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Spatial capture-recapture

Spatial Capture-Recapture provides a revolutionary extension of traditional capture-recapture methods for studying animal populations using data from live trapping, camera trapping, DNA sampling, acoustic sampling, and related field methods. This book is a conceptual and methodological synthesis of spatial capture-recapture modeling. As a comprehensive how-to manual, this reference contains detailed examples of a wide range of relevant spatial capture-recapture models for inference about population size and spatial and temporal variation in demographic parameters. Practicing field biologists studying animal populations will find this book to be a useful resource, as will graduate students and professionals in ecology, conservation biology, and fisheries and wildlife management.

Book

Species profiles: Life histories and environmental requirements of coastal fishes and invertebrates (Pacific Northwest)--ghost and blue mud shrimp

Geographic range: The ghost shrimp is found in intertidal areas along the west coast of North America from Mutiny Bay, Alaska, to the mouth of the Tijuana River, San Diego County, California; MacGinitie (1934) and Ricketts and Calvin (1968) reported finding specimens as far south as El Estuario de Punto Banda, Baja California Norte, Mexico. The blue mud shrimp is found from southeastern Alaska to San Quentin Bay (Bahia de San Quentin) in Baja California Norte. The general distribution of the two species in the Pacific Northwest is identical (Figure 3).

California, Oregon, Washington

The ecology of Humboldt Bay, California, an estuarine profile

Synthesizes data on the ecological relationships and functions of the estuary, including information on physical aspects of the bay environment; describes the biotic communities and their relationships; provides management considerations in terms including environmental concerns; and identifies research and management information gaps. Portions of the bay are managed as a national wildlife refuge. Management issues for this ecosystem include loss of habitat and degradation of the environment by additional industrial development and nonpoint source pollution. -from Authors

California

Raccoons of North and Middle America

The raccoons, genus Procyon, colloquially known as “coons,” belong to the carnivorous family Procyonidae, which also includes the American genera Nasua, Nasuella, Bassaricyon, and Potos, and the Old World genera Ailurus and Ailuropoda of the subfamily Ailurinae. The members of the Procyon lotor group (subgenus Procyon), with a transcontinental range from southern Canada to Panama, except in parts of the Rocky Mountain region, and including those inhabiting several distant islands, are among the most familiar and characteristic of North American mammals. This group is not known to occur south of Panama. It is overlapped in the Isthmian region by the so-called crab-eating raccoons of the subgenus Euprocyon, which range from that northern limit as far south as Paraguay in South America. The raccoons have been greatly reduced in numbers or have disappeared in many formerly wooded sections, owing to clearing and intensive human occupation. Despite adverse conditions, however, they have maintained themselves in many places with remarkable tenacity. Trapping for other fur bearers may have reduced the northern fringe to some extent, but the general range of the group has been little diminished. At the present time raccoons reach their northern limit in regular occurrence on Vancouver Island, B. C. The continental forms of the subgenus Procyon constitute a compact assemblage of closely allied geographic races all assignable to Procyon lotor. Complete intergradation is evident in numerous cases and the relative value and combination of characters presented indicate such close relationships that it can safely be assumed where lack of material leaves gaps in the known ranges. In the present revision of the raccoons are treated the North American continental species as far as the eastern border of Panama and the species on outlying islands along both the Atlantic and the Pacific coasts. Thirty species and subspccics are recognized. Twenty-nine of these are assigned to the subgenus Procyon and one to the subgenus Euproc yon. The revision is based mainly on a study of raccoon material in the collection of Biological Surveys, Fish and Wildlife Service, and in other collections in the United States National Museum. These and 358 specimens borrowed from other museums make a total of 1,337 examined. The assemblage included the types or topotypes of most of the known species and subspecies. For the loan of specimens the writer is especially indebted to Dr. Thomas Barbour, Museum of Comparative Zoology, Cambridge, Mass. ; the late Dr. Joseph Grinnell, Museum of Vertebrate Zoology, Berkeley, Calif.; Dr. W. H. Osgood, Chicago Natural History Museum, Chicago, Ill.; Dr. H. E. Anthony, American Museum of Natural History, New York City; Dr. R. M. Anderson, National Museum of Canada, Ottawa, Canada; the late Oldfield Thomas of the British Museum (Natural History) ; Francis Kermode, Provincial Museum, Vancouver, British Columbia; Dr. L. R. Dice, Museum of Zoology, University of Michigan, Ann Arbor, Mich.; and the late D. R. Dickey, Pasadena, Calif. Grateful acknowledgment is also due to Percy Shufeldt, La Cueva, N. Vex., for the generous donation of specimens collected by him in Campeche, Mexico. Notes on his examination of specimens in the British Museum have been kindly furnished by Dr. Remington Kellogg, United States National Museum, Washington, D. C. Stanley P. Young, Fish and Wildlife Service, Washington, D. C., generously supplied the photograph for the frontispiece. Dr. E. W. Nelson became keenly interested in the raccoons, as shown by his work on those inhabiting the Florida Keys (1930a).' During the same time and in the following year new subspecies were described jointly by Nelson and the writer in preparation for a revision of the group; but other projects claimed attention and our collaboration could not be carried beyond this preliminary stage

North American Fauna

Sample-size considerations for a study of shorebird nest survival in the 1002 Area, Arctic National Wildlife Refuge, Alaska

Authorization of lease sales for oil development in the 1002 Area of the Arctic National Wildlife Refuge has highlighted gaps in information about biological communities in the area. The U.S. Fish and Wildlife Service, which is planning a study to evaluate spatial variation in the nest survival of tundra-breeding shorebirds to identify hotspots with high nest survival, sought advice from the U.S. Geological Survey on how to predict which sampling designs might be successful in achieving the study goals. I used previously obtained data on nest survival from Alaska’s North Slope to develop a simulation study that explored the statistical consequences of various sampling designs in the context of expected ranges of values of biological parameters. Of all sampling parameters, the number of nests per plot had the strongest influence on the ability to detect hotspots, followed by number of years of monitoring and the age at which nests were found. The benefit of sampling 98 plots instead of 68 was relatively small. Ages of nests cannot be predicted a priori, so I developed a field reference chart to identify when further nest-searching would be useful for a given plot. This simulation study used the best available information, but values of biological parameters will become better defined following subsequent data collection in the 1002 Area. Data from upcoming field seasons could be used to refine this analysis and improve estimation of the expected results of the field study, thus maximizing the likelihood that data from the 1002 Area nest survival study will meet the monitoring goals.

Alaska

Planar PCB Hazards to Fish, Wildlife, and Invertebrates: A Synoptic Review

Ecological and toxicological aspects of polychlorinated biphenyls (PCBs) in the environment are reviewed with emphasis on biologically active congeners and fish and wildlife. Subtopics include sources and uses, chemical and biochemical properties, concentrations in field collections, lethal and sublethal effects, and recommendations for the protection of sensitive resources. All production of PCBs in the United States ceased in 1977. Of the 1.2 million tons of PCBs manufactured to date, about 65% are still in use in electrical equipment and 31% in various environmental compartments, and 4% were degraded or incinerated. The 209 PCB congeners and their metabolites show wide differences in biological effects. A significant part of the toxicity associated with commercial PCB mixtures is related to the presence of about 20 planar congeners, i.e., congeners without chlorine substitution in the ortho position. Toxic planar congeners, like other PCB congeners, have been detected in virtually all analyzed samples, regardless of collection locale. Planar PCB concentrations were usually highest in samples from near urban areas and in fat and liver tissues, filter-feeding bivalve mollusks, fish-eating birds, and carnivorous marine mammals. Adverse effects of planar PCBs on growth, survival, and reproduction are highly variable because of numerous biotic and abiotic modifiers, including interaction with other chemicals. In general, embryos and juveniles were the most sensitive stages tested to planar PCBs, and the chinook salmon, domestic chicken, mink, rhesus macaque, and laboratory white rat were among the most sensitive species. for protection of natural resources, most authorities now recommend (1) analyzation of environmental samples for planar and other potentially hazardous congeners; (2) exposure studies with representative species and specific congeners, alone and in combination with other environmental contaminants; (3) clarification of existing structure-induction-metabolism relations; and (4) more research on physiological and biochemical indicators of PCB-stress.

Contaminant Hazard Reviews

Investigation into avian mortality in the Playa Lakes region of southeastern New Mexico: Final Report - June 1997

This Final Report is a review of work on a cooperative study undertaken by the USGS Biological Resources Division's National Wildlife Health Center (NWHC) and National Wetlands Research Center (NWRC; formerly the Southern Science Center) from 1994 through 1997. The study was initiated at the request of the Bureau of Land Management (BLM), through a request to the former National Biological Service. The Southeastern New Mexico Playa Lakes Coordinating Committee (SENMPLCC) played an important role in outlining the research needs. The initial Study Plan document, which outlines the background, objectives and methods for the first two years is available as Appendix 1. A letter indicating modifications to the Study Plan was sent to the SENMPLCC chair on April 25,1995, and is Appendix 2. An Interim Report, covering this work was completed and submitted in September 1995. The Literature Review section of the study was completed and presented to SENMPLCC in August, 1995. Following SENMPLCC review, NWHC was asked to develop a series of questions that could be posed from information gained in the initial phase (Appendix 3). The NWHC and NWRC were then directed to begin work to answer the top three questions, within the available fiscal resources. NWRC could continue with work outlined under the original Study Plan (Appendix 1), however an additional Study Plan for experiments performed by NWHC and collaborators and is available as Appendix 4.

New Mexico

Irrigation drainage: Green River basin, Utah

A reconnaissance of wildlife areas in the middle Green River basin of Utah during 1986-87 determined that concentrations of selenium in water and biological tissues were potentially harmful to wildlife at the Stewart Lake Waterfowl Management Area and in the Ouray National Wildlife Refuge. Concentations of selenium in irrigation drainage entering Stewart Lake ranged from 14 to 140 micrograms per liter; liver tissue from coots collected from the lake contained selenium concentrations of as much as 26 micrograms per gram and samples of tissue from carp contained as much as 31 micrograms per gram. Concentrations of selenium in a pond at the Ouray National Wildlife Refuge, which receives irrigation water and shallow ground water, were as much as 93 micrograms per liter. Liver tissue from coots collected from this pond contained selenium concentrations of as much as 43 micrograms per gram; eggs of water birds contained as much as 120 micrograms per gram.

Conference Paper

Successful molecular detection studies require clear communication among diverse research partners

Molecular detection techniques are powerful tools used in ecological applications ranging from diet analyses to pathogen surveillance. Research partnerships that use these tools often involve collaboration among professionals with expertise in field biology, laboratory techniques, quantitative modeling, wildlife disease, and natural resource management. However, in many cases, each of these collaborators lacks specific knowledge about the approaches, decisions, methods, and terminology used by their research partners, which can impede effective communication and act as a barrier to the efficient use of molecular data for ecological inferences and subsequent conservation decision making. We outline a collaborative framework to assist colleagues with diverse types of expertise to effectively translate their scientific and management needs to research partners from other specialties. The molecular techniques used to detect organisms will continue to advance both in sophistication and in the breadth of ecological applications. Our objective is to enable ecologists to harness the full utility of these methods by developing effective collaborative partnerships.

Frontiers in Ecology and the Environment

Fort Collins Science Center: Fiscal Year 2007 Accomplishments

In Fiscal Year 2007 (FY07), the U.S. Geological Survey (USGS) Fort Collins Science Center (FORT) continued research vital to U.S. Department of the Interior science and management needs and associated USGS programmatic goals. FORT work also supported the science needs of other government agencies as well as private cooperators. Specifically, FORT scientific research and technical assistance focused on client and partner needs and goals in the areas of biological information management, fisheries and aquatic systems, invasive species, status and trends of biological resources, terrestrial ecosystems, and wildlife resources. In addition, FORT's 5-year strategic plan was refined to incorporate focus areas identified in the USGS strategic science plan, including ecosystem-landscape analysis, global climate change, and energy and mineral resource development. As a consequence, several science projects initiated in FY07 were either entirely new research dor amplifications of existing work. Highlights of FORT project accomplishments are described below under the USGS science program with which each task is most closely associated. The work of FORT's 6 branches (Aquatic Systems and Technology Applications, Ecosystem Dynamics, Information Science, Invasive Species Science, Policy Analysis and Science Assistance, and Species and Habitats of Federal Interest) often involves major partnerships with other agencies or cooperation with other USGS disciplines (Geology, Geography, Water Resources) and the Geospatial Information Office.

Open-File Report

Toxicity of 33NCS (3'-chloro-3-nitrosalicylanilide) to freshwater fish and sea lampreys

The chemical 33NCS (3'-chloro-3-nitrosalicylanilide) was evaluated as a fish control agent and as a larvicide for sea lampreys at the Fish Control Laboratories of the Bureau of Sport Fisheries and Wildlife and the Hammond Bay Biological Station of the Bureau of Commercial Fisheries. The chemical is rapidly toxic to many species. Sea lampreys, bowfin, and channel catfish are the most sensitive species. Carp are more sensitive than trouts or sunfishes. Use of 33NCS in selective control of freshwater fishes or sea lampreys requires precise control because its toxicity is strongly influenced by variations in water quality.

Investigations in Fish Control

Impacts of transmission lines on birds in flight: Proceedings of a workshop

Progress to alleviate the national and world energy problem will come as individual issues are identified and acceptable solutions implemented. One of the specific issues to emerge in the last few years in the United States is the impact of electric power transmission lines on birds in flight. Therefore, the National Power Plant Team, Office of Biological Services, U.S. Fish and Wildlife Service, requested Oak Ridge Associated Universities (ORAU) to organized and convene a workshop of knowledgeable experts to examine this issue and options for dealing with it. The participants are listed at the end of this report.

FWS/OBS