground water supplied 18 percent of the basin's population served by public supply. Total water withdrawn in the ACF River basin in 1990 was 2,098 million gallons per day (Mgal/d), of which Georgia withdrew 82 percent and Florida and Alabama each withdrew 9 percent. Power generation is the single largest water use. Sixteen of the basin's 22 power generating plants are located along the mainstem of the Chattahoochee River. The U.S. Army Corps of Engineers maintains a navigation channel from the mouth of the Apalachicola River to Columbus, Ga., on the Chattahoochee River and to Bainbridge, Ga., on the Flint River. Water quality in the basin is influenced by the operation of 137 municipal wastewater-treatment facilities. In 1990, 354 Mgal/d of municipal wastewater was discharged within the ACF River basin. Eighty-eight percent of the wastewater was discharged into the Chattahoochee River basin, 10.6 percent into the Flint River basin, and 1.4 percent into the Apalachicola River basin. Two-thirds of the 938 stream miles in the Georgia portion of the ACF River basin having water quality that does not meet or only partially meets the designated-use criteria in the Chattahoochee River basin. The Chattahoochee River is the most heavily-used water resource both in the ACF River basin and in Georgia. Urban runoff or unknown nonpoint sources are cited as the causes of water-quality regulations in 72 percent of violations. The remaining causes primarily are combined sewer overflows in the Atlanta area, and discharges from municipal or industrial treatment facilities with inadequate treatment capabilities or operational deficiencies.

Alabama, Florida, Georgia↗

USGS1998

Assessment of the hydraulic connection between ground water and the Peace River, west-central Florida

The hydraulic connection between the Peace River and the underlying aquifers along the length of the Peace River from Bartow to Arcadia was assessed to evaluate flow exchanges between these hydrologic systems. Methods included an evaluation of hydrologic and geologic records and seismic-reflection profiles, seepage investigations, and thermal infrared imagery interpretation. Along the upper Peace River, a progressive long-term decline in streamflow has occurred since 1931 due to a lowering of the potentiometric surface of the Upper Floridan aquifer by as much as 60 feet because of intensive ground-water withdrawals for phosphate mining and agriculture. Another effect from lowering the potentiometric surface has been the cessation of flow at several springs located near and within the Peace River channel, including Kissengen Spring, that once averaged a flow of about 19 million gallons a day. The lowering of ground-water head resulted in flow reversals at locations where streamflow enters sinkholes along the streambed and floodplain. Hydrogeologic conditions along the Peace River vary from Bartow to Arcadia. Three distinctive hydrogeologic areas along the Peace River were delineated: (1) the upper Peace River near Bartow, where ground-water recharge occurs; (2) the middle Peace River near Bowling Green, where reversals of hydraulic gradients occur; and (3) the lower Peace River near Arcadia, where ground-water discharge occurs. Seismic-reflection data were used to identify geologic features that could serve as potential conduits for surface-water and ground-water exchange. Depending on the hydrologic regime, this exchange could be recharge of surface water into the aquifer system or discharge of ground water into the stream channel. Geologic features that would provide pathways for water movement were identified in the seismic record; they varied from buried irregular surfaces to large-scale subsidence flexures and vertical fractures or enlarged solution conduits. Generally, the upper Peace River is characterized by a shallow, buried irregular top of rock, numerous observed sinkholes, and subsidence depressions. The downward head gradient provides potential for the Peace River to lose water to the ground-water system. Along the middle Peace River area, head gradients alternate between downward and upward, creating both recharging and discharging ground-water conditions. Seismic records show that buried, laterally continuous reflectors in the lower Peace River pinch out in the middle Peace River streambed. Small springs have been observed along the streambed where these units pinch out. This area corresponds to the region where highest ground-water seepage volumes were measured during this study. Further south, along the lower Peace River, upward head gradients provide conditions for ground-water discharge into the Peace River. Generally, confinement between the surficial aquifer and the confined ground-water systems in this area is better than to the north. However, localized avenues for surface-water and ground-water interactions may exist along discontinuities observed in seismic reflectors associated with large-scale flexures or subsidence features. Ground-water seepage gains or losses along the Peace River were quantified by making three seepage runs during periods of: (1) low base flow, (2) high base flow, and (3) high flow. Low and high base-flow seepage runs were performed along a 74-mile length of the Peace River, between Bartow and Nocatee. Maximum losses of 17.3 cubic feet per second (11.2 million gallons per day) were measured along a 3.2-mile reach of the upper Peace River. The high-flow seepage run was conducted to quantify losses in the Peace River channel and floodplain between Bartow and Fort Meade. Seepage losses calculated during high-flow along a 7.2-mile reach of the Peace River, from the Clear Springs Mine bridge to the Mobil Mine bridge, were approximately 10 percent of the river flow, or 118 cubic feet per second. Calculated seepages along the Peace River in Hardee and De Soto Counties were inconclusive, because most seepages were within the range of discharge measurement error. Two continuous aerial thermal infrared imagery surveys were conducted to locate sites of ground-water discharge along the Peace River. Although temperature and hydrologic conditions were ideal to observe spring flow using thermal infrared imaging techniques, no sources of ground-water discharge were identified using this method. Diffuse ground-water seepage may, however, provide significant ground-water discharge.

Florida↗

USGS1999

Nutrient and suspended-sediment concentrations, trends, loads, and yields from the nontidal part of the Susquehanna, Potomac, Patuxent, and Choptank rivers, 1985-96

The Chesapeake Bay River-Input Monitoring Program was established to characterize the water quality of four major rivers in Maryland, and to quantify the load and the long-term trends in concentrations of nutrients (nitrogen and phosphorus) and suspended sediment transported from the nontidal part of each river to the Chesapeake Bay. As part of the River-Input Monitoring Program, nutrient and suspended-sediment data and streamflow data were collected from 1985 through 1996 at the Susquehanna, Potomac, Patuxent, and Choptank Rivers above the points of tidal influence. The data were used to determine the effectiveness of strategies aimed at reducing nutrients entering Chesapeake Bay from its tributaries. Of the four rivers studied, the Patuxent River had the highest median concentrations of total nitrogen (2.6 milligrams per liter), total phosphorus (0.17 milligrams per liter), and suspended sediment (45 milligrams per liter) during the 12-year period. From 1985?96, flow-adjusted concentrations of total nitrogen decreased in all but the Potomac River, flow-adjusted concentrations of total phosphorus decreased in all four rivers, and flow-adjusted concentrations of suspended sediment decreased in all but the Susquehanna River. The rivers that contributed the greatest amount of streamflow to Chesapeake Bay, the Susquehanna and Potomac, also contributed the greatest nutrient loads and suspended-sediment loads to the Bay. The Susquehanna River transported the highest average-annual loads of total phosphorus (4.7 million pounds per year) and total nitrogen (146 million pounds per year), while the Potomac River transported the highest average-annual load of suspended sediment (4.1 billion pounds per year) to the Bay. Annual loads and annual mean streamflow were normalized by basin drainage area to account for some of the hydrologic differences among the river basins. An increase in precipitation from south to north is still apparent, however, when comparing the water yields among river basins. The Susquehanna River Basin had the highest median annual water yield during the study period; the other three basins all had similar water yields. The Susquehanna River and the Patuxent River had the highest median annual yields of nitrogen during the study period. The Patuxent River also had the highest median annual yield of total phosphorus during the study period, while the Potomac River had the highest median yield of suspended sediment. Annual yields of total phosphorus and suspended sediment from the Susquehanna and the Choptank River Basins are lower than those from the Potomac and Patuxent River Basins. These relatively small yields from the Susquehanna River may be due to the location of the sampling station below Conowingo Dam. A series of three dams upstream trap a large percentage of sediment and total phosphorus carried by the Susquehanna River to Chesapeake Bay.

Delaware, Maryland, New Jersey, New York, Pennsylv↗

USGS2019

Managed aquifer recharge in snow-fed river basins: What, why and how?

What does climate change mean for snow-fed river basins? Climate change poses unique challenges in snow-fed river basins across the western United States because the majority of water supply originates as snow (Dettinger, Udall, & Georgakakos, 2015). In the Sierra Nevada, recent observations include changes in snow accumulation and snowmelt, and shifts in peak streamflow timing (Barnhart et al., 2016; Hatchett et al., 2017; Kim & Jain, 2010; McCabe, Wolock, & Valentin, 2018; Mote, Li, Lettenmaier, Xiao, & Engel, 2018). Such changes upstream alter surface water deliveries downstream, as well as groundwater recharge utilized as both primary and supplemental water supply (Godsey et al., 2014; Harpold, 2016; Jasechko et al., 2014). basin where snowmelt runoff produces substantial water supply to meet diverse agricultural, environmental and urban water demand (Figure 1). The East and West Forks join at the confluence of the Carson River near the north end of the Carson Valley, a rich agricultural region (40,000 acres) that grows primarily alfalfa hay. The majority of irrigators rely on surface water delivered through a network of earthen ditches constructed in the mid-19th and early 20th centuries. Flow through these earthen networks and the practice of flood irrigation contribute significantly to groundwater recharge. Because no upstream surface water reservoirs exist, snowpack that accumulates through winter and melts slowly through spring has acted as a “natural” reservoir, providing ample supply through the summer irrigati agricultural, environmental and urban water demand (Figure 1). The East and West Forks join at the confluence of the Carson River near the north end of the season. Some irrigators have permitted access to supplemental groundwater that is useful during periods of drought for augmenting shortfalls in surface water delivery. Groundwater is the primary source of municipal and industrial water supply for surrounding communities (e.g., Carson City, Minden, Gardnerville, Dayton). Across the basin, water use is highly regulated through federal, tribal, state and local water-sharing agreements based on prior appropriation doctrine (Wilds, 2014). Carson River surface water allocations follow the Alpine Decree, initiated by the United States Department of Interior in 1925 and signed into law in 1980, following 55 years of litigation, to adjudicate surface water rights to individual parties (NDWP, 1999). The Alpine Decree acknowledges return flows to lower river segments, and thus each river segment is distributed autonomously. This means that the most junior water right on an upper segment can be fulfilled before considering the most senior water right on a lower segment. Ultimately, the ruling is at the discretion of the Federal Water Master to satisfy the needs of each water right Downstream of Carson Valley, surface water flows are stored in Lahontan Reservoir, the nation’s first desert reclamation project (est. 1906), where releases are managed to meet the Newland’s Project irrigation water demand and for environmental use on the Stillwater National Wildlife Refuge. Flows from the Carson River are supplemented through diversions from the Truckee River via the Truckee Canal, resulting in a trans-basin water supply system. How is the Water for the Seasons research program informing snow-fed river basin communities? In the Truckee-Carson River System, researchers and local water managers are working together to assess climate change impacts to water supply and explore how model simulations can produce useful information to support local climate adaptation. Twelve key water managers represent agricultural, environmental, urban and regulatory water-use communities, and bring to the table diverse input and perspectives on how to adapt to climate change. Hydrologists use this input to craft scenarios and simulations that meet the information needs of local water managers. Biannual workshops provide an opportunity for information exchange, where researchers and key water managers generate new knowledge of river system function. That is, researchers share results of models that examine the physical potential, and managers validate the on-the-ground potential, further informing the research process. Coincident to this research program, the region faced a prolonged drought period (2012-2016) with historically low snowpack, followed by a historic wet year (2017) that brought winter and spring flooding as a result of atmospheric river storm events (Sterle et al., 2019). For the Carson River, an important observation made by managers was that peak streamflow that had traditionally coincided with peak irrigation demands, had shifted to earlier in the spring, with summer baseflow also decreasing (Sterle & Singletary, 2017). Managers shared with researchers concerns over potential future impacts that changing snowpack will have on surface water deliveries and reliance on groundwater, as the region’s population and economy continue to grow. During workshops that occurred over this period, local water managers and researchers discussed ways to evaluate water distribution and use that honors the existing legal framework and accounts for changing snowpack regimes (amount, rain versus snow, timing). In response to managers growing interest, researchers introduced the concept of managed aquifer recharge as one potential strategy to adapt and enhance regional water sustainability. What is managed aquifer recharge? Simply stated, managed aquifer recharge is the intentional recharge of structures to spread water over agricultural lands, allowing water to naturally infiltrate into the groundwater system (Bouwer, 1999; Niswonger et al., 2017). The latter may occur during the irrigation season by applying excess water, or during the nonirrigation season when evapotranspiration losses are low. Figure 2 illustrates managed aquifer recharge in a snow-fed river basin, where streamflow generated from snowmelt runoff is diverted to agricultural lands to recharge the aquifer. Such flood irrigation practices, including water delivery through earthen ditch networks, provide incidental but significant aquifer recharge through seepage and deep drainage beneath fields (Niswonger, Allander, & Jeton, 2014). The effects of managed aquifer recharge can vary depending on the location and intensity of practice. For example, implementing managed aquifer recharge water into the groundwater system (Dillon, 2009). This differs from the incidental recharge that may occur as part of normal irrigation practices. Managed recharge may occur by injection into the aquifer through existingwells, or by using existing conveyance adjacent to/along the river’s floodplain has the potential to enhance late-season instream flows due to increased return flows, resulting in greater downstream deliveries as well as improving ecological conditions (Niswonger et al., 2017). Implementing managed aquifer recharge away from the river’s floodplain has the potential to enhance groundwater supply which is increasingly relied upon during surface water shortage (Green et al., 2011), by storing water in available aquifer space in the deep aquifer. At the basin scale, managed aquifer recharge may lead to regional groundwater sustainability. Is the Carson River Basin a candidate for managed aquifer recharge? The physical limitations to implementing managed aquifer recharge in the Carson River Basin hinges on three key factors. The first factor relates to the physical connectivity between rivers and streams, and the irrigation delivery network of canals and ditches that divert water to agricultural lands (Niswonger et al., 2017). In the Carson River Basin the mechanisms for getting water to fields is already in place. Thus, intentionally routing high flows that occur in wet years through this system during the nonirrigation season would mimic what occurs naturally during the irrigation season. The second factor relates to the occurrence of atmospheric river storm events that deliver large amounts of precipitation to the region, much greater than average (Dettinger et al., 2015). With increased frequency and intensity projected under a warmer climate, such events have the potential to produce excess water over short periods of time that could be stored through mechanisms such as managed aquifer recharge (Niswonger et al., 2017). The third factor relates to the change in snowpack accumulation and shifts in snowmelt timing observed elsewhere in the Sierra Nevada (e.g., Godsey et al., 2014; Mote et al., 2018). Having a mechanism in place to maximize use of earlier snowmelt and shifts in streamflow timing could be advantageous and enhance regional groundwater sustainability. As part of the Water for the Seasons study, a hypothetical scenario was developed to determine the feasibility of managed aquifer recharge in the Carson River Basin, assuming no legal constraints. During “wet” or above-average water years, irrigators in the Upper Carson Valley would divert high flows and spread water over agricultural lands during the nonirrigation season. Assuming flows are abundant and “early,” diversions would begin prior to the growing season, when water would otherwise flow downstream to the Lahontan Reservoir. During “dry” years or drought periods, when surface water availability is less, irrigators in the Upper Carson Valley could augment surface water shortages with groundwater, allowing available surface water flows to flow downstream. Researchers hypothesize the amount of water has the potential to boost baseflow to support environmental instream flows, for example. What concerns have local water managers expressed? The hypothetical managed aquifer recharge scenario was presented to water managers in a workshop setting. Presentations included an overview of the hydrologic and operations modeling tools used to evaluate managed aquifer recharge by simulating the timing and distribution of water in the upper watershed. Specifically, in the Upper Carson Valley, a hydrologic model (GSFLOW) simulates streamflow driven by snowmelt, and surface and groundwater interactions, while a river basin operations model (MODSIM) allocates water according to the prior appropriation doctrine in the basin (see Figure 1) (Morway, Niswonger, & Triana, 2016; Niswonger et al., 2017). Integrating these two modeling tools advances the evaluation of climate impacts on water availability in agricultural communities and the resulting impacts of alternative management strategies (Morway et al., 2016). When asked about the viability of managed aquifer recharge, the perspectives of 11 managers varied (Figure 3). Regardless of rating, all managers questioned, “How would thisreally work?” Several managers questioned whether models could simulate the connectivity between surface and groundwater to accurately quantify changes to instream flow. Others raised concerns that managed aquifer recharge violates the Alpine Decree and Nevada Water Law. Still others requested researchers consider alternatives that could work within the confines of current (2019) water law. Managers posed specific questions that should be considered when evaluating the potential for managed aquifer recharge. For example: What triggers implementation of managed aquifer recharge?How “high” or “low” must annual flows be to initiate managed aquifer recharge? When in the water year is this determined? Where exactly in the Carson Valley is managed aquiferre charge possible? For example, what areas away from the floodplain could ensure long-term storage? Can model simulations quantify potential benefits and consequences system-wide?Would this information support decision-making, such as permitting of additional supplemental groundwater rights? How are researchers going to address managers’ research questions? Managers’ perspectives help to validate the on-the-ground potential of particular strategies and further refine alternative management scenarios. For example, understanding that managers are concerned with oversaturated fields helps researchers to define conditions in the model, such as what defines a wet versus “too” wet type of year and where to focus irrigation for managed aquifer recharge. Incorporating these nuances provides more accurate quantification of the potential benefits and consequences for users across the basin. Modeling is underway to simulate managed aquifer recharge scenarios and explore basin-wide implications. Researchers and local water managers will convene to collaboratively review results and further assess whether this or other strategies could work under the confines of existing water law. Subsequent fact sheets will present these findings.

Nevada↗

USGS2018

Genetic integrity, population status, and long-term viability of isolated populations of shoal bass in the upper Chattahoochee River basin, Georgia

This report characterizes the status of multiple isolated Shoal Bass ( Micropterus cataractae ) populations in the upper Chattahoochee River basin (UCRB), Georgia. The Shoal Bass, a sport fish endemic to the Apalachicola-Chattahoochee-Flint River (ACF) basin, is a fluvial-specialist species considered vulnerable to local extirpations and extinction due to habitat fragmentation and introgression with non-native congeners. Perhaps one of the most isolated populations of Shoal Bass exists in a 2-km reach of Big Creek, a tributary of the Chattahoochee River located near Roswell, Georgia. Big Creek is partially contained within the Chattahoochee River National Recreation Area, although the Big Creek watershed is riddled with urban land cover. Roswell Mill Dam limits the upstream extent of the Shoal Bass population at Big Creek, and the downstream extent is presumably limited to the confluence of Big Creek and the Chattahoochee River. This reach of the Chattahoochee River is thermally depressed because of coldwater releases from Lake Lanier, and is considered unsuitable for Shoal Bass. Herein, we examine the genetic integrity, population status, and long-term viability of the Shoal Bass population in Big Creek. We also examine two additional Shoal Bass populations that occur in the UCRB, specifically the Chestatee River and the upper Chattahoochee River, both of which are impounded at Lake Lanier. Together, the Shoal Bass inhabiting these three stream systems comprise a distinct genetic stock of Shoal Bass (Taylor 2017), underscoring the importance of conserving these populations towards maintaining the overall diversity and adaptive potential of the species. We assessed genetic diversity and estimated effective population sizes within these three rivers by genotyping fish with 16 microsatellite DNA markers. Results demonstrated that the Shoal Bass population in Big Creek has experienced high rates of introgression with non-native Smallmouth Bass (M. dolomieu), purportedly introduced into the Chattahoochee River in the past 10-15 years. Alarmingly, only 24% (15 of 62) of putative Shoal Bass collected from Big Creek were genetically pure Shoal Bass, whereas the majority of fish were first-filial (F1) generation hybrids and unidirectional backcrosses towards Shoal Bass. Fleeting opportunity may remain to conserve the native genome of the Shoal Bass population in Big Creek. High hybridization rates prevented genetic diversity analysis for the Big Creek population. Shoal Bass populations in the Chestatee and Chattahoochee rivers displayed levels of genetic diversity similar to populations that persist in other rivers in the ACF basin, namely the Flint and Chipola rivers. Effective population sizes of 93.8– 197.4 for the Chestatee and Chattahoochee rivers (combined) suggest that the conservation status of these populations is stable for the short-term, but may be at risk of losing genetic diversity and adaptive potential in the long-term. To estimate age and mortality of the three populations, we used fish scales and capture-markrecapture (CMR) as complementary, non-lethal methods for age estimation. Estimated ages of phenotypic Shoal Bass ranged from 1-12 years in all three populations, demonstrating increased longevity compared to populations elsewhere within the native range. Catch-curve estimates of annual mortality ranged from 18.4-23.7%, which are markedly lower than those observed in other Shoal Bass populations in the ACF basin. These differences in life-history characteristics underscore the need for the development of population-specific management and conservation strategies for Shoal Bass in the UCRB. The lowest recruitment variability (i.e., the variation in year-class strength) was observed in the Chestatee River, a forested watershed, whereas the highest variability was observed in Big Creek, an urbanized watershed. Recruitment strength in Big Creek was negatively influenced by discharge variability in the summer months, suggesting that flashy, sediment-laden flows hinder survival of recently hatched young. Other statistically significant models from Big Creek and the Chattahoochee River indicated that over-winter survival could be an important pinch-point for recruitment in UCRB populations. A multi-agency sampling effort was conducted from May 2013-May 2016 to estimate the population size of Shoal Bass occupying the 1-km of wadeable shoal habitats in Big Creek. Using CMR models, we estimated that approximately 219-348 Shoal Bass (≥ 70 mm total length) occupied the area throughout the duration of our study. These estimates largely reflect abundance of individuals aged 0-2 years, as only 9% (36 of 408) tagged fish were aged ≥ 7 years. Local abundance appeared similar to that reported for a population that inhabited Little Uchee Creek, a similar-sized tributary of the Chattahoochee River, prior to its recent functional extirpation. The low abundance of large, adult Shoal Bass further suggests the long-term viability of the Big Creek population may be in jeopardy. Perhaps most importantly, CMR estimates reflect abundance of phenotypic Shoal Bass – genetic analyses suggest the abundance of pure Shoal Bass could be an order of magnitude smaller. To evaluate the potential for adult Shoal Bass to emigrate from Big Creek into the mainstem Chattahoochee River, we tagged eight adults with acoustic telemetry tags and assessed their seasonal residency at two stationary receiver locations located in increasing proximity to the confluence with the Chattahoochee River. Fish took up residency near the confluence during the fall and winter months, during which time water temperatures in Big Creek were periodically colder than the Chattahoochee River. Although we were unable to document emigration, we conclude that the potential for emigration is highest during the winter months when the Chattahoochee River may be warmer than Big Creek. Two of the tagged fish were caught by anglers near the confluence, suggesting that angling pressure at Big Creek may be higher than previously suspected. Overall, this study observed unique life-history characteristics and characterized the population status of multiple Shoal Bass populations in the UCRB. Populations in the Chestatee and Chattahoochee rivers appear stable at present and likely represent the last remaining strongholds for pure Shoal Bass in the UCRB. Efforts to preserve forested watershed conditions, natural hydrology, and shoal habitats would contribute to the long-term persistence of Shoal Bass populations in these two rivers. Additionally, the detection of non-native Alabama Bass and their associated hybrids in both rivers is cause for concern. Diligent monitoring of hybridization dynamics between Alabama Bass and Shoal Bass is warranted, along with an assessment of Alabama Bass invasion extent upstream of Lake Lanier. The Shoal Bass population in Big Creek is threatened by elevated levels of introgression with nonnative Smallmouth Bass, recruitment variability, low abundance of adults, and isolation from other populations. Conservation intervention is urgently needed to restore and preserve this genetically distinct population, which would contribute to preservation of range wide genetic diversity and adaptability of the species. Additionally, an urban sport fishery for Shoal Bass at Big Creek has the potential to serve as a tool for increasing public awareness, engagement, and support of Shoal Bass conservation efforts in the UCRB. We suggest strategies for conservation of the remnant shoal habitats and Shoal Bass population in Big Creek, including potential development of a supplemental stocking program, selective removal of non-native congeners, and delivery of environmental education programs that could bolster awareness and appreciation.

Georgia↗

USGS2005

Water resources and the urban environment, lower Charles River watershed, Massachusetts, 1630-2005

The Charles River, one of the Nation’s most historically significant rivers, flows through the center of the Boston metropolitan region in eastern Massachusetts. The lower Charles River, downstream of the original head of tide in Watertown, was originally a productive estuary and important source of fish and shellfish for the Native Americans of the region. This portion of the river has an exceptionally long and colorful human history. In 1615, the explorer Captain John Smith gave the river its modern name, in honor of young Prince Charles of England. In 1617–18, the Native American community of the watershed was decimated by an epidemic, after having continuously occupied the area for the previous 4,000 years. In 1630, the first large group of English settlers, led by John Winthrop, set foot on the Shawmut Peninsula at the mouth of the river, and established the town of Boston. In the 1630s, the first printing press, public park, public school, and college in the English colonies were all established on the banks of the Charles River. Almost immediately, the settlers of Boston and adjacent towns also began to modify the landscape and water resources of the watershed. Perhaps the most important type of landscape alteration in the watershed was the filling of the extensive salt marshes and tidal flats of the estuary downstream of Watertown. This landmaking activity along the lower Charles River began in the mid-1600s, and did not conclude until the 1950s. In the early 20th century, the estuary mouth was dammed, creating a freshwater basin in the lower 9.5 miles of the river. A system of parks and parkways was built along the banks of the impounded river. In addition to the mainstem river, virtually all of the remaining water resources in the watershed have also been altered. Most of the river’s tributaries, for example, were culverted, or placed into tunnels, and many of the ponds and freshwater wetlands in the watershed were filled to facilitate urban development. One additional legacy of the river’s long human history is pollution from industry and sewage. By 1875, a total of 43 mills were operating along the lower Charles River between Watertown Dam and Boston Harbor. Thousands of gallons of untreated sewage and industrial wastewater entered the river daily through gravity drains, posing a major threat to public health. Concerted efforts to address the sewage problem began in the late 1870s. By the 1960s, the water quality of the river was significantly improved, yet still not suitable for swimming, fishing, or even boating under most conditions. In 1965, the Charles River Watershed Association was organized and the call to restore the environmental quality of the river and its parklands was heard anew. Passage of the Federal Clean Water Act in 1972 and the subsequent court-ordered reconstruction of the region’s sewage-treatment infrastructure in the 1980s and 1990s (the “Boston Harbor Cleanup”) provided additional impetus to address the river’s remaining pollution problems. In 1995, the U.S. Environmental Protection Agency launched the Clean Charles 2005 Initiative, which brought together government agencies, private-sector institutions, and environmental organizations to focus on restoring the river to fishable and swimmable conditions by Earth Day 2005. This initiative has achieved substantial improvements in water quality; sewage discharges to the river, for example, have been largely eliminated. Nevertheless, it is now widely acknowledged that full attainment of water-quality standards will likely depend upon improved public understanding of the watershed, continued efforts to eliminate illicit sewage discharges to the river, and better management of the urban runoff that enters the river both directly and from its many tributary streams.

Massachusetts↗

USGS2023

Application of the Stream Salmonid Simulator (S3) model to assess fall Chinook salmon (Oncorhynchus tshawytscha) production in the American River, California

Executive Summary Anadromous fish returning to the lower American River are restricted to 36 kilometers of free-flowing river between Nimbus Dam and American River’s confluence with the Sacramento River, California. Salmon in the American River provide an important freshwater recreational fishery. However, annual salmon production in the American River in recent years has been low relative to the mid-1990s (Surface Water Resources, Inc., 2001). To investigate the low production of fall-run Chinook salmon ( Oncorhynchus tshawytscha ), the Bureau of Reclamation requested that the U.S. Geological Survey apply the Stream Salmonid Simulator (S3) model to the population of fall-run Chinook salmon on the American River. The American River was chosen among seven candidate Sacramento Basin rivers for S3 application. The American River was selected because of its management and public interest, recently low anadromous fish production, and rich time series of key demographic data needed for S3 application. Data that were not available, however, were empirical estimates on juvenile salmon habitat suitability in the American River. Therefore, a large component of applying S3 to the American River was devoted to the estimation of juvenile salmon habitat suitability and capacity. This entailed snorkeling the lower American River for 3 weeks in March 2021 during the early out-migration period for juvenile Chinook salmon. These efforts were fruitful and showed that the typically small fish (<55 millimeters) in the American River preferred much shallower depths than predicted by habitat suitability criteria derived from the literature for this population. Having empirical estimates on juvenile salmon in the American River provided a solid foundation from which to simulate the population using the S3 model. The S3 model is a spatially explicit population model that runs on a daily time step to simulate redd superimposition, egg maturation, fry emergence and the subsequent growth, survival, and emigration of juvenile Chinook salmon from the river. The key features of this model relevant to this report include (1) a temperature-dependent bioenergetics model driving daily growth rates; (2) density-dependent dynamics that are influenced by the effect of flow on suitable habitat area; and (3) within-year habitat, river flow, and water temperature effects specific to spawning, egg incubation, and fry, parr, and smolt life stages. We used estimates of spawning escapement and geo-referenced redd locations to quantify the spatial and temporal distribution of female spawners for brood years 2014–19. These estimates of female spawners initiate the simulation of each year’s juvenile salmon emergence and emigration over a spatial domain extending from Nimbus Dam to the river’s confluence with the Sacramento River. Using weekly estimates of juvenile salmon abundance and size (fork length) that passed the Watt Avenue fish trap (river kilometer 14.7), we calibrated the S3 model by estimating three key demographic parameters for each year, y : (1) S y , the average daily survival probability, (2) M 0y , the intercept for density-dependence in movement, representing the average daily probability of remaining in a habitat at zero abundance, and (3) C y , the average daily proportion of maximum consumption. These parameters were obtained by minimizing the Mallow’s distance (Lupu and others, 2017) between distributions of weekly abundances and sizes of fish at the traps and weekly simulated abundances and sizes (by S3). Investigation of model fit showed excellent agreement between simulated annual abundances and the abundance of fish passing the fish trap. However, when we compared weekly abundances at the fish trap, S3 under-predicted peaks and over-predicted troughs in the time series of weekly abundances at the fish trap. Thus, some unknown within-year effects have yet to be identified and incorporated in the S3 model. Identifying these important effects and incorporating them in the S3 model would help explain the lack of fit between estimated and simulated weekly abundances. We estimated parameters for 6 years that included a wide range of female spawner abundances (3,057–10,753) and water year types (Critical–Wet). We contrast our estimated parameters to the corresponding number of female spawners and the water year type for the Sacramento Valley. By happenstance, years having higher annual spawner abundances concurred with Critical to Dry water year types. Estimates of survival trended lower with higher spawner abundances and Critical to Dry conditions. In contrast, the extremely wet water year of 2017 had the lowest M 0y , suggesting less density-dependence in fish movement, and the lowest C y , suggesting lower average consumption in this year. When this high-flow year was excluded, a trend towards higher probabilities of fish remaining in a habitat at low abundance and lower proportions of maximum consumption was apparent from Critical to Wet conditions, but only 5 years of data were included. Except for 2017, daily proportions of maximum consumption were relatively high ( C y > 0.83), suggesting that fish were feeding at reasonably high proportions relative to the expected maximum consumption as defined by the “Wisconsin” bioenergetics model (Stewart and Ibarra, 1991). Survival estimates from fry emergence to outmigration at the Sacramento River confluence were generally low when integrated over time. The highest daily survival probability was S y = 0.93 in 2019, or 50 percent total mortality after 10 days. In contrast, our lowest daily survival probability was S y = 0.74 in 2015, or 95 percent total mortality after 10 days. Consequently, even our highest estimated daily survival probability might be considered low. This is especially true given that S y was estimated over a relatively short distance (<14.7 kilometers) from emergence to the Watt Avenue fish trap. Several factors, including our assumed and relatively high daily egg survival rate of 0.9975, could influence juvenile survival estimates. For example, an egg survival rate of 0.9975 results in 3-percent total mortality after 10 days. Egg mortality estimates used in S3 calibration were approximated from egg survivorship studies in the Yakima River, Washington (Johnson and others, 2012), and remains one of the greater uncertainties in S3 when estimating survival across life stages. By including bona fide estimates of egg survival in S3 simulations, the validity of the S3’s current daily egg survival rate could be assessed specifically for the American River. Tagging studies also could provide S3 with direct estimates of juvenile survival and movement; survival during egg incubation then could be estimated indirectly via model fitting.

California↗

USGS1996

Geomorphology of the lower Copper River, Alaska

The Copper River, located in southcentral Alaska, drains an area of more than 24,000 square miles. About 30 miles above its mouth, this large river enters Miles Lake, a proglacial lake formed by the retreat of Miles Glacier. Downstream from the outlet of Miles Lake, the Copper River flows past the face of Childs Glacier before it enters a large, broad, alluvial flood plain. The Copper River Highway traverses this flood plain and in 1996, 11 bridges were located along this section of the highway. These bridges cross parts or all of the Copper River and in recent years, some of these bridges have sustained serious damage due to the changing course of the Copper River. Although the annual mean discharge of the lower Copper River is 57,400 cubic feet per second, most of the flow occurs during the summer months from snowmelt, rainfall, and glacial melt. Approximately every six years, an outburst flood from Van Cleve Lake, a glacier-dammed lake formed by Miles Glacier, releases approximately 1 million acre-feet of water into the Copper River. At the peak outflow rate from Van Cleve Lake, the flow of the Copper River will increase an additional 140,000 and 190,000 cubic feet per second. Bedload sampling and continuous seismic reflection were used to show that Miles Lake traps virtually all the bedload being transported by the Copper River as it enters the lake from the north. The reservoir-like effect of Miles Lake results in the armoring of the channel of the Copper River downstream from Miles Lakes, past Childs Glacier, until it reaches the alluvial flood plain. At this point, bedload transport begins again. The lower Copper River transports 69 million tons per year of suspended sediment, approximately the same quantity as the Yukon River, which drains an area of more than 300,000 square miles. By correlating concurrent flows from a long-term streamflow- gaging station on the Copper River with a short-term streamflow-gaging station at the outlet of Miles Lake, long-term flow characteristics of the lower Copper River were synthesized. Historical discharge and cross-section data indicate that as late as 1970, most of the flow of the lower Copper River was through the first three bridges of the Copper River Highway as it begins to traverse the alluvial flood plain. In the mid 1980's, a percentage of the flow had shifted away from these three bridges and in 1995, only 51 percent of the flow of the Copper River passed through them. Eight different years of aerial photography of the lower Copper River were analyzed using Geographical Information System techniques. This analysis indicated that no major channel changes were caused by the 1964 earthquake. A flood in 1981 that had a recurrence interval of more than 100 years caused significant channel changes in the lower Copper River. A probability analysis of the lower Copper River indicated stable areas and the long-term locations of channels. By knowing the number of times a particular area has been occupied by water and the last year an area was occupied by water, areas of instability can be located. A Markov analysis of the lower Copper River indicated that the tendency of the flood plain is to remain in its current state. Large floods of the magnitude of the 1981 event are believed to be the cause of major changes in the lower Copper River.

Open-File Report↗