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Conservation Reserve Program (CRP) contributions to wildlife habitat, management issues, challenges and policy choices--an annotated bibliography

The following bibliography presents brief summaries of documents relevant to Conservation Reserve Program relations to wildlife habitat, habitat management in agriculturally dominated landscapes, and conservation policies potentially affecting wildlife habitats in agricultural ecosystems. Because the literature summaries furnished provide only sweeping overviews, users are urged to obtain and evaluate those papers appearing useful to obtain a more complete understanding of study findings and their implications to conservation in agricultural ecosystems. The bibliography contains references to reports that reach beyond topics that directly relate to the Conservation Reserve Program. Sections addressing grassland management and landowner surveys/opinions, for example, furnish information useful for enhancing development and administration of conservation policies affecting lands beyond those enrolled in conservation programs. Some sections of the bibliography (for example, agricultural conservation policy, economics, soils) are far from inclusive of all relevant material written on the subject. Hopefully, these sections will serve as fundamental introductions to related issues. In a few instances, references may be presented in more than one section of the bibliography. For example, individual papers specifically addressing both non-game and game birds are included in respective sections of the bibliography. Duplication of citations and associated notes has, however, been kept to a minimum.

Scientific Investigations Report

Core descriptions, core photographs, physical property logs and surface textural data of sediment cores recovered from the continental shelf of the Monterey Bay National Marine Sanctuary during the research cruises M-1-95-MB, P-2-95-MB, and P-1-97-MB

In response to the 1992 creation of the Monterey Bay National Marine Sanctuary (MBNMS), the United States Geological Survey (USGS) initiated a multiyear investigation of the Sanctuary continental margin. As part of the investigative effort, this report summarizes the shipboard procedures, subsequent laboratory analyses, and data results from three seafloor sampling cruises conducted on the continental shelf between Monterey peninsula, CA and San Francisco, CA. The cruises were conducted in 1995 aboard the NOAA Ship McArthur (M-1-95-MB) and in 1995 and 1997 aboard the R/V Point Sur (P-2-95-MB and P-1-97-MB). Scientists and representatives from the Environmental Protection Agency (EPA), the National Oceanic and Atmospheric Administration (NOAA), the California Department of Fish and Game (CDFG), the University of California Santa Cruz (UCSC), and the San Jose State University Moss Landing Marine Laboratory (SJSU-MLML) supported the research effort. In this report we present sediment descriptions, sediment textural data, physical property logs, station metadata, and photographs of subcores from a total of three hundred and eighty four sample stations. At these sites either a box corer, MultiCore™r, grab sampler or a combination of these sampling devices were used to collect the sea floor sediments. The report is presented in an interactive web-based format with each mapped core station linked to the corresponding description and photo, and to a spreadsheet of surface texture and other sampling data.

California

Geochemical evidence of groundwater flow paths and the fate and transport of constituents of concern in the alluvial aquifer at Fort Wingate Depot Activity, New Mexico, 2009

As part of an environmental investigation at Fort Wingate Depot Activity, New Mexico, the U.S. Geological Survey, in cooperation with the U.S. Army Corps of Engineers, interpreted aqueous geochemical concentrations to better understand the groundwater flow paths and the fate and transport of constituents of concern in the alluvial aquifer underlying the study area. The fine-grained nature of the alluvial matrix creates a highly heterogeneous environment, which adds to the difficulty of characterizing the flow of groundwater and the fate of aqueous constituents of concern. The analysis of the groundwater geochemical data collected in October 2009 provides evidence that is used to identify four groundwater flow paths and their extent in the aquifer and indicates the dominant attenuation processes for the constituents of concern. The extent and interaction of groundwater flow paths were delineated by the major ion concentrations and their relations to each other. Four areas of groundwater recharge to the study area were identified based on groundwater elevations, hydrogeologic characteristics, and geochemical and isotopic evidence. One source of recharge enters the study area from the saturated alluvial deposits underlying the South Fork of the Puerco River to the north of the study area. A second source of recharge is shown to originate from a leaky cistern containing production water from the San Andres-Glorieta aquifer. The other two sources of recharge are shown to enter the study area from the south: one from an arroyo valley draining an area to the south and one from hill-front recharge that passes under the reported release of perchlorate and explosive constituents. The spatial extent and interaction of groundwater originating from these various sources along identified flow paths affect the persistence and attenuation of constituents of concern. It was determined that groundwater originating in the area of a former explosives’ wash-out operation and an accidental spill of perchlorate was spatially limited, and that dilution is the primary attenuation process for these constituents. The explosive concentrations of the nitramine 1,3,5-trinitroperhydro-1,3,5-triazine (RDX) and the oxidizer perchlorate both support that determination. Unlike RDX and perchlorate, there were no detectable concentrations of trinitrotoluene (TNT) in the aquifer. Based on the chemical nature of TNT and the redox conditions found in the aquifer, it is interpreted that TNT is lost to irreversible sorption and aerobic degradation. Nitrate was ubiquitous in the alluvial groundwater in October 2009. The nitrate concentrations in wells associated with the explosives’ groundwater flow path indicate attenuation primarily through dilution, similar to that of RDX. The origin of nitrate concentrations in the wells located in the Administration Area is uncertain but may have resulted from the leakage of aging clay sewage pipes that service most of the structures within that area or as a relic of a former hydrologic regime in which water from the washout operation migrated across a broader area. Sufficient data do not exist to definitively identify the location(s) of water discharge in this area, but transpiration from near the Administration Area is supported by the geochemical concentrations.

New Mexico

A recombinant raccoon poxvirus vaccine expressing both Yersinia pestis F1 and truncated V antigens protects animals against lethal plague.

In previous studies, we demonstrated in mice and prairie dogs that simultaneous administration of two recombinant raccoon poxviruses ( r RCN) expressing Yersinia pestis antigens (F1 and V307-a truncated version of the V protein) provided superior protection against plague challenge compared to individual single antigen constructs. To reduce costs of vaccine production and facilitate implementation of a sylvatic plague vaccine (SPV) control program for prairie dogs, a dual antigen construct is more desirable. Here we report the construction and characterization of a novel RCN-vectored vaccine that simultaneously expresses both F1 and V307 antigens. This dual antigen vaccine provided similar levels of protection against plague in both mice and prairie dogs as compared to simultaneous administration of the two single antigen constructs and was also shown to protect mice against an F1 negative strain of Y. pestis. . The equivalent safety, immunogenicity and efficacy profile of the dual RCN-F1/V307 construct warrants further evaluation in field efficacy studies in sylvatic plague endemic areas.

Vaccines

NOAA-USGS Debris-Flow Warning System - Final Report

Landslides and debris flows cause loss of life and millions of dollars in property damage annually in the United States (National Research Council, 2004). In an effort to reduce loss of life by debris flows, the National Oceanic and Atmospheric Administration's (NOAA) National Weather Service (NWS) and the U.S. Geological Survey (USGS) operated an experimental debris-flow prediction and warning system in the San Francisco Bay area from 1986 to 1995 that relied on forecasts and measurements of precipitation linked to empirical precipitation thresholds to predict the onset of rainfall-triggered debris flows. Since 1995, there have been substantial improvements in quantifying precipitation estimates and forecasts, development of better models for delineating landslide hazards, and advancements in geographic information technology that allow stronger spatial and temporal linkage between precipitation forecasts and hazard models. Unfortunately, there have also been several debris flows that have caused loss of life and property across the United States. Establishment of debris-flow warning systems in areas where linkages between rainfall amounts and debris-flow occurrence have been identified can help mitigate the hazards posed by these types of landslides. Development of a national warning system can help support the NOAA-USGS goal of issuing timely Warnings of potential debris flows to the affected populace and civil authorities on a broader scale. This document presents the findings and recommendations of a joint NOAA-USGS Task Force that assessed the current state-of-the-art in precipitation forecasting and debris-flow hazard-assessment techniques. This report includes an assessment of the science and resources needed to establish a demonstration debris-flow warning project in recently burned areas of southern California and the necessary scientific advancements and resources associated with expanding such a warning system to unburned areas and, possibly, to a national scope.

Circular

Wind River Watershed Restoration: Annual Report April 2005 - March 2006

This report summarizes work completed by U.S. Geological Survey’s Columbia River Research Laboratory (USGS-CRRL) in the Wind River subbasin during the period April 2005 through March 2006 under Bonneville Power Administration (BPA) contract 22095. During this period, we collected temperature, flow, and habitat data to characterize habitat condition and variation within and among tributaries and mainstem sections in the Wind River subbasin. We also conducted electrofishing and snorkeling surveys to determine juvenile salmonid populations within select study areas throughout the subbasin. Portions of this work were completed with additional funding from U.S. Fish and Wildlife Service (USFWS) and the Lower Columbia Fish Enhancement Group (LCFEG).

Washington

Utah water use data: Public water supplies, 1960-1978

This report was prepared as a part of the Statewide cooperative water-resources investigation program administered jointly by the Utah Department of Natural Resources, Division of Water Rights and the United States Geological Survey. The program is conducted to meet the water administration and water-resources data needs of the State, as well as the water information needs of many units of government and the general public.

Utah

Twenty-seventh annual report of the Director of the United States Geological Survey

During the last fiscal year the character of the work and the organization of the force remained substantially the same as described in the Twenty-sixth Annual Report. Accounts of the work performed in geology and paleontology, chemistry and physics, topography and geography, and hydrography, hydrology, and hydro-economics, as well as in the lines of publication and administration, will be found on later pages. Appropriations and allotments .--A plan of operations, including an itemized statement of the appropriations, amounting to $1,513,482.30, and the allotments thereof, was approved by the Secretary of the Interior on May 15, 1905. The work of the year conformed to this plan, copies of which are on file at the Department and the Survey. State cooperation .--Many of the States, following a well-established policy, cooperated with the National Survey in geologic, topographic, and hydrographic work; details are given on pages 12, 29, 72, and 74.

Annual Report

Wind River Watershed Restoration: Annual report April 2006 to March 2007

This report summarizes work completed by U.S. Geological Survey’s Columbia River Research Laboratory (USGS-CRRL) in the Wind River subbasin during the period April 2006 through March 2007 under Bonneville Power Administration (BPA) contract 26922. During this period, we collected temperature, flow, and habitat data to characterize physical habitat condition and variation within and among tributaries and mainstem sections in the Wind River subbasin. We also conducted electrofishing and snorkeling surveys to determine juvenile salmonid populations within select study areas throughout the subbasin. Portions of this work were completed with additional funding from U.S. Fish and Wildlife Service (USFWS) and the Lower Columbia Fish Enhancement Group (LCFEG). Funding from USFWS was for work to contribute to a study of potential interactions between introduced Chinook salmon Oncorhynchus tshawytscha and wild steelhead O. mykiss. Funding from LCFEG was for work to evaluate the effects of nutrient enrichment in small streams. A statement of work (SOW) was submitted to BPA in March 2006 that outlined work to be performed by USGS-CRRL. The SOW was organized by work elements, with each describing a research task. This report summarizes the progress completed under each work element.

Washington

Procedures for scour assessments at bridges in Pennsylvania

Scour is the process and result of flowing water eroding the bed and banks of a stream. Scour at nearly 14,300 bridges(1) spanning water, and the stability of river and stream channels in Pennsylvania, are being assessed by the U.S. Geological Survey (USGS) in cooperation with the Pennsylvania Department of Transportation (PennDOT). Procedures for bridge-scour assessments have been established to address the needs of PennDOT in meeting a 1988 Federal Highway Administration mandate requiring states to establish a program to assess all public bridges over water for their vulnerability to scour. The procedures also have been established to help develop an understanding of the local and regional factors that affect scour and channel stability. This report describes procedures for the assessment of scour at all bridges that are 20 feet or greater in length that span water in Pennsylvania. There are two basic types of assessment: field-viewed bridge site assessments, for which USGS personnel visit the bridge site, and office-reviewed bridge site assessments, for which USGS personnel compile PennDOT data and do not visit the bridge site. Both types of assessments are primarily focused at assisting PennDOT in meeting the requirements of the Federal Highway Administration mandate; however, both assessments include procedures for the collection and processing of ancillary data for subsequent analysis. Date of bridge construction and the accessibility of the bridge substructure units for inspection determine which type of assessment a bridge receives. A Scour-Critical Bridge Indicator Code and a Scour Assessment Rating are computed from selected collected and compiled data. PennDOT personnel assign the final Scour-Critical Bridge Indicator Code and a Scour Assessment Rating on the basis of their review of all data. (1)Words presented in bold type are defined in the Glossary section of this report.

Open-File Report

Ground-water resources of northern Juab Valley, Utah

This report gives the results of an investigation of the ground-water resources of northern Juab Valley, Utah, that was carried out between June 1964 and July 1966, by the U. S. Geological Survey in cooperation with the Utah State Engineer. The study was made in order to provide water users, administrators, and other interested parties with information on the character and extent of the water-bearing formations and the origin, quantity, movement, availability, chemical quality, and use of ground water in the valley.

Utah

Development of a comprehensive watershed model applied to study stream yield under drought conditions

We developed a model code to simulate a watershed's hydrology and the hydraulic response of an interconnected stream-aquifer system, and applied the model code to the Lower Republican River Basin in Kansas. The model code links two well-known computer programs: MODFLOW (modular 3-D flow model), which simulates ground water flow and stream-aquifer interaction; and SWAT (soil water assessment tool), a soil water budget simulator for an agricultural watershed. SWAT represents a basin as a collection of subbasins in terms of soil, land use, and weather data, and simulates each subbasin on a daily basis to determine runoff, percolation, evaporation, irrigation, pond seepage, and crop growth. Because SWAT applies a lumped hydrologic model to each sub-basin, spatial heterogeneities with respect to factors such as soil type and land use are not resolved geographically, but can instead be represented statistically. For the Republican River Basin model, each combination of six soil types and three land uses, referred to as a hydrologic response unit (HRU), was simulated with a separate execution of SWAT. A spatially weighted average was then taken over these results for each hydrologic flux and time step by a separate program, SWBAVG. We wrote a package for MODFLOW to associate each subbasin with a subset of aquifer grid cells and stream reaches, and to distribute the hydrologic fluxes given for each subbasin by SWAT and SWBAVG over MODFLOW's stream-aquifer grid to represent tributary flow, surface and ground water diversions, ground water recharge, and evapotranspiration from ground water. The Lower Republican River Basin model was calibrated with respect to measured ground water levels, streamflow, and reported irrigation water use. The model was used to examine the relative contributions of stream yield components and the impact on stream yield and base flow of administrative measures to restrict irrigation water use during droughts. Model results indicate that tributary flow is the dominant component of stream yield and that reduction of irrigation water use produces a corresponding increase in base flow and stream yield. However, the increase in stream yield resulting from reduced water use does not appear to be of sufficient magnitude to restore minimum desirable streamflows.

Groundwater

Archive of post-Hurricane Isabel coastal oblique aerial photographs collected during U.S. Geological Survey Field Activity 03CCH01 from Ocean City, Maryland, to Fort Caswell, North Carolina and Inland from Waynesboro to Redwood, Virginia, September 21 - 23, 2003

On September 21 - 23, 2003, the United States Geological Survey (USGS) conducted an oblique aerial photographic survey along the Atlantic coast from Ocean City, Md., to Fort Caswell, N.C., and inland oblique aerial photographic survey from Waynesboro to Redwood, Va., aboard a Navajo Piper twin-engine airplane. The coastal survey was conducted at an altitude of 500 feet (ft) and approximately 1,000 ft offshore. For the inland photos, the aircraft tried to stay approximately 500 ft above the terrain. These coastal photos were used to document coastal changes like beach erosion and overwash caused by Hurricane Isabel, while the inland photos looked for potential landslides caused by heavy rains. The photos may also be used as baseline data for future coastal change analysis. The USGS and the National Aeronautics and Space Administration (NASA) surveyed the impact zone of Hurricane Isabel to better understand the changes in vulnerability of the Nation’s coasts to extreme storms (Morgan, 2009). This report serves as an archive of photographs collected during the September 21 - 23, 2003, post-Hurricane Isabel coastal and inland oblique aerial survey along with associated survey maps, KML files, navigation files, digital Field Activity Collection System (FACS) logs, and Federal Geographic Data Committee (FGDC) metadata. Refer to the Acronyms page for expansions of all acronyms and abbreviations used in this report. The USGS St. Petersburg Coastal and Marine Science Center (SPCMSC) assigns a unique identifier to each cruise or field activity. For example, 03CCH01 tells us the data were collected in 2003 for the Coastal Change Hazards (CCH) study and the data were collected during the first field activity for that project in that calendar year. Refer to http://walrus.wr.usgs.gov/infobank/programs/html/definition/activity.html for a detailed description of the method used to assign the ID number. The photographs provided here are Joint Photographic Experts Group (JPEG) scanned images of the analog 35 millimeter (mm) color positive slides. The photograph locations are estimates of the location of the plane (see the Navigation page). The metadata values for photo creation time, GPS latitude, GPS longitude, GPS position (latitude and longitude), keywords, credit, artist, caption, copyright, and contact were added to each photograph's EXIF header using EXIFtool (Subino and others, 2012). Photographs can be opened directly with any JPEG-compatible image viewer by clicking on a thumbnail on the contact sheet, or, when viewing the Google Earth KML file, by clicking on the marker and then clicking on either the thumbnail or the link below the thumbnail. Nathaniel Plant (USGS - St. Petersburg, Fla.), and Ann Marie Ascough (formerly contracted at the USGS - St. Petersburg, Fla.) helped with the creation of KML files. To view the photos and survey maps, proceed to the Photos and Maps page.

Maryland, North Carolina, Virginia

National Oceanic and Atmospheric Administration hydrographic survey data used in a U.S. Geological Survey regional geologic framework study along the Delmarva Peninsula

The U.S. Geological Survey initiated a research effort in 2014 to define the geologic framework of the Delmarva Peninsula inner continental shelf, which included new data collection and assembly of relevant extant datasets. Between 2006 and 2011, Science Applications International Corporation, under contract to the National Oceanic and Atmospheric Administration National Ocean Service, carried out 23 hydrographic surveys covering more than 4,100 square kilometers of the continental shelf using Reson multibeam echosounders and Klein towed sidescan sonars to update nautical charts along the Delmarva Peninsula. Acoustic backscatter data from these instruments are valuable for characterizing aspects of shallow geologic framework, including seafloor geology, sediment transport pathways, and marine resources. The data cover an area that extends from the entrance of Delaware Bay, Delaware, south to Parramore Island, Virginia, in water depths of about 3 to 35 meters below mean lower low water. Data were collected along lines spaced 40 meters apart, resulting in 40 to 100 percent seafloor coverage for multibeam bathymetry. Processed bathymetric data within the Delmarva Peninsula study area are available through a National Ocean Service interactive map interface, but towed sidescan data products are limited, and multibeam backscatter data products have not been available in the past. The U.S. Geological Survey obtained raw Reson multibeam data files from Science Applications International Corporation and the National Oceanic and Atmospheric Administration for 20 hydrographic surveys and extracted backscatter data using the Fledermaus Geocoder Toolbox from Quality Positioning Service. The backscatter mosaics produced by the U.S. Geological Survey for the inner continental shelf of the Delmarva Peninsula using National Oceanic and Atmospheric Administration data increased regional geophysical surveying efficiency, collaboration among government agencies, and the area over which geologic data can be interpreted by the U.S. Geological Survey. This report describes the methods by which the backscatter data were extracted and processed and includes backscatter mosaics and interpolated bathymetric surfaces.

Delaware, Maryland, Virginia

Data resources for range-wide assessment of livestock grazing across the sagebrush biome

The data contained in this series were compiled, modified, and analyzed for the U.S. Geological Survey (USGS) report "Range-Wide Assessment of Livestock Grazing Across the Sagebrush Biome." This report can be accessed through the USGS Publications Warehouse (online linkage: http://pubs.usgs.gov/of/2011/1263/). The dataset contains spatial and tabular data related to Bureau of Land Management (BLM) Grazing Allotments. We reviewed the BLM national grazing allotment spatial dataset available from the GeoCommunicator National Integrated Land System (NILS) website in 2007 (http://www.geocommunicator.gov). We identified several limitations in those data and learned that some BLM State and/or field offices had updated their spatial data to rectify these limitations, but maintained the data outside of NILS. We contacted appropriate BLM offices (State or field, 25 in all) to obtain the most recent data, assessed the data, established a data development protocol, and compiled data into a topologically enforced dataset throughout the area of interest for this project (that is, the pre-settlement distribution of Greater Sage-Grouse in the Western United States). The final database includes three spatial datasets: Allotments (BLM Grazing Allotments), OUT_Polygons (nonallotment polygons used to ensure topology), and Duplicate_Polygon_Allotments. See Appendix 1 of the aforementioned report for complete methods. The tabular data presented here consists of information synthesized by the Land Health Standard (LHS) analysis (Appendix 2), and data obtained from the BLM Rangeland Administration System (http://www.blm.gov/ras/). In 2008, available LHS data for all allotments in all regions were compiled by BLM in response to a Freedom of Information Act (FOIA) request made by a private organization. The BLM provided us with a copy of these data. These data provided three major types of information that were of interest: (1) date(s) (if any) of the most recent LHS evaluation for each allotment; (2) whether if evaluated, each region-specific standard (3–8 LHS depending on region) had been met on a given allotment; and (3) whether livestock contributed to any of these standards not being met. A description of how we processed the original data to prepare for analysis is described in Appendix 2, and the synthesized dataset can be found in the table "lhs_x_walk." Permitted use dates, livestock type (horse, sheep or cattle), number of livestock, and Animal Unit Months [the number of animal units (1,000-pound animal equivalents) that can be grazed for 31 days with the available forage in a sustainable manner] are the legal maximum grazing amounts for a given allotment, and legal adjustments to these numbers occur infrequently. We summarized permitted use by BLM allotment in the table "Permitted_Use." Billed use records are used for calculations of permittees' annual grazing bills. We summarized billed use by allotment for BLM grazing year in the table "Billed_Use." All three tables can be joined with the allotment spatial data in a geographic information system (GIS) environment, using the IDENT attribute as the primary key.

Data Series