Newcastle disease is caused by virulent forms of avian paramyxovirus of serotype 1 (APMV-1) and has global economic importance. The disease reached panzootic proportions within two decades after first being identified in 1926 in the United Kingdom and Indonesia and still remains endemic in many countries across the world. Here we review information on the host, temporal, and geographic distribution of APMV-1 genetic diversity based on the evolutionary systematics of the complete coding region of the fusion gene. Strains of APMV-1 are phylogenetically separated into two classes (class I and class II) and further classified into genotypes based on genetic differences. Class I viruses are genetically less diverse, generally present in wild waterfowl, and are of low virulence. Class II viruses are genetically and phenotypically more diverse, frequently isolated from poultry with occasional spillovers into wild birds, and exhibit a wider range of virulence. Waterfowl, cormorants, and pigeons are natural reservoirs of all APMV-1 pathotypes, except viscerotropic velogenic viruses for which natural reservoirs have not been identified. Genotypes I and II within class II include isolates of high and low virulence, the latter often being used as vaccines. Viruses of genotypes III and IX that emerged decades ago are now isolated rarely, but may be found in domestic and wild birds in China. Containing only virulent viruses and responsible for the majority of recent outbreaks in poultry and wild birds, viruses from genotypes V, VI, and VII, are highly mobile and have been isolated on different continents. Conversely, virulent viruses of genotypes XI (Madagascar), XIII (mainly Southwest Asia), XVI (North America) and XIV, XVII and XVIII (Africa) appear to have a more limited geographic distribution and have been isolated predominantly from poultry.
","language":"English","publisher":"Elsevier","doi":"10.1016/j.meegid.2016.01.008","usgsCitation":"Dimitrov, K.M., Ramey, A.M., Qiu, X., Bahl, J., and Afonso, C.L., 2016, Temporal, geographic, and host distribution of avian paramyxovirus 1 (Newcastle disease virus): Infection, Genetics and Evolution, v. 39, p. 22-34, https://doi.org/10.1016/j.meegid.2016.01.008.","productDescription":"13 p.","startPage":"22","endPage":"34","ipdsId":"IP-069077","costCenters":[{"id":117,"text":"Alaska Science Center Biology WTEB","active":true,"usgs":true}],"links":[{"id":471099,"rank":0,"type":{"id":40,"text":"Open Access Publisher Index Page"},"url":"https://doi.org/10.1016/j.meegid.2016.01.008","text":"Publisher Index Page"},{"id":330406,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"}],"volume":"39","publishingServiceCenter":{"id":12,"text":"Tacoma PSC"},"noUsgsAuthors":false,"publicationStatus":"PW","scienceBaseUri":"5811c0f2e4b0f497e79a5a73","chorus":{"doi":"10.1016/j.meegid.2016.01.008","url":"http://dx.doi.org/10.1016/j.meegid.2016.01.008","publisher":"Elsevier BV","authors":"Dimitrov Kiril M., Ramey Andrew M., Qiu Xueting, Bahl Justin, Afonso Claudio L.","journalName":"Infection, Genetics and Evolution","publicationDate":"4/2016"},"contributors":{"authors":[{"text":"Dimitrov, Kiril M.","contributorId":176311,"corporation":false,"usgs":false,"family":"Dimitrov","given":"Kiril","email":"","middleInitial":"M.","affiliations":[],"preferred":false,"id":652158,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"Ramey, Andrew M. 0000-0002-3601-8400 aramey@usgs.gov","orcid":"https://orcid.org/0000-0002-3601-8400","contributorId":1872,"corporation":false,"usgs":true,"family":"Ramey","given":"Andrew","email":"aramey@usgs.gov","middleInitial":"M.","affiliations":[{"id":114,"text":"Alaska Science Center","active":true,"usgs":true},{"id":117,"text":"Alaska Science Center Biology WTEB","active":true,"usgs":true}],"preferred":true,"id":652108,"contributorType":{"id":1,"text":"Authors"},"rank":2},{"text":"Qiu, Xueting","contributorId":176312,"corporation":false,"usgs":false,"family":"Qiu","given":"Xueting","email":"","affiliations":[],"preferred":false,"id":652159,"contributorType":{"id":1,"text":"Authors"},"rank":3},{"text":"Bahl, Justin","contributorId":171803,"corporation":false,"usgs":false,"family":"Bahl","given":"Justin","affiliations":[{"id":26950,"text":"University of Texas School of Public Health, 1200 Pressler Street, Houston, TX 77030, USA","active":true,"usgs":false}],"preferred":false,"id":652160,"contributorType":{"id":1,"text":"Authors"},"rank":4},{"text":"Afonso, Claudio L.","contributorId":171954,"corporation":false,"usgs":false,"family":"Afonso","given":"Claudio","email":"","middleInitial":"L.","affiliations":[],"preferred":false,"id":652161,"contributorType":{"id":1,"text":"Authors"},"rank":5}]}} ,{"id":70177888,"text":"70177888 - 2016 - Effects of urban land-use on largescale stonerollers in the Mobile River Basin, Birmingham, AL","interactions":[],"lastModifiedDate":"2016-10-26T14:27:33","indexId":"70177888","displayToPublicDate":"2016-04-01T00:00:00","publicationYear":"2016","noYear":false,"publicationType":{"id":2,"text":"Article"},"publicationSubtype":{"id":10,"text":"Journal Article"},"seriesTitle":{"id":1479,"text":"Ecotoxicology","active":true,"publicationSubtype":{"id":10}},"title":"Effects of urban land-use on largescale stonerollers in the Mobile River Basin, Birmingham, AL","docAbstract":"During the spring and fall of 2001 and the spring of 2002 a study was conducted to evaluate the health of the largescale stoneroller (Campostoma oligolepis) populations in streams along an urban land-use gradient. Sites were selected from a pool of naturally similar sub-basins (eco-region, basin size, and geology) of the Mobile River basin (MRB), using an index of urban intensity derived from infrastructure, socioeconomic, and land-use data. This urban land-use gradient (ULUG) is a multimetric indicator of urban intensity, ranging from 0 (background) to 100 (intense urbanization). Campostoma sp. have been used previously as indicators of stream health and are common species found in all sites within the MRB. Endpoints used to determine the effects of urban land-use on the largescale stoneroller included total glutathione, histology, hepatic apoptosis, condition factor and external lesions. Liver glutathione levels were positively associated with increasing urban land-use (r2 = 0.94). Histopathological examination determined that some abnormalities and lesions were correlated with the ULUG and generally increased in prevalence or severity with increasing urbanization. Liver macrophage aggregates were positively correlated to the ULUG. The occurrence of nucleosomal ladders (indicating apoptotic cell death) did not correspond with urban intensity in a linear fashion. Apoptosis, as well as prevalence and severity of a myxozoan parasite, appeared to have a hormetic dose–response relationship. The majority of the biomarkers suggested fish health was compromised in areas where the ULUG ≥ 36.
","language":"English","publisher":"Springer","doi":"10.1007/s10646-016-1620-3","usgsCitation":"Iwanowicz, D.D., Black, M., Blazer, V., Zappia, H., and Bryant, W., 2016, Effects of urban land-use on largescale stonerollers in the Mobile River Basin, Birmingham, AL: Ecotoxicology, v. 25, no. 3, p. 608-621, https://doi.org/10.1007/s10646-016-1620-3.","productDescription":"14 p.","startPage":"608","endPage":"621","ipdsId":"IP-052558","costCenters":[{"id":365,"text":"Leetown Science Center","active":true,"usgs":true}],"links":[{"id":330425,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"}],"country":"United States","state":"Alabama","otherGeospatial":"Mobile River Basin","volume":"25","issue":"3","publishingServiceCenter":{"id":10,"text":"Baltimore PSC"},"noUsgsAuthors":false,"publicationDate":"2016-02-18","publicationStatus":"PW","scienceBaseUri":"5811c0f2e4b0f497e79a5a75","contributors":{"authors":[{"text":"Iwanowicz, Deborah D. 0000-0002-9613-8594 diwanowicz@usgs.gov","orcid":"https://orcid.org/0000-0002-9613-8594","contributorId":2253,"corporation":false,"usgs":true,"family":"Iwanowicz","given":"Deborah","email":"diwanowicz@usgs.gov","middleInitial":"D.","affiliations":[{"id":365,"text":"Leetown Science Center","active":true,"usgs":true}],"preferred":true,"id":652031,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"Black, M.C.","contributorId":89091,"corporation":false,"usgs":true,"family":"Black","given":"M.C.","email":"","affiliations":[],"preferred":false,"id":652032,"contributorType":{"id":1,"text":"Authors"},"rank":2},{"text":"Blazer, Vicki S. 0000-0001-6647-9614 vblazer@usgs.gov","orcid":"https://orcid.org/0000-0001-6647-9614","contributorId":150384,"corporation":false,"usgs":true,"family":"Blazer","given":"Vicki S.","email":"vblazer@usgs.gov","affiliations":[{"id":365,"text":"Leetown Science Center","active":true,"usgs":true}],"preferred":true,"id":652033,"contributorType":{"id":1,"text":"Authors"},"rank":3},{"text":"Zappia, H.","contributorId":94474,"corporation":false,"usgs":true,"family":"Zappia","given":"H.","affiliations":[],"preferred":false,"id":652034,"contributorType":{"id":1,"text":"Authors"},"rank":4},{"text":"Bryant, Wade L. Jr. wbbryant@usgs.gov","contributorId":1777,"corporation":false,"usgs":true,"family":"Bryant","given":"Wade L.","suffix":"Jr.","email":"wbbryant@usgs.gov","affiliations":[{"id":451,"text":"National Water Quality Assessment Program","active":true,"usgs":true}],"preferred":false,"id":652035,"contributorType":{"id":1,"text":"Authors"},"rank":5}]}} ,{"id":70178855,"text":"70178855 - 2016 - Landscape composition creates a threshold influencing Lesser Prairie-Chicken population resilience to extreme drought","interactions":[],"lastModifiedDate":"2016-12-09T14:05:54","indexId":"70178855","displayToPublicDate":"2016-04-01T00:00:00","publicationYear":"2016","noYear":false,"publicationType":{"id":2,"text":"Article"},"publicationSubtype":{"id":10,"text":"Journal Article"},"seriesTitle":{"id":3871,"text":"Global Ecology and Conservation","active":true,"publicationSubtype":{"id":10}},"title":"Landscape composition creates a threshold influencing Lesser Prairie-Chicken population resilience to extreme drought","docAbstract":"Habitat loss and degradation compound the effects of climate change on wildlife, yet responses to climate and land cover change are often quantified independently. The interaction between climate and land cover change could be intensified in the Great Plains region where grasslands are being converted to row-crop agriculture concurrent with increased frequency of extreme drought events. We quantified the combined effects of land cover and climate change on a species of conservation concern in the Great Plains, the Lesser Prairie-Chicken (Tympanuchus pallidicinctus ). We combined extreme drought events and land cover change with lek count surveys in a Bayesian hierarchical model to quantify changes in abundance of male Lesser Prairie-Chickens from 1978 to 2014 in Kansas, the core of their species range. Our estimates of abundance indicate a gradually decreasing population through 2010 corresponding to drought events and reduced grassland areas. Decreases in Lesser Prairie-Chicken abundance were greatest in areas with increasing row-crop to grassland land cover ratio during extreme drought events, and decreased grassland reduces the resilience of Lesser Prairie-Chicken populations to extreme drought events. A threshold exists for Lesser Prairie-Chickens in response to the gradient of cropland:grassland land cover. When moving across the gradient of grassland to cropland, abundance initially increased in response to more cropland on the landscape, but declined in response to more cropland after the threshold (δ=0.096, or 9.6% cropland). Preservation of intact grasslands and continued implementation of initiatives to revert cropland to grassland should increase Lesser Prairie-Chicken resilience to extreme drought events due to climate change.
","language":"English","publisher":"Elsevier","doi":"10.1016/j.gecco.2016.03.003","usgsCitation":"Ross, B., Haukos, D.A., Hagen, C.A., and Pitman, J.C., 2016, Landscape composition creates a threshold influencing Lesser Prairie-Chicken population resilience to extreme drought: Global Ecology and Conservation, v. 6, p. 179-188, https://doi.org/10.1016/j.gecco.2016.03.003.","productDescription":"10 p.","startPage":"179","endPage":"188","ipdsId":"IP-071351","costCenters":[{"id":198,"text":"Coop Res Unit Atlanta","active":true,"usgs":true}],"links":[{"id":471105,"rank":0,"type":{"id":40,"text":"Open Access Publisher Index Page"},"url":"https://doi.org/10.1016/j.gecco.2016.03.003","text":"Publisher Index Page"},{"id":331807,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"}],"country":"United States","state":"Kansas","geographicExtents":"{\n \"type\": \"FeatureCollection\",\n \"features\": [\n {\n \"type\": \"Feature\",\n \"properties\": {},\n \"geometry\": {\n \"type\": \"Polygon\",\n \"coordinates\": [\n [\n [\n -102.0465087890625,\n 36.99377838872517\n ],\n [\n -102.0465087890625,\n 39.198205348894795\n ],\n [\n -98.69018554687499,\n 39.198205348894795\n ],\n [\n -98.69018554687499,\n 36.99377838872517\n ],\n [\n -102.0465087890625,\n 36.99377838872517\n ]\n ]\n ]\n }\n }\n ]\n}","volume":"6","publishingServiceCenter":{"id":8,"text":"Raleigh PSC"},"noUsgsAuthors":false,"publicationStatus":"PW","scienceBaseUri":"584bd0dfe4b077fc20250e14","contributors":{"authors":[{"text":"Ross, Beth E.","contributorId":56124,"corporation":false,"usgs":true,"family":"Ross","given":"Beth E.","affiliations":[],"preferred":false,"id":655363,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"Haukos, David A. 0000-0001-5372-9960 dhaukos@usgs.gov","orcid":"https://orcid.org/0000-0001-5372-9960","contributorId":3664,"corporation":false,"usgs":true,"family":"Haukos","given":"David","email":"dhaukos@usgs.gov","middleInitial":"A.","affiliations":[{"id":200,"text":"Coop Res Unit Seattle","active":true,"usgs":true},{"id":198,"text":"Coop Res Unit Atlanta","active":true,"usgs":true}],"preferred":true,"id":655320,"contributorType":{"id":1,"text":"Authors"},"rank":2},{"text":"Hagen, Christian A.","contributorId":107574,"corporation":false,"usgs":true,"family":"Hagen","given":"Christian","email":"","middleInitial":"A.","affiliations":[],"preferred":false,"id":655364,"contributorType":{"id":1,"text":"Authors"},"rank":3},{"text":"Pitman, James C.","contributorId":40529,"corporation":false,"usgs":true,"family":"Pitman","given":"James","email":"","middleInitial":"C.","affiliations":[],"preferred":false,"id":655365,"contributorType":{"id":1,"text":"Authors"},"rank":4}]}} ,{"id":70178868,"text":"70178868 - 2016 - Increased temperatures combined with lowered salinities differentially impact oyster size class growth and mortality","interactions":[],"lastModifiedDate":"2016-12-09T15:46:38","indexId":"70178868","displayToPublicDate":"2016-04-01T00:00:00","publicationYear":"2016","noYear":false,"publicationType":{"id":2,"text":"Article"},"publicationSubtype":{"id":10,"text":"Journal Article"},"seriesTitle":{"id":2455,"text":"Journal of Shellfish Research","active":true,"publicationSubtype":{"id":10}},"title":"Increased temperatures combined with lowered salinities differentially impact oyster size class growth and mortality","docAbstract":"Changes in the timing and interaction of seasonal high temperatures and low salinities as predicted by climate change models could dramatically alter oyster population dynamics. Little is known explicitly about how low salinity and high temperature combinations affect spat (<25mm), seed (25–75mm), andmarket (>75mm) oyster growth and mortality. Using field and laboratory studies, this project quantified the combined effects of extremely low salinities (<5) and high temperatures (>30°C) on growth and survival of spat, seed, andmarket-sized oysters. In 2012 and 2013, hatchery-produced oysters were placed in open and closed cages at three sites in Breton Sound, LA, along a salinity gradient that typically ranged from 5 to 20. Growth and mortality were recorded monthly. Regardless of size class, oysters at the lowest salinity site (annualmean = 4.8) experienced significantly highermortality and lower growth than oysters located in higher salinity sites (annual means = 11.1 and 13.0, respectively); furthermore, all oysters in open cages at the two higher salinity sites experienced higher mortality than in closed cages, likely due to predation. To explicitly examine oyster responses to extreme low salinity and high temperature combinations, a series of laboratory studies were conducted. Oysters were placed in 18 tanks in a fully crossed temperature (25°C, 32°C) by salinity (1, 5, and 15) study with three replicates, and repeated at least twice for each oyster size class. Regardless of temperature, seed and market oysters held in low salinity tanks (salinity 1) experienced 100% mortality within 7 days. In contrast, at salinity 5, temperature significantly affected mortality; oysters in all size classes experienced greater than 50%mortality at 32°C and less than 40%mortality at 25°C. At the highest salinity tested (15), only market-sized oysters held at 32°C experienced significant mortality (>60%). These studies demonstrate that high water temperatures (>30°C) and low salinities (<5) negatively impact oyster growth and survival differentially and that high temperatures alone may negatively impact market-sized oysters. It is critical to understand the potential impacts of climate and anthropogenic changes on oyster resources to better adapt and manage for long-term sustainability.
","language":"English","publisher":"National Shellfisheries Association","doi":"10.2983/035.035.0112","usgsCitation":"LaPeyre, M.K., Rybovich, M., Hall, S., and La Peyre, J.F., 2016, Increased temperatures combined with lowered salinities differentially impact oyster size class growth and mortality: Journal of Shellfish Research, v. 35, no. 1, p. 101-113, https://doi.org/10.2983/035.035.0112.","productDescription":"13 p.","startPage":"101","endPage":"113","ipdsId":"IP-070396","costCenters":[{"id":198,"text":"Coop Res Unit Atlanta","active":true,"usgs":true}],"links":[{"id":331826,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"}],"country":"United States","state":"Louisiana","city":"Breton Sound","geographicExtents":"{\n \"type\": \"FeatureCollection\",\n \"features\": [\n {\n \"type\": \"Feature\",\n \"properties\": {},\n \"geometry\": {\n \"type\": \"Polygon\",\n \"coordinates\": [\n [\n [\n -89.9945068359375,\n 29.501768632523262\n ],\n [\n -89.9945068359375,\n 29.878755346037977\n ],\n [\n -89.39849853515625,\n 29.878755346037977\n ],\n [\n -89.39849853515625,\n 29.501768632523262\n ],\n [\n -89.9945068359375,\n 29.501768632523262\n ]\n ]\n ]\n }\n }\n ]\n}","volume":"35","issue":"1","publishingServiceCenter":{"id":8,"text":"Raleigh PSC"},"noUsgsAuthors":false,"publicationStatus":"PW","scienceBaseUri":"584bd0dfe4b077fc20250e12","contributors":{"authors":[{"text":"LaPeyre, Megan K. 0000-0001-9936-2252 mlapeyre@usgs.gov","orcid":"https://orcid.org/0000-0001-9936-2252","contributorId":585,"corporation":false,"usgs":true,"family":"LaPeyre","given":"Megan","email":"mlapeyre@usgs.gov","middleInitial":"K.","affiliations":[{"id":17705,"text":"Wetland and Aquatic Research Center","active":true,"usgs":true},{"id":198,"text":"Coop Res Unit Atlanta","active":true,"usgs":true}],"preferred":true,"id":655385,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"Rybovich, Molly","contributorId":177344,"corporation":false,"usgs":false,"family":"Rybovich","given":"Molly","email":"","affiliations":[],"preferred":false,"id":655401,"contributorType":{"id":1,"text":"Authors"},"rank":2},{"text":"Hall, Steven G.","contributorId":177345,"corporation":false,"usgs":false,"family":"Hall","given":"Steven G.","affiliations":[],"preferred":false,"id":655402,"contributorType":{"id":1,"text":"Authors"},"rank":3},{"text":"La Peyre, Jerome F.","contributorId":34697,"corporation":false,"usgs":true,"family":"La Peyre","given":"Jerome","email":"","middleInitial":"F.","affiliations":[],"preferred":false,"id":655403,"contributorType":{"id":1,"text":"Authors"},"rank":4}]}} ,{"id":70178035,"text":"70178035 - 2016 - Airborne pathogens from dairy manure aerial irrigation and the human health risk","interactions":[],"lastModifiedDate":"2016-12-19T17:44:05","indexId":"70178035","displayToPublicDate":"2016-04-01T00:00:00","publicationYear":"2016","noYear":false,"publicationType":{"id":18,"text":"Report"},"publicationSubtype":{"id":3,"text":"Organization Series"},"title":"Airborne pathogens from dairy manure aerial irrigation and the human health risk","docAbstract":"Dairy manure, like the fecal excrement from any domesticated or wild animal, can contain pathogens capable of infecting humans and causing illness or even death. Pathogens in dairy manure can be broadly divided into categories of taxonomy or infectiousness. Dividing by taxonomy there are three pathogen groups in dairy manure: viruses (e.g., bovine rotavirus), bacteria (e.g., Salmonella species), and protozoa (e.g., Cryptosporidium parvum). There are two categories of infectiousness for pathogens found in animals: those that are zoonotic and those that are not. A zoonotic pathogen is one that can infect both human and animal hosts. Some zoonotic pathogens found in dairy manure cause illness in both hosts (e.g., Salmonella) while other zoonotic pathogens, like Escherichia coli O157:H7, (enterohemorrhagic E. coli (EHEC)) cause illness only in humans. As a general rule, the gastrointestinal viruses found in dairy manure are not zoonotic. While there are exceptions (e.g., rare reports of bovine rotavirus infecting children), for the most part the viruses in dairy manure are not a human health concern. The primary concerns are the zoonotic bacteria and protozoa in dairy manure.
","largerWorkType":{"id":18,"text":"Report"},"largerWorkTitle":"Considerations for the use of manure irrigation practices","language":"English","publisher":"Wisconsin Manure Irrigation Workgroup","collaboration":"Wisconsin Department of Natural Resources","usgsCitation":"Borchardt, M.A., and Burch, T.R., 2016, Airborne pathogens from dairy manure aerial irrigation and the human health risk, C-1-C-24.","productDescription":"C-1-C-24","ipdsId":"IP-069593","costCenters":[{"id":677,"text":"Wisconsin Water Science Center","active":true,"usgs":true}],"links":[{"id":332310,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"},{"id":330596,"type":{"id":15,"text":"Index Page"},"url":"https://fyi.uwex.edu/manureirrigation/files/2016/04/Manure-Irrigation-Workgroup-Report-2016.pdf"}],"publishingServiceCenter":{"id":6,"text":"Columbus PSC"},"noUsgsAuthors":false,"publicationStatus":"PW","scienceBaseUri":"58590009e4b03639a6025e2d","contributors":{"authors":[{"text":"Borchardt, Mark A. 0000-0002-6471-2627","orcid":"https://orcid.org/0000-0002-6471-2627","contributorId":151033,"corporation":false,"usgs":false,"family":"Borchardt","given":"Mark","email":"","middleInitial":"A.","affiliations":[{"id":6684,"text":"USDA Forest Service, Southern Research Station, Aiken, SC","active":true,"usgs":false}],"preferred":false,"id":652579,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"Burch, Tucker R tburch@usgs.gov","contributorId":5689,"corporation":false,"usgs":true,"family":"Burch","given":"Tucker","email":"tburch@usgs.gov","middleInitial":"R","affiliations":[{"id":677,"text":"Wisconsin Water Science Center","active":true,"usgs":true}],"preferred":true,"id":652578,"contributorType":{"id":1,"text":"Authors"},"rank":2}]}} ,{"id":70177963,"text":"70177963 - 2016 - Municipal solid waste landfills harbor distinct microbiomes","interactions":[],"lastModifiedDate":"2018-08-07T11:52:05","indexId":"70177963","displayToPublicDate":"2016-04-01T00:00:00","publicationYear":"2016","noYear":false,"publicationType":{"id":2,"text":"Article"},"publicationSubtype":{"id":10,"text":"Journal Article"},"seriesTitle":{"id":1702,"text":"Frontiers in Microbiology","onlineIssn":"1664-302X","active":true,"publicationSubtype":{"id":10}},"title":"Municipal solid waste landfills harbor distinct microbiomes","docAbstract":"Landfills are the final repository for most of the discarded material from human society and its “built environments.” Microorganisms subsequently degrade this discarded material in the landfill, releasing gases (largely CH4 and CO2) and a complex mixture of soluble chemical compounds in leachate. Characterization of “landfill microbiomes” and their comparison across several landfills should allow the identification of environmental or operational properties that influence the composition of these microbiomes and potentially their biodegradation capabilities. To this end, the composition of landfill microbiomes was characterized as part of an ongoing USGS national survey studying the chemical composition of leachates from 19 non-hazardous landfills across 16 states in the continental U.S. The landfills varied in parameters such as size, waste composition, management strategy, geography, and climate zone. The diversity and composition of bacterial and archaeal populations in leachate samples were characterized by 16S rRNA gene sequence analysis, and compared against a variety of physical and chemical parameters in an attempt to identify their impact on selection. Members of the Epsilonproteobacteria, Gammaproteobacteria, Clostridia, and candidate division OP3 were the most abundant. The distribution of the observed phylogenetic diversity could best be explained by a combination of variables and was correlated most strongly with the concentrations of chloride and barium, rate of evapotranspiration, age of waste, and the number of detected household chemicals. This study illustrates how leachate microbiomes are distinct from those of other natural or built environments, and sheds light on the major selective forces responsible for this microbial diversity.
","language":"English","publisher":"Frontiers","doi":"10.3389/fmicb.2016.00534","usgsCitation":"Stamps, B.W., Lyles, C.N., Suflita, J.M., Masoner, J.R., Cozzarelli, I.M., Kolpin, D.W., and Stevenson, B.S., 2016, Municipal solid waste landfills harbor distinct microbiomes: Frontiers in Microbiology, v. 7, p. 1-11, https://doi.org/10.3389/fmicb.2016.00534.","productDescription":"Article 534; 11 p.","startPage":"1","endPage":"11","ipdsId":"IP-062988","costCenters":[{"id":516,"text":"Oklahoma Water Science Center","active":true,"usgs":true},{"id":589,"text":"Toxic Substances Hydrology Program","active":true,"usgs":true}],"links":[{"id":471095,"rank":0,"type":{"id":40,"text":"Open Access Publisher Index Page"},"url":"https://doi.org/10.3389/fmicb.2016.00534","text":"Publisher Index Page"},{"id":330574,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"}],"volume":"7","publishingServiceCenter":{"id":5,"text":"Lafayette PSC"},"noUsgsAuthors":false,"publicationDate":"2016-04-20","publicationStatus":"PW","scienceBaseUri":"5818582fe4b0bb36a4c6fa13","contributors":{"authors":[{"text":"Stamps, Blake W.","contributorId":176485,"corporation":false,"usgs":false,"family":"Stamps","given":"Blake","email":"","middleInitial":"W.","affiliations":[],"preferred":false,"id":652503,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"Lyles, Christopher N.","contributorId":176484,"corporation":false,"usgs":false,"family":"Lyles","given":"Christopher","email":"","middleInitial":"N.","affiliations":[],"preferred":false,"id":652504,"contributorType":{"id":1,"text":"Authors"},"rank":2},{"text":"Suflita, Joseph M.","contributorId":82997,"corporation":false,"usgs":true,"family":"Suflita","given":"Joseph","email":"","middleInitial":"M.","affiliations":[],"preferred":false,"id":652505,"contributorType":{"id":1,"text":"Authors"},"rank":3},{"text":"Masoner, Jason R. 0000-0002-4829-6379 jmasoner@usgs.gov","orcid":"https://orcid.org/0000-0002-4829-6379","contributorId":3193,"corporation":false,"usgs":true,"family":"Masoner","given":"Jason","email":"jmasoner@usgs.gov","middleInitial":"R.","affiliations":[{"id":436,"text":"National Research Program - Eastern Branch","active":true,"usgs":true},{"id":516,"text":"Oklahoma Water Science Center","active":true,"usgs":true}],"preferred":true,"id":652506,"contributorType":{"id":1,"text":"Authors"},"rank":4},{"text":"Cozzarelli, Isabelle M. 0000-0002-5123-1007 icozzare@usgs.gov","orcid":"https://orcid.org/0000-0002-5123-1007","contributorId":1693,"corporation":false,"usgs":true,"family":"Cozzarelli","given":"Isabelle","email":"icozzare@usgs.gov","middleInitial":"M.","affiliations":[{"id":49175,"text":"Geology, Energy & Minerals Science Center","active":true,"usgs":true},{"id":436,"text":"National Research Program - Eastern Branch","active":true,"usgs":true}],"preferred":true,"id":652507,"contributorType":{"id":1,"text":"Authors"},"rank":5},{"text":"Kolpin, Dana W. 0000-0002-3529-6505 dwkolpin@usgs.gov","orcid":"https://orcid.org/0000-0002-3529-6505","contributorId":1239,"corporation":false,"usgs":true,"family":"Kolpin","given":"Dana","email":"dwkolpin@usgs.gov","middleInitial":"W.","affiliations":[{"id":351,"text":"Iowa Water Science Center","active":true,"usgs":true}],"preferred":true,"id":652508,"contributorType":{"id":1,"text":"Authors"},"rank":6},{"text":"Stevenson, Bradley S.","contributorId":176491,"corporation":false,"usgs":false,"family":"Stevenson","given":"Bradley","email":"","middleInitial":"S.","affiliations":[],"preferred":false,"id":652509,"contributorType":{"id":1,"text":"Authors"},"rank":7}]}} ,{"id":70185203,"text":"70185203 - 2016 - Fines classification based on sensitivity to pore-fluid chemistry","interactions":[],"lastModifiedDate":"2017-03-16T12:40:30","indexId":"70185203","displayToPublicDate":"2016-04-01T00:00:00","publicationYear":"2016","noYear":false,"publicationType":{"id":2,"text":"Article"},"publicationSubtype":{"id":10,"text":"Journal Article"},"seriesTitle":{"id":2327,"text":"Journal of Geotechnical and Geoenvironmental Engineering","active":true,"publicationSubtype":{"id":10}},"title":"Fines classification based on sensitivity to pore-fluid chemistry","docAbstract":"The 75-μm particle size is used to discriminate between fine and coarse grains. Further analysis of fine grains is typically based on the plasticity chart. Whereas pore-fluid-chemistry-dependent soil response is a salient and distinguishing characteristic of fine grains, pore-fluid chemistry is not addressed in current classification systems. Liquid limits obtained with electrically contrasting pore fluids (deionized water, 2-M NaCl brine, and kerosene) are combined to define the soil “electrical sensitivity.” Liquid limit and electrical sensitivity can be effectively used to classify fine grains according to their fluid-soil response into no-, low-, intermediate-, or high-plasticity fine grains of low, intermediate, or high electrical sensitivity. The proposed methodology benefits from the accumulated experience with liquid limit in the field and addresses the needs of a broader range of geotechnical engineering problems.
Modern tectonic studies often use regional moment tensors (RMTs) to interpret the seismotectonic framework of an earthquake or earthquake sequence; however, despite extensive use, little existing work addresses RMT parameter uncertainty. Here, we quantify how network geometry and faulting style affect RMT sensitivity. We examine how data-model fits change with fault plane geometry (strike and dip) for varying station configurations. We calculate the relative data fit for incrementally varying geometries about a best-fitting solution, applying our workflow to real and synthetic seismograms for both real and hypothetical station distributions and earthquakes. Initially, we conduct purely observational tests, computing RMTs from synthetic seismograms for hypothetical earthquakes and a series of well-behaved network geometries. We then incorporate real data and station distributions from the International Maule Aftershock Deployment (IMAD), which recorded aftershocks of the 2010 MW 8.8 Maule earthquake, and a set of regional stations capturing the ongoing earthquake sequence in Oklahoma and southern Kansas. We consider RMTs computed under three scenarios: (1) real seismic records selected for high data quality; (2) synthetic seismic records with noise computed for the observed source-station pairings and (3) synthetic seismic records with noise computed for all possible station-source pairings. To assess RMT sensitivity for each test, we observe the ‘fit falloff’, which portrays how relative fit changes when strike or dip varies incrementally; we then derive the ranges of acceptable strikes and dips by identifying the span of solutions with relative fits larger than 90 per cent of the best fit. For the azimuthally incomplete IMAD network, Scenario 3 best constrains fault geometry, with average ranges of 45° and 31° for strike and dip, respectively. In Oklahoma, Scenario 3 best constrains fault dip with an average range of 46°; however, strike is best constrained by Scenario 1, with a range of 26°. We draw two main conclusions from this study. (1) Station distribution impacts our ability to constrain RMTs using waveform time-series; however, in some tectonic settings, faulting style also plays a significant role and (2) increasing station density and data quantity (both the number of stations and the number of individual channels) does not necessarily improve RMT constraint. These results may be useful when organizing future seismic deployments (e.g. by concentrating stations in alignment with anticipated nodal planes), and in computing RMTs, either by guiding a more rigorous data selection process for input data or informing variable weighting among the selected data (e.g. by eliminating the transverse component when strike-slip mechanisms are expected).
","language":"English","publisher":"Oxford Academic","doi":"10.1093/gji/ggw141","usgsCitation":"Johnson, K.L., Hayes, G.P., Herrmann, R., Benz, H.M., McNamara, D.E., and Bergman, E.A., 2016, RMT focal plane sensitivity to seismic network geometry and faulting style: Geophysical Journal International, v. 206, no. 1, p. 525-556, https://doi.org/10.1093/gji/ggw141.","productDescription":"32 p.","startPage":"525","endPage":"556","ipdsId":"IP-075457","costCenters":[{"id":300,"text":"Geologic Hazards Science Center","active":true,"usgs":true}],"links":[{"id":471100,"rank":0,"type":{"id":40,"text":"Open Access Publisher Index Page"},"url":"https://doi.org/10.1093/gji/ggw141","text":"Publisher Index Page"},{"id":337167,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"}],"volume":"206","issue":"1","publishingServiceCenter":{"id":2,"text":"Denver PSC"},"noUsgsAuthors":false,"publicationDate":"2016-04-11","publicationStatus":"PW","scienceBaseUri":"58c277dce4b014cc3a3e76d7","contributors":{"authors":[{"text":"Johnson, Kendra L. kljohnson@usgs.gov","contributorId":4908,"corporation":false,"usgs":true,"family":"Johnson","given":"Kendra","email":"kljohnson@usgs.gov","middleInitial":"L.","affiliations":[{"id":300,"text":"Geologic Hazards Science Center","active":true,"usgs":true}],"preferred":true,"id":681566,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"Hayes, Gavin P. 0000-0003-3323-0112 ghayes@usgs.gov","orcid":"https://orcid.org/0000-0003-3323-0112","contributorId":147556,"corporation":false,"usgs":true,"family":"Hayes","given":"Gavin","email":"ghayes@usgs.gov","middleInitial":"P.","affiliations":[{"id":300,"text":"Geologic Hazards Science Center","active":true,"usgs":true}],"preferred":true,"id":681567,"contributorType":{"id":1,"text":"Authors"},"rank":2},{"text":"Herrmann, Robert B.","contributorId":80255,"corporation":false,"usgs":false,"family":"Herrmann","given":"Robert B.","affiliations":[],"preferred":false,"id":681568,"contributorType":{"id":1,"text":"Authors"},"rank":3},{"text":"Benz, Harley M. 0000-0002-6860-2134 benz@usgs.gov","orcid":"https://orcid.org/0000-0002-6860-2134","contributorId":794,"corporation":false,"usgs":true,"family":"Benz","given":"Harley","email":"benz@usgs.gov","middleInitial":"M.","affiliations":[{"id":300,"text":"Geologic Hazards Science Center","active":true,"usgs":true}],"preferred":true,"id":681569,"contributorType":{"id":1,"text":"Authors"},"rank":4},{"text":"McNamara, Daniel E. 0000-0001-6860-0350 mcnamara@usgs.gov","orcid":"https://orcid.org/0000-0001-6860-0350","contributorId":402,"corporation":false,"usgs":true,"family":"McNamara","given":"Daniel","email":"mcnamara@usgs.gov","middleInitial":"E.","affiliations":[{"id":300,"text":"Geologic Hazards Science Center","active":true,"usgs":true}],"preferred":true,"id":681570,"contributorType":{"id":1,"text":"Authors"},"rank":5},{"text":"Bergman, Eric A. 0000-0002-7069-8286","orcid":"https://orcid.org/0000-0002-7069-8286","contributorId":84513,"corporation":false,"usgs":false,"family":"Bergman","given":"Eric","email":"","middleInitial":"A.","affiliations":[],"preferred":false,"id":681571,"contributorType":{"id":1,"text":"Authors"},"rank":6}]}} ,{"id":70182745,"text":"70182745 - 2016 - Off-road vehicles affect nesting behaviour and reproductive success of American Oystercatchers Haematopus palliatus","interactions":[],"lastModifiedDate":"2017-02-28T11:22:29","indexId":"70182745","displayToPublicDate":"2016-04-01T00:00:00","publicationYear":"2016","noYear":false,"publicationType":{"id":2,"text":"Article"},"publicationSubtype":{"id":10,"text":"Journal Article"},"seriesTitle":{"id":5306,"text":"International Journal of Avian Science ","active":true,"publicationSubtype":{"id":10}},"title":"Off-road vehicles affect nesting behaviour and reproductive success of American Oystercatchers Haematopus palliatus","docAbstract":"As human populations and associated development increase, interactions between humans and wildlife are occurring with greater frequency. The effects of these interactions, particularly on species whose populations are declining, are of great interest to ecologists, conservationists, land managers and natural resource policy-makers. The American Oystercatcher Haematopus palliatus, a species of conservation concern in the USA, nests on coastal beaches subject to various forms of anthropogenic disturbance, including aircraft overflights, off-road vehicles and pedestrians. This study assessed the effects of these human disturbances on the incubation behaviour and reproductive success of nesting American Oystercatchers at Cape Lookout National Seashore, on the Atlantic coast of the USA. We expanded on-going monitoring of Oystercatchers at Cape Lookout National Seashore by supplementing periodic visual observations with continuous 24-h video and audio recording at nests. Aircraft overflights were not associated with changes in Oystercatcher incubation behaviour, and we found no evidence that aircraft overflights influenced Oystercatcher reproductive success. However, Oystercatchers were on their nests significantly less often during off-road vehicle and pedestrian events than they were during control periods before the events, and an increase in the number of off-road vehicles passing a nest during incubation was consistently associated with significant reductions in daily nest survival (6% decrease in daily nest survival for a one-vehicle increase in the average number of vehicles passing a nest each day; odds ratio = 0.94; 95% confidence interval (CI) 0.90, 0.98) and hatching success (12% decrease in hatching success for a one-vehicle increase in the average number of vehicles passing a nest each day; odds ratio = 0.88; 95% CI 0.76, 0.97). Management of vehicles and pedestrians in areas of Oystercatcher breeding is important for the conservation of American Oystercatchers.
","language":"English","publisher":"Wiley","doi":"10.1111/ibi.12358","collaboration":"National Park Service;","usgsCitation":"Borneman, T.E., Rose, E., and Simons, T.R., 2016, Off-road vehicles affect nesting behaviour and reproductive success of American Oystercatchers Haematopus palliatus: International Journal of Avian Science , v. 158, no. 2, p. 261-278, https://doi.org/10.1111/ibi.12358.","productDescription":"18 p. ","startPage":"261","endPage":"278","ipdsId":"IP-059555","costCenters":[{"id":198,"text":"Coop Res Unit Atlanta","active":true,"usgs":true}],"links":[{"id":336326,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"}],"volume":"158","issue":"2","publishingServiceCenter":{"id":8,"text":"Raleigh PSC"},"noUsgsAuthors":false,"publicationDate":"2016-03-11","publicationStatus":"PW","scienceBaseUri":"58b69a40e4b01ccd54ff3f98","contributors":{"authors":[{"text":"Borneman, Tracy E.","contributorId":145698,"corporation":false,"usgs":false,"family":"Borneman","given":"Tracy","email":"","middleInitial":"E.","affiliations":[],"preferred":false,"id":673654,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"Rose, Eli T.","contributorId":145699,"corporation":false,"usgs":false,"family":"Rose","given":"Eli T.","affiliations":[],"preferred":false,"id":673655,"contributorType":{"id":1,"text":"Authors"},"rank":2},{"text":"Simons, Theodore R. 0000-0002-1884-6229 tsimons@usgs.gov","orcid":"https://orcid.org/0000-0002-1884-6229","contributorId":2623,"corporation":false,"usgs":true,"family":"Simons","given":"Theodore","email":"tsimons@usgs.gov","middleInitial":"R.","affiliations":[{"id":198,"text":"Coop Res Unit Atlanta","active":true,"usgs":true}],"preferred":true,"id":673556,"contributorType":{"id":1,"text":"Authors"},"rank":3}]}} ,{"id":70185028,"text":"70185028 - 2016 - Changing exhumation patterns during Cenozoic growth and glaciation of the Alaska Range: Insights from detrital thermochronology and geochronology","interactions":[],"lastModifiedDate":"2023-11-03T10:49:59.641588","indexId":"70185028","displayToPublicDate":"2016-04-01T00:00:00","publicationYear":"2016","noYear":false,"publicationType":{"id":2,"text":"Article"},"publicationSubtype":{"id":10,"text":"Journal Article"},"seriesTitle":{"id":3524,"text":"Tectonics","active":true,"publicationSubtype":{"id":10}},"title":"Changing exhumation patterns during Cenozoic growth and glaciation of the Alaska Range: Insights from detrital thermochronology and geochronology","docAbstract":"Cenozoic growth of the Alaska Range created the highest topography in North America, but the space-time pattern and drivers of exhumation are poorly constrained. We analyzed U/Pb and fission-track double dates of detrital zircon and apatite grains from 12 catchments that span a 450 km length of the Alaska Range to illuminate the timing and extent of exhumation during different periods. U/Pb ages indicate a dominant Late Cretaceous to Oligocene plutonic provenance for the detrital grains, with only a small percentage of grains recycled from the Mesozoic and Paleozoic sedimentary cover. Fission-track ages record exhumation during Alaska Range growth and incision and reveal three distinctive patterns. First, initial Oligocene exhumation was focused in the central Alaska Range at ~30 Ma and expanded outward along the entire length of the range until 18 Ma. Oligocene exhumation, coeval with initial Yakutat microplate collision >600 km to the southeast, suggests a far-field response to collision that was localized by the Denali Fault within a weak Mesozoic suture zone. Second, the variable timing of middle to late Miocene exhumation suggests independently evolving histories influenced by local structures. Time-transgressive cooling ages suggest successive rock uplift and erosion of Mounts Foraker (12 Ma) through Denali (6 Ma) as crust was advected through a restraining bend in the Denali Fault and indicate a long-term slip rate ~4 mm/yr. Third, Pliocene exhumation is synchronous (3.7–2.7 Ma) along the length of the Alaska Range but only occurs in high-relief, glacier-covered catchments. Pliocene exhumation may record an acceleration in glacial incision that was coincident with the onset of Northern Hemisphere glaciation.
","language":"English","publisher":"American Geophysical Union","doi":"10.1002/2015TC004067","usgsCitation":"Lease, R.O., Haeussler, P.J., and O'Sullivan, P., 2016, Changing exhumation patterns during Cenozoic growth and glaciation of the Alaska Range: Insights from detrital thermochronology and geochronology: Tectonics, v. 35, no. 4, p. 934-955, https://doi.org/10.1002/2015TC004067.","productDescription":"22 p.","startPage":"934","endPage":"955","ipdsId":"IP-070302","costCenters":[{"id":119,"text":"Alaska Science Center Geology Minerals","active":true,"usgs":true}],"links":[{"id":337602,"rank":1,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"}],"country":"United States","state":"Alaska","geographicExtents":"{\n \"type\": \"FeatureCollection\",\n \"features\": [\n {\n \"type\": \"Feature\",\n \"properties\": {},\n \"geometry\": {\n \"coordinates\": [\n [\n [\n -154.01788347261635,\n 58.892014225793616\n ],\n [\n -137.75,\n 57\n ],\n [\n -137.28782896792953,\n 59.0501098301491\n ],\n [\n -141.2040663724411,\n 60.437390285838376\n ],\n [\n -142.1192768747215,\n 63.18177440344454\n ],\n [\n -154,\n 63.1\n ],\n [\n -154.01788347261635,\n 58.892014225793616\n ]\n ]\n ],\n \"type\": \"Polygon\"\n }\n }\n ]\n}","volume":"35","issue":"4","publishingServiceCenter":{"id":12,"text":"Tacoma PSC"},"noUsgsAuthors":false,"publicationDate":"2016-04-21","publicationStatus":"PW","scienceBaseUri":"58ca52cee4b0849ce97c86b2","contributors":{"authors":[{"text":"Lease, Richard O. 0000-0003-2582-8966 rlease@usgs.gov","orcid":"https://orcid.org/0000-0003-2582-8966","contributorId":5098,"corporation":false,"usgs":true,"family":"Lease","given":"Richard","email":"rlease@usgs.gov","middleInitial":"O.","affiliations":[{"id":119,"text":"Alaska Science Center Geology Minerals","active":true,"usgs":true},{"id":114,"text":"Alaska Science Center","active":true,"usgs":true}],"preferred":true,"id":684006,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"Haeussler, Peter J. 0000-0002-1503-6247 pheuslr@usgs.gov","orcid":"https://orcid.org/0000-0002-1503-6247","contributorId":503,"corporation":false,"usgs":true,"family":"Haeussler","given":"Peter","email":"pheuslr@usgs.gov","middleInitial":"J.","affiliations":[{"id":114,"text":"Alaska Science Center","active":true,"usgs":true},{"id":119,"text":"Alaska Science Center Geology Minerals","active":true,"usgs":true}],"preferred":true,"id":684007,"contributorType":{"id":1,"text":"Authors"},"rank":2},{"text":"O'Sullivan, Paul","contributorId":84473,"corporation":false,"usgs":true,"family":"O'Sullivan","given":"Paul","affiliations":[],"preferred":false,"id":684448,"contributorType":{"id":1,"text":"Authors"},"rank":3}]}} ,{"id":70182738,"text":"70182738 - 2016 - Seeded amplification of chronic wasting disease prions in nasal brushings and recto-anal mucosal associated lymphoid tissues from elk by real time quaking-induced conversion","interactions":[],"lastModifiedDate":"2017-02-28T10:52:14","indexId":"70182738","displayToPublicDate":"2016-04-01T00:00:00","publicationYear":"2016","noYear":false,"publicationType":{"id":2,"text":"Article"},"publicationSubtype":{"id":10,"text":"Journal Article"},"seriesTitle":{"id":2218,"text":"Journal of Clinical Microbiology","active":true,"publicationSubtype":{"id":10}},"title":"Seeded amplification of chronic wasting disease prions in nasal brushings and recto-anal mucosal associated lymphoid tissues from elk by real time quaking-induced conversion","docAbstract":"Chronic wasting disease (CWD), a transmissible spongiform encephalopathy of cervids, was first documented nearly 50 years ago in Colorado and Wyoming and has since been detected across North America and the Republic of Korea. The expansion of this disease makes the development of sensitive diagnostic assays and antemortem sampling techniques crucial for the mitigation of its spread; this is especially true in cases of relocation/reintroduction or prevalence studies of large or protected herds, where depopulation may be contraindicated. This study evaluated the sensitivity of the real-time quaking-induced conversion (RT-QuIC) assay of recto-anal mucosa-associated lymphoid tissue (RAMALT) biopsy specimens and nasal brushings collected antemortem. These findings were compared to results of immunohistochemistry (IHC) analysis of ante- and postmortem samples. RAMALT samples were collected from populations of farmed and free-ranging Rocky Mountain elk (Cervus elaphus nelsoni; n = 323), and nasal brush samples were collected from a subpopulation of these animals (n = 205). We hypothesized that the sensitivity of RT-QuIC would be comparable to that of IHC analysis of RAMALT and would correspond to that of IHC analysis of postmortem tissues. We found RAMALT sensitivity (77.3%) to be highly correlative between RT-QuIC and IHC analysis. Sensitivity was lower when testing nasal brushings (34%), though both RAMALT and nasal brush test sensitivities were dependent on both the PRNP genotype and disease progression determined by the obex score. These data suggest that RT-QuIC, like IHC analysis, is a relatively sensitive assay for detection of CWD prions in RAMALT biopsy specimens and, with further investigation, has potential for large-scale and rapid automated testing of antemortem samples for CWD.
","language":"English","publisher":"American Society of Microbiology ","doi":"10.1128/JCM.02700-15","usgsCitation":"Haley, N.J., Siepker, C., Hoon-Hanks, L.L., Mitchell, G., Walter, W.D., Manca, M., Monello, R.J., Powers, J.G., Wild, M., Hoover, E.A., Caughey, B., and Richt, J.A., 2016, Seeded amplification of chronic wasting disease prions in nasal brushings and recto-anal mucosal associated lymphoid tissues from elk by real time quaking-induced conversion: Journal of Clinical Microbiology, v. 54, no. 4, p. 1117-1126, https://doi.org/10.1128/JCM.02700-15.","productDescription":"10 p. ","startPage":"1117","endPage":"1126","ipdsId":"IP-068664","costCenters":[{"id":199,"text":"Coop Res Unit Leetown","active":true,"usgs":true}],"links":[{"id":471102,"rank":0,"type":{"id":41,"text":"Open Access External Repository Page"},"url":"https://doi.org/10.1128/jcm.02700-15","text":"External Repository"},{"id":336318,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"}],"volume":"54","issue":"4","publishingServiceCenter":{"id":9,"text":"Reston PSC"},"noUsgsAuthors":false,"publicationStatus":"PW","scienceBaseUri":"58b69a41e4b01ccd54ff3f9a","contributors":{"editors":[{"text":"Fenwick, B.W.","contributorId":184145,"corporation":false,"usgs":false,"family":"Fenwick","given":"B.W.","email":"","affiliations":[],"preferred":false,"id":673643,"contributorType":{"id":2,"text":"Editors"},"rank":1}],"authors":[{"text":"Haley, Nicholas J.","contributorId":171814,"corporation":false,"usgs":false,"family":"Haley","given":"Nicholas","email":"","middleInitial":"J.","affiliations":[],"preferred":false,"id":673632,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"Siepker, Chris","contributorId":171815,"corporation":false,"usgs":true,"family":"Siepker","given":"Chris","email":"","affiliations":[],"preferred":false,"id":673633,"contributorType":{"id":1,"text":"Authors"},"rank":2},{"text":"Hoon-Hanks, Laura L.","contributorId":184140,"corporation":false,"usgs":false,"family":"Hoon-Hanks","given":"Laura","email":"","middleInitial":"L.","affiliations":[],"preferred":false,"id":673634,"contributorType":{"id":1,"text":"Authors"},"rank":3},{"text":"Mitchell, Gordon","contributorId":184141,"corporation":false,"usgs":false,"family":"Mitchell","given":"Gordon","email":"","affiliations":[],"preferred":false,"id":673635,"contributorType":{"id":1,"text":"Authors"},"rank":4},{"text":"Walter, W. David 0000-0003-3068-1073 wwalter@usgs.gov","orcid":"https://orcid.org/0000-0003-3068-1073","contributorId":5083,"corporation":false,"usgs":true,"family":"Walter","given":"W.","email":"wwalter@usgs.gov","middleInitial":"David","affiliations":[{"id":199,"text":"Coop Res Unit Leetown","active":true,"usgs":true}],"preferred":true,"id":673511,"contributorType":{"id":1,"text":"Authors"},"rank":5},{"text":"Manca, Matteo","contributorId":184142,"corporation":false,"usgs":false,"family":"Manca","given":"Matteo","email":"","affiliations":[],"preferred":false,"id":673636,"contributorType":{"id":1,"text":"Authors"},"rank":6},{"text":"Monello, Ryan J.","contributorId":184143,"corporation":false,"usgs":false,"family":"Monello","given":"Ryan","email":"","middleInitial":"J.","affiliations":[],"preferred":false,"id":673637,"contributorType":{"id":1,"text":"Authors"},"rank":7},{"text":"Powers, Jenny G.","contributorId":10710,"corporation":false,"usgs":true,"family":"Powers","given":"Jenny","email":"","middleInitial":"G.","affiliations":[],"preferred":false,"id":673638,"contributorType":{"id":1,"text":"Authors"},"rank":8},{"text":"Wild, Margaret A.","contributorId":26976,"corporation":false,"usgs":true,"family":"Wild","given":"Margaret A.","affiliations":[],"preferred":false,"id":673639,"contributorType":{"id":1,"text":"Authors"},"rank":9},{"text":"Hoover, Edward A.","contributorId":52316,"corporation":false,"usgs":true,"family":"Hoover","given":"Edward","email":"","middleInitial":"A.","affiliations":[],"preferred":false,"id":673640,"contributorType":{"id":1,"text":"Authors"},"rank":10},{"text":"Caughey, Byron","contributorId":184144,"corporation":false,"usgs":false,"family":"Caughey","given":"Byron","email":"","affiliations":[],"preferred":false,"id":673641,"contributorType":{"id":1,"text":"Authors"},"rank":11},{"text":"Richt, Jurgen a.","contributorId":171819,"corporation":false,"usgs":false,"family":"Richt","given":"Jurgen","email":"","middleInitial":"a.","affiliations":[],"preferred":false,"id":673642,"contributorType":{"id":1,"text":"Authors"},"rank":12}]}} ,{"id":70177908,"text":"70177908 - 2016 - Effect of phytoremediation on concentrations of benzene, toluene, naphthalene, and dissolved oxygen in groundwater at a former manufactured gas plant site, Charleston, South Carolina, USA, 1998–2014","interactions":[],"lastModifiedDate":"2016-10-26T15:04:14","indexId":"70177908","displayToPublicDate":"2016-03-31T22:30:00","publicationYear":"2016","noYear":false,"publicationType":{"id":2,"text":"Article"},"publicationSubtype":{"id":10,"text":"Journal Article"},"seriesTitle":{"id":1534,"text":"Environmental Earth Sciences","active":true,"publicationSubtype":{"id":10}},"title":"Effect of phytoremediation on concentrations of benzene, toluene, naphthalene, and dissolved oxygen in groundwater at a former manufactured gas plant site, Charleston, South Carolina, USA, 1998–2014","docAbstract":"Concentrations of benzene, toluene, naphthalene, and dissolved oxygen in groundwater at a former manufactured gas plant site near Charleston, South Carolina, USA, have been monitored since the installation of a phytoremediation system of hybrid poplar trees in 1998. Between 2000 and 2014, the concentrations of benzene, toluene, and naphthalene (BT&N) in groundwater in the planted area have decreased. For example, in the monitoring well containing the highest concentrations of BT&N, benzene concentrations decreased from 10,200 µg/L to less than 4000 µg/L, toluene concentrations decreased from 2420 µg/L to less than 20 µg/L, and naphthalene concentrations decreased from 6840 µg/L to less than 3000 µg/L. Concentrations of BT&N in groundwater in all wells were observed to be lower during the summer months relative to the winter months of a particular year during the first few years after installing the phytoremediation system, most likely due to increased transpiration and contaminant uptake by the hybrid poplar trees during the warm summer months; this pathway of uptake by trees was confirmed by the detection of benzene, toluene, and naphthalene in trees during sampling events in 2002, and later in the study in 2012. These data suggest that the phytoremediation system affects the groundwater contaminants on a seasonal basis and, over multiple years, has resulted in a cumulative decrease in dissolved-phase contaminant concentrations in groundwater. The removal of dissolved organic contaminants from the aquifer has resulted in a lower demand on dissolved oxygen supplied by recharge and, as a result, the redox status of the groundwater has changed from anoxic to oxic conditions. This study provides much needed information for water managers and other scientists on the viability of the long-term effectiveness of phytoremediation in decreasing groundwater contaminants and increasing dissolved oxygen at sites contaminated by benzene, toluene, and naphthalene.
","language":"English","publisher":"Springer-Verlag","doi":"10.1007/s12665-016-5408-9","usgsCitation":"Landmeyer, J., and Effinger, T.N., 2016, Effect of phytoremediation on concentrations of benzene, toluene, naphthalene, and dissolved oxygen in groundwater at a former manufactured gas plant site, Charleston, South Carolina, USA, 1998–2014: Environmental Earth Sciences, v. 75, 605; 13 p., https://doi.org/10.1007/s12665-016-5408-9.","productDescription":"605; 13 p.","onlineOnly":"N","additionalOnlineFiles":"N","ipdsId":"IP-070997","costCenters":[{"id":13634,"text":"South Atlantic Water Science Center","active":true,"usgs":true}],"links":[{"id":330430,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"}],"country":"United States","state":"South Carolina","city":"Charleston","geographicExtents":"{\n \"type\": \"FeatureCollection\",\n \"features\": [\n {\n \"type\": \"Feature\",\n \"properties\": {},\n \"geometry\": {\n \"type\": \"Polygon\",\n \"coordinates\": [\n [\n [\n -79.92934584617615,\n 32.7883749103601\n ],\n [\n -79.92934584617615,\n 32.791134828514295\n ],\n [\n -79.92491483688354,\n 32.791134828514295\n ],\n [\n -79.92491483688354,\n 32.7883749103601\n ],\n [\n -79.92934584617615,\n 32.7883749103601\n ]\n ]\n ]\n }\n }\n ]\n}","volume":"75","publishingServiceCenter":{"id":8,"text":"Raleigh PSC"},"noUsgsAuthors":false,"publicationDate":"2016-03-31","publicationStatus":"PW","scienceBaseUri":"5811c0f2e4b0f497e79a5a77","chorus":{"doi":"10.1007/s12665-016-5408-9","url":"http://dx.doi.org/10.1007/s12665-016-5408-9","publisher":"Springer Nature","authors":"Landmeyer James E., Effinger Thomas N.","journalName":"Environmental Earth Sciences","publicationDate":"3/31/2016","auditedOn":"8/1/2016","publiclyAccessibleDate":"3/31/2016"},"contributors":{"authors":[{"text":"Landmeyer, James 0000-0002-5640-3816 jlandmey@usgs.gov","orcid":"https://orcid.org/0000-0002-5640-3816","contributorId":3257,"corporation":false,"usgs":true,"family":"Landmeyer","given":"James","email":"jlandmey@usgs.gov","affiliations":[{"id":13634,"text":"South Atlantic Water Science Center","active":true,"usgs":true}],"preferred":true,"id":652109,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"Effinger, Thomas N.","contributorId":176300,"corporation":false,"usgs":false,"family":"Effinger","given":"Thomas","email":"","middleInitial":"N.","affiliations":[],"preferred":false,"id":652110,"contributorType":{"id":1,"text":"Authors"},"rank":2}]}} ,{"id":70169948,"text":"ofr20161056 - 2016 - Construction, calibration, and validation of the RBM10 water temperature model for the Trinity River, northern California","interactions":[],"lastModifiedDate":"2016-04-01T08:35:51","indexId":"ofr20161056","displayToPublicDate":"2016-03-31T17:00:00","publicationYear":"2016","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":"2016-1056","title":"Construction, calibration, and validation of the RBM10 water temperature model for the Trinity River, northern California","docAbstract":"We constructed a one-dimensional daily averaged water-temperature model to simulate Trinity River temperatures for 1980–2013. The purpose of this model is to assess effects of water-management actions on water temperature and to provide water temperature inputs for a salmon population dynamics model. Simulated meteorological data, observed streamflow data, and observed water temperatures were used as model inputs to simulate a continuous 34-year time series of historical daily mean water temperature at eight locations along 112.2 river miles from Lewiston Dam near Weaverville, California, downstream to the Klamath River confluence. To demonstrate the utility of the model to inform management actions, we simulated three management alternatives to assess the effects of bypass flow augmentation in a drought year, 1994, and compared those results to the simulated historical baseline, referred to as the “No Action” alternative scenario. Augmentation flows from the Lewiston Dam bypass consist of temperature-controlled releases capable of cooling downstream water temperatures in hot times of the year, which can reduce the probability of disease outbreaks in fish populations. Outputs from the Trinity River water-temperature model were then used as inputs to an existing water-temperature model of the Klamath River to evaluate the effect of augmentation flow releases on water temperatures in the lower Klamath River.
\nWe structured the Trinity River water-temperature model in River Basin Model-10 (RBM10), which uses a simple equilibrium flow model, assuming discharge in each river segment on each day is transmitted downstream instantaneously. The model uses a heat-budget formulation to quantify heat flux at the air-water interface. Inputs for the heat budget are calculated from daily mean meteorological data, including net shortwave solar radiation, net longwave atmospheric radiation, air temperature, wind speed, vapor pressure, and a psychrometric constant needed to calculate the Bowen ratio. The modeling domain was divided into eight reaches ranging in length from 8.8 to 20.6 miles, which were calibrated and validated separately with observed water temperature data collected irregularly from 1980 to 2013. Root mean square errors of observed and simulated water temperatures for the eight reaches ranged from 0.25 to 1.12 degrees Celsius (°C). Mean absolute errors ranged from 0.18 to 0.89 °C. For model validation, a k-fold cross-validation technique was used. Validation root mean square error and mean absolute error for the eight reaches ranged from 0.24 to 1.11 °C and from 0.18 to 0.89 °C, respectively.
\nAugmentation scenarios were based on historical hydrological and meteorological data, combined with prescribed flow and temperature releases from Lewiston Dam provided by the Bureau of Reclamation. Water releases were scheduled to achieve targeted flows of 2,500, 2,800, and 3,200 cubic feet per second in the lower Klamath River from mid-August through late September, coinciding with the upstream migration of adult fall-run Chinook salmon (Oncorhynchus tshawytscha). Water temperatures simulated at river mile 5.7 on the Klamath River showed a 5 °C decrease from the No Action historical baseline, which was near or greater than 23 °C when augmentation began in mid-August. Thereafter, an approximate 1 °C difference among augmentation scenarios emerged, with the decrease in water temperature commensurate to the level of augmentation. All augmentation scenarios simulated water temperatures equal to or less than 21 °C from mid-August through late September. Water temperatures equal to or greater than 23 °C are of particular interest because of a thermal threshold known to inhibit upstream migration of salmon. When temperatures exceed this approximate 23 °C threshold, Chinook salmon are known to congregate in high densities in thermal refugias and show extended residence times, which can potentially trigger epizootic outbreaks such as of Ichthyophthirius multifiliis (“Ich”) and Flavobacterium columnare (“Columnaris”) that were the causative factors of the Klamath River fish kill in 2002. A model with the ability to simulate water temperatures in response to management actions at the basin scale is a valuable asset for water managers who must make decisions about how best to use limited water resources, which directly affect the state of fisheries in the Klamath Basin.
","language":"English","publisher":"U.S. Geological Survey","publisherLocation":"Reston, VA","doi":"10.3133/ofr20161056","collaboration":"Prepared in cooperation with the U.S. Fish and Wildlife Service and the Bureau of Reclamation","usgsCitation":"Jones, E.C., Perry, R.W., Risley, J.C., Som, N.A., and Hetrick, N.J., 2016, Construction, calibration, and validation of the RBM10 water temperature model for the Trinity River, northern California: U.S. Geological Survey Open-File Report 2016–1056, 46 p., https://dx.doi.org/10.3133/ofr20161056.","productDescription":"vi, 46 p.","numberOfPages":"56","onlineOnly":"Y","additionalOnlineFiles":"N","ipdsId":"IP-070848","costCenters":[{"id":654,"text":"Western Fisheries Research 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U.S. Geological Survey
6505 NE 65th Street
Seattle, Washington 98115
http://wfrc.usgs.gov/
In 2015, a major outbreak of highly pathogenic avian influenza virus (HPAIV) infection devastated poultry facilities in Minnesota, USA. To clarify the role of wild birds, we tested 3,139 waterfowl fecal samples and 104 sick and dead birds during March 9–June 4, 2015. HPAIV was isolated from a Cooper’s hawk but not from waterfowl.
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States","interactions":[],"lastModifiedDate":"2016-03-31T12:39:04","indexId":"70169977","displayToPublicDate":"2016-03-31T13:30:00","publicationYear":"2016","noYear":false,"publicationType":{"id":2,"text":"Article"},"publicationSubtype":{"id":10,"text":"Journal Article"},"seriesTitle":{"id":2602,"text":"Landscape Ecology","active":true,"publicationSubtype":{"id":10}},"title":"Temporal and spatial patterns of wetland extent influence variability of surface water connectivity in the Prairie Pothole Region, United States","docAbstract":"Context. Quantifying variability in landscape-scale surface water connectivity can help improve our understanding of the multiple effects of wetlands on downstream waterways. Objectives. We examined how wetland merging and the coalescence of wetlands with streams varied both spatially (among ecoregions) and interannually (from drought to deluge) across parts of the Prairie Pothole Region. Methods. Wetland extent was derived over a time series (1990-2011) using Landsat imagery. Changes in landscape-scale connectivity, generated by the physical coalescence of wetlands with other surface water features, were quantified by fusing static wetland and stream datasets with Landsat-derived wetland extent maps, and related to multiple wetness indices. The usage of Landsat allows for decadal-scale analysis, but limits the types of surface water connections that can be detected. Results. Wetland extent correlated positively with the merging of wetlands and wetlands with streams. Wetness conditions, as defined by drought indices and runoff, were positively correlated with wetland extent, but less consistently correlated with measures of surface water connectivity. The degree of wetland-wetland merging was found to depend less on total wetland area or density, and more on climate conditions, as well as the threshold for how wetland/upland was defined. In contrast, the merging of wetlands with streams was positively correlated with stream density, and inversely related to wetland density. Conclusions. Characterizing the degree of surface water connectivity within the Prairie Pothole Region in North America requires consideration of 1) climate-driven variation in wetness conditions and 2) within-region variation in wetland and stream spatial arrangements.
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U.S. Geological Survey
Box 25046, MS-939
Denver Federal Center
Denver, CO 80225-0046
Parasites, by definition, extract energy from their hosts and thus affect trophic and food web dynamics even when the parasite may have limited effects on host population size. We studied the energetic costs of mange (Sarcoptes scabiei) in wolves (Canis lupus) using thermal cameras to estimate heat losses associated with compromised insulation during the winter. We combined the field data of known, naturally infected wolves with data set on captive wolves with shaved patches of fur as a positive control to simulate mange-induced hair loss. We predict that during the winter in Montana, more severe mange infection increases heat loss by around 5.2 to 12 MJ per night (1240 to 2850 kcal, or a 65% to 78% increase) for small and large wolves, respectively accounting for wind effects. To maintain body temperature would require a significant proportion of a healthy wolf's total daily energy demands (18-22 MJ/day). We also predict how these thermal costs may increase in colder climates by comparing our predictions in Bozeman, Montana to those from a place with lower ambient temperatures (Fairbanks, Alaska). Contrary to our expectations, the 14°C differential between these regions was not as important as the potential differences in wind speed. These large increases in energetic demands can be mitigated by either increasing consumption rates or decreasing other energy demands. Data from GPS-collared wolves indicated that healthy wolves move, on average, 17 km per day, which was reduced by 1.5, 1.8 and 6.5 km for light, medium, and severe hair loss. In addition, the wolf with the most hair loss was less active at night and more active during the day, which is the converse of the movement patterns of healthy wolves. At the individual level mange infections create significant energy demands and altered behavioral patterns, this may have cascading effects on prey consumption rates, food web dynamics, predator-prey interactions, and scavenger communities.
","language":"English","publisher":"Wiley","doi":"10.1890/15-1346.1","usgsCitation":"Cross, P.C., Almberg, E., Haase, C.G., Hudson, P., Maloney, S.K., Metz, M., Munn, A.J., Nugent, P., Putzeys, O., Stahler, D.R., Stewart, A.C., and Smith, D.W., 2016, Energetic costs of mange in wolves estimated from infrared thermography: Ecology, v. 97, no. 8, p. 1938-1948, https://doi.org/10.1890/15-1346.1.","productDescription":"11 p.","startPage":"1938","endPage":"1948","onlineOnly":"N","additionalOnlineFiles":"N","ipdsId":"IP-067138","costCenters":[{"id":481,"text":"Northern Rocky Mountain Science Center","active":true,"usgs":true}],"links":[{"id":471110,"rank":2,"type":{"id":40,"text":"Open Access Publisher Index Page"},"text":"Publisher Index Page"},{"id":319675,"rank":1,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"}],"country":"United States","state":"Montana","otherGeospatial":"Yellowstone National Park","geographicExtents":"{\n \"type\": \"FeatureCollection\",\n \"features\": [\n {\n \"type\": \"Feature\",\n \"properties\": {},\n \"geometry\": {\n \"type\": \"Polygon\",\n \"coordinates\": [\n [\n [\n -111.7474365234375,\n 44.66865287227321\n ],\n [\n -111.7474365234375,\n 45.590978249451936\n ],\n [\n -110.10498046875,\n 45.590978249451936\n ],\n [\n -110.10498046875,\n 44.66865287227321\n ],\n [\n -111.7474365234375,\n 44.66865287227321\n ]\n ]\n ]\n }\n }\n ]\n}","volume":"97","issue":"8","publishingServiceCenter":{"id":2,"text":"Denver PSC"},"noUsgsAuthors":false,"publicationStatus":"PW","scienceBaseUri":"56fe3c32e4b075ab2b2aa0b4","chorus":{"doi":"10.1890/15-1346.1","url":"http://dx.doi.org/10.1890/15-1346.1","publisher":"Wiley-Blackwell","authors":"Cross P. 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To investigate pan-Atlantic connectivity of globally endangered green turtles (Chelonia mydas) from two National Parks in Florida, USA, we applied a multidisciplinary approach comparing genetic analysis and ocean circulation modeling. The Everglades (EP) is a juvenile feeding ground, whereas the Dry Tortugas (DT) is used for courtship, breeding, and feeding by adults and juveniles. We sequenced two mitochondrial segments from 138 turtles sampled there from 2006-2015, and simulated oceanic transport to estimate their origins. Genetic and ocean connectivity data revealed northwestern Atlantic rookeries as the major natal sources, while southern and eastern Atlantic contributions were negligible. However, specific rookery estimates differed between genetic and ocean transport models. The combined analyses suggest that post-hatchling drift via ocean currents poorly explains the distribution of neritic juveniles and adults, but juvenile natal homing and population history likely play important roles. DT and EP were genetically similar to feeding grounds along the southern US coast, but highly differentiated from most other Atlantic groups. Despite expanded mitogenomic analysis and correspondingly increased ability to detect genetic variation, no significant differentiation between DT and EP, or among years, sexes or stages was observed. This first genetic analysis of a North Atlantic green turtle courtship area provides rare data supporting local movements and male philopatry. The study highlights the applications of multidisciplinary approaches for ecological research and conservation.
","language":"English","publisher":"Wiley","doi":"10.1111/ecog.02056","usgsCitation":"Naro-Maciel, E., Hart, K.M., Cruciata, R., and Putman, N.F., 2016, DNA and dispersal models highlight constrained connectivity in a migratory marine megavertebrate: Ecography, v. 40, no. 5, p. 586-597, https://doi.org/10.1111/ecog.02056.","productDescription":"12 p.","startPage":"586","endPage":"597","onlineOnly":"N","additionalOnlineFiles":"N","ipdsId":"IP-068508","costCenters":[{"id":17705,"text":"Wetland and Aquatic Research Center","active":true,"usgs":true}],"links":[{"id":471111,"rank":0,"type":{"id":41,"text":"Open Access External Repository Page"},"url":"https://doi.org/10.1111/ecog.02056","text":"External Repository"},{"id":319674,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"}],"country":"United States","state":"Florida","otherGeospatial":"Dry Tortugas Park, Everglades Park","geographicExtents":"{\n \"type\": \"FeatureCollection\",\n \"features\": [\n {\n \"type\": \"Feature\",\n \"properties\": {},\n \"geometry\": {\n \"type\": \"Polygon\",\n \"coordinates\": [\n [\n [\n -83.1005859375,\n 24.462150693715266\n ],\n [\n -83.1005859375,\n 24.77177232822881\n ],\n [\n -82.6171875,\n 24.77177232822881\n ],\n [\n -82.6171875,\n 24.462150693715266\n ],\n [\n -83.1005859375,\n 24.462150693715266\n ]\n ]\n ]\n }\n },\n {\n \"type\": \"Feature\",\n \"properties\": {},\n \"geometry\": {\n \"type\": \"Polygon\",\n \"coordinates\": [\n [\n [\n -81.09283447265625,\n 25.120419105501256\n ],\n [\n -81.09283447265625,\n 25.564742726875785\n ],\n [\n -80.6341552734375,\n 25.564742726875785\n ],\n [\n -80.6341552734375,\n 25.120419105501256\n ],\n [\n -81.09283447265625,\n 25.120419105501256\n ]\n ]\n ]\n }\n }\n ]\n}","volume":"40","issue":"5","publishingServiceCenter":{"id":8,"text":"Raleigh PSC"},"noUsgsAuthors":false,"publicationDate":"2016-05-23","publicationStatus":"PW","scienceBaseUri":"56fe3c2ce4b075ab2b2aa0aa","contributors":{"authors":[{"text":"Naro-Maciel, Eugenia","contributorId":138902,"corporation":false,"usgs":false,"family":"Naro-Maciel","given":"Eugenia","email":"","affiliations":[{"id":12576,"text":"College of Staten Island, Staten Island, New York","active":true,"usgs":false}],"preferred":false,"id":625738,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"Hart, Kristen M. 0000-0002-5257-7974 kristen_hart@usgs.gov","orcid":"https://orcid.org/0000-0002-5257-7974","contributorId":1966,"corporation":false,"usgs":true,"family":"Hart","given":"Kristen","email":"kristen_hart@usgs.gov","middleInitial":"M.","affiliations":[{"id":17705,"text":"Wetland and Aquatic Research Center","active":true,"usgs":true}],"preferred":true,"id":625737,"contributorType":{"id":1,"text":"Authors"},"rank":2},{"text":"Cruciata, Rossana","contributorId":168380,"corporation":false,"usgs":false,"family":"Cruciata","given":"Rossana","email":"","affiliations":[{"id":25274,"text":"Biology Dept., College of Staten Island, City University of New York","active":true,"usgs":false}],"preferred":false,"id":625739,"contributorType":{"id":1,"text":"Authors"},"rank":3},{"text":"Putman, Nathan Freeman","contributorId":145423,"corporation":false,"usgs":false,"family":"Putman","given":"Nathan","email":"","middleInitial":"Freeman","affiliations":[{"id":16119,"text":"National Marine Fisheries Service, Miami, FL","active":true,"usgs":false}],"preferred":false,"id":625740,"contributorType":{"id":1,"text":"Authors"},"rank":4}]}} ,{"id":70169969,"text":"70169969 - 2016 - Conditional vulnerability of plant diversity to atmospheric nitrogen deposition across the United States","interactions":[],"lastModifiedDate":"2018-02-12T15:42:41","indexId":"70169969","displayToPublicDate":"2016-03-31T12:30:00","publicationYear":"2016","noYear":false,"publicationType":{"id":2,"text":"Article"},"publicationSubtype":{"id":10,"text":"Journal Article"},"seriesTitle":{"id":2982,"text":"PNAS","active":true,"publicationSubtype":{"id":10}},"title":"Conditional vulnerability of plant diversity to atmospheric nitrogen deposition across the United States","docAbstract":"Atmospheric nitrogen (N) deposition has been shown to decrease plant species richness along regional deposition gradients in Europe and in experimental manipulations. However, the general response of species richness to N deposition across different vegetation types, soil conditions, and climates remains largely unknown even though responses may be contingent on these environmental factors. We assessed the effect of N deposition on herbaceous richness for 15,136 forest, woodland, shrubland, and grassland sites across the continental United States, to address how edaphic and climatic conditions altered vulnerability to this stressor. In our dataset, with N deposition ranging from 1 to 19 kg N⋅ha−1⋅y−1, we found a unimodal relationship; richness increased at low deposition levels and decreased above 8.7 and 13.4 kg N⋅ha−1⋅y−1 in open and closed-canopy vegetation, respectively. N deposition exceeded critical loads for loss of plant species richness in 24% of 15,136 sites examined nationwide. There were negative relationships between species richness and N deposition in 36% of 44 community gradients. Vulnerability to N deposition was consistently higher in more acidic soils whereas the moderating roles of temperature and precipitation varied across scales. We demonstrate here that negative relationships between N deposition and species richness are common, albeit not universal, and that fine-scale processes can moderate vegetation responses to N deposition. Our results highlight the importance of contingent factors when estimating ecosystem vulnerability to N deposition and suggest that N deposition is affecting species richness in forested and nonforested systems across much of the continental United States.
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Streamflow and groundwater data are verified throughout the year by USGS hydrographers and made available to water-resource managers, recreationists, and Federal, State, and local agencies. Hydrologic conditions are determined by comparing the statistical analyses of data collected during the current water year to historical data. Changing hydrologic conditions underscore the need for accurate, timely data to allow informed decisions about the management and conservation of Georgia’s water resources for agricultural, recreational, ecological, and water-supply needs and in protecting life and property.
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U.S. Geological Survey
720 Gracern Road
Columbia, SC 29210
http://www.usgs.gov/water/southatlantic/
Poor understanding of the water cycle in tropical ecosystems has the potential to exacerbate water shortages and water crises in the region. We suggest that the Galápagos Islands provide an excellent proxy to regions across the tropics as a result of sharp hydroclimatic, anthropogenic, and pedohydrologic gradients across the archipelago. Hydroclimatic and pedohydrologic gradients are found across different elevations on single islands, as well as across the archipelago, whereas anthropogenic gradients reflect land use and land cover change across islands as population and growth in tourism have affected individual islands differently. This article highlights specific opportunities to further examine our understanding of the interactions between water and critical zone processes in tropical ecosystems, making connections between the Galápagos archipelago and much of the understudied tropics. The Galápagos archipelago offers a natural laboratory through which we can examine current threats to freshwater security as well as the dynamics of coupled natural and human systems.
","language":"English","publisher":"John Wiley & Sons","publisherLocation":"Hoboken, NJ","doi":"10.1002/wat2.1145","usgsCitation":"Percy, M., Schmitt, S., Riveros-Iregui, D., and Mirus, B.B., 2016, The Galapagos archipelago: A natural laboratory to examine sharp hydroclimatic, geologic and anthropogenic gradients: WIREs Water, v. 3, no. 4, p. 587-600, https://doi.org/10.1002/wat2.1145.","productDescription":"14 p.","startPage":"587","endPage":"600","numberOfPages":"14","onlineOnly":"N","additionalOnlineFiles":"N","ipdsId":"IP-069817","costCenters":[{"id":300,"text":"Geologic Hazards Science Center","active":true,"usgs":true}],"links":[{"id":319746,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"}],"country":"Ecuador","state":"Galapagos Islands","geographicExtents":"{\n \"type\": \"FeatureCollection\",\n \"features\": [\n {\n \"type\": \"Feature\",\n \"properties\": {},\n \"geometry\": {\n \"type\": \"Polygon\",\n \"coordinates\": [\n [\n 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Center","active":true,"usgs":true},{"id":5061,"text":"National Cooperative Geologic Mapping and Landslide Hazards","active":true,"usgs":true}],"preferred":true,"id":578277,"contributorType":{"id":1,"text":"Authors"},"rank":4}]}} ,{"id":70171122,"text":"70171122 - 2016 - Young of the year bluefish (Pomatomus saltatrix) as a bioindicator of estuarine health: Establishing a new baseline for persistent organic pollutants after Hurricane Sandy for selected estuaries in New Jersey and New York","interactions":[],"lastModifiedDate":"2018-08-07T12:33:06","indexId":"70171122","displayToPublicDate":"2016-03-31T06:30:00","publicationYear":"2016","noYear":false,"publicationType":{"id":2,"text":"Article"},"publicationSubtype":{"id":10,"text":"Journal Article"},"seriesTitle":{"id":2676,"text":"Marine Pollution Bulletin","active":true,"publicationSubtype":{"id":10}},"title":"Young of the year bluefish (Pomatomus saltatrix) as a bioindicator of estuarine health: Establishing a new baseline for persistent organic pollutants after Hurricane Sandy for selected estuaries in New Jersey and New York","docAbstract":"Atlantic coastal bays of the US are essential habitat for young of year bluefish (Pomatomus saltatrix). Their residence in these estuaries during critical life stages, high lipid content, and piscivory make bluefish an ideal bioindicator species for evaluating estuarine health. Individual whole fish from four estuaries impacted by Hurricane Sandy were collected in August 2013, analyzed for a suite of persistent organic pollutants (POPs) including polychlorinated biphenyls, polybrominated diphenyl ethers and organochlorine pesticides and evaluated using health metrics. Concentrations in whole bluefish differed by estuary; however, concentrations for many POPs decreased or were similar to those observed prior to the hurricane. Prevalence of the ectoparasitic gill isopod (Lironeca ovalis) varied by estuary and no relationships between contaminants and lesions were observed. Bluefish should be considered for monitoring programs and, if sampled frequently, could be an effective bioindicator of incremental and episodic changes in contaminants within aquatic food webs.
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In 2015, the network included about 200 real-time streamgages (hereafter referred to as “gages”), 12 real-time reservoir-level monitoring stations, and 30 groundwater-level monitoring wells. These data and associated analyses provide a unique overview of hydrologic conditions and help improve the understanding of Kansas’s water resources.
Real-time data are verified by the USGS throughout the year with regular measurements of streamflow, lake levels, and groundwater levels. These data are used in protecting life and property; and managing water resources for agricultural, industrial, public supply, ecological, and recreational purposes. Yearly hydrologic conditions are characterized by comparing statistical analyses of current and historical water year (WY) data for the period of record. A WY is the 12-month period from October 1 through September 30 and is designated by the year in which it ends.
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U.S. Geological Survey
4821 Quail Crest Place
Lawrence, Kansas 66049
A new regional dataset comprising 425 intertidal diatom taxa from 175 samples from 11 ecologically diverse Oregon and Washington estuaries illustrates the importance of compiling a large modern dataset from a range of sites. Cluster analyses and detrended correspondence analysis of the diatom assemblages identify distinct vertical zones within supratidal, intertidal and subtidal environments at six of the 11 study sites, but the abundance of some of the most common species varies widely among and within sites. Canonical correspondence analysis of the regional dataset shows relationships between diatom species and tidal exposure, salinity and substratum (grain size and organic content). Correspondence analyses of local datasets show higher values of explained variation than the analysis of the combined regional dataset. Our results emphasize that studies of the autecology of diatom species require many samples from a range of modern environments to adequately characterize species–environment relationships.
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