Measurements of the cosmogenic 3He (3Hec) content of various size aliquots of exposed olivines show that the fine fraction (<140 μm) has 3Hec concentrations between 14 and 100% lower than that of the coarse fractions (0.14–1 mm). Such differences attest to a grain size dependent partial release of 3Hec from the phenocrysts matrix during the preliminary in vacuo crushing. This result might have important implications since most 3Hec measurements have used for ∼20 yr a standard routine based on the fusion of bulk powdered phenocrysts, whatever their grain size. A suite of new data obtained from coarse olivine grains yielded a mean Sea Level High Latitude 3Hec production rate (SLHL P3) of 128±5 and 136±6 at. g−1 yr−1, depending on the scaling factors used. This new value, which is ∼15% higher than previously published rates, is obtained from 5 ropy flow surfaces of Mt Etna (38°N) and Hawaiian (19°N) volcanoes, at elevations between sea level and 870 m and ranging in age from 1.47±0.05 to 149±23 ka according to independent 14C or K/Ar dating. 3He loss during the crushing step might account for the discrepancy between the standard reference value of 110–115 at. g−1 y−1 and the higher SLHL P3 proposed here. More generally, removal of the powdered fraction before fusion is an important point to consider in further studies in order to avoid any 3Hec systematic underestimates.
An altitudinal section has also been sampled on the ropy surface of a ∼1500 yr single flow of Mauna Loa (19°N) which allowed a new empirical atmospheric attenuation length of 149±22 g cm−2 to be documented for 3Hec in olivines between 2400 and 4000 m elevations.
Sixty common murre (Uria aalge) and 27 thick-billed murre (Uria lomvia) eggs collected by the Seabird Tissue Archival and Monitoring Project (STAMP) in 1999−2001 from two Gulf of Alaska and three Bering Sea nesting colonies were analyzed for total mercury (Hg) using isotope dilution cold vapor inductively coupled mass spectrometry. Hg concentrations (wet mass) ranged from 0.011 μg/g to 0.357 μg/g (relative standard deviation = 76%), while conspecifics from the same colonies and years had an average relative standard deviation of 33%. Hg levels in eggs from the Gulf of Alaska (0.166 μg/g ± 0.011 μg/g) were significantly higher (p < 0.0001) than in the Bering Sea (0.047 μg/g ± 0.004 μg/g). Within the Bering Sea, Hg was significantly higher (p = 0.0007) in eggs from Little Diomede Island near the arctic than at the two more southern colonies. Although thick-billed and common murres are ecologically similar, there were significant species differences in egg Hg concentrations within each region (p < 0.0001). In the Bering Sea, eggs from thick-billed murres had higher Hg concentrations than eggs from common murres, while in the Gulf of Alaska, common murre eggs had higher concentrations than those of thick-billed murres. A separate one-way analysis of variance on the only time−trend data currently available for a colony (St. Lazaria Island in the Gulf of Alaska) found significantly lower Hg concentrations in common murre eggs collected in 2001 compared to 1999 (p = 0.017). Results from this study indicate that murre eggs may be effective monitoring units for detecting geographic, species, and temporal patterns of Hg contamination in marine food webs. The relatively small intracolony variation in egg Hg levels and the ability to consistently obtain adequate sample sizes both within and among colonies over a large geographic range means that monitoring efforts using murre eggs will have suitable statistical power for detecting environmental patterns of Hg contamination. The potential influences of trophic effects, physical transport patterns, and biogeochemical processes on these monitoring efforts are discussed, and future plans to investigate the sources of the observed variability are presented.
","language":"English","publisher":"ACS Publications","doi":"10.1021/es051064i","issn":"0013936X","usgsCitation":"Day, R.D., Vander Pol, S.S., Christopher, S.J., Davis, W., Pugh, R.S., Simac, K.S., Roseneau, D.G., and Becker, P., 2006, Murre eggs (Uria aalge and Uria lomvia) as indicators of mercury contamination in the Alaskan marine environment: Environmental Science & Technology, v. 40, no. 3, p. 659-665, https://doi.org/10.1021/es051064i.","productDescription":"7 p.","startPage":"659","endPage":"665","onlineOnly":"N","additionalOnlineFiles":"N","costCenters":[{"id":114,"text":"Alaska Science Center","active":true,"usgs":true}],"links":[{"id":238527,"rank":0,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"}],"volume":"40","issue":"3","noUsgsAuthors":false,"publicationDate":"2005-12-22","publicationStatus":"PW","scienceBaseUri":"505a60d7e4b0c8380cd716e0","contributors":{"authors":[{"text":"Day, Russel D.","contributorId":89418,"corporation":false,"usgs":false,"family":"Day","given":"Russel","email":"","middleInitial":"D.","affiliations":[{"id":25356,"text":"National Institute of Standards and Technology","active":true,"usgs":false}],"preferred":false,"id":428950,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"Vander Pol, Stacy S.","contributorId":38776,"corporation":false,"usgs":false,"family":"Vander Pol","given":"Stacy","email":"","middleInitial":"S.","affiliations":[{"id":25356,"text":"National Institute of Standards and Technology","active":true,"usgs":false}],"preferred":false,"id":428947,"contributorType":{"id":1,"text":"Authors"},"rank":2},{"text":"Christopher, Steven J.","contributorId":85473,"corporation":false,"usgs":false,"family":"Christopher","given":"Steven","email":"","middleInitial":"J.","affiliations":[{"id":25356,"text":"National Institute of Standards and Technology","active":true,"usgs":false}],"preferred":false,"id":428949,"contributorType":{"id":1,"text":"Authors"},"rank":3},{"text":"Davis, W.C.","contributorId":6339,"corporation":false,"usgs":true,"family":"Davis","given":"W.C.","email":"","affiliations":[],"preferred":false,"id":428944,"contributorType":{"id":1,"text":"Authors"},"rank":4},{"text":"Pugh, Rebecca S.","contributorId":11826,"corporation":false,"usgs":false,"family":"Pugh","given":"Rebecca","email":"","middleInitial":"S.","affiliations":[{"id":25356,"text":"National Institute of Standards and Technology","active":true,"usgs":false}],"preferred":false,"id":428945,"contributorType":{"id":1,"text":"Authors"},"rank":5},{"text":"Simac, Kristin S. 0000-0002-4072-1940 ksimac@usgs.gov","orcid":"https://orcid.org/0000-0002-4072-1940","contributorId":131096,"corporation":false,"usgs":true,"family":"Simac","given":"Kristin","email":"ksimac@usgs.gov","middleInitial":"S.","affiliations":[{"id":116,"text":"Alaska Science Center Biology MFEB","active":true,"usgs":true}],"preferred":true,"id":428946,"contributorType":{"id":1,"text":"Authors"},"rank":6},{"text":"Roseneau, David G.","contributorId":73394,"corporation":false,"usgs":false,"family":"Roseneau","given":"David","email":"","middleInitial":"G.","affiliations":[{"id":6987,"text":"U.S. Fish and Wildlife Sevice","active":true,"usgs":false}],"preferred":false,"id":428948,"contributorType":{"id":1,"text":"Authors"},"rank":7},{"text":"Becker, P.R.","contributorId":101035,"corporation":false,"usgs":true,"family":"Becker","given":"P.R.","email":"","affiliations":[],"preferred":false,"id":428951,"contributorType":{"id":1,"text":"Authors"},"rank":8}]}} ,{"id":79399,"text":"sir20055293 - 2006 - Recovery of the black-footed ferret: Progress and continuing challenges- Proceedings of the Symposium on the Status of the Black-footed Ferret and Its Habitat, Fort Collins, Colorado, January 28-29, 2004","interactions":[],"lastModifiedDate":"2016-07-14T12:50:29","indexId":"sir20055293","displayToPublicDate":"2006-01-01T00:00:00","publicationYear":"2006","noYear":false,"publicationType":{"id":18,"text":"Report"},"publicationSubtype":{"id":5,"text":"USGS Numbered Series"},"seriesTitle":{"id":334,"text":"Scientific Investigations Report","code":"SIR","onlineIssn":"2328-0328","printIssn":"2328-031X","active":true,"publicationSubtype":{"id":5}},"seriesNumber":"2005-5293","title":"Recovery of the black-footed ferret: Progress and continuing challenges- Proceedings of the Symposium on the Status of the Black-footed Ferret and Its Habitat, Fort Collins, Colorado, January 28-29, 2004","docAbstract":"The black-footed ferret (Mustela nigripes) is a member of the weasel family (Mustelidae) and is closely related to the Siberian polecat (M. eversmannii) of Asian steppes and the European polecat (M. putorius). Compared to its relatives, the black-footed ferret is an extreme specialist, depending on the prairie dogs (Cynomys spp.) of North American grasslands for food and using prairie dog burrows for shelter. The black-footed ferret’s close association with prairie dogs was an important factor in its decline. Prairie dogs were regarded as an agricultural pest as human settlement progressed westward, and they became important hosts for plague as that disease colonized eastward from its sources of introduction on the west coast. Prairie dog numbers were dramatically reduced by poisoning, cropland conversions, and plague during the first half of the 20th century, and black-footed ferret populations declined precipitously. The black-footed ferret was included on the first lists of endangered species, and its status was precarious by the time the Endangered Species Act of 1973 was passed. Its rebound from a low point of 10 known individuals in spring of 1985 (Biggins and others, 2006) is impressive, but the species is not yet “recovered” in either the biological or legal sense (for further details, see Lockhart and others, this volume).
","conferenceTitle":"Symposium on the Status of the Black-footed Ferret and Its Habitat","conferenceDate":"January 28-29, 2004","conferenceLocation":"Fort Collins, CO","language":"English","publisher":"U.S. Geological Survey","publisherLocation":"Reston, VA","doi":"10.3133/sir20055293","usgsCitation":"2006, Recovery of the black-footed ferret: Progress and continuing challenges- Proceedings of the Symposium on the Status of the Black-footed Ferret and Its Habitat, Fort Collins, Colorado, January 28-29, 2004: U.S. Geological Survey Scientific Investigations Report 2005-5293, viii, 288 p., https://doi.org/10.3133/sir20055293.","productDescription":"viii, 288 p.","numberOfPages":"300","onlineOnly":"N","additionalOnlineFiles":"N","temporalStart":"2004-01-28","temporalEnd":"2004-01-29","costCenters":[{"id":291,"text":"Fort Collins Science Center","active":true,"usgs":true}],"links":[{"id":120903,"rank":0,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/sir_2005_5293.jpg"},{"id":13854,"rank":100,"type":{"id":11,"text":"Document"},"url":"https://pubs.usgs.gov/sir/2005/5293/report.pdf","linkFileType":{"id":1,"text":"pdf"}}],"tableOfContents":"Acknowledgments.....v
\nDedication.....vii
\nSection I. Background.....1
\nThe Symposium in Context (Dean E. Biggins) .....3
\nA Historical Perspective on Recovery of the Black-footed Ferret and the Biological and Political Challenges Affecting Its Future (J. Michael Lockhart, E. Tom Thorne, and Donald R. Gober).....6
\nSection II. Managing Captive Populations.....21
\nAn Adaptive Management Approach for Black-footed Ferrets in Captivity (Paul E. Marinari and Julie S. Kreeger) .....23
\nUse of Reproductive Technology for Black-footed Ferret Recovery (JoGayle Howard, Rachel M. Santymire, Paul E. Marinari, Julie S. Kreeger, Linwood Williamson, and David E. Wildt) .....28
\nThe Genetic Legacy of the Black-footed Ferret: Past, Present, and Future (Samantha M. Wisely).....37
\nSection III. Searching for Wild Black-footed Ferrets......45
\nA History of Searches for Black-footed Ferrets (Louis R. Hanebury and Dean E. Biggins).....47
\nSection IV. Locating and Evaluating Habitat.....67
\nAreas Where Habitat Characteristics Could Be Evaluated To Identify Potential Black-footed Ferret Reintroduction Sites and Develop Conservation Partnerships (Robert J. Luce).....69 A Habitat-based Technique To Allocate Black-footed Ferret Recovery Among Jurisdictional Entities (Andrea E. Ernst, Aaron L. Clark, and Donald R. Gober) .....89
\nHabitat Restoration and Management (Joe C. Truett, Kristy Bly-Honness, Dustin H. Long, and Michael K. Phillips).....97
\nBlack-tailed Prairie Dog Interactions with Other Herbivores: Mediation via Alterations of Vegetation (James K. Detling).....111
\nShooting Prairie Dogs (Archie F. Reeve and Timothy C. Vosburgh).....119
\nHabitat Preferences and Intraspecific Competition in Black-footed Ferrets (Dean E. Biggins, Jerry L. Godbey, Marc R. Matchett, and Travis M. Livieri).....129
\nEvaluating Habitat for Black-footed Ferrets: Revision of an Existing Model (Dean E. Biggins, J. Michael Lockhart, and Jerry L. Godbey).....143
\nSection V. Reestablishing Populations .....153
\nMonitoring Black-footed Ferrets During Reestablishment of Free-ranging Populations: Discussion of Alternative Methods and Recommended Minimum Standards (Dean E. Biggins, Jerry L. Godbey, Marc R. Matchett, Louis R. Hanebury, Travis M. Livieri, and Paul E. Marinari).....155
\nRadio Telemetry for Black-footed Ferret Research and Monitoring (Dean E. Biggins, Jerry L. Godbey, Brian J. Miller, and Louis R. Hanebury).....175
\nPostrelease Movements and Survival of Adult and Young Black-footed Ferrets (Dean E. Biggins, Jerry L. Godbey, Travis M. Livieri, Marc R. Matchett, and Brent D. Bibles) .....191
\nDoes Predator Management Enhance Survival of Reintroduced Black-footed Ferrets? (Stewart W. Breck, Dean E. Biggins, Travis M. Livieri, Marc R. Matchett, and Valerie Kopcso).....203
\nSection VI. Managing Diseases .....211
\nRecent Trends in Plague Ecology (Kenneth L. Gage and Michael Y. Kosoy) .....213 iv
\nExposure of Captive Black-footed Ferrets to Plague and Implications for Species Recovery (Jerry L. Godbey, Dean E. Biggins, and Della Garelle).....233
\nUse of Pesticides To Mitigate the Effects of Plague (David B. Seery).....238
\nVaccination as a Potential Means To Prevent Plague in Black-footed Ferrets (Tonie E. Rocke, Pauline Nol, Paul E. Marinari, Julie S. Kreeger, Susan R. Smith, Gerard P. Andrews, and Arthur W. Friedlander) .....243
\nThe Quest for a Safe and Effective Canine Distemper Virus Vaccine for Black-footed Ferrets (Jeffrey Wimsatt, Dean E. Biggins, Elizabeth S. Williams, and Victor M. Becerra) .....248
\nSection VII. Extended Abstracts.....269
\nIdentifying Focal Areas for Conservation of Black-footed Ferrets and Prairie Dog Associates (Jonathan Proctor,Bill Haskins, and Steve Forrest).....271
\nWhite-tailed Prairie Dog Population Survey and Habitat Evaluation in Western Wyoming (John A. Baroch and David A. Plume) .....275
\nCan the Systemic Insecticide Nitenpyram Be Used for Flea Control on Black-tailed Prairie Dogs? (Jeff N. Borchert and Jeff J. Mach).....278
\nFleas and Small Mammal Hosts Within and Adjacent to the Coyote Basin White-tailed Prairie Dog Colony in Northeastern Utah (Lianna K. Etchberger, William E. Stroh, Brent D. Bibles, Matthew R. Dzialak, and Richard C. Etchberger) .....281
\nEffects of Moonlight on Cover Usage and Spatial Learning of Black-footed Ferrets (Samantha N. Marcum,Dean E. Biggins, and Jennifer A. Clarke) .....284
\nModeling Black-footed Ferret Energetics: Are Southern Release Sites Better? (Lauren A. Harrington, Dean E. Biggins, and A. William Alldredge) .....286
","noUsgsAuthors":false,"publicationStatus":"PW","scienceBaseUri":"4f4e4a60e4b07f02db635438","contributors":{"editors":[{"text":"Roelle, James E. roelleb@usgs.gov","contributorId":2330,"corporation":false,"usgs":true,"family":"Roelle","given":"James","email":"roelleb@usgs.gov","middleInitial":"E.","affiliations":[{"id":291,"text":"Fort Collins Science Center","active":true,"usgs":true}],"preferred":true,"id":630688,"contributorType":{"id":2,"text":"Editors"},"rank":1},{"text":"Miller, Brian J.","contributorId":73682,"corporation":false,"usgs":true,"family":"Miller","given":"Brian J.","affiliations":[],"preferred":false,"id":630689,"contributorType":{"id":2,"text":"Editors"},"rank":2},{"text":"Godbey, Jerry L. godbeyj@usgs.gov","contributorId":5121,"corporation":false,"usgs":true,"family":"Godbey","given":"Jerry","email":"godbeyj@usgs.gov","middleInitial":"L.","affiliations":[],"preferred":true,"id":630690,"contributorType":{"id":2,"text":"Editors"},"rank":3},{"text":"Biggins, Dean E. 0000-0003-2078-671X bigginsd@usgs.gov","orcid":"https://orcid.org/0000-0003-2078-671X","contributorId":2522,"corporation":false,"usgs":true,"family":"Biggins","given":"Dean","email":"bigginsd@usgs.gov","middleInitial":"E.","affiliations":[{"id":291,"text":"Fort Collins Science Center","active":true,"usgs":true}],"preferred":true,"id":630691,"contributorType":{"id":2,"text":"Editors"},"rank":4}]}} ,{"id":79168,"text":"sir20065151 - 2006 - Water quality of the Crescent River basin, Lake Clark National Park and Preserve, Alaska, 2003-2004","interactions":[],"lastModifiedDate":"2018-07-07T18:17:03","indexId":"sir20065151","displayToPublicDate":"2006-01-01T00:00:00","publicationYear":"2006","noYear":false,"publicationType":{"id":18,"text":"Report"},"publicationSubtype":{"id":5,"text":"USGS Numbered Series"},"seriesTitle":{"id":334,"text":"Scientific Investigations Report","code":"SIR","onlineIssn":"2328-0328","printIssn":"2328-031X","active":true,"publicationSubtype":{"id":5}},"seriesNumber":"2006-5151","title":"Water quality of the Crescent River basin, Lake Clark National Park and Preserve, Alaska, 2003-2004","docAbstract":"The U.S. Geological Survey and the National Park Service conducted a water-quality investigation of the Crescent River Basin in Lake Clark National Park and Preserve from May 2003 through September 2004. The Crescent River Basin was studied because it has a productive sockeye salmon run that is important to the Cook Inlet commercial fishing industry. Water-quality, biology, and limnology characteristics were assessed. Glacier-fed streams that flow into Crescent Lake transport suspended sediment that is trapped by the lake. Suspended sediment concentrations from the Lake Fork Crescent River (the outlet stream of Crescent Lake) were less than 10 milligrams per liter, indicating a high trapping efficiency of Crescent Lake. The North Fork Crescent River transports suspended sediment throughout its course and provides most of the suspended sediment to the main stem of the Crescent River downstream from the confluence of the Lake Fork Crescent River. Three locations on Crescent Lake were profiled during the summer of 2004. Turbidity profiles indicate sediment plumes within the water column at various times during the summer. Turbidity values are higher in June, reflecting the glacier-fed runoff into the lake. Lower values of turbidity in August and September indicate a decrease of suspended sediment entering Crescent Lake. The water type throughout the Crescent River Basin is calcium bicarbonate. Concentrations of nutrients, major ions, and dissolved organic carbon are low. Alkalinity concentrations are generally less than 20 milligrams per liter, indicating a low buffering capacity of these waters. Streambed sediments collected from three surface sites analyzed for trace elements indicated that copper concentrations at all sites were above proposed guidelines. However, copper concentrations are due to the local geology, not anthropogenic factors. Zooplankton samples from Crescent Lake indicated the main taxa are Cyclops sp., a Copepod, and within that taxa were a relatively small number of ovigerous (egg-bearing) individuals. Cyclops sp. are one of the primary food sources for rearing sockeye salmon juveniles and were most prevalent in the July sampling. Qualitative-Multi-Habitat algae samples were collected from two surface-water sites. A total of 59 taxa were found and were comprised of 4 phyla: Rhodophyta (red algae), Cyanophyta (blue-green algae), Chlorophyta (green algae), and Chrysophyta (diatoms). Twenty-two algal taxa were collected from the upper site, North Fork Crescent River, whereas twice as many taxa were collected from the downstream site, Crescent River near the mouth.
","language":"English","doi":"10.3133/sir20065151","usgsCitation":"Brabets, T.P., and Ourso, R.T., 2006, Water quality of the Crescent River basin, Lake Clark National Park and Preserve, Alaska, 2003-2004: U.S. Geological Survey Scientific Investigations Report 2006-5151, v, 40 p., https://doi.org/10.3133/sir20065151.","productDescription":"v, 40 p.","startPage":"0","endPage":"0","numberOfPages":"45","onlineOnly":"N","additionalOnlineFiles":"N","temporalStart":"2003-01-01","temporalEnd":"2004-12-31","costCenters":[{"id":114,"text":"Alaska Science Center","active":true,"usgs":true}],"links":[{"id":195538,"rank":0,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/usgs_thumb.jpg"},{"id":8623,"rank":100,"type":{"id":15,"text":"Index Page"},"url":"https://pubs.usgs.gov/sir/2006/5151/","linkFileType":{"id":5,"text":"html"}}],"geographicExtents":"{\n \"type\": \"FeatureCollection\",\n \"features\": [\n {\n \"type\": \"Feature\",\n \"properties\": {},\n \"geometry\": {\n \"type\": \"Polygon\",\n \"coordinates\": [\n [\n [\n -155.15167236328125,\n 59.80616004020659\n ],\n [\n -155.15167236328125,\n 60.50187784207829\n ],\n [\n -153.402099609375,\n 60.50187784207829\n ],\n [\n -153.402099609375,\n 59.80616004020659\n ],\n [\n -155.15167236328125,\n 59.80616004020659\n ]\n ]\n ]\n }\n }\n ]\n}","noUsgsAuthors":false,"publicationStatus":"PW","scienceBaseUri":"4f4e4a1ae4b07f02db606486","contributors":{"authors":[{"text":"Brabets, Timothy P. tbrabets@usgs.gov","contributorId":2087,"corporation":false,"usgs":true,"family":"Brabets","given":"Timothy","email":"tbrabets@usgs.gov","middleInitial":"P.","affiliations":[],"preferred":true,"id":289278,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"Ourso, Robert T. 0000-0002-5952-8681 rtourso@usgs.gov","orcid":"https://orcid.org/0000-0002-5952-8681","contributorId":203207,"corporation":false,"usgs":true,"family":"Ourso","given":"Robert","email":"rtourso@usgs.gov","middleInitial":"T.","affiliations":[{"id":114,"text":"Alaska Science Center","active":true,"usgs":true},{"id":120,"text":"Alaska Science Center Water","active":true,"usgs":true}],"preferred":true,"id":289279,"contributorType":{"id":1,"text":"Authors"},"rank":2}]}} ,{"id":75903,"text":"cir1285 - 2006 - Disease emergence and resurgence—the wildlife-human connection","interactions":[],"lastModifiedDate":"2018-04-02T11:42:45","indexId":"cir1285","displayToPublicDate":"2006-01-01T00:00:00","publicationYear":"2006","noYear":false,"publicationType":{"id":18,"text":"Report"},"publicationSubtype":{"id":5,"text":"USGS Numbered Series"},"seriesTitle":{"id":307,"text":"Circular","code":"CIR","onlineIssn":"2330-5703","printIssn":"1067-084X","active":true,"publicationSubtype":{"id":5}},"seriesNumber":"1285","title":"Disease emergence and resurgence—the wildlife-human connection","docAbstract":"In 2000, the Global Outbreak Alert and Response Network (GOARN) was organized as a global disease watchdog group to coordinate disease outbreak information and health crisis response. The World Health Organization (WHO) is the headquarters for this network. Understandably, the primary focus for WHO is human health. However, diseases such as the H5N1 avian influenza epizootic in Asian bird populations demonstrate the need for integrating knowledge about disease emergence in animals and in humans.
Aside from human disease concerns, H5N1 avian influenza has major economic consequences for the poultry industry worldwide. Many other emerging diseases, such as severe acute respiratory syndrome (SARS), monkeypox, Ebola fever, and West Nile fever, also have an important wildlife component. Despite these wildlife associations, the true integration of the wildlife component in approaches towards disease emergence remains elusive. This separation between wildlife and other species’ interests is counterproductive because the emergence of zoonotic viruses and other pathogens maintained by wildlife reservoir hosts is poorly understood.
This book is about the wildlife component of emerging diseases. It is intended to enhance the reader’s awareness of the role of wildlife in disease emergence. By doing so, perhaps a more holistic approach to disease prevention and control will emerge for the benefit of human, domestic animal, and free-ranging wildlife populations alike. The perspectives offered are influenced by more than four decades of my experiences as a wildlife disease practitioner. Although wildlife are victims to many of the same disease agents affecting humans and domestic animals, many aspects of disease in free-ranging wildlife require different approaches than those commonly applied to address disease in humans or domestic animals. Nevertheless, the broader community of disease investigators and health care professionals has largely pursued a separatist approach for human, domestic animal, and wildlife rather than embracing the periodically proposed concept of “one medicine.” We especially need to embrace this concept as the human population increases because there will be more contact, direct and indirect, among humans, domestic animals, and wildlife. An “Ecology for a Crowded Planet” will be an even more pressing concern, and that includes increasing our understanding of disease ecology, especially that of the zoonoses.
","language":"English","publisher":"U.S. Geological Survey","publisherLocation":"Reston, VA","doi":"10.3133/cir1285","isbn":"1411306643","collaboration":"Prepared in cooperation with the U.S. Fish and Wildlife Service","usgsCitation":"Friend, M., Hurley, J.W., Nol, P., and Wesenberg, K.E., 2006, Disease emergence and resurgence—the wildlife-human connection: U.S. Geological Survey Circular 1285, xii, 388 p., https://doi.org/10.3133/cir1285.","productDescription":"xii, 388 p.","numberOfPages":"402","costCenters":[{"id":456,"text":"National Wildlife Health Center","active":true,"usgs":true}],"links":[{"id":194935,"rank":0,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/cir1285.jpg"},{"id":352797,"rank":3,"type":{"id":11,"text":"Document"},"url":"https://pubs.usgs.gov/circ/1285/cir1285.pdf","text":"Report","size":"38.4 MB","linkFileType":{"id":1,"text":"pdf"},"description":"CIRC 1285"}],"contact":"Director, National Wildlife Health Center
U.S. Geological Survey
6006 Schroeder Road
Madison, WI 53711
The majority of the elk (Cervus elaphus) population of Rocky Mountain National Park in Colorado summer in the park’s high-elevation alpine and subalpine meadows and willow krummholz. The park’s population of white-tailed ptarmigan (Lagopus leucurus altipetens) depends on both dwarf and krummholz willows for food and cover. Concern about the effects of elk herbivory on these communities prompted the monitoring of 12 vegetation transects in these regions from 1971 to 1996. Over this 25-year period, data were collected on plant species cover and frequency and shrub heights. These data have not been statistically analyzed for trends in the measured variables over time to determine changes in species abundance. Krummholz willow species (Salix planifolia, S. brachycarpa) declined 17–20 percent in cover and about 25 centimeters in height over the study period. Graminoids (particularly Deschampsia caespitosa, Carex, and Poa) increased slightly from 1971 to 1996. No significant increases of nonnative plant species were observed. An increase in presence of bare ground over the 25-year period warrants continued measurement of these transects. Lack of good data on elk density, distribution, or use levels precludes correlating changes in plant species cover, frequency, or heights with elk population trends. I recommend development of a more rigorously designed monitoring program that includes these transects as well as others chosen on a random or stratified design and consistent measurement protocol and sampling intervals. Some method of quantifying elk use, either through measurement of plant utilization, pellet counts, or census-type surveys, would allow correlation of changes in plant species over time with changes in elk distribution and density on the park’s alpine and subalpine regions.
","language":"English","publisher":"U.S. Geological Survey","publisherLocation":"Reston, VA","doi":"10.3133/ofr20061122","usgsCitation":"Zeigenfuss, L., 2006, Alpine plant community trends on the elk summer range of Rocky Mountain National Park, Colorado: An analysis of existing data: U.S. Geological Survey Open-File Report 2006-1122, iii, 21 p., https://doi.org/10.3133/ofr20061122.","productDescription":"iii, 21 p.","numberOfPages":"24","onlineOnly":"Y","additionalOnlineFiles":"N","costCenters":[{"id":291,"text":"Fort Collins Science Center","active":true,"usgs":true}],"links":[{"id":194539,"rank":1,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/ofr20061122.PNG"},{"id":320229,"rank":2,"type":{"id":11,"text":"Document"},"url":"https://pubs.usgs.gov/of/2006/1122/report.pdf","linkFileType":{"id":1,"text":"pdf"}}],"country":"United States","state":"Colorado","otherGeospatial":"Rocky Mountain National Park","noUsgsAuthors":false,"publicationStatus":"PW","scienceBaseUri":"4f4e4ae0e4b07f02db687fed","contributors":{"authors":[{"text":"Zeigenfuss, Linda 0000-0002-6700-8563 linda_zeigenfuss@usgs.gov","orcid":"https://orcid.org/0000-0002-6700-8563","contributorId":2079,"corporation":false,"usgs":true,"family":"Zeigenfuss","given":"Linda","email":"linda_zeigenfuss@usgs.gov","affiliations":[{"id":291,"text":"Fort Collins Science Center","active":true,"usgs":true}],"preferred":true,"id":289783,"contributorType":{"id":1,"text":"Authors"},"rank":1}]}} ,{"id":1015122,"text":"1015122 - 2006 - A permutation test for quantile regression","interactions":[],"lastModifiedDate":"2017-12-30T10:33:35","indexId":"1015122","displayToPublicDate":"2006-01-01T00:00:00","publicationYear":"2006","noYear":false,"publicationType":{"id":2,"text":"Article"},"publicationSubtype":{"id":10,"text":"Journal Article"},"seriesTitle":{"id":2151,"text":"Journal of Agricultural, Biological, and Environmental Statistics","active":true,"publicationSubtype":{"id":10}},"title":"A permutation test for quantile regression","docAbstract":"A drop in dispersion, F-ratio like, permutation test (D) for linear quantile regression estimates (0≤τ≤1) had relative power ≥1 compared to quantile rank score tests (T) for hypotheses on parameters other than the intercept. Power was compared for combinations of sample sizes (n=20−300) and quantiles (τ=0.50−0.99) where both tests maintained valid Type I error rates in simulations with p=2 and 6 parameters in homogeneous and heterogeneous error models. The D test required two modifications of permuting residuals from null, reduced parameter models to maintain correct Type I error rates when null models were constrained through the origin or included multiple parameters. A double permutation scheme was used when null models were constrained through the origin and all but 1 of the zero residuals were deleted for null models with multiple parameters. Although there was considerable overlap in sample size, quantiles, and hypotheses where both the D and rank score tests maintained correct Type I error rates, we identified regions at smaller n and more extreme quantiles where one or the other maintained better error rates. Confidence intervals on parameters for an ecological application relating Lahontan cutthroat trout densities to stream channel width:depth were estimated by test inversion, demonstrating a smoother pattern of slightly narrower intervals across quantiles than those provided by the rank score test.
","language":"English","publisher":"Springer","doi":"10.1198/108571106X96835","usgsCitation":"Cade, B.S., and Richards, J.D., 2006, A permutation test for quantile regression: Journal of Agricultural, Biological, and Environmental Statistics, v. 11, no. 1, p. 106-126, https://doi.org/10.1198/108571106X96835.","productDescription":"21 p.","startPage":"106","endPage":"126","costCenters":[{"id":291,"text":"Fort Collins Science Center","active":true,"usgs":true}],"links":[{"id":131759,"rank":0,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"}],"volume":"11","issue":"1","noUsgsAuthors":false,"publicationStatus":"PW","scienceBaseUri":"4f4e4b1fe4b07f02db6ab830","contributors":{"authors":[{"text":"Cade, Brian S. 0000-0001-9623-9849 cadeb@usgs.gov","orcid":"https://orcid.org/0000-0001-9623-9849","contributorId":1278,"corporation":false,"usgs":true,"family":"Cade","given":"Brian","email":"cadeb@usgs.gov","middleInitial":"S.","affiliations":[{"id":291,"text":"Fort Collins Science Center","active":true,"usgs":true}],"preferred":true,"id":322233,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"Richards, Jon D.","contributorId":181580,"corporation":false,"usgs":false,"family":"Richards","given":"Jon","email":"","middleInitial":"D.","affiliations":[],"preferred":false,"id":322232,"contributorType":{"id":1,"text":"Authors"},"rank":2}]}} ,{"id":79589,"text":"ofr20061318 - 2006 - Deschutes Estuary feasibility study: Hydrodynamics and sediment transport modeling","interactions":[],"lastModifiedDate":"2023-09-01T21:35:25.751519","indexId":"ofr20061318","displayToPublicDate":"2006-01-01T00:00:00","publicationYear":"2006","noYear":false,"publicationType":{"id":18,"text":"Report"},"publicationSubtype":{"id":5,"text":"USGS Numbered Series"},"seriesTitle":{"id":330,"text":"Open-File Report","code":"OFR","onlineIssn":"2331-1258","printIssn":"0196-1497","active":true,"publicationSubtype":{"id":5}},"seriesNumber":"2006-1318","title":"Deschutes Estuary feasibility study: Hydrodynamics and sediment transport modeling","docAbstract":"Continual sediment accumulation in Capitol Lake since the damming of the Deschutes River in 1951 has altered the initial morphology of the basin. As part of the Deschutes River Estuary Feasibility Study (DEFS), the United States Geological Survey (USGS) was tasked to model how tidal and storm processes will influence the river, lake and lower Budd Inlet should estuary restoration occur. Understanding these mechanisms will assist in developing a scientifically sound assessment on the feasibility of restoring the estuary.
\nThe goals of the DEFS are as follows.
\n- Increase understanding of the estuary alternative to the same level as managing the lake environment.
\n- Determine the potential to create a viable, self sustaining estuary at Capitol Lake, given all the existing physical constraints and the urban setting.
\n- Create a net-benefit matrix which will allow a fair evaluation of overall benefits and costs of various alternative scenarios.
\n- Provide the completed study to the CLAMP Steering Committee so that a recommendation about a long-term aquatic environment of the basin can be made.
\nThe hydrodynamic and sediment transport modeling task developed a number of different model simulations using a process-based morphological model, Delft3D, to help address these goals. Modeling results provide a qualitative assessment of estuarine behavior both prior to dam construction and after various post-dam removal scenarios. Quantitative data from the model is used in the companion biological assessment and engineering design components of the overall study.
\nOverall, the modeling study found that after dam removal, tidal and estuarine processes are immediately restored, with marine water from Budd Inlet carried into North and Middle Basin on each rising tide and mud flats being exposed with each falling tide. Within the first year after dam removal, tidal processes, along with the occasional river floods, act to modify the estuary bed by redistributing sediment through erosion and deposition. The morphological response of the bed is rapid during the first couple of years, then slows as a dynamic equilibrium is reached within three to five years. By ten years after dam removal, the overall hydrodynamic and morphologic behavior of the estuary is similar to the pre-dam estuary, with the exception of South Basin, which has been permanently modified by human activities.
\nIn addition to a qualitative assessment of estuarine behavior, process-based modeling provides the ability address specific questions to help to inform decision-making. Considering that predicting future conditions of a complex estuarine environment is wrought with uncertainties, quantitative results in this report are often expressed in terms of ranges of possible outcomes.
","language":"English","publisher":"U.S. Geological Survey","publisherLocation":"Reston, VA","doi":"10.3133/ofr20061318","usgsCitation":"George, D.A., Gelfenbaum, G., Lesser, G., and Stevens, A., 2006, Deschutes Estuary feasibility study: Hydrodynamics and sediment transport modeling (Version 1.0): U.S. Geological Survey Open-File Report 2006-1318, Report: 222 p.; 2 Appendixes: 177 p.; Metadata, https://doi.org/10.3133/ofr20061318.","productDescription":"Report: 222 p.; 2 Appendixes: 177 p.; Metadata","temporalStart":"2005-02-16","temporalEnd":"2005-02-17","costCenters":[{"id":645,"text":"Western Coastal and Marine Geology","active":false,"usgs":true}],"links":[{"id":420428,"rank":6,"type":{"id":36,"text":"NGMDB Index Page"},"url":"https://ngmdb.usgs.gov/Prodesc/proddesc_80585.htm","linkFileType":{"id":5,"text":"html"}},{"id":9208,"rank":5,"type":{"id":15,"text":"Index Page"},"url":"https://pubs.usgs.gov/of/2006/1318/","linkFileType":{"id":5,"text":"html"}},{"id":192369,"rank":1,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/usgs_thumb.jpg"},{"id":295746,"rank":4,"type":{"id":16,"text":"Metadata"},"url":"https://pubs.usgs.gov/of/2006/1318/CapitolLakeSeds.html","linkFileType":{"id":5,"text":"html"}},{"id":295744,"rank":3,"type":{"id":11,"text":"Document"},"url":"https://pubs.usgs.gov/of/2006/1318/of2006-1318.pdf","linkFileType":{"id":1,"text":"pdf"}},{"id":295745,"rank":2,"type":{"id":3,"text":"Appendix"},"url":"https://pubs.usgs.gov/of/2006/1318/of2006-1318_appendixes.pdf","linkFileType":{"id":1,"text":"pdf"}}],"country":"United States","state":"Washington","otherGeospatial":"Deschutes Estuary","geographicExtents":"{\n \"type\": \"FeatureCollection\",\n \"features\": [\n {\n \"type\": \"Feature\",\n \"properties\": {},\n \"geometry\": {\n \"type\": \"Polygon\",\n \"coordinates\": [\n [\n [\n -122.9133,\n 47.0619\n ],\n [\n -122.9133,\n 47.0183\n ],\n [\n -122.8914,\n 47.0183\n ],\n [\n -122.8914,\n 47.0619\n ],\n [\n -122.9133,\n 47.0619\n ]\n ]\n ]\n }\n }\n ]\n}","edition":"Version 1.0","noUsgsAuthors":false,"publicationStatus":"PW","scienceBaseUri":"4f4e4ab0e4b07f02db66dd64","contributors":{"authors":[{"text":"George, Douglas A.","contributorId":60328,"corporation":false,"usgs":true,"family":"George","given":"Douglas","email":"","middleInitial":"A.","affiliations":[],"preferred":false,"id":290306,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"Gelfenbaum, Guy","contributorId":79844,"corporation":false,"usgs":true,"family":"Gelfenbaum","given":"Guy","affiliations":[],"preferred":false,"id":290307,"contributorType":{"id":1,"text":"Authors"},"rank":2},{"text":"Lesser, Giles","contributorId":88216,"corporation":false,"usgs":true,"family":"Lesser","given":"Giles","email":"","affiliations":[],"preferred":false,"id":290308,"contributorType":{"id":1,"text":"Authors"},"rank":3},{"text":"Stevens, Andrew W.","contributorId":89093,"corporation":false,"usgs":true,"family":"Stevens","given":"Andrew W.","affiliations":[],"preferred":false,"id":290309,"contributorType":{"id":1,"text":"Authors"},"rank":4}]}} ,{"id":1015119,"text":"1015119 - 2006 - Flood pattern and weather determine Populus leaf litter breakdown and nitrogen dynamics on a cold desert floodplain","interactions":[],"lastModifiedDate":"2017-12-28T09:49:45","indexId":"1015119","displayToPublicDate":"2006-01-01T00:00:00","publicationYear":"2006","noYear":false,"publicationType":{"id":2,"text":"Article"},"publicationSubtype":{"id":10,"text":"Journal Article"},"seriesTitle":{"id":2183,"text":"Journal of Arid Environments","active":true,"publicationSubtype":{"id":10}},"displayTitle":"Flood pattern and weather determine Populus leaf litter breakdown and nitrogen dynamics on a cold desert floodplain","title":"Flood pattern and weather determine Populus leaf litter breakdown and nitrogen dynamics on a cold desert floodplain","docAbstract":"Patterns and processes involved in litter breakdown on desert river floodplains are not well understood. We used leafpacks containing Fremont cottonwood (Populus deltoides subsp. wislizenii) leaf litter to investigate the roles of weather and microclimate, flooding (immersion), and macroinvertebrates on litter organic matter (OM) and nitrogen (N) loss on a floodplain in a cool-temperate semi-arid environment (Yampa River, northwestern Colorado, USA). Total mass of N in fresh autumn litter fell by ∼20% over winter and spring, but in most cases there was no further N loss prior to termination of the study after 653 days exposure, including up to 20 days immersion during the spring flood pulse. Final OM mass was 10–40% of initial values. The pattern of OM and N losses suggested most N would be released outside the flood season, when retention within the floodplain would be likely. The exclusion of macroinvertebrates modestly reduced the rate of OM loss (by about 10%) but had no effect on N dynamics over nine months. Immersion in floodwater accelerated OM loss, but modest variation in litter quality did not affect the breakdown rate. These results are consistent with the concept that decomposition on desert floodplains progresses much as does litter processing in desert uplands, but with periodic bouts of processing typical of aquatic environments when litter is inundated by floodwaters. The strong dependence of litter breakdown rate on weather and floods means that climate change or river flow management can easily disrupt floodplain nutrient dynamics.
","language":"English","publisher":"Elsevier","doi":"10.1016/j.jaridenv.2005.06.022","usgsCitation":"Andersen, D., and Nelson, S.M., 2006, Flood pattern and weather determine Populus leaf litter breakdown and nitrogen dynamics on a cold desert floodplain: Journal of Arid Environments, v. 64, no. 4, p. 626-650, https://doi.org/10.1016/j.jaridenv.2005.06.022.","productDescription":"25 p.","startPage":"626","endPage":"650","costCenters":[{"id":291,"text":"Fort Collins Science Center","active":true,"usgs":true}],"links":[{"id":131756,"rank":0,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"}],"volume":"64","issue":"4","noUsgsAuthors":false,"publicationStatus":"PW","scienceBaseUri":"4f4e49f2e4b07f02db5eec31","contributors":{"authors":[{"text":"Andersen, D.C.","contributorId":19119,"corporation":false,"usgs":true,"family":"Andersen","given":"D.C.","email":"","affiliations":[],"preferred":false,"id":322228,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"Nelson, S. M.","contributorId":81853,"corporation":false,"usgs":false,"family":"Nelson","given":"S.","email":"","middleInitial":"M.","affiliations":[],"preferred":false,"id":322229,"contributorType":{"id":1,"text":"Authors"},"rank":2}]}} ,{"id":79396,"text":"ofr20061249 - 2006 - Assessment of factors limiting Klamath River fall Chinook salmon production potential using historical flows and temperatures","interactions":[],"lastModifiedDate":"2016-04-25T14:43:11","indexId":"ofr20061249","displayToPublicDate":"2006-01-01T00:00:00","publicationYear":"2006","noYear":false,"publicationType":{"id":18,"text":"Report"},"publicationSubtype":{"id":5,"text":"USGS Numbered Series"},"seriesTitle":{"id":330,"text":"Open-File Report","code":"OFR","onlineIssn":"2331-1258","printIssn":"0196-1497","active":true,"publicationSubtype":{"id":5}},"seriesNumber":"2006-1249","title":"Assessment of factors limiting Klamath River fall Chinook salmon production potential using historical flows and temperatures","docAbstract":"We parameterized and applied a deterministic salmon production model to infer the degree to which river flows and temperatures may limit freshwater production potential of the Klamath River in California. Specific parameter requirements, data sources, and significant assumptions are discussed in detail. Model simulations covered a wide variety of historical hydrologic and meteorologic conditions for 40+ years of environmental data.
\nThe model was calibrated only qualitatively, appearing to perform well in predicted outmigrant timing, but overestimating growth. Egg-to-outmigrant survival was near that reported for other rivers north of the Klamath River.
\nPredicted production potential appeared to be determined by multiple causes involving both regularly occurring habitat-related constraints and irregularly occurring exposure to high water temperatures. Simulated production was greatest in years of intermediate water availability and was constrained in both dry and wet years, but for different reasons. Reducing mortality associated with limitations to juvenile habitat, if possible, would be expected to have the highest payoff in increasing production. Water temperature was important in determining predicted production in some years but overall was not predicted to be as important as physical microhabitat. No single mortality cause acted as a true “bottleneck” on production.
\nModel uncertainty is addressed through a sensitivity analysis. Predicted habitat area may be a large source of model uncertainty and sensitivity, but collectively, model parameters associated with timing of events (for example spawning, fry emergence, and emigration) or related triggers control much of the model sensitivity.
\n\n
Though model uncertainty remains, one can begin to explore potential alternatives to reduce production limitations. Specific recommendations are made regarding future study and reducing uncertainty.
","language":"English","publisher":"U.S. Geological Survey","publisherLocation":"Reston, VA","doi":"10.3133/ofr20061249","usgsCitation":"Bartholow, J.M., and Henriksen, J.A., 2006, Assessment of factors limiting Klamath River fall Chinook salmon production potential using historical flows and temperatures: U.S. Geological Survey Open-File Report 2006-1249, viii, 111 p., https://doi.org/10.3133/ofr20061249.","productDescription":"viii, 111 p.","numberOfPages":"119","onlineOnly":"Y","additionalOnlineFiles":"N","costCenters":[{"id":291,"text":"Fort Collins Science Center","active":true,"usgs":true}],"links":[{"id":192187,"rank":1,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/ofr20061249.PNG"},{"id":320228,"rank":2,"type":{"id":11,"text":"Document"},"url":"https://pubs.usgs.gov/of/2006/1249/report.pdf","linkFileType":{"id":1,"text":"pdf"}}],"country":"United States","state":"California, Oregon","otherGeospatial":"Klamath River","geographicExtents":"{\n \"type\": \"FeatureCollection\",\n \"features\": [\n {\n \"type\": \"Feature\",\n \"properties\": {},\n \"geometry\": {\n \"type\": \"Polygon\",\n \"coordinates\": [\n [\n [\n -124.03015136718749,\n 41.253032440653186\n ],\n [\n -123.255615234375,\n 40.371658891506094\n ],\n [\n -122.9644775390625,\n 40.3130432088809\n ],\n [\n -122.728271484375,\n 40.772221877329024\n ],\n [\n -122.3822021484375,\n 41.27367811566259\n ],\n [\n -120.75622558593749,\n 41.85728792769137\n ],\n [\n -121.1572265625,\n 43.40504748787035\n ],\n [\n -121.728515625,\n 43.41701888881103\n ],\n [\n -122.18994140624999,\n 42.91620643817353\n ],\n [\n -124.068603515625,\n 41.541477666790286\n ],\n [\n -124.03015136718749,\n 41.253032440653186\n ]\n ]\n ]\n }\n }\n ]\n}","noUsgsAuthors":false,"publicationStatus":"PW","scienceBaseUri":"4f4e4abae4b07f02db67201a","contributors":{"authors":[{"text":"Bartholow, John M.","contributorId":77598,"corporation":false,"usgs":true,"family":"Bartholow","given":"John","email":"","middleInitial":"M.","affiliations":[],"preferred":false,"id":289779,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"Henriksen, James A.","contributorId":89985,"corporation":false,"usgs":true,"family":"Henriksen","given":"James","email":"","middleInitial":"A.","affiliations":[],"preferred":false,"id":289780,"contributorType":{"id":1,"text":"Authors"},"rank":2}]}} ,{"id":70030334,"text":"70030334 - 2006 - Comparative performance of fixed-film biological filters: Application of reactor theory","interactions":[],"lastModifiedDate":"2012-03-12T17:21:11","indexId":"70030334","displayToPublicDate":"2006-01-01T00:00:00","publicationYear":"2006","noYear":false,"publicationType":{"id":2,"text":"Article"},"publicationSubtype":{"id":10,"text":"Journal Article"},"seriesTitle":{"id":852,"text":"Aquacultural Engineering","active":true,"publicationSubtype":{"id":10}},"title":"Comparative performance of fixed-film biological filters: Application of reactor theory","docAbstract":"Nitrification is classified as a two-step consecutive reaction where R1 represents the rate of formation of the intermediate product NO2-N and R2 represents the rate of formation of the final product NO3-N. The relative rates of R1 and R2 are influenced by reactor type characterized hydraulically as plug-flow, plug-flow with dispersion and mixed-flow. We develop substrate conversion models for fixed-film biofilters operating in the first-order kinetic regime based on application of chemical reactor theory. Reactor type, inlet conditions and the biofilm kinetic constants Ki (h-1) are used to predict changes in NH4-N, NO2-N, NO3-N and BOD5. The inhibiting effects of the latter on R1 and R2 were established based on the ?? relation, e.g.:{A formula is presented}where BOD5,max is the concentration that causes nitrification to cease and N is a variable relating Ki to increasing BOD5. Conversion models were incorporated in spreadsheet programs that provided steady-state concentrations of nitrogen and BOD5 at several points in a recirculating aquaculture system operating with input values for fish feed rate, reactor volume, microscreen performance, make-up and recirculating flow rates. When rate constants are standardized, spreadsheet use demonstrates plug-flow reactors provide higher rates of R1 and R2 than mixed-flow reactors thereby reducing volume requirements for target concentrations of NH4-N and NO2-N. The benefit provided by the plug-flow reactor varies with hydraulic residence time t as well as the effective vessel dispersion number, D/??L. Both reactor types are capable of providing net increases in NO2-N during treatment but the rate of decrease in the mixed-flow case falls well behind that predicted for plug-flow operation. We show the potential for a positive net change in NO2-N increases with decreases in the dimensionless ratios K2, (R2 )/K1,( R1 ) and [NO2-N]/[NH4-N] and when the product K1, (R1) t provides low to moderate NH4-N conversions. Maintaining high levels of the latter reduces the effective reactor utilization rate (%) defined here as (RNavg/RNmax)100 where RNavg is the mean reactive nitrogen concentration ([NH4-N] + [NO2-N]) within the reactor, and RNmax represents the feed concentration of the same. Low utilization rates provide a hedge against unexpected increases in substrate loading and reduce water pumping requirements but force use of elevated reactor volumes. Further ?? effects on R1 and R2 can be reduced through use of a tanks-in-series versus a single mixed-flow reactor configuration and by improving the solids removal efficiency of microscreen treatment.","largerWorkType":{"id":2,"text":"Article"},"largerWorkTitle":"Aquacultural Engineering","largerWorkSubtype":{"id":10,"text":"Journal Article"},"language":"English","doi":"10.1016/j.aquaeng.2005.03.006","issn":"01448609","usgsCitation":"Watten, B., and Sibrell, P., 2006, Comparative performance of fixed-film biological filters: Application of reactor theory: Aquacultural Engineering, v. 34, no. 3, p. 198-213, https://doi.org/10.1016/j.aquaeng.2005.03.006.","startPage":"198","endPage":"213","numberOfPages":"16","costCenters":[],"links":[{"id":212145,"rank":9999,"type":{"id":10,"text":"Digital Object Identifier"},"url":"https://dx.doi.org/10.1016/j.aquaeng.2005.03.006"},{"id":239582,"rank":0,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"}],"volume":"34","issue":"3","noUsgsAuthors":false,"publicationStatus":"PW","scienceBaseUri":"5059f821e4b0c8380cd4cecd","contributors":{"authors":[{"text":"Watten, B.J. 0000-0002-2227-8623","orcid":"https://orcid.org/0000-0002-2227-8623","contributorId":11537,"corporation":false,"usgs":true,"family":"Watten","given":"B.J.","affiliations":[{"id":365,"text":"Leetown Science Center","active":true,"usgs":true}],"preferred":false,"id":426733,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"Sibrell, P.L.","contributorId":13343,"corporation":false,"usgs":true,"family":"Sibrell","given":"P.L.","affiliations":[],"preferred":false,"id":426734,"contributorType":{"id":1,"text":"Authors"},"rank":2}]}} ,{"id":1003787,"text":"1003787 - 2006 - The fitting of general force-of-infection models to wildlife disease prevalence data","interactions":[],"lastModifiedDate":"2012-02-02T00:04:47","indexId":"1003787","displayToPublicDate":"2006-01-01T00:00:00","publicationYear":"2006","noYear":false,"publicationType":{"id":2,"text":"Article"},"publicationSubtype":{"id":10,"text":"Journal Article"},"seriesTitle":{"id":1465,"text":"Ecology","active":true,"publicationSubtype":{"id":10}},"title":"The fitting of general force-of-infection models to wildlife disease prevalence data","docAbstract":"Researchers and wildlife managers increasingly find themselves in situations where they must deal with infectious wildlife diseases such as chronic wasting disease, brucellosis, tuberculosis, and West Nile virus. Managers are often charged with designing and implementing control strategies, and researchers often seek to determine factors that influence and control the disease process. All of these activities require the ability to measure some indication of a disease's foothold in a population and evaluate factors affecting that foothold. The most common type of data available to managers and researchers is apparent prevalence data. Apparent disease prevalence, the proportion of animals in a sample that are positive for the disease, might seem like a natural measure of disease's foothold, but several properties, in particular, its dependency on age structure and the biasing effects of disease-associated mortality, make it less than ideal. In quantitative epidemiology, the a??force of infection,a?? or infection hazard, is generally the preferred parameter for measuring a disease's foothold, and it can be viewed as the most appropriate way to a??adjusta?? apparent prevalence for age structure. The typical ecology curriculum includes little exposure to quantitative epidemiological concepts such as cumulative incidence, apparent prevalence, and the force of infection. The goal of this paper is to present these basic epidemiological concepts and resulting models in an ecological context and to illustrate how they can be applied to understand and address basic epidemiological questions. We demonstrate a practical approach to solving the heretofore intractable problem of fitting general force-of-infection models to wildlife prevalence data using a generalized regression approach. We apply the procedures to Mycobacterium bovis (bovine tuberculosis) prevalence in bison (Bison bison) in Wood Buffalo National Park, Canada, and demonstrate strong age dependency in the force of infection as well as an increased mortality hazard in positive animals.","largerWorkType":{"id":2,"text":"Article"},"largerWorkTitle":"Ecology","largerWorkSubtype":{"id":10,"text":"Journal Article"},"language":"English","usgsCitation":"Heisey, D., Joly, D., and Messier, F., 2006, The fitting of general force-of-infection models to wildlife disease prevalence data: Ecology, v. 87, no. 9, p. 2356-2365.","productDescription":"p. 2356-2365","startPage":"2356","endPage":"2365","numberOfPages":"10","costCenters":[{"id":456,"text":"National Wildlife Health Center","active":true,"usgs":true}],"links":[{"id":134102,"rank":0,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"},{"id":15195,"rank":100,"type":{"id":15,"text":"Index Page"},"url":"https://www.esajournals.org/doi/abs/10.1890/0012-9658(2006)87%5B2356:TFOGFM%5D2.0.CO%3B2","linkFileType":{"id":5,"text":"html"},"description":"4944.000000000000000"}],"volume":"87","issue":"9","noUsgsAuthors":false,"publicationStatus":"PW","scienceBaseUri":"4f4e4a9be4b07f02db65db5c","contributors":{"authors":[{"text":"Heisey, D.M.","contributorId":77496,"corporation":false,"usgs":true,"family":"Heisey","given":"D.M.","email":"","affiliations":[],"preferred":false,"id":314297,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"Joly, D.O.","contributorId":48131,"corporation":false,"usgs":true,"family":"Joly","given":"D.O.","email":"","affiliations":[],"preferred":false,"id":314296,"contributorType":{"id":1,"text":"Authors"},"rank":2},{"text":"Messier, F.","contributorId":34871,"corporation":false,"usgs":true,"family":"Messier","given":"F.","email":"","affiliations":[],"preferred":false,"id":314295,"contributorType":{"id":1,"text":"Authors"},"rank":3}]}} ,{"id":79153,"text":"fs20063100 - 2006 - Influence of alternative silviculture on small mammals","interactions":[],"lastModifiedDate":"2017-03-30T16:34:26","indexId":"fs20063100","displayToPublicDate":"2006-01-01T00:00:00","publicationYear":"2006","noYear":false,"publicationType":{"id":18,"text":"Report"},"publicationSubtype":{"id":5,"text":"USGS Numbered Series"},"seriesTitle":{"id":313,"text":"Fact Sheet","code":"FS","onlineIssn":"2327-6932","printIssn":"2327-6916","active":true,"publicationSubtype":{"id":5}},"seriesNumber":"2006-3100","title":"Influence of alternative silviculture on small mammals","docAbstract":"HIGHLIGHT: A variety of harvest methods promote diversity within forests while still generating income. For example, recent studies have shown that when dead wood is left on the forest floor during harvest, biodiversity increases. A new Cooperative Forest Ecosystem Research (CFER) program fact sheet summarizes how small mammals respond to dead wood in forests that are harvested with alternative methods. CFER is developing a series of fact sheets about responses to changes in young western Oregon forests. The fact sheets are designed to help resource managers balance management needs, including timber and wildlife. The USGS provides a primary source of financial support for CFER, a consortium of federal and state partners conducting research in support of the Northwest Forest Plan.","language":"English","publisher":"U.S. Geological Survey","publisherLocation":"Reston, VA","doi":"10.3133/fs20063100","usgsCitation":"Waldien, D.L., and Hayes, J.P., 2006, Influence of alternative silviculture on small mammals: U.S. Geological Survey Fact Sheet 2006-3100, 4 p., https://doi.org/10.3133/fs20063100.","productDescription":"4 p.","startPage":"1","endPage":"4","numberOfPages":"4","onlineOnly":"Y","costCenters":[{"id":290,"text":"Forest and Rangeland Ecosystem Science Center","active":false,"usgs":true}],"links":[{"id":338233,"rank":3,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/fs/2006/3100/coverthb2.jpg"},{"id":8606,"rank":297,"type":{"id":11,"text":"Document"},"url":"https://pubs.usgs.gov/fs/2006/3100/fs20063100.pdf","text":"Report","size":"549 KB","linkFileType":{"id":1,"text":"pdf"},"description":"FS 2006-3100"}],"noUsgsAuthors":false,"publicationStatus":"PW","scienceBaseUri":"4f4e49dfe4b07f02db5e3a89","contributors":{"authors":[{"text":"Waldien, David L.","contributorId":106852,"corporation":false,"usgs":true,"family":"Waldien","given":"David","email":"","middleInitial":"L.","affiliations":[],"preferred":false,"id":289241,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"Hayes, John P.","contributorId":12100,"corporation":false,"usgs":true,"family":"Hayes","given":"John","email":"","middleInitial":"P.","affiliations":[],"preferred":false,"id":289240,"contributorType":{"id":1,"text":"Authors"},"rank":2}]}} ,{"id":79397,"text":"ofr20061314 - 2006 - Defining ecosystem flow requirements for the Bill Williams River, Arizona","interactions":[],"lastModifiedDate":"2016-04-25T14:25:53","indexId":"ofr20061314","displayToPublicDate":"2006-01-01T00:00:00","publicationYear":"2006","noYear":false,"publicationType":{"id":18,"text":"Report"},"publicationSubtype":{"id":5,"text":"USGS Numbered Series"},"seriesTitle":{"id":330,"text":"Open-File Report","code":"OFR","onlineIssn":"2331-1258","printIssn":"0196-1497","active":true,"publicationSubtype":{"id":5}},"seriesNumber":"2006-1314","title":"Defining ecosystem flow requirements for the Bill Williams River, Arizona","docAbstract":"Alteration of natural river flows resulting from the construction and operation of dams can result in substantial changes to downstream aquatic and bottomland ecosystems and undermine the long-term health of native species and communities (for general review, cf. Ward and Stanford, 1995; Baron and others, 2002; Nilsson and Svedmark, 2002). Increasingly, land and water managers are seeking ways to manage reservoir releases to produce flow regimes that simultaneously meet human needs and maintain the health and sustainability of downstream biotaa.
","language":"English","publisher":"U.S. Geological Survey","publisherLocation":"Reston, VA","doi":"10.3133/ofr20061314","usgsCitation":"2006, Defining ecosystem flow requirements for the Bill Williams River, Arizona: U.S. Geological Survey Open-File Report 2006-1314, ix, 135 p., https://doi.org/10.3133/ofr20061314.","productDescription":"ix, 135 p.","numberOfPages":"144","onlineOnly":"Y","additionalOnlineFiles":"N","costCenters":[{"id":291,"text":"Fort Collins Science Center","active":true,"usgs":true}],"links":[{"id":190716,"rank":1,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/ofr20061314.PNG"},{"id":320227,"rank":2,"type":{"id":11,"text":"Document"},"url":"https://pubs.usgs.gov/of/2006/1314/report.pdf","linkFileType":{"id":1,"text":"pdf"}}],"country":"United States","state":"Arizona","otherGeospatial":"Bill Williams River","geographicExtents":"{\n \"type\": \"FeatureCollection\",\n \"features\": [\n {\n \"type\": \"Feature\",\n \"properties\": {},\n \"geometry\": {\n \"type\": \"Polygon\",\n \"coordinates\": [\n [\n [\n -113.9666748046875,\n 34.116352469972746\n ],\n [\n -113.9666748046875,\n 35.34425514918409\n ],\n [\n -112.65380859375,\n 35.34425514918409\n ],\n [\n -112.65380859375,\n 34.116352469972746\n ],\n [\n -113.9666748046875,\n 34.116352469972746\n ]\n ]\n ]\n }\n }\n ]\n}","noUsgsAuthors":false,"publicationStatus":"PW","scienceBaseUri":"4f4e4abbe4b07f02db67253b","contributors":{"editors":[{"text":"Shafroth, Patrick B. 0000-0002-6064-871X shafrothp@usgs.gov","orcid":"https://orcid.org/0000-0002-6064-871X","contributorId":2000,"corporation":false,"usgs":true,"family":"Shafroth","given":"Patrick","email":"shafrothp@usgs.gov","middleInitial":"B.","affiliations":[{"id":291,"text":"Fort Collins Science Center","active":true,"usgs":true}],"preferred":true,"id":627610,"contributorType":{"id":2,"text":"Editors"},"rank":1},{"text":"Beauchamp, Vanessa B.","contributorId":39468,"corporation":false,"usgs":true,"family":"Beauchamp","given":"Vanessa","email":"","middleInitial":"B.","affiliations":[],"preferred":false,"id":627611,"contributorType":{"id":2,"text":"Editors"},"rank":2}]}} ,{"id":1003968,"text":"1003968 - 2006 - Systematically describing gross lesions in corals","interactions":[],"lastModifiedDate":"2018-02-20T14:59:27","indexId":"1003968","displayToPublicDate":"2006-01-01T00:00:00","publicationYear":"2006","noYear":false,"publicationType":{"id":2,"text":"Article"},"publicationSubtype":{"id":10,"text":"Journal Article"},"seriesTitle":{"id":1396,"text":"Diseases of Aquatic Organisms","active":true,"publicationSubtype":{"id":10}},"title":"Systematically describing gross lesions in corals","docAbstract":"Many coral diseases are characterized based on gross descriptions and, given the lack or difficulty of applying existing laboratory tools to understanding causes of coral diseases, most new diseases will continued to be described based on appearance in the field. Unfortunately, many existing descriptions of coral disease are ambiguous or open to subjective interpretation, making comparisons between oceans problematic. One reason for this is that the process of describing lesions is often confused with that of assigning causality for the lesion. However, causality is usually something not obtained in the field and requires additional laboratory tests. Because a concise and objective morphologic description provides the foundation for a case definition of any disease, there is a need for a consistent and standardized process to describe lesions of corals that focuses on morphology. We provide a framework to systematically describe and name diseases in corals involving 4 steps: (1) naming the disease, (2) describing the lesion, (3) formulating a morphologic diagnosis and (4) formulating an etiologic diagnosis. This process focuses field investigators on describing what they see and separates the process of describing a lesion from that of inferring causality, the latter being more appropriately done using laboratory techniques. ","language":"English","publisher":"Inter-Research","doi":"10.3354/dao070155","usgsCitation":"Work, T., and Aeby, G.S., 2006, Systematically describing gross lesions in corals: Diseases of Aquatic Organisms, v. 70, no. 1-2, p. 155-160, https://doi.org/10.3354/dao070155.","productDescription":"6 p.","startPage":"155","endPage":"160","numberOfPages":"6","costCenters":[{"id":456,"text":"National Wildlife Health Center","active":true,"usgs":true}],"links":[{"id":477559,"rank":1,"type":{"id":40,"text":"Open Access Publisher Index Page"},"url":"https://doi.org/10.3354/dao070155","text":"Publisher Index Page"},{"id":134431,"rank":0,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"}],"volume":"70","issue":"1-2","noUsgsAuthors":false,"publicationStatus":"PW","scienceBaseUri":"4f4e4adfe4b07f02db6878cb","contributors":{"authors":[{"text":"Work, Thierry M. 0000-0002-4426-9090","orcid":"https://orcid.org/0000-0002-4426-9090","contributorId":16804,"corporation":false,"usgs":true,"family":"Work","given":"Thierry M.","affiliations":[],"preferred":false,"id":314771,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"Aeby, Greta S.","contributorId":64783,"corporation":false,"usgs":false,"family":"Aeby","given":"Greta","email":"","middleInitial":"S.","affiliations":[{"id":13394,"text":"Hawai‘i Institute of Marine Biology","active":true,"usgs":false}],"preferred":false,"id":314770,"contributorType":{"id":1,"text":"Authors"},"rank":2}]}} ,{"id":1003975,"text":"1003975 - 2006 - Multi-species patterns of avian cholera mortality in Nebraska's rainwater basin","interactions":[],"lastModifiedDate":"2015-05-04T16:16:05","indexId":"1003975","displayToPublicDate":"2006-01-01T00:00:00","publicationYear":"2006","noYear":false,"publicationType":{"id":2,"text":"Article"},"publicationSubtype":{"id":10,"text":"Journal Article"},"seriesTitle":{"id":2507,"text":"Journal of Wildlife Diseases","active":true,"publicationSubtype":{"id":10}},"title":"Multi-species patterns of avian cholera mortality in Nebraska's rainwater basin","docAbstract":"Nebraska's Rainwater Basin (RWB) is a key spring migration area for millions of waterfowl and other avian species. Avian cholera has been endemic in the RWB since the 1970s and in some years tens of thousands of waterfowl have died from the disease. We evaluated patterns of avian cholera mortality in waterfowl species using the RWB during the last quarter of the 20th century. Mortality patterns changed between the years before (1976 - 1988) and coincident with (1989 - 1999) the dramatic increases in lesser snow goose abundance and mortality. Lesser snow geese (Chen caerulescens caerulescens) have commonly been associated with mortality events in the RWB and are known to carry virulent strains of Pasteurella multocida, the agent causing avian cholera. Lesser snow geese appeared to be the species most affected by avian cholera during 1989 - 1999; however, mortality in several other waterfowl species was positively correlated with lesser snow goose mortality. Coincident with increased lesser snow goose mortality, spring avian cholera outbreaks were detected earlier and ended earlier compared to 1976 - 1988. Dense concentrations of lesser snow geese may facilitate intraspecific disease transmission through bird-to-bird contact and wetland contamination. Rates of interspecific avian cholera transmission within the waterfowl community, however, are difficult to determine.
","largerWorkType":{"id":2,"text":"Article"},"largerWorkTitle":"Journal of Wildlife Diseases","largerWorkSubtype":{"id":10,"text":"Journal Article"},"language":"English","usgsCitation":"Blanchong, J.A., Samuel, M., and Mack, G., 2006, Multi-species patterns of avian cholera mortality in Nebraska's rainwater basin: Journal of Wildlife Diseases, v. 42, no. 1, p. 81-91.","productDescription":"p. 81-91","startPage":"81","endPage":"91","numberOfPages":"11","onlineOnly":"N","additionalOnlineFiles":"N","costCenters":[{"id":456,"text":"National Wildlife Health Center","active":true,"usgs":true}],"links":[{"id":134220,"rank":0,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"},{"id":14941,"rank":100,"type":{"id":15,"text":"Index Page"},"url":"https://www.jwildlifedis.org/action/showMultipleAbstracts?mailPageTitle=Advanced+Search&href=&doi=10.7589%2F0090-3558-42.1.81","linkFileType":{"id":5,"text":"html"},"description":"1831.000000000000000"}],"country":"United States","state":"Nebraska","geographicExtents":"{\n \"type\": \"FeatureCollection\",\n \"features\": [\n {\n \"type\": \"Feature\",\n \"properties\": {},\n \"geometry\": {\n \"type\": \"Polygon\",\n \"coordinates\": [\n [\n [\n -104.1064453125,\n 43.0287452513488\n ],\n [\n -98.514404296875,\n 43.08493742707592\n ],\n [\n -97.987060546875,\n 42.85985981506279\n ],\n [\n -97.36083984375,\n 42.93229601903058\n ],\n [\n -96.690673828125,\n 42.779275360241904\n ],\n [\n -96.2841796875,\n 42.391008609205045\n ],\n [\n -96.13037109375,\n 42.10637370579324\n ],\n [\n -95.91064453125,\n 41.713930073371294\n ],\n [\n -95.811767578125,\n 41.35207214451295\n ],\n [\n -95.69091796875,\n 40.863679665481676\n ],\n [\n -95.504150390625,\n 40.38002840251183\n ],\n [\n -95.240478515625,\n 40.027614437486655\n ],\n [\n -95.3173828125,\n 39.93501296038254\n ],\n [\n -102.10693359375,\n 39.977120098439634\n ],\n [\n -102.095947265625,\n 40.94671366508002\n ],\n [\n -104.117431640625,\n 40.971603532799115\n ],\n [\n -104.1064453125,\n 43.0287452513488\n ]\n ]\n ]\n }\n }\n ]\n}","volume":"42","issue":"1","noUsgsAuthors":false,"publicationStatus":"PW","scienceBaseUri":"4f4e4b32e4b07f02db6b4849","contributors":{"authors":[{"text":"Blanchong, Julie A.","contributorId":6030,"corporation":false,"usgs":false,"family":"Blanchong","given":"Julie","email":"","middleInitial":"A.","affiliations":[{"id":13018,"text":"Department of Forest and Wildlife Ecology, University of Wisconsin, Madison","active":true,"usgs":false}],"preferred":false,"id":314793,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"Samuel, M.D.","contributorId":13910,"corporation":false,"usgs":true,"family":"Samuel","given":"M.D.","affiliations":[],"preferred":false,"id":314794,"contributorType":{"id":1,"text":"Authors"},"rank":2},{"text":"Mack, G.","contributorId":71521,"corporation":false,"usgs":true,"family":"Mack","given":"G.","email":"","affiliations":[],"preferred":false,"id":314795,"contributorType":{"id":1,"text":"Authors"},"rank":3}]}} ,{"id":1004023,"text":"1004023 - 2006 - West Nile virus antibody prevalence in wild mammals, southern Wisconsin","interactions":[],"lastModifiedDate":"2019-11-14T07:05:39","indexId":"1004023","displayToPublicDate":"2006-01-01T00:00:00","publicationYear":"2006","noYear":false,"publicationType":{"id":2,"text":"Article"},"publicationSubtype":{"id":10,"text":"Journal Article"},"seriesTitle":{"id":1493,"text":"Emerging Infectious Diseases","active":true,"publicationSubtype":{"id":10}},"title":"West Nile virus antibody prevalence in wild mammals, southern Wisconsin","docAbstract":"Twenty percent prevalence of West Nile virus antibody was found in free-ranging medium-sized Wisconsin mammals. No significant differences were noted in antibody prevalence with regard to sex, age, month of collection, or species. Our results suggest a similar route of infection in these mammals.
","language":"English","publisher":"CDC","doi":"10.3201/eid1212.060173","usgsCitation":"Docherty, D., Samuel, M.D., Nolden, C., Egstad, K.F., and Griffin, K.M., 2006, West Nile virus antibody prevalence in wild mammals, southern Wisconsin: Emerging Infectious Diseases, v. 12, no. 12, p. 1982-1984, https://doi.org/10.3201/eid1212.060173.","productDescription":"3 p.","startPage":"1982","endPage":"1984","numberOfPages":"3","onlineOnly":"N","additionalOnlineFiles":"N","costCenters":[{"id":456,"text":"National Wildlife Health Center","active":true,"usgs":true}],"links":[{"id":477571,"rank":1,"type":{"id":40,"text":"Open Access Publisher Index Page"},"url":"https://doi.org/10.3201/eid1212.060173","text":"Publisher Index Page"},{"id":135111,"rank":0,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"}],"country":"United States","state":"Wisconsin","county":"Dane, Iowa","geographicExtents":"{\"type\":\"FeatureCollection\",\"features\":[{\"type\":\"Feature\",\"geometry\":{\"type\":\"Polygon\",\"coordinates\":[[[-89.0094,43.286],[-89.0084,43.2555],[-89.0094,43.2],[-89.01,43.1131],[-89.0109,43.0849],[-89.0107,43.0271],[-89.0132,42.9353],[-89.013,42.8762],[-89.0119,42.8471],[-89.132,42.8479],[-89.2488,42.8478],[-89.3689,42.8484],[-89.3688,42.8575],[-89.4832,42.858],[-89.6026,42.8575],[-89.7196,42.8587],[-89.8377,42.8598],[-89.8375,42.8135],[-90.4285,42.8142],[-90.4285,42.8583],[-90.4297,42.9465],[-90.4302,43.0334],[-90.4308,43.1212],[-90.4325,43.1989],[-90.4149,43.1995],[-90.3848,43.2038],[-90.3616,43.2085],[-90.3415,43.21],[-90.3283,43.2078],[-90.3188,43.2065],[-90.3101,43.207],[-90.3013,43.2075],[-90.2937,43.2053],[-90.2899,43.2022],[-90.2867,43.1967],[-90.2835,43.1935],[-90.2778,43.1931],[-90.2685,43.1977],[-90.2635,43.1973],[-90.2584,43.1955],[-90.2401,43.1861],[-90.2243,43.1748],[-90.2104,43.1694],[-90.1978,43.1681],[-90.1946,43.1659],[-90.1858,43.1613],[-90.1776,43.16],[-90.1683,43.1651],[-90.1582,43.1665],[-90.1212,43.1649],[-90.1111,43.1622],[-90.1017,43.1609],[-90.0872,43.1618],[-90.0803,43.1591],[-90.0708,43.1505],[-90.0651,43.1465],[-90.0607,43.146],[-90.0589,43.1488],[-90.0564,43.1588],[-90.0552,43.1624],[-90.0515,43.1665],[-90.0415,43.1716],[-90.0359,43.1757],[-90.0309,43.1816],[-90.0165,43.1899],[-90.0071,43.1945],[-89.9933,43.1968],[-89.9845,43.1964],[-89.9637,43.1919],[-89.9487,43.1933],[-89.9304,43.1897],[-89.9047,43.1875],[-89.8946,43.1935],[-89.8859,43.1967],[-89.8664,43.1954],[-89.8613,43.1936],[-89.8544,43.1936],[-89.8432,43.2004],[-89.8394,43.205],[-89.8325,43.2123],[-89.825,43.2187],[-89.8175,43.226],[-89.8125,43.2342],[-89.8088,43.2369],[-89.8012,43.2365],[-89.7874,43.2356],[-89.771,43.237],[-89.7579,43.2379],[-89.7529,43.2443],[-89.7485,43.2507],[-89.7391,43.2548],[-89.7259,43.2644],[-89.7171,43.2739],[-89.714,43.2821],[-89.7165,43.2867],[-89.7235,43.2935],[-89.7209,43.2935],[-89.6008,43.2932],[-89.4819,43.2942],[-89.3617,43.2954],[-89.3624,43.2832],[-89.246,43.2834],[-89.1271,43.2827],[-89.0094,43.286]]]},\"properties\":{\"name\":\"Dane\",\"state\":\"WI\"}}]}","volume":"12","issue":"12","noUsgsAuthors":false,"publicationStatus":"PW","scienceBaseUri":"4f4e49e2e4b07f02db5e4ac5","contributors":{"authors":[{"text":"Docherty, Douglas E.","contributorId":58245,"corporation":false,"usgs":true,"family":"Docherty","given":"Douglas E.","affiliations":[],"preferred":false,"id":775258,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"Samuel, Michael D. msamuel@usgs.gov","contributorId":1419,"corporation":false,"usgs":true,"family":"Samuel","given":"Michael","email":"msamuel@usgs.gov","middleInitial":"D.","affiliations":[{"id":199,"text":"Coop Res Unit Leetown","active":true,"usgs":true}],"preferred":true,"id":775259,"contributorType":{"id":1,"text":"Authors"},"rank":2},{"text":"Nolden, C.A.","contributorId":9226,"corporation":false,"usgs":true,"family":"Nolden","given":"C.A.","affiliations":[],"preferred":false,"id":314955,"contributorType":{"id":1,"text":"Authors"},"rank":3},{"text":"Egstad, Kristina F. 0000-0002-2755-6098 kegstad@usgs.gov","orcid":"https://orcid.org/0000-0002-2755-6098","contributorId":5120,"corporation":false,"usgs":true,"family":"Egstad","given":"Kristina","email":"kegstad@usgs.gov","middleInitial":"F.","affiliations":[],"preferred":true,"id":314954,"contributorType":{"id":1,"text":"Authors"},"rank":4},{"text":"Griffin, Kathryn M. 0000-0003-1809-0019 kgriffin@usgs.gov","orcid":"https://orcid.org/0000-0003-1809-0019","contributorId":5473,"corporation":false,"usgs":false,"family":"Griffin","given":"Kathryn","email":"kgriffin@usgs.gov","middleInitial":"M.","affiliations":[{"id":456,"text":"National Wildlife Health Center","active":true,"usgs":true}],"preferred":true,"id":775260,"contributorType":{"id":1,"text":"Authors"},"rank":5}]}} ,{"id":1004036,"text":"1004036 - 2006 - USGS/National Wildlife Health Center's Quarterly Wildlife Mortality Report","interactions":[],"lastModifiedDate":"2015-01-26T13:59:20","indexId":"1004036","displayToPublicDate":"2006-01-01T00:00:00","publicationYear":"2006","noYear":false,"publicationType":{"id":2,"text":"Article"},"publicationSubtype":{"id":10,"text":"Journal Article"},"seriesTitle":{"id":3499,"text":"Supplement to the Journal of Wildlife Diseases","active":true,"publicationSubtype":{"id":10}},"title":"USGS/National Wildlife Health Center's Quarterly Wildlife Mortality Report","largerWorkType":{"id":2,"text":"Article"},"largerWorkTitle":"Supplement to the Journal of Wildlife Diseases","largerWorkSubtype":{"id":10,"text":"Journal Article"},"language":"English","usgsCitation":"Sohn, R., Converse, K.A., and McLaughlin, G., 2006, USGS/National Wildlife Health Center's Quarterly Wildlife Mortality Report: Supplement to the Journal of Wildlife Diseases, v. 42, no. 1, 5 p.","productDescription":"5 p.","numberOfPages":"5","onlineOnly":"N","additionalOnlineFiles":"N","costCenters":[{"id":456,"text":"National Wildlife Health Center","active":true,"usgs":true}],"links":[{"id":129443,"rank":0,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"}],"geographicExtents":"{\n \"type\": \"FeatureCollection\",\n \"features\": [\n {\n \"type\": \"Feature\",\n \"properties\": {},\n \"geometry\": {\n \"type\": \"Polygon\",\n \"coordinates\": [\n [\n [\n -180.17578125,\n 17.14079039331665\n ],\n [\n -180.17578125,\n 72.71190310803662\n ],\n [\n -65.7421875,\n 72.71190310803662\n ],\n [\n -65.7421875,\n 17.14079039331665\n ],\n [\n -180.17578125,\n 17.14079039331665\n ]\n ]\n ]\n }\n }\n ]\n}","volume":"42","issue":"1","noUsgsAuthors":false,"publicationStatus":"PW","scienceBaseUri":"4f4e4a26e4b07f02db60f893","contributors":{"authors":[{"text":"Sohn, R.","contributorId":8042,"corporation":false,"usgs":true,"family":"Sohn","given":"R.","email":"","affiliations":[],"preferred":false,"id":314996,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"Converse, K. A.","contributorId":81436,"corporation":false,"usgs":true,"family":"Converse","given":"K.","email":"","middleInitial":"A.","affiliations":[],"preferred":false,"id":314998,"contributorType":{"id":1,"text":"Authors"},"rank":2},{"text":"McLaughlin, G.","contributorId":38506,"corporation":false,"usgs":true,"family":"McLaughlin","given":"G.","email":"","affiliations":[],"preferred":false,"id":314997,"contributorType":{"id":1,"text":"Authors"},"rank":3}]}} ,{"id":79555,"text":"sir20065224 - 2006 - The Amphibian Research and Monitoring Initiative (ARMI): 5-year report","interactions":[],"lastModifiedDate":"2020-01-26T11:39:48","indexId":"sir20065224","displayToPublicDate":"2006-01-01T00:00:00","publicationYear":"2006","noYear":false,"publicationType":{"id":18,"text":"Report"},"publicationSubtype":{"id":5,"text":"USGS Numbered Series"},"seriesTitle":{"id":334,"text":"Scientific Investigations Report","code":"SIR","onlineIssn":"2328-0328","printIssn":"2328-031X","active":true,"publicationSubtype":{"id":5}},"seriesNumber":"2006-5224","title":"The Amphibian Research and Monitoring Initiative (ARMI): 5-year report","docAbstract":"The Amphibian Research and Monitoring Initiative (ARMI) is an innovative, multidisciplinary program that began in 2000 in response to a congressional directive for the Department of the Interior to address the issue of amphibian declines in the United States. ARMI’s formulation was cross-disciplinary, integrating U.S. Geological Survey scientists from Biology, Water, and Geography to develop a course of action (Corn and others, 2005a). The result has been an effective program with diverse, yet complementary, expertise.
\nARMI’s approach to research and monitoring is multiscale. Detailed investigations focus on a few species at selected local sites throughout the country; monitoring addresses a larger number of species over broader areas (typically, National Parks and National Wildlife Refuges); and inventories to document species occurrence are conducted more extensively across the landscape. Where monitoring is conducted, the emphasis is on an ability to draw statistically defensible conclusions about the status of amphibians. To achieve this objective, ARMI has instituted a monitoring response variable that has nationwide applicability. At research sites, ARMI focuses on studying species/environment interactions, determining causes of observed declines, and developing new techniques to sample populations and analyze data. Results from activities at all scales are provided to scientists, land managers, and policymakers, as appropriate.
\nThe ARMI program and the scientists involved contribute significantly to understanding amphibian declines at local, regional, national, and international levels. Within National Parks and National Wildlife Refuges, findings help land managers make decisions applicable to amphibian conservation. For example, the National Park Service (NPS) selected amphibians as a vital sign for several of their monitoring networks, and ARMI scientists provide information and assistance in developing monitoring methods for this NPS effort. At the national level, ARMI has had major exposure at a variety of meetings, including a dedicated symposium at the 2004 joint meetings of the Herpetologists’ League, the American Society of Ichthyologists and Herpetologists, and the Society for the Study of Amphibians and Reptiles. Several principal investigators have brought international exposure to ARMI through venues such as the World Congress of Herpetology in South Africa in 2005 (invited presentation by Dr. Gary Fellers), the Global Amphibian Summit, sponsored by the International Union for Conservation of Nature (IUCN) and Wildlife Conservation International, in Washington, D.C., 2005 (invited participation by Dr. P.S. Corn), and a special issue of the international herpetological journal Alytes focused on ARMI in 2004 (edited by Dr. C.K. Dodd, Jr.).
\nARMI research and monitoring efforts have addressed at least 7 of the 21 Threatened and Endangered Species listed by the U.S. Fish and Wildlife Service (California red-legged frog [Rana draytonii], Chiricahua leopard frog [R. chiricahuensis], arroyo toad [Bufo californicus], dusky gopher frog [Rana sevosa], mountain yellow-legged frog [R. muscosa], flatwoods salamander [Ambystoma cingulatum], and the golden coqui [Eleutherodactylus jasperi]), and 9 additional species of concern recognized by the IUCN. ARMI investigations have addressed time-sensitive research, such as emerging infectious diseases and effects on amphibians related to natural disasters like wildfire, hurricanes, and debris flows, and the effects of more constant, environmental change, like urban expansion, road development, and the use of pesticides.
\nOver the last 5 years, ARMI has partnered with an extensive list of government, academic, and private entities. These partnerships have been fruitful and have assisted ARMI in developing new field protocols and analytic tools, in using and refining emerging technologies to improve accuracy and efficiency of data handling, in conducting amphibian disease, malformation, and environmental effects research, and in implementing a network of monitoring and research sites. Accomplishments from these endeavors include more than 40 publications on amphibian status and trends, nearly 100 publications on amphibian ecology and causes of declines, and over 30 methodological publications. Several databases have emerged as a result of ARMI and its partnerships; one, a digital atlas of ranges for all U.S. amphibian species, was used by the IUCN to display amphibian distribution maps in the Global Amphibian Assessment Project.
\nGiven the scope of ARMI and the panoply of projects, findings have had implications for policy. Investigations that demonstrate amphibian declines or illuminate causes of declines provide valuable information about habitat management, environmental effects, mechanisms for the spread of disease, and human/amphibian interfaces. This information has been made available to land managers, scientists, educators, Congress and other policymakers, and the public. The support afforded ARMI by Congress has been influential in the program’s development and success. The value of ARMI’s efforts will continue to increase as we are able to extend our studies spatially and temporally to answer critical questions with more confidence. We are using ARMI’s resources efficiently and continuing to develop innovative mechanisms for leveraging resources for maximum effectiveness during challenging financial times.
\nThis report is a 5-year retrospective of the structure, methodology, progress, and contributions to the broader scientific community that have resulted from this national USGS program. We evaluate ARMI’s success to date, with regard to the challenges faced by the program and the strengths that have emerged. We chart objectives for the next 5 years that build on current accomplishments, highlight areas meriting further research, and direct efforts to overcome existing weaknesses.
","language":"English","publisher":"U.S. Geological Survey","publisherLocation":"Reston, VA","doi":"10.3133/sir20065224","usgsCitation":"Muths, E., Gallant, A.L., Campbell Grant, E., Battaglin, W.A., Green, D.E., Staiger, J.S., Walls, S., Gunzburger, M.S., and Kearney, R.F., 2006, The Amphibian Research and Monitoring Initiative (ARMI): 5-year report: U.S. Geological Survey Scientific Investigations Report 2006-5224, viii, 77 p., https://doi.org/10.3133/sir20065224.","productDescription":"viii, 77 p.","numberOfPages":"87","onlineOnly":"N","additionalOnlineFiles":"N","costCenters":[{"id":222,"text":"Earth Resources Observation and Science (EROS) Center","active":true,"usgs":true},{"id":291,"text":"Fort Collins Science Center","active":true,"usgs":true},{"id":589,"text":"Toxic Substances Hydrology Program","active":true,"usgs":true}],"links":[{"id":191954,"rank":1,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/sir20065224.PNG"},{"id":320233,"rank":2,"type":{"id":11,"text":"Document"},"url":"https://pubs.usgs.gov/sir/2006/5224/report.pdf","linkFileType":{"id":1,"text":"pdf"}}],"noUsgsAuthors":false,"publicationStatus":"PW","scienceBaseUri":"4f4e4ad5e4b07f02db68344c","contributors":{"authors":[{"text":"Muths, Erin 0000-0002-5498-3132","orcid":"https://orcid.org/0000-0002-5498-3132","contributorId":14012,"corporation":false,"usgs":true,"family":"Muths","given":"Erin","affiliations":[],"preferred":false,"id":290215,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"Gallant, Alisa L. 0000-0002-3029-6637 gallant@usgs.gov","orcid":"https://orcid.org/0000-0002-3029-6637","contributorId":2940,"corporation":false,"usgs":true,"family":"Gallant","given":"Alisa","email":"gallant@usgs.gov","middleInitial":"L.","affiliations":[{"id":222,"text":"Earth Resources Observation and Science (EROS) Center","active":true,"usgs":true},{"id":223,"text":"Earth Resources Observation and Science (EROS) Center (Geography)","active":false,"usgs":true}],"preferred":true,"id":290212,"contributorType":{"id":1,"text":"Authors"},"rank":2},{"text":"Campbell Grant, Evan H. 0000-0003-4401-6496","orcid":"https://orcid.org/0000-0003-4401-6496","contributorId":23233,"corporation":false,"usgs":true,"family":"Campbell Grant","given":"Evan H.","affiliations":[],"preferred":false,"id":290216,"contributorType":{"id":1,"text":"Authors"},"rank":3},{"text":"Battaglin, William A. 0000-0001-7287-7096 wbattagl@usgs.gov","orcid":"https://orcid.org/0000-0001-7287-7096","contributorId":1527,"corporation":false,"usgs":true,"family":"Battaglin","given":"William","email":"wbattagl@usgs.gov","middleInitial":"A.","affiliations":[{"id":191,"text":"Colorado Water Science Center","active":true,"usgs":true}],"preferred":true,"id":290211,"contributorType":{"id":1,"text":"Authors"},"rank":4},{"text":"Green, David E. 0000-0002-7663-1832 degreen@usgs.gov","orcid":"https://orcid.org/0000-0002-7663-1832","contributorId":3715,"corporation":false,"usgs":true,"family":"Green","given":"David","email":"degreen@usgs.gov","middleInitial":"E.","affiliations":[{"id":456,"text":"National Wildlife Health Center","active":true,"usgs":true}],"preferred":true,"id":290213,"contributorType":{"id":1,"text":"Authors"},"rank":5},{"text":"Staiger, Jennifer S. jstaiger@usgs.gov","contributorId":5915,"corporation":false,"usgs":true,"family":"Staiger","given":"Jennifer","email":"jstaiger@usgs.gov","middleInitial":"S.","affiliations":[],"preferred":true,"id":290214,"contributorType":{"id":1,"text":"Authors"},"rank":6},{"text":"Walls, Susan C. 0000-0001-7391-9155","orcid":"https://orcid.org/0000-0001-7391-9155","contributorId":52284,"corporation":false,"usgs":true,"family":"Walls","given":"Susan C.","affiliations":[],"preferred":false,"id":290218,"contributorType":{"id":1,"text":"Authors"},"rank":7},{"text":"Gunzburger, Margaret S.","contributorId":43449,"corporation":false,"usgs":true,"family":"Gunzburger","given":"Margaret","email":"","middleInitial":"S.","affiliations":[],"preferred":false,"id":290217,"contributorType":{"id":1,"text":"Authors"},"rank":8},{"text":"Kearney, Rick F.","contributorId":72472,"corporation":false,"usgs":true,"family":"Kearney","given":"Rick","email":"","middleInitial":"F.","affiliations":[],"preferred":false,"id":290219,"contributorType":{"id":1,"text":"Authors"},"rank":9}]}} ,{"id":1004028,"text":"1004028 - 2006 - Increased levels of IgE and autoreactive, polyreactive IgG in wild rodents: implications for the hygiene hypothesis","interactions":[],"lastModifiedDate":"2012-02-02T00:04:51","indexId":"1004028","displayToPublicDate":"2006-01-01T00:00:00","publicationYear":"2006","noYear":false,"publicationType":{"id":2,"text":"Article"},"publicationSubtype":{"id":10,"text":"Journal Article"},"seriesTitle":{"id":3332,"text":"Scandinavian Journal of Immunology","active":true,"publicationSubtype":{"id":10}},"title":"Increased levels of IgE and autoreactive, polyreactive IgG in wild rodents: implications for the hygiene hypothesis","docAbstract":"To probe the potential role of Th1 versus Th2 reactivity underlying the hygiene hypothesis, intrinsic levels of Th1-associated and Th2-associated antibodies in the serum of wild rodents were compared with that in various strains of laboratory rodents. Studies using rat lung antigens as a target indicated that wild rats have substantially greater levels of autoreactive, polyreactive immunoglobulin G (IgG), but not autoreactive, polyreactive IgM than do laboratory rats, both on a quantitative and qualitative basis. Increased levels of serum IgG and IgE were observed in both wild rats and wild mice relative to their laboratory-raised counterparts, with the effect being most pronounced for IgE levels. Further, wild rats had greater intrinsic levels of both Th1- and Th2-associated IgG subclasses than did lab rats. The habitat (wild versus laboratory raised) had a more substantial impact on immunoglobulin concentration than did age, strain or gender in the animals studied. The presence in wild rodents of increased intrinsic, presumably protective, non-pathogenic responses similar to both autoimmune (autoreactive IgG, Th1-associated) and allergic (IgE, Th2-associated) reactions as well as increased levels of Th1-associated and Th2-associated IgG subclasses points toward a generally increased stimulation of the immune system in these animals rather than a shift in the nature of the immunoreactivity. It is concluded that, at least to the extent that feedback inhibition is a controlling element of immunoreactivity, an overly hygienic environment may affect the threshold of both types of immune responses more so than the balance between the different responses.","largerWorkType":{"id":2,"text":"Article"},"largerWorkTitle":"Scandinavian Journal of Immunology","largerWorkSubtype":{"id":10,"text":"Journal Article"},"language":"English","usgsCitation":"Devalapalli, A., Lesher, A., Shieh, K., Solow, J., Everett, M., Edala, A., Whitt, P., Long, R.R., Newton, N., and Parker, W., 2006, Increased levels of IgE and autoreactive, polyreactive IgG in wild rodents: implications for the hygiene hypothesis: Scandinavian Journal of Immunology, v. 64, no. 2, p. 125-136.","productDescription":"p. 125-136","startPage":"125","endPage":"136","numberOfPages":"12","costCenters":[{"id":456,"text":"National Wildlife Health Center","active":true,"usgs":true}],"links":[{"id":134279,"rank":0,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"},{"id":15133,"rank":100,"type":{"id":15,"text":"Index Page"},"url":"https://www3.interscience.wiley.com/journal/118588029/abstract?CRETRY=1&SRETRY=0","linkFileType":{"id":5,"text":"html"},"description":"2504.000000000000000"}],"volume":"64","issue":"2","noUsgsAuthors":false,"publicationStatus":"PW","scienceBaseUri":"4f4e4a80e4b07f02db6497fc","contributors":{"authors":[{"text":"Devalapalli, A.P.","contributorId":78301,"corporation":false,"usgs":true,"family":"Devalapalli","given":"A.P.","email":"","affiliations":[],"preferred":false,"id":314977,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"Lesher, A.","contributorId":42182,"corporation":false,"usgs":true,"family":"Lesher","given":"A.","email":"","affiliations":[],"preferred":false,"id":314974,"contributorType":{"id":1,"text":"Authors"},"rank":2},{"text":"Shieh, K.","contributorId":19925,"corporation":false,"usgs":true,"family":"Shieh","given":"K.","email":"","affiliations":[],"preferred":false,"id":314972,"contributorType":{"id":1,"text":"Authors"},"rank":3},{"text":"Solow, J.S.","contributorId":12431,"corporation":false,"usgs":true,"family":"Solow","given":"J.S.","email":"","affiliations":[],"preferred":false,"id":314969,"contributorType":{"id":1,"text":"Authors"},"rank":4},{"text":"Everett, M.L.","contributorId":13942,"corporation":false,"usgs":true,"family":"Everett","given":"M.L.","email":"","affiliations":[],"preferred":false,"id":314970,"contributorType":{"id":1,"text":"Authors"},"rank":5},{"text":"Edala, A.S.","contributorId":35706,"corporation":false,"usgs":true,"family":"Edala","given":"A.S.","email":"","affiliations":[],"preferred":false,"id":314973,"contributorType":{"id":1,"text":"Authors"},"rank":6},{"text":"Whitt, P.","contributorId":60177,"corporation":false,"usgs":true,"family":"Whitt","given":"P.","email":"","affiliations":[],"preferred":false,"id":314976,"contributorType":{"id":1,"text":"Authors"},"rank":7},{"text":"Long, Renee R.","contributorId":13943,"corporation":false,"usgs":true,"family":"Long","given":"Renee","email":"","middleInitial":"R.","affiliations":[],"preferred":false,"id":314971,"contributorType":{"id":1,"text":"Authors"},"rank":8},{"text":"Newton, N.","contributorId":94271,"corporation":false,"usgs":true,"family":"Newton","given":"N.","email":"","affiliations":[],"preferred":false,"id":314978,"contributorType":{"id":1,"text":"Authors"},"rank":9},{"text":"Parker, W.","contributorId":49324,"corporation":false,"usgs":true,"family":"Parker","given":"W.","email":"","affiliations":[],"preferred":false,"id":314975,"contributorType":{"id":1,"text":"Authors"},"rank":10}]}} ,{"id":1015192,"text":"1015192 - 2006 - Evaluating redband trout habitat in sagebrush desert basins in southwestern Idaho","interactions":[],"lastModifiedDate":"2017-12-28T10:21:12","indexId":"1015192","displayToPublicDate":"2006-01-01T00:00:00","publicationYear":"2006","noYear":false,"publicationType":{"id":2,"text":"Article"},"publicationSubtype":{"id":10,"text":"Journal Article"},"seriesTitle":{"id":2886,"text":"North American Journal of Fisheries Management","active":true,"publicationSubtype":{"id":10}},"title":"Evaluating redband trout habitat in sagebrush desert basins in southwestern Idaho","docAbstract":"We estimated abundance quantiles of redband trout Oncorhynchus mykiss gairdneri relative to five site-specific habitat variables (stream shading, bank cover, bank stability, fine sediment in the stream substrate, and cover for adults) and one landscape variable (distance from stream headwaters) on 30 streams in southwestern Idaho during 1993–1998. In addition, the five site-specific habitat variables were used to calculate a habitat suitability rating (HSR) used by the U.S. Bureau of Land Management to determine habitat quality of sagebrush desert streams for redband trout. Variation in abundance increased significantly with increasing HSR; the highest abundances were only found with high HSRs, indicating that the HSR model correctly predicted habitat quality for redband trout. However, a model that consisted of stream shade, distance from stream headwaters, and their interaction best predicted redband trout density, explaining 36% of the variation in adult density in sagebrush desert basin streams; stream shade explained most of the variation in redband trout density. When habitat quality was modeled on shade alone, the precision in predicting adult redband trout density was similar to that of the HSR model, as evaluated with tolerance intervals that contained 80% of future observations of redband trout density with 95% confidence. Increasing stream shade in the uppermost 50 km of a stream would result in the greatest increase in redband trout density. We recommend that land managers primarily evaluate the habitat quality of sagebrush desert streams by quantifying the amount of stream shade provided by riparian shrubs and trees. Use of a multivariable habitat model should be retained for desert streams where shade from riparian plant communities is limited.
","language":"English","publisher":"Taylor & Francis","doi":"10.1577/M04-115.1","usgsCitation":"Zoellick, B., and Cade, B., 2006, Evaluating redband trout habitat in sagebrush desert basins in southwestern Idaho: North American Journal of Fisheries Management, v. 26, no. 2, p. 268-281, https://doi.org/10.1577/M04-115.1.","productDescription":"14 p.","startPage":"268","endPage":"281","costCenters":[{"id":291,"text":"Fort Collins Science Center","active":true,"usgs":true}],"links":[{"id":133904,"rank":0,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"}],"volume":"26","issue":"2","noUsgsAuthors":false,"publicationDate":"2006-05-01","publicationStatus":"PW","scienceBaseUri":"4f4e4a03e4b07f02db5f8242","contributors":{"authors":[{"text":"Zoellick, B.W.","contributorId":97860,"corporation":false,"usgs":true,"family":"Zoellick","given":"B.W.","email":"","affiliations":[],"preferred":false,"id":322485,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"Cade, B.S.","contributorId":47315,"corporation":false,"usgs":true,"family":"Cade","given":"B.S.","affiliations":[],"preferred":false,"id":322484,"contributorType":{"id":1,"text":"Authors"},"rank":2}]}} ]}