{"pageNumber":"2238","pageRowStart":"55925","pageSize":"25","recordCount":184617,"records":[{"id":5224840,"text":"5224840 - 2007 - Adaptive harvest management of North American waterfowl populations: a brief history and future prospects","interactions":[],"lastModifiedDate":"2015-12-10T10:38:23","indexId":"5224840","displayToPublicDate":"2010-06-16T12:18:33","publicationYear":"2007","noYear":false,"publicationType":{"id":2,"text":"Article"},"publicationSubtype":{"id":10,"text":"Journal Article"},"seriesTitle":{"id":2409,"text":"Journal of Ornithology","active":true,"publicationSubtype":{"id":10}},"title":"Adaptive harvest management of North American waterfowl populations: a brief history and future prospects","docAbstract":"

Since 1995, the US Fish and Wildlife Service has used an adaptive approach to the management of sport harvest of mid-continent Mallard ducks (Anas platyrhynchos) in North America. This approach differs from many current approaches to conservation and management in requiring close collaboration between managers and scientists. Key elements of this process are objectives, alternative management actions, models permitting prediction of system responses, and a monitoring program. The iterative process produces optimal management decisions and leads to reduction in uncertainty about response of populations to management. This general approach to management has a number of desirable features and is recommended for use in many other programs of management and conservation.

","language":"English","publisher":"Springer","doi":"10.1007/s10336-007-0256-8","collaboration":"Proceedings of the 24th International Ornithological Congress that was held in Hamburg, Germany, from 19 to 26 August 2006.Volume II: Symposia Papers. 6855_Nichols.pdf","usgsCitation":"Nichols, J., Runge, M., Johnson, F., and Williams, B.K., 2007, Adaptive harvest management of North American waterfowl populations: a brief history and future prospects: Journal of Ornithology, v. 148, no. Supplement 2, p. S343-S349, https://doi.org/10.1007/s10336-007-0256-8.","productDescription":"7 p.","startPage":"S343","endPage":"S349","onlineOnly":"N","additionalOnlineFiles":"N","costCenters":[{"id":531,"text":"Patuxent Wildlife Research Center","active":true,"usgs":true}],"links":[{"id":476851,"rank":2,"type":{"id":41,"text":"Open Access External Repository Page"},"url":"https://zenodo.org/record/1232777","text":"External Repository"},{"id":195985,"rank":1,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"}],"volume":"148","issue":"Supplement 2","noUsgsAuthors":false,"publicationDate":"2007-11-22","publicationStatus":"PW","scienceBaseUri":"4f4e4b27e4b07f02db6b066e","contributors":{"authors":[{"text":"Nichols, J.D. 0000-0002-7631-2890","orcid":"https://orcid.org/0000-0002-7631-2890","contributorId":14332,"corporation":false,"usgs":true,"family":"Nichols","given":"J.D.","affiliations":[],"preferred":false,"id":342857,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"Runge, M.C. 0000-0002-8081-536X","orcid":"https://orcid.org/0000-0002-8081-536X","contributorId":49312,"corporation":false,"usgs":true,"family":"Runge","given":"M.C.","affiliations":[],"preferred":false,"id":342858,"contributorType":{"id":1,"text":"Authors"},"rank":2},{"text":"Johnson, Fred A.","contributorId":93863,"corporation":false,"usgs":true,"family":"Johnson","given":"Fred A.","affiliations":[],"preferred":false,"id":342859,"contributorType":{"id":1,"text":"Authors"},"rank":3},{"text":"Williams, B. Kenneth","contributorId":107798,"corporation":false,"usgs":true,"family":"Williams","given":"B.","email":"","middleInitial":"Kenneth","affiliations":[],"preferred":false,"id":342860,"contributorType":{"id":1,"text":"Authors"},"rank":4}]}} ,{"id":5224807,"text":"5224807 - 2007 - Occupancy estimation and modeling with multiple states and state uncertainty","interactions":[],"lastModifiedDate":"2021-05-25T11:54:04.559574","indexId":"5224807","displayToPublicDate":"2010-06-16T12:18:33","publicationYear":"2007","noYear":false,"publicationType":{"id":2,"text":"Article"},"publicationSubtype":{"id":10,"text":"Journal Article"},"seriesTitle":{"id":1465,"text":"Ecology","active":true,"publicationSubtype":{"id":10}},"title":"Occupancy estimation and modeling with multiple states and state uncertainty","docAbstract":"

The distribution of a species over space is of central interest in ecology, but species occurrence does not provide all of the information needed to characterize either the well-being of a population or the suitability of occupied habitat. Recent methodological development has focused on drawing inferences about species occurrence in the face of imperfect detection. Here we extend those methods by characterizing occupied locations by some additional state variable ( e. g., as producing young or not). Our modeling approach deals with both detection probabilities,1 and uncertainty in state classification. We then use the approach with occupancy and reproductive rate data from California Spotted Owls (Strix occidentalis occidentalis) collected in the central Sierra Nevada during the breeding season of 2004 to illustrate the utility of the modeling approach. Estimates of owl reproductive rate were larger than naive estimates, indicating the importance of appropriately accounting for uncertainty in detection and state classification.

","language":"English","publisher":"Wiley","doi":"10.1890/06-1474","usgsCitation":"Nichols, J., Hines, J., MacKenzie, D., Seamans, M., and Gutierrez, R.J., 2007, Occupancy estimation and modeling with multiple states and state uncertainty: Ecology, v. 88, no. 6, p. 1395-1400, https://doi.org/10.1890/06-1474.","productDescription":"6 p.","startPage":"1395","endPage":"1400","costCenters":[{"id":531,"text":"Patuxent Wildlife Research Center","active":true,"usgs":true}],"links":[{"id":196335,"rank":0,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"}],"volume":"88","issue":"6","noUsgsAuthors":false,"publicationStatus":"PW","scienceBaseUri":"4f4e4a7fe4b07f02db648d98","contributors":{"authors":[{"text":"Nichols, J.D. 0000-0002-7631-2890","orcid":"https://orcid.org/0000-0002-7631-2890","contributorId":14332,"corporation":false,"usgs":true,"family":"Nichols","given":"J.D.","affiliations":[],"preferred":false,"id":342740,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"Hines, J.E. 0000-0001-5478-7230","orcid":"https://orcid.org/0000-0001-5478-7230","contributorId":36885,"corporation":false,"usgs":true,"family":"Hines","given":"J.E.","affiliations":[{"id":531,"text":"Patuxent Wildlife Research Center","active":true,"usgs":true}],"preferred":false,"id":342741,"contributorType":{"id":1,"text":"Authors"},"rank":2},{"text":"MacKenzie, D.I.","contributorId":69522,"corporation":false,"usgs":true,"family":"MacKenzie","given":"D.I.","email":"","affiliations":[],"preferred":false,"id":342743,"contributorType":{"id":1,"text":"Authors"},"rank":3},{"text":"Seamans, M.E.","contributorId":48662,"corporation":false,"usgs":true,"family":"Seamans","given":"M.E.","email":"","affiliations":[],"preferred":false,"id":342742,"contributorType":{"id":1,"text":"Authors"},"rank":4},{"text":"Gutierrez, R. J.","contributorId":7647,"corporation":false,"usgs":false,"family":"Gutierrez","given":"R.","email":"","middleInitial":"J.","affiliations":[],"preferred":false,"id":342739,"contributorType":{"id":1,"text":"Authors"},"rank":5}]}} ,{"id":5224836,"text":"5224836 - 2007 - Tarphonomus, a new genus of ovenbird (Aves: Passeriformes: Furnariidae) from South America","interactions":[],"lastModifiedDate":"2021-06-09T17:57:01.693343","indexId":"5224836","displayToPublicDate":"2010-06-16T12:18:33","publicationYear":"2007","noYear":false,"publicationType":{"id":2,"text":"Article"},"publicationSubtype":{"id":10,"text":"Journal Article"},"seriesTitle":{"id":3147,"text":"Proceedings of the Biological Society of Washington","active":true,"publicationSubtype":{"id":10}},"displayTitle":"Tarphonomus, a new genus of ovenbird (Aves: Passeriformes: Furnariidae) from South America","title":"Tarphonomus, a new genus of ovenbird (Aves: Passeriformes: Furnariidae) from South America","docAbstract":"

Tarphonomus, a new genus of ovenbird (Aves: Passeriformes: Furnariidae) from South America, is described. Species included in the new genus, formerly placed in Upucerthia, are T. certhioides and T. harterti.

","language":"English","publisher":"BioOne Complete","doi":"10.2988/0006-324X(2007)120[337:TANGOO]2.0.CO;2","usgsCitation":"Chesser, R., and Brumfield, R., 2007, Tarphonomus, a new genus of ovenbird (Aves: Passeriformes: Furnariidae) from South America: Proceedings of the Biological Society of Washington, v. 120, no. 3, p. 337-339, https://doi.org/10.2988/0006-324X(2007)120[337:TANGOO]2.0.CO;2.","productDescription":"3 p.","startPage":"337","endPage":"339","costCenters":[{"id":531,"text":"Patuxent Wildlife Research Center","active":true,"usgs":true}],"links":[{"id":197986,"rank":0,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"}],"otherGeospatial":"South America","geographicExtents":"{\n \"type\": \"FeatureCollection\",\n \"features\": [\n {\n \"type\": \"Feature\",\n \"properties\": {},\n \"geometry\": {\n \"type\": \"Polygon\",\n \"coordinates\": [\n [\n [\n -82.96875,\n 1.7575368113083254\n ],\n [\n -82.96875,\n -8.059229627200192\n ],\n [\n -75.234375,\n -26.11598592533351\n ],\n [\n -76.2890625,\n -55.578344672182055\n ],\n [\n -63.6328125,\n -56.170022982932046\n ],\n [\n -59.0625,\n -44.33956524809713\n ],\n [\n -46.05468749999999,\n -33.7243396617476\n ],\n [\n -36.2109375,\n -21.616579336740593\n ],\n [\n -31.289062500000004,\n -7.362466865535738\n ],\n [\n -37.96875,\n -0.3515602939922709\n ],\n [\n -46.7578125,\n 4.214943141390651\n ],\n [\n -58.71093750000001,\n 12.211180191503997\n ],\n [\n -68.5546875,\n 13.239945499286312\n ],\n [\n -77.6953125,\n 11.867350911459308\n ],\n [\n -82.96875,\n 1.7575368113083254\n ]\n ]\n ]\n }\n }\n ]\n}","volume":"120","issue":"3","noUsgsAuthors":false,"publicationStatus":"PW","scienceBaseUri":"4f4e4adde4b07f02db686c9b","contributors":{"authors":[{"text":"Chesser, R.T. 0000-0003-4389-7092","orcid":"https://orcid.org/0000-0003-4389-7092","contributorId":34616,"corporation":false,"usgs":true,"family":"Chesser","given":"R.T.","email":"","affiliations":[],"preferred":false,"id":342842,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"Brumfield, R.T.","contributorId":24882,"corporation":false,"usgs":true,"family":"Brumfield","given":"R.T.","email":"","affiliations":[],"preferred":false,"id":342841,"contributorType":{"id":1,"text":"Authors"},"rank":2}]}} ,{"id":5224813,"text":"5224813 - 2007 - Comparison of immune responses of brown-headed cowbird and related blackbirds to West Nile and other mosquito-borne encephalitis viruses","interactions":[],"lastModifiedDate":"2021-06-04T17:07:28.097424","indexId":"5224813","displayToPublicDate":"2010-06-16T12:18:33","publicationYear":"2007","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":"Comparison of immune responses of brown-headed cowbird and related blackbirds to West Nile and other mosquito-borne encephalitis viruses","docAbstract":"

The rapid geographic spread of West Nile virus (family Flaviviridae, genus Flavivirus, WNV) across the United States has stimulated interest in comparative host infection studies to delineate competent avian hosts critical for viral amplification. We compared the host competence of four taxonomically related blackbird species (Icteridae) after experimental infection with WNV and with two endemic, mosquito-borne encephalitis viruses, western equine encephalomyelitis virus (family Togaviridae, genus Alphavirus, WEEV), and St, Louis encephalitis virus (family Flaviviridae, genus Flavivirus, SLEV). We predicted differences in disease resistance among the blackbird species based on differences in life history, because they differ in geographic range and life history traits that include mating and breeding systems. Differences were observed among the response of these hosts to all three viruses, Red-winged Blackbirds were more susceptible to SLEV than Brewer's Blackbirds, whereas Brewer's Blackbirds were more susceptible to WEEV than Red-winged Blackbirds. In response to WNV infection, cowbirds showed the lowest mean viremias, cleared their infections faster, and showed lower antibody levels than concurrently infected species. Brown-headed Cowbirds also exhibited significantly lower viremia responses after infection with SLEV and WEEV as well as coinfection with WEEV and WNV than concurrently infected icterids. We concluded that cowbirds may be more resistant to infection to both native and introduced viruses because they experience heightened exposure to a variety of pathogens of parenting birds during the course of their parasitic life style.

","language":"English","publisher":"Wildlife Disease Association","doi":"10.7589/0090-3558-43.3.439","usgsCitation":"Reisen, W., and Hahn, D., 2007, Comparison of immune responses of brown-headed cowbird and related blackbirds to West Nile and other mosquito-borne encephalitis viruses: Journal of Wildlife Diseases, v. 43, no. 3, p. 439-449, https://doi.org/10.7589/0090-3558-43.3.439.","productDescription":"11 p.","startPage":"439","endPage":"449","costCenters":[{"id":531,"text":"Patuxent Wildlife Research Center","active":true,"usgs":true}],"links":[{"id":476856,"rank":1,"type":{"id":40,"text":"Open Access Publisher Index Page"},"url":"https://doi.org/10.7589/0090-3558-43.3.439","text":"Publisher Index Page"},{"id":202896,"rank":0,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"}],"volume":"43","issue":"3","noUsgsAuthors":false,"publicationStatus":"PW","scienceBaseUri":"4f4e4b23e4b07f02db6ae2fc","contributors":{"authors":[{"text":"Reisen, W.K.","contributorId":29541,"corporation":false,"usgs":true,"family":"Reisen","given":"W.K.","email":"","affiliations":[],"preferred":false,"id":342754,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"Hahn, D.C. 0000-0002-5242-2059","orcid":"https://orcid.org/0000-0002-5242-2059","contributorId":46447,"corporation":false,"usgs":true,"family":"Hahn","given":"D.C.","email":"","affiliations":[{"id":531,"text":"Patuxent Wildlife Research Center","active":true,"usgs":true}],"preferred":false,"id":342755,"contributorType":{"id":1,"text":"Authors"},"rank":2}]}} ,{"id":5224741,"text":"5224741 - 2007 - Plumage development and molt in Long-tailed Manakins (Chiroxiphia linearis): Variation according to sex and age","interactions":[],"lastModifiedDate":"2017-05-08T12:53:29","indexId":"5224741","displayToPublicDate":"2010-06-16T12:18:33","publicationYear":"2007","noYear":false,"publicationType":{"id":2,"text":"Article"},"publicationSubtype":{"id":10,"text":"Journal Article"},"seriesTitle":{"id":3544,"text":"The Auk","onlineIssn":"1938-4254","printIssn":"0004-8038","active":true,"publicationSubtype":{"id":10}},"title":"Plumage development and molt in Long-tailed Manakins (Chiroxiphia linearis): Variation according to sex and age","docAbstract":"

Lek-mating Long-tailed Manakins (Chiroxiphia linearis) exhibit an unusual pattern of delayed plumage maturation. Each year, males progress through a series of predefinitive plumages before attaining definitive plumage in their fifth calendar year. Females also exhibit variation in plumage coloration, with some females displaying male-like plumage characteristics. Using data from mist-net captures in northwest Costa Rica (n = 1,315) and museum specimens from throughout the range of Long-tailed Manakins (n = 585), we documented the plumage sequence progression of males, explored variation in female plumage, and described the timing of molt in this species. Males progressed through a series of age-specific predefinitive plumages, which enabled the accurate aging of predefinitive-plumaged males in the field; this predefinitive plumage sequence is the basis for age-related status-signaling in these males. Females tended to acquire red coloration in the crown as they aged. However, colorful plumage in females may be a byproduct of selection on bright male plumage. Females exhibited an early peak of molt activity from February to April, little molt from May through July, and a second, more pronounced peak of molt activity in October. By contrast, males in older predefinitive-plumage stages and males in definitive plumage exhibited comparable unimodal distributions in molt activity beginning in June and peaking between July and October. Our data are consistent with selective pressure to avoid the costs of molt-breeding overlap in females and older males. Our findings have important implications for social organization and signaling in Long- tailed Manakins, and for the evolution of delayed plumage maturation in birds.

","language":"English","publisher":"American Ornithological Society","doi":"10.1642/0004-8038(2007)124[29:PDAMIL]2.0.CO;2","usgsCitation":"Doucet, S., McDonald, D., Foster, M., and Clay, R., 2007, Plumage development and molt in Long-tailed Manakins (Chiroxiphia linearis): Variation according to sex and age: The Auk, v. 124, no. 1, p. 29-43, https://doi.org/10.1642/0004-8038(2007)124[29:PDAMIL]2.0.CO;2.","productDescription":"15 p.","startPage":"29","endPage":"43","costCenters":[{"id":531,"text":"Patuxent Wildlife Research Center","active":true,"usgs":true}],"links":[{"id":476852,"rank":1,"type":{"id":40,"text":"Open Access Publisher Index Page"},"url":"https://doi.org/10.1642/0004-8038(2007)124[29:pdamil]2.0.co;2","text":"Publisher Index Page"},{"id":202034,"rank":0,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"}],"volume":"124","issue":"1","noUsgsAuthors":false,"publicationStatus":"PW","scienceBaseUri":"4f4e4ad5e4b07f02db683ab5","contributors":{"authors":[{"text":"Doucet, S.M.","contributorId":52301,"corporation":false,"usgs":true,"family":"Doucet","given":"S.M.","email":"","affiliations":[],"preferred":false,"id":342540,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"McDonald, D.B.","contributorId":82032,"corporation":false,"usgs":true,"family":"McDonald","given":"D.B.","email":"","affiliations":[],"preferred":false,"id":342541,"contributorType":{"id":1,"text":"Authors"},"rank":2},{"text":"Foster, M.S. 0000-0001-8272-4608","orcid":"https://orcid.org/0000-0001-8272-4608","contributorId":10116,"corporation":false,"usgs":true,"family":"Foster","given":"M.S.","email":"","affiliations":[],"preferred":false,"id":342538,"contributorType":{"id":1,"text":"Authors"},"rank":3},{"text":"Clay, R.P.","contributorId":32271,"corporation":false,"usgs":true,"family":"Clay","given":"R.P.","email":"","affiliations":[],"preferred":false,"id":342539,"contributorType":{"id":1,"text":"Authors"},"rank":4}]}} ,{"id":5224818,"text":"5224818 - 2007 - Population influences on tornado reports in the United States","interactions":[],"lastModifiedDate":"2021-06-14T15:30:40.949588","indexId":"5224818","displayToPublicDate":"2010-06-16T12:18:33","publicationYear":"2007","noYear":false,"publicationType":{"id":2,"text":"Article"},"publicationSubtype":{"id":10,"text":"Journal Article"},"seriesTitle":{"id":3735,"text":"Weather and Forecasting","active":true,"publicationSubtype":{"id":10}},"title":"Population influences on tornado reports in the United States","docAbstract":"The number of tornadoes reported in the United States is believed to be less than the actual incidence of tornadoes, especially prior to the 1990s, because tornadoes may be undetectable by human witnesses in sparsely populated areas and areas in which obstructions limit the line of sight. A hierarchical Bayesian model is used to simultaneously correct for population-based sampling bias and estimate tornado density using historical tornado report data. The expected result is that F2-F5 compared with F0-F1 tornado reports would vary less with population density. The results agree with this hypothesis for the following population centers: Atlanta, Georgia; Champaign, Illinois; and Des Moines, Iowa. However, the results indicated just the opposite in Oklahoma. It is hypothesized that the result is explained by the misclassification of tornadoes that were worthy of F2-F5 rating but were classified as F0-F1 tornadoes, thereby artificially decreasing the number of F2-F5 and increasing the number of F0-F1 reports in rural Oklahoma.","language":"English","publisher":"AMS Publications","doi":"10.1175/WAF997.1","usgsCitation":"Anderson, C., Wikle, C.K., Zhou, Q., and Royle, J., 2007, Population influences on tornado reports in the United States: Weather and Forecasting, v. 22, no. 3, p. 571-579, https://doi.org/10.1175/WAF997.1.","productDescription":"9 p.","startPage":"571","endPage":"579","costCenters":[{"id":531,"text":"Patuxent Wildlife Research Center","active":true,"usgs":true}],"links":[{"id":476857,"rank":1,"type":{"id":40,"text":"Open Access Publisher Index Page"},"url":"https://doi.org/10.1175/waf997.1","text":"Publisher Index 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C.J.","contributorId":81986,"corporation":false,"usgs":true,"family":"Anderson","given":"C.J.","email":"","affiliations":[],"preferred":false,"id":342777,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"Wikle, C. K.","contributorId":57975,"corporation":false,"usgs":true,"family":"Wikle","given":"C.","email":"","middleInitial":"K.","affiliations":[],"preferred":false,"id":342776,"contributorType":{"id":1,"text":"Authors"},"rank":2},{"text":"Zhou, Q. 0000-0002-1282-8177","orcid":"https://orcid.org/0000-0002-1282-8177","contributorId":93164,"corporation":false,"usgs":true,"family":"Zhou","given":"Q.","affiliations":[],"preferred":false,"id":342778,"contributorType":{"id":1,"text":"Authors"},"rank":3},{"text":"Royle, J. Andrew 0000-0003-3135-2167","orcid":"https://orcid.org/0000-0003-3135-2167","contributorId":96221,"corporation":false,"usgs":true,"family":"Royle","given":"J. Andrew","affiliations":[],"preferred":false,"id":342779,"contributorType":{"id":1,"text":"Authors"},"rank":4}]}} ,{"id":5224819,"text":"5224819 - 2007 - Analysis of multinomial models with unknown index using data augmentation","interactions":[],"lastModifiedDate":"2012-02-02T00:15:31","indexId":"5224819","displayToPublicDate":"2010-06-16T12:18:33","publicationYear":"2007","noYear":false,"publicationType":{"id":2,"text":"Article"},"publicationSubtype":{"id":10,"text":"Journal Article"},"seriesTitle":{"id":2229,"text":"Journal of Computational and Graphical Statistics","active":true,"publicationSubtype":{"id":10}},"title":"Analysis of multinomial models with unknown index using data augmentation","docAbstract":"Multinomial models with unknown index ('sample size') arise in many practical settings. In practice, Bayesian analysis of such models has proved difficult because the dimension of the parameter space is not fixed, being in some cases a function of the unknown index. We describe a data augmentation approach to the analysis of this class of models that provides for a generic and efficient Bayesian implementation. Under this approach, the data are augmented with all-zero detection histories. The resulting augmented dataset is modeled as a zero-inflated version of the complete-data model where an estimable zero-inflation parameter takes the place of the unknown multinomial index. Interestingly, data augmentation can be justified as being equivalent to imposing a discrete uniform prior on the multinomial index. We provide three examples involving estimating the size of an animal population, estimating the number of diabetes cases in a population using the Rasch model, and the motivating example of estimating the number of species in an animal community with latent probabilities of species occurrence and detection.","largerWorkType":{"id":2,"text":"Article"},"largerWorkTitle":"Journal of Computational and Graphical Statistics","largerWorkSubtype":{"id":10,"text":"Journal Article"},"language":"English","collaboration":"6818_Royle.pdf","usgsCitation":"Royle, J., Dorazio, R., and Link, W., 2007, Analysis of multinomial models with unknown index using data augmentation: Journal of Computational and Graphical Statistics, v. 16, no. 1, p. 67-85.","productDescription":"67-85","startPage":"67","endPage":"85","numberOfPages":"19","costCenters":[{"id":531,"text":"Patuxent Wildlife Research Center","active":true,"usgs":true}],"links":[{"id":202038,"rank":0,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"},{"id":16869,"rank":200,"type":{"id":11,"text":"Document"},"url":"https://pubs.amstat.org/doi/abs/10.1198/106186007X181425","linkFileType":{"id":5,"text":"html"}}],"volume":"16","issue":"1","noUsgsAuthors":false,"publicationStatus":"PW","scienceBaseUri":"4f4e4acfe4b07f02db6802ff","contributors":{"authors":[{"text":"Royle, J. Andrew 0000-0003-3135-2167","orcid":"https://orcid.org/0000-0003-3135-2167","contributorId":96221,"corporation":false,"usgs":true,"family":"Royle","given":"J. Andrew","affiliations":[],"preferred":false,"id":342782,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"Dorazio, R.M. 0000-0003-2663-0468","orcid":"https://orcid.org/0000-0003-2663-0468","contributorId":23475,"corporation":false,"usgs":true,"family":"Dorazio","given":"R.M.","affiliations":[],"preferred":false,"id":342781,"contributorType":{"id":1,"text":"Authors"},"rank":2},{"text":"Link, W.A. 0000-0002-9913-0256","orcid":"https://orcid.org/0000-0002-9913-0256","contributorId":8815,"corporation":false,"usgs":true,"family":"Link","given":"W.A.","affiliations":[],"preferred":false,"id":342780,"contributorType":{"id":1,"text":"Authors"},"rank":3}]}} ,{"id":5224835,"text":"5224835 - 2007 - How many tigers Panthera tigris are there in Huai Kha Khaeng Wildlife Sanctuary, Thailand? An estimate using photographic capture-recapture sampling","interactions":[],"lastModifiedDate":"2021-06-07T17:55:28.418241","indexId":"5224835","displayToPublicDate":"2010-06-16T12:18:33","publicationYear":"2007","noYear":false,"publicationType":{"id":2,"text":"Article"},"publicationSubtype":{"id":10,"text":"Journal Article"},"seriesTitle":{"id":2968,"text":"Oryx","active":true,"publicationSubtype":{"id":10}},"displayTitle":"How many tigers Panthera tigris are there in Huai Kha Khaeng Wildlife Sanctuary, Thailand? An estimate using photographic capture-recapture sampling","title":"How many tigers Panthera tigris are there in Huai Kha Khaeng Wildlife Sanctuary, Thailand? An estimate using photographic capture-recapture sampling","docAbstract":"

We used capture-recapture analyses to estimate the density of a tiger Panthera tigris population in the tropical forests of Huai Kha Khaeng Wildlife Sanctuary, Thailand, from photographic capture histories of 15 distinct individuals. The closure test results (z = 0.39, P = 0.65) provided some evidence in support of the demographic closure assumption. Fit of eight plausible closed models to the data indicated more support for model Mh, which incorporates individual heterogeneity in capture probabilities. This model generated an average capture probability \"\" = 0.42 and an abundance estimate of \"\" = 19 (9.65) tigers. The sampled area of \"\" = 477.2 (58.24) km2 yielded a density estimate of \"\" = 3.98 (0.51) tigers per 100 km2. Huai Kha Khaeng Wildlife Sanctuary could therefore hold 113 tigers and the entire Western Forest Complex c. 720 tigers. Although based on field protocols that constrained us to use sub-optimal analyses, this estimated tiger density is comparable to tiger densities in Indian reserves that support moderate prey abundances. However, tiger densities in well-protected Indian reserves with high prey abundances are three times higher. If given adequate protection we believe that the Western Forest Complex of Thailand could potentially harbour >2,000 wild tigers, highlighting its importance for global tiger conservation. The monitoring approaches we recommend here would be useful for managing this tiger population.

","language":"English","publisher":"Cambridge University Press","doi":"10.1017/S0030605307414107","usgsCitation":"Simcharoen, S., Pattanavibool, A., Karanth, K.U., Nichols, J., and Kumar, S., 2007, How many tigers Panthera tigris are there in Huai Kha Khaeng Wildlife Sanctuary, Thailand? An estimate using photographic capture-recapture sampling: Oryx, v. 41, no. 4, p. 447-453, https://doi.org/10.1017/S0030605307414107.","productDescription":"7 p.","startPage":"447","endPage":"453","costCenters":[{"id":531,"text":"Patuxent Wildlife Research Center","active":true,"usgs":true}],"links":[{"id":476858,"rank":1,"type":{"id":40,"text":"Open Access Publisher Index Page"},"url":"https://doi.org/10.1017/s0030605307414107","text":"Publisher Index Page"},{"id":202897,"rank":0,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"}],"country":"Thailand","otherGeospatial":"Huai Kha Khaeng Wildlife Sanctuary","geographicExtents":"{\n \"type\": \"FeatureCollection\",\n \"features\": [\n {\n \"type\": \"Feature\",\n \"properties\": {},\n \"geometry\": {\n \"type\": \"Polygon\",\n \"coordinates\": [\n [\n [\n 99.28619384765625,\n 15.712950725807477\n ],\n [\n 99.41390991210938,\n 15.712950725807477\n ],\n [\n 99.41390991210938,\n 15.787628422033151\n ],\n [\n 99.28619384765625,\n 15.787628422033151\n ],\n [\n 99.28619384765625,\n 15.712950725807477\n ]\n ]\n ]\n }\n }\n ]\n}","volume":"41","issue":"4","noUsgsAuthors":false,"publicationDate":"2007-12-03","publicationStatus":"PW","scienceBaseUri":"4f4e4b23e4b07f02db6adf39","contributors":{"authors":[{"text":"Simcharoen, S.","contributorId":60750,"corporation":false,"usgs":true,"family":"Simcharoen","given":"S.","email":"","affiliations":[],"preferred":false,"id":342840,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"Pattanavibool, A.","contributorId":18485,"corporation":false,"usgs":true,"family":"Pattanavibool","given":"A.","affiliations":[],"preferred":false,"id":342838,"contributorType":{"id":1,"text":"Authors"},"rank":2},{"text":"Karanth, K. U.","contributorId":23645,"corporation":false,"usgs":true,"family":"Karanth","given":"K.","email":"","middleInitial":"U.","affiliations":[],"preferred":false,"id":342839,"contributorType":{"id":1,"text":"Authors"},"rank":3},{"text":"Nichols, J.D. 0000-0002-7631-2890","orcid":"https://orcid.org/0000-0002-7631-2890","contributorId":14332,"corporation":false,"usgs":true,"family":"Nichols","given":"J.D.","affiliations":[],"preferred":false,"id":342836,"contributorType":{"id":1,"text":"Authors"},"rank":4},{"text":"Kumar, S.","contributorId":17714,"corporation":false,"usgs":true,"family":"Kumar","given":"S.","affiliations":[],"preferred":false,"id":342837,"contributorType":{"id":1,"text":"Authors"},"rank":5}]}} ,{"id":5224831,"text":"5224831 - 2007 - Application of information theory methods to food web reconstruction","interactions":[],"lastModifiedDate":"2021-05-25T11:53:29.215064","indexId":"5224831","displayToPublicDate":"2010-06-16T12:18:33","publicationYear":"2007","noYear":false,"publicationType":{"id":2,"text":"Article"},"publicationSubtype":{"id":10,"text":"Journal Article"},"seriesTitle":{"id":1458,"text":"Ecological Modelling","active":true,"publicationSubtype":{"id":10}},"title":"Application of information theory methods to food web reconstruction","docAbstract":"In this paper we use information theory techniques on time series of abundances to determine the topology of a food web. At the outset, the food web participants (two consumers, two resources) are known; in addition we know that each consumer prefers one of the resources over the other. However, we do not know which consumer prefers which resource, and if this preference is absolute (i.e., whether or not the consumer will consume the non-preferred resource). Although the consumers and resources are identified at the beginning of the experiment, we also provide evidence that the consumers are not resources for each other, and the resources do not consume each other. We do show that there is significant mutual information between resources; the model is seasonally forced and some shared information between resources is expected. Similarly, because the model is seasonally forced, we expect shared information between consumers as they respond to the forcing of the resources. The model that we consider does include noise, and in an effort to demonstrate that these methods may be of some use in other than model data, we show the efficacy of our methods with decreasing time series size; in this particular case we obtain reasonably clear results with a time series length of 400 points. This approaches ecological time series lengths from real systems.","language":"English","publisher":"Elsevier","doi":"10.1016/j.ecolmodel.2007.05.016","usgsCitation":"Moniz, L., Cooch, E., Ellner, S., Nichols, J., and Nichols, J., 2007, Application of information theory methods to food web reconstruction: Ecological Modelling, v. 208, no. 2-4, p. 145-158, https://doi.org/10.1016/j.ecolmodel.2007.05.016.","productDescription":"14 p.","startPage":"145","endPage":"158","costCenters":[{"id":531,"text":"Patuxent Wildlife Research Center","active":true,"usgs":true}],"links":[{"id":202265,"rank":0,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"}],"volume":"208","issue":"2-4","noUsgsAuthors":false,"publicationStatus":"PW","scienceBaseUri":"4f4e4ac6e4b07f02db67aa71","contributors":{"authors":[{"text":"Moniz, L.J.","contributorId":17718,"corporation":false,"usgs":true,"family":"Moniz","given":"L.J.","email":"","affiliations":[],"preferred":false,"id":342826,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"Cooch, E.G.","contributorId":40932,"corporation":false,"usgs":true,"family":"Cooch","given":"E.G.","email":"","affiliations":[],"preferred":false,"id":342828,"contributorType":{"id":1,"text":"Authors"},"rank":2},{"text":"Ellner, S.P.","contributorId":16963,"corporation":false,"usgs":true,"family":"Ellner","given":"S.P.","affiliations":[],"preferred":false,"id":342825,"contributorType":{"id":1,"text":"Authors"},"rank":3},{"text":"Nichols, J.D. 0000-0002-7631-2890","orcid":"https://orcid.org/0000-0002-7631-2890","contributorId":14332,"corporation":false,"usgs":true,"family":"Nichols","given":"J.D.","affiliations":[],"preferred":false,"id":342824,"contributorType":{"id":1,"text":"Authors"},"rank":4},{"text":"Nichols, J.M.","contributorId":18080,"corporation":false,"usgs":true,"family":"Nichols","given":"J.M.","email":"","affiliations":[],"preferred":false,"id":342827,"contributorType":{"id":1,"text":"Authors"},"rank":5}]}} ,{"id":5224824,"text":"5224824 - 2007 - Revision of the characters of Centrolenidae (Amphibia: Anura: Athesphatanura), with comments on its taxonomy and the description of new taxa of glassfrogs","interactions":[],"lastModifiedDate":"2021-06-16T15:35:45.773987","indexId":"5224824","displayToPublicDate":"2010-06-16T12:18:33","publicationYear":"2007","noYear":false,"publicationType":{"id":2,"text":"Article"},"publicationSubtype":{"id":10,"text":"Journal Article"},"seriesTitle":{"id":3814,"text":"Zootaxa","onlineIssn":"1175-5334","printIssn":"1175-5326","active":true,"publicationSubtype":{"id":10}},"title":"Revision of the characters of Centrolenidae (Amphibia: Anura: Athesphatanura), with comments on its taxonomy and the description of new taxa of glassfrogs","docAbstract":"

Anurans of the family Centrolenidae are a diverse clade of arboreal frogs distributed across tropical America. Knowledge of their taxonomy, systematics, ecology, behavior, morphology, and other evolutionary aspects of their biology is deficient. Relationships among centrolenid species remain largely unresolved, with no satisfactory phylogenetic hypothesis, and none of the current genera has compelling evidence of monophyly. Further, understanding the phylogeny of glassfrogs is constrained by species-level taxonomic problems, including incorrect description of characters, incomplete analyses of intraspecific variation, and lack of appreciation of species diversity. Herein, we define and analyze the 23 characters that are useful, in combination, in diagnosing centrolenid species, and thereby provide a reference for the use of future workers. We propose revised classifications for the parietal and visceral peritoneal pigmentation, liver form and coloration of its associated hepatic peritoneum, nuptial excrescences, and hand ornamentation. We comment on the generic and species-level taxonomy of Centrolenidae, proposing the recognition of a new genus and describing a new species from Ecuador. We treat Hyla ocellifera Boulenger as a synonym of Centrolene prosoblepon (Boettger), Hyalinobatrachium cardiacalyptum McCranie & Wilson as a synonym of Hyalinobatrachium chirripoi (Taylor), and Hyalinobatrachium crybetes McCranie and Wilson as a synonym of Hyalinobatrachium colymbiphyllum (Taylor). We also present an annotated list of the species of glassfrogs from the Republic of Ecuador with some distributional remarks.

","language":"English","publisher":"Magnolia Press","doi":"10.11646/zootaxa.1572.1.1","usgsCitation":"Cisneros-Heredia, D., and McDiarmid, R.W., 2007, Revision of the characters of Centrolenidae (Amphibia: Anura: Athesphatanura), with comments on its taxonomy and the description of new taxa of glassfrogs: Zootaxa, v. 1572, no. 1, p. 1-82, https://doi.org/10.11646/zootaxa.1572.1.1.","productDescription":"82 p.","startPage":"1","endPage":"82","costCenters":[{"id":531,"text":"Patuxent Wildlife Research Center","active":true,"usgs":true}],"links":[{"id":201669,"rank":0,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"}],"volume":"1572","issue":"1","noUsgsAuthors":false,"publicationDate":"2007-08-31","publicationStatus":"PW","scienceBaseUri":"4f4e4a14e4b07f02db60296c","contributors":{"authors":[{"text":"Cisneros-Heredia, D.F.","contributorId":104180,"corporation":false,"usgs":true,"family":"Cisneros-Heredia","given":"D.F.","email":"","affiliations":[],"preferred":false,"id":342800,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"McDiarmid, Roy W. 0000-0002-7649-1796 rmcdiarmid@usgs.gov","orcid":"https://orcid.org/0000-0002-7649-1796","contributorId":3603,"corporation":false,"usgs":true,"family":"McDiarmid","given":"Roy","email":"rmcdiarmid@usgs.gov","middleInitial":"W.","affiliations":[{"id":531,"text":"Patuxent Wildlife Research Center","active":true,"usgs":true}],"preferred":true,"id":342799,"contributorType":{"id":1,"text":"Authors"},"rank":2}]}} ,{"id":5224826,"text":"5224826 - 2007 - Enhancing the interpretation of stated choice analysis through the application of a verbal protocol assessment","interactions":[],"lastModifiedDate":"2021-06-03T17:49:33.048382","indexId":"5224826","displayToPublicDate":"2010-06-16T12:18:33","publicationYear":"2007","noYear":false,"publicationType":{"id":2,"text":"Article"},"publicationSubtype":{"id":10,"text":"Journal Article"},"seriesTitle":{"id":2369,"text":"Journal of Leisure Research","active":true,"publicationSubtype":{"id":10}},"title":"Enhancing the interpretation of stated choice analysis through the application of a verbal protocol assessment","docAbstract":"

A stated choice survey was employed to evaluate the relative importance of resource, social, and management attributes by asking visitors to select preferred configurations of these attributes. A verbal protocol assessment was added to consider how respondents interpret and respond to stated choice questions applied to hikers of a popular trail at Acadia National Park. Results suggest that visitors are sensitive to changes in public access to the trail and its ecological conditions, with level of encounters least important. Verbal protocol results identified considerations made by respondents that provide insight to their evaluations of alternative recreation setting configurations. These insights help clarify issues important to visitors that stated choice results on their own do not provide.

","largerWorkTitle":"Taylor & Francis Online","language":"English","doi":"10.1080/00222216.2007.11950105","usgsCitation":"Cahill, K., Marion, J., and Lawson, S., 2007, Enhancing the interpretation of stated choice analysis through the application of a verbal protocol assessment: Journal of Leisure Research, v. 39, no. 2, p. 201-221, https://doi.org/10.1080/00222216.2007.11950105.","productDescription":"21 p.","startPage":"201","endPage":"221","costCenters":[{"id":531,"text":"Patuxent Wildlife Research Center","active":true,"usgs":true}],"links":[{"id":201733,"rank":0,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"}],"country":"United States","state":"Maine","otherGeospatial":"Acadia National Park","geographicExtents":"{\n \"type\": \"FeatureCollection\",\n \"features\": [\n {\n \"type\": \"Feature\",\n \"properties\": {},\n \"geometry\": {\n \"type\": \"Polygon\",\n \"coordinates\": [\n [\n [\n -68.31848144531249,\n 44.302230078625456\n ],\n [\n -68.16741943359374,\n 44.3002644115815\n ],\n [\n -68.170166015625,\n 44.396504700115536\n ],\n [\n -68.30749511718749,\n 44.422011314236634\n ],\n [\n -68.31848144531249,\n 44.302230078625456\n ]\n ]\n ]\n }\n }\n ]\n}","volume":"39","issue":"2","noUsgsAuthors":false,"publicationDate":"2017-12-13","publicationStatus":"PW","scienceBaseUri":"4f4e4a14e4b07f02db602674","contributors":{"authors":[{"text":"Cahill, K.L.","contributorId":14084,"corporation":false,"usgs":true,"family":"Cahill","given":"K.L.","email":"","affiliations":[],"preferred":false,"id":342811,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"Marion, J. L. 0000-0003-2226-689X","orcid":"https://orcid.org/0000-0003-2226-689X","contributorId":10888,"corporation":false,"usgs":true,"family":"Marion","given":"J. L.","affiliations":[],"preferred":false,"id":342809,"contributorType":{"id":1,"text":"Authors"},"rank":2},{"text":"Lawson, S.R.","contributorId":14083,"corporation":false,"usgs":true,"family":"Lawson","given":"S.R.","email":"","affiliations":[],"preferred":false,"id":342810,"contributorType":{"id":1,"text":"Authors"},"rank":3}]}} ,{"id":5224814,"text":"5224814 - 2007 - Calculating background levels for ecological risk parameters in toxic harbor sediment","interactions":[],"lastModifiedDate":"2021-06-11T16:55:31.611322","indexId":"5224814","displayToPublicDate":"2010-06-16T12:18:33","publicationYear":"2007","noYear":false,"publicationType":{"id":2,"text":"Article"},"publicationSubtype":{"id":10,"text":"Journal Article"},"seriesTitle":{"id":3422,"text":"Soil and Sediment Contamination","active":true,"publicationSubtype":{"id":10}},"title":"Calculating background levels for ecological risk parameters in toxic harbor sediment","docAbstract":"Establishing background levels for biological parameters is necessary in assessing the ecological risks from harbor sediment contaminated with toxic chemicals. For chemicals in sediment, the term contaminated is defined as having concentrations above background and significant human health or ecological risk levels. For biological parameters, a site could be considered contaminated if levels of the parameter are either more or less than the background level, depending on the specific parameter. Biological parameters can include tissue chemical concentrations in ecological receptors, bioassay responses, bioaccumulation levels, and benthic community metrics. Chemical parameters can include sediment concentrations of a variety of potentially toxic chemicals. Indirectly, contaminated harbor sediment can impact shellfish, fish, birds, and marine mammals, and human populations. This paper summarizes the methods used to define background levels for chemical and biological parameters from a survey of ecological risk investigations of marine harbor sediment at California Navy bases. Background levels for regional biological indices used to quantify ecological risks for benthic communities are also described. Generally, background stations are positioned in relatively clean areas exhibiting the same physical and general chemical characteristics as nearby areas with contaminated harbor sediment. The number of background stations and the number of sample replicates per background station depend on the statistical design of the sediment ecological risk investigation, developed through the data quality objective (DQO) process. Biological data from the background stations can be compared to data from a contaminated site by using minimum or maximum background levels or comparative statistics. In Navy ecological risk assessments (ERA's), calculated background levels and appropriate ecological risk screening criteria are used to identify sampling stations and sites with contaminated sediments.","language":"English","publisher":"Taylor & Francis Online","doi":"10.1080/15320380701490150","usgsCitation":"Leadon, C., McDonnell, T., Lear, J., and Barclift, D., 2007, Calculating background levels for ecological risk parameters in toxic harbor sediment: Soil and Sediment Contamination, v. 16, no. 5, p. 433-450, https://doi.org/10.1080/15320380701490150.","productDescription":"18 p.","startPage":"433","endPage":"450","costCenters":[{"id":531,"text":"Patuxent Wildlife Research Center","active":true,"usgs":true}],"links":[{"id":201532,"rank":0,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"}],"country":"United States","state":"California","geographicExtents":"{\n \"type\": \"FeatureCollection\",\n \"features\": [\n {\n \"type\": \"Feature\",\n \"properties\": {},\n \"geometry\": {\n \"type\": \"Polygon\",\n \"coordinates\": [\n [\n [\n -124.21142578125,\n 42.01665183556825\n ],\n [\n -124.47509765625,\n 40.49709237269567\n ],\n [\n -123.79394531249999,\n 38.92522904714054\n ],\n [\n -122.49755859375,\n 37.10776507118514\n ],\n [\n -120.4541015625,\n 34.470335121217474\n ],\n [\n -118.32275390624999,\n 33.779147331286474\n ],\n [\n -117.24609374999999,\n 32.58384932565662\n ],\n [\n -114.6533203125,\n 32.76880048488168\n ],\n [\n -114.5654296875,\n 32.93492866908233\n ],\n [\n -114.697265625,\n 33.15594830078649\n ],\n [\n -114.521484375,\n 33.97980872872457\n ],\n [\n -114.08203125,\n 34.252676117101515\n ],\n [\n -114.43359375,\n 34.813803317113155\n ],\n [\n -120.05859375,\n 39.07890809706475\n ],\n [\n -119.99267578124999,\n 42.00032514831621\n ],\n [\n -124.21142578125,\n 42.01665183556825\n ]\n ]\n ]\n }\n }\n ]\n}","volume":"16","issue":"5","noUsgsAuthors":false,"publicationDate":"2007-08-14","publicationStatus":"PW","scienceBaseUri":"4f4e48cee4b07f02db545686","contributors":{"authors":[{"text":"Leadon, C.J.","contributorId":10522,"corporation":false,"usgs":true,"family":"Leadon","given":"C.J.","email":"","affiliations":[],"preferred":false,"id":342758,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"McDonnell, T.R.","contributorId":7396,"corporation":false,"usgs":true,"family":"McDonnell","given":"T.R.","email":"","affiliations":[],"preferred":false,"id":342756,"contributorType":{"id":1,"text":"Authors"},"rank":2},{"text":"Lear, J.","contributorId":82426,"corporation":false,"usgs":true,"family":"Lear","given":"J.","email":"","affiliations":[],"preferred":false,"id":342759,"contributorType":{"id":1,"text":"Authors"},"rank":3},{"text":"Barclift, D.","contributorId":8968,"corporation":false,"usgs":true,"family":"Barclift","given":"D.","email":"","affiliations":[],"preferred":false,"id":342757,"contributorType":{"id":1,"text":"Authors"},"rank":4}]}} ,{"id":5224811,"text":"5224811 - 2007 - Survival of timber rattlesnakes (Crotalus horridus) estimated by capture-recapture models in relation to age, sex, color morph, time, and birthplace","interactions":[],"lastModifiedDate":"2016-12-16T10:24:48","indexId":"5224811","displayToPublicDate":"2010-06-16T12:18:33","publicationYear":"2007","noYear":false,"publicationType":{"id":2,"text":"Article"},"publicationSubtype":{"id":10,"text":"Journal Article"},"seriesTitle":{"id":1337,"text":"Copeia","active":true,"publicationSubtype":{"id":10}},"title":"Survival of timber rattlesnakes (Crotalus horridus) estimated by capture-recapture models in relation to age, sex, color morph, time, and birthplace","docAbstract":"

Juvenile survival is one of the least known elements of the life history of many species, in particular snakes. We conducted a mark–recapture study of Crotalus horridus from 1978–2002 in northeastern New York near the northern limits of the species' range. We marked 588 neonates and estimated annual age-, sex-, and morph-specific recapture and survival rates using the Cormack-Jolly-Seber (CJS) model. Wild-caught neonates (field-born, n  =  407) and neonates produced by captive-held gravid females (lab-born, n  =  181) allowed comparison of the birthplace, or lab treatment effect, in estimated survival. Recapture rates declined from about 10–20% over time while increasing from young to older age classes. Estimated survival rates (S ± 1 SE) in the first year were significantly higher among field-born (black morph: S  =  0.773 ± 0.203; yellow morph: S  =  0.531 ± 0.104) than among lab-born snakes (black morph: S  =  0.411 ± 0.131; yellow morph: S  =  0.301 ± 0.081). Lower birth weights combined with a lack of field exposure until release apparently contributed to the lower survival rate of lab-born snakes. Subsequent survival estimates for 2–4-yr-old snakes were S  =  0.845 ± 0.084 for the black morph and S  =  0.999 (SE not available) for the yellow morph, and for ≥5-yr-old snakes S  =  0.958 ± 0.039 (black morph) and S  =  0.822 ± 0.034 (yellow morph). The most parsimonious model overall contained an independent time trend for survival of each age, morph, and lab-treatment group. For snakes of the first two age groups (ages 1 yr and 2–4 yr), survival tended to decline over the years for both morphs, while for adult snakes (5 yr and older), survival was constant or even slightly increased. Our data on survival and recapture are among the first rigorous estimates of these parameters in a rattlesnake and among the few yet available for any viperid snake. These data are useful for analyses of the life-history strategy, population dynamics, and conservation of this long-lived snake.

","language":"English","publisher":"The American Society of Ichthyologists and Herpetologists","doi":"10.1643/0045-8511(2007)2007[656:SOTRCH]2.0.CO;2","usgsCitation":"Brown, W.S., Kery, M., and Hines, J., 2007, Survival of timber rattlesnakes (Crotalus horridus) estimated by capture-recapture models in relation to age, sex, color morph, time, and birthplace: Copeia, v. 3, p. 656-671, https://doi.org/10.1643/0045-8511(2007)2007[656:SOTRCH]2.0.CO;2.","productDescription":"16 p.","startPage":"656","endPage":"671","numberOfPages":"16","costCenters":[{"id":531,"text":"Patuxent Wildlife Research Center","active":true,"usgs":true}],"links":[{"id":202841,"rank":0,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"}],"volume":"3","noUsgsAuthors":false,"publicationStatus":"PW","scienceBaseUri":"4f4e4ae0e4b07f02db68812a","contributors":{"authors":[{"text":"Brown, W. S.","contributorId":14466,"corporation":false,"usgs":true,"family":"Brown","given":"W.","email":"","middleInitial":"S.","affiliations":[],"preferred":false,"id":342750,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"Kery, M.","contributorId":46637,"corporation":false,"usgs":true,"family":"Kery","given":"M.","affiliations":[],"preferred":false,"id":342752,"contributorType":{"id":1,"text":"Authors"},"rank":2},{"text":"Hines, J.E. 0000-0001-5478-7230","orcid":"https://orcid.org/0000-0001-5478-7230","contributorId":36885,"corporation":false,"usgs":true,"family":"Hines","given":"J.E.","affiliations":[{"id":531,"text":"Patuxent Wildlife Research Center","active":true,"usgs":true}],"preferred":false,"id":342751,"contributorType":{"id":1,"text":"Authors"},"rank":3}]}} ,{"id":5224853,"text":"5224853 - 2007 - Mapping the information landscape: Discerning peaks and valleys for ecological monitoring","interactions":[],"lastModifiedDate":"2021-06-02T18:16:45.23344","indexId":"5224853","displayToPublicDate":"2010-06-16T12:18:33","publicationYear":"2007","noYear":false,"publicationType":{"id":2,"text":"Article"},"publicationSubtype":{"id":10,"text":"Journal Article"},"seriesTitle":{"id":2194,"text":"Journal of Biological Physics","active":true,"publicationSubtype":{"id":10}},"title":"Mapping the information landscape: Discerning peaks and valleys for ecological monitoring","docAbstract":"

We investigate previously unreported phenomena that have a potentially significant impact on the design of surveillance monitoring programs for ecological systems. Ecological monitoring practitioners have long recognized that different species are differentially informative of a system's dynamics, as codified in the well-known concepts of indicator or keystone species. Using a novel combination of analysis techniques from nonlinear dynamics, we describe marked variation among spatial sites in information content with respect to system dynamics in the entire region. We first observed these phenomena in a spatially extended predator-prey model, but we observed strikingly similar features in verified water-level data from a NOAA/NOS Great Lakes monitoring program. We suggest that these features may be widespread and the design of surveillance monitoring programs should reflect knowledge of their existence.

","language":"English","publisher":"SpringerLink","doi":"10.1007/s10867-007-9047-y","usgsCitation":"Moniz, L., Nichols, J., and Nichols, J., 2007, Mapping the information landscape: Discerning peaks and valleys for ecological monitoring: Journal of Biological Physics, v. 33, no. 3, p. 171-181, https://doi.org/10.1007/s10867-007-9047-y.","productDescription":"11 p.","startPage":"171","endPage":"181","costCenters":[{"id":531,"text":"Patuxent Wildlife Research Center","active":true,"usgs":true}],"links":[{"id":476854,"rank":1,"type":{"id":41,"text":"Open Access External Repository Page"},"url":"https://doi.org/10.1007/s10867-007-9047-y","text":"External Repository"},{"id":196288,"rank":0,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"}],"volume":"33","issue":"3","noUsgsAuthors":false,"publicationDate":"2008-02-28","publicationStatus":"PW","scienceBaseUri":"4f4e4b0ae4b07f02db69d384","contributors":{"authors":[{"text":"Moniz, L.J.","contributorId":17718,"corporation":false,"usgs":true,"family":"Moniz","given":"L.J.","email":"","affiliations":[],"preferred":false,"id":342909,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"Nichols, J.D. 0000-0002-7631-2890","orcid":"https://orcid.org/0000-0002-7631-2890","contributorId":14332,"corporation":false,"usgs":true,"family":"Nichols","given":"J.D.","affiliations":[],"preferred":false,"id":342908,"contributorType":{"id":1,"text":"Authors"},"rank":2},{"text":"Nichols, J.M.","contributorId":18080,"corporation":false,"usgs":true,"family":"Nichols","given":"J.M.","email":"","affiliations":[],"preferred":false,"id":342910,"contributorType":{"id":1,"text":"Authors"},"rank":3}]}} ,{"id":5224848,"text":"5224848 - 2007 - Poplar Island Environmental Restoration Project: Challenges in waterbird restoration on an island in Chesapeake Bay","interactions":[],"lastModifiedDate":"2021-05-24T17:52:17.674934","indexId":"5224848","displayToPublicDate":"2010-06-16T12:18:33","publicationYear":"2007","noYear":false,"publicationType":{"id":2,"text":"Article"},"publicationSubtype":{"id":10,"text":"Journal Article"},"seriesTitle":{"id":1462,"text":"Ecological Restoration","active":true,"publicationSubtype":{"id":10}},"title":"Poplar Island Environmental Restoration Project: Challenges in waterbird restoration on an island in Chesapeake Bay","docAbstract":"

At 460 hectares, the Paul Sarbanes Environmental Restoration Project at Poplar Island, Talbot County, Maryland, represents the largest 'beneficial use' dredged material project of the U. S. Army Corps of Engineers (a cooperative project with Maryland Port Administration). Begun in 1998, the 15-year restoration project will ultimately consist of roughly 220 ha of uplands and 220 ha of tidal wetland habitats, with limited areas of dike roads, perimeter riprap, and unvegetated mudflats. Wetland restoration began in one small section (or 'cell') in 2002, but not all cells will be filled with dredged material until at least 2013. As a major objective of the restoration, six species of waterbirds were identified as 'priority species' for Chesapeake Bay: American black duck (Anas rubripes), snowy egret (Egretta thula), cattle egret (Bubulcus ibis), osprey (Pandion haliaetus), common tern (Sterna hirundo), and least tern (S. antillarum). Monitoring of nesting activities of these species from 2002 to 2005 indicated that all species except black ducks colonized the site rapidly. More than 800 pairs of common terns nested in 2003 to 2004. Because of predation by red fox (Vulpes vulpes) and great horned owl (Bubo virginianus), reproductive success was very low for the terns. Trapping was effective in removing the foxes, and other controls have been applied to opportunistic nesting species including herring gulls (Larus argentatus) and Canada geese (Branta canadensis). An effective public education program on the island has helped address concerns about animal control.

","language":"English","publisher":"University of Wisconsin Press","doi":"10.3368/er.25.4.256","usgsCitation":"Erwin, R., Miller, J., and Reese, J., 2007, Poplar Island Environmental Restoration Project: Challenges in waterbird restoration on an island in Chesapeake Bay: Ecological Restoration, v. 25, no. 4, p. 256-262, https://doi.org/10.3368/er.25.4.256.","productDescription":"7 p.","startPage":"256","endPage":"262","costCenters":[{"id":531,"text":"Patuxent Wildlife Research Center","active":true,"usgs":true}],"links":[{"id":201534,"rank":0,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"}],"country":"United States","state":"Maryland","county":"Talbot County","otherGeospatial":"Chesapeake Bay","geographicExtents":"{\n \"type\": \"FeatureCollection\",\n \"features\": [\n {\n \"type\": \"Feature\",\n \"properties\": {},\n \"geometry\": {\n \"type\": \"Polygon\",\n \"coordinates\": [\n [\n [\n -76.2890625,\n 37.12966595484084\n ],\n [\n -76.0089111328125,\n 37.12966595484084\n ],\n [\n -75.8660888671875,\n 37.8271414168374\n ],\n [\n -76.1077880859375,\n 37.91820111976663\n ],\n [\n -76.2890625,\n 37.75768707689704\n ],\n [\n -76.2890625,\n 37.12966595484084\n ]\n ]\n ]\n }\n }\n ]\n}","volume":"25","issue":"4","noUsgsAuthors":false,"publicationStatus":"PW","scienceBaseUri":"4f4e4ad7e4b07f02db684396","contributors":{"authors":[{"text":"Erwin, R.M.","contributorId":57396,"corporation":false,"usgs":true,"family":"Erwin","given":"R.M.","email":"","affiliations":[],"preferred":false,"id":342894,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"Miller, J.","contributorId":16939,"corporation":false,"usgs":true,"family":"Miller","given":"J.","affiliations":[],"preferred":false,"id":342892,"contributorType":{"id":1,"text":"Authors"},"rank":2},{"text":"Reese, J.G.","contributorId":36261,"corporation":false,"usgs":true,"family":"Reese","given":"J.G.","email":"","affiliations":[],"preferred":false,"id":342893,"contributorType":{"id":1,"text":"Authors"},"rank":3}]}} ,{"id":5224201,"text":"5224201 - 2007 - [Book review] The sound approach to birding: A guide to understanding bird sound","interactions":[],"lastModifiedDate":"2017-05-08T12:57:06","indexId":"5224201","displayToPublicDate":"2010-06-16T12:18:33","publicationYear":"2007","noYear":false,"publicationType":{"id":2,"text":"Article"},"publicationSubtype":{"id":10,"text":"Journal Article"},"seriesTitle":{"id":3544,"text":"The Auk","onlineIssn":"1938-4254","printIssn":"0004-8038","active":true,"publicationSubtype":{"id":10}},"title":"[Book review] The sound approach to birding: A guide to understanding bird sound","docAbstract":"

What is the “Sound Approach”? It is a trio of enthusiastic bird-sound recordists-analysts (Arnoud B. van den Berg, Mark Constantine, and Magnus Robb) who, with friends, traveled to 42 countries in a massive effort to record all the songs and calls of the birds of the Western Palearctic. The recordings in this guide are selected from the 30,000 or so recorded digitally with stereo microphones by the authors since the year 2000.

","language":"English","publisher":"American Ornithological Society","doi":"10.1642/0004-8038(2007)124[1463:TSATBA]2.0.CO;2","usgsCitation":"Robbins, C., 2007, [Book review] The sound approach to birding: A guide to understanding bird sound: The Auk, v. 124, no. 4, p. 1463-1464, https://doi.org/10.1642/0004-8038(2007)124[1463:TSATBA]2.0.CO;2.","productDescription":"2 p.","startPage":"1463","endPage":"1464","costCenters":[{"id":531,"text":"Patuxent Wildlife Research Center","active":true,"usgs":true}],"links":[{"id":477001,"rank":1,"type":{"id":41,"text":"Open Access External Repository Page"},"url":"http://www.bioone.org/doi/10.1642/0004-8038%282007%29124%5B1463%3ATSATBA%5D2.0.CO%3B2","text":"External Repository"},{"id":196416,"rank":0,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"}],"volume":"124","issue":"4","publicComments":"Review of: Mark Constantine and The Sound Approach. 2006. The Sound Approach, 29 High Street, Poole, Dorset BH12 1AB, United Kingdom. 2006. 192 pp. + 2 CDs. Bird and habitat photos, ≈160 sonagrams. ISBN 10:90-810933-1-2. ISBN 13:978-90-810933-1-6. NUR code: 435.","noUsgsAuthors":false,"publicationStatus":"PW","scienceBaseUri":"4f4e478be4b07f02db487ddc","contributors":{"authors":[{"text":"Robbins, C.S.","contributorId":53907,"corporation":false,"usgs":true,"family":"Robbins","given":"C.S.","email":"","affiliations":[],"preferred":false,"id":340884,"contributorType":{"id":1,"text":"Authors"},"rank":1}]}} ,{"id":5224852,"text":"5224852 - 2007 - Current range of the eastern population of Painted Bunting (Passerina ciris). Part II: Winter range","interactions":[],"lastModifiedDate":"2012-02-02T00:15:30","indexId":"5224852","displayToPublicDate":"2010-06-16T12:18:33","publicationYear":"2007","noYear":false,"publicationType":{"id":2,"text":"Article"},"publicationSubtype":{"id":10,"text":"Journal Article"},"seriesTitle":{"id":2882,"text":"North American Birds","active":true,"publicationSubtype":{"id":10}},"title":"Current range of the eastern population of Painted Bunting (Passerina ciris). Part II: Winter range","docAbstract":"The importance of wintering areas for Neotropical migrants is well established. The wintering range of the eastern population of Painted Bunting (Passerina ciris) is described in detail and presented in maps. The paper also discusses extralimital records from islands in the Caribbean Basin as well as scattered wintering individuals outside the winter range. The possibility of eastern birds wintering on the Yucatan Peninsula and adjacent Central America is considered. An extensive treatment of the protected areas of Peninsular Florida, the northern Bahamas, and Cuba describes the importance of upland habitats within these protected areas for wintering buntings. This information should be useful to land management agencies, conservation organizations, and private landholders for the welfare of the bunting and biodiversity in general and may also be of interest to ornithologists, other biological disciplines, naturalists, and birders.","largerWorkType":{"id":2,"text":"Article"},"largerWorkTitle":"North American Birds","largerWorkSubtype":{"id":10,"text":"Journal Article"},"language":"English","collaboration":"6905_Sykes.pdf 6.2 MB","usgsCitation":"Sykes, P., Holzman, S., and Inigo-Elias, E.E., 2007, Current range of the eastern population of Painted Bunting (Passerina ciris). Part II: Winter range: North American Birds, v. 61, no. 3, p. 378-406.","productDescription":"378-406","startPage":"378","endPage":"406","numberOfPages":"29","costCenters":[{"id":531,"text":"Patuxent Wildlife Research Center","active":true,"usgs":true}],"links":[{"id":202169,"rank":0,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"}],"volume":"61","issue":"3","noUsgsAuthors":false,"publicationStatus":"PW","scienceBaseUri":"4f4e4acce4b07f02db67ec3a","contributors":{"authors":[{"text":"Sykes, P.W. Jr.","contributorId":107385,"corporation":false,"usgs":true,"family":"Sykes","given":"P.W.","suffix":"Jr.","email":"","affiliations":[],"preferred":false,"id":342907,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"Holzman, S.","contributorId":86453,"corporation":false,"usgs":true,"family":"Holzman","given":"S.","email":"","affiliations":[],"preferred":false,"id":342906,"contributorType":{"id":1,"text":"Authors"},"rank":2},{"text":"Inigo-Elias, Eduardo E.","contributorId":78438,"corporation":false,"usgs":true,"family":"Inigo-Elias","given":"Eduardo","email":"","middleInitial":"E.","affiliations":[],"preferred":false,"id":342905,"contributorType":{"id":1,"text":"Authors"},"rank":3}]}} ,{"id":5224854,"text":"5224854 - 2007 - Morphological diversity and evolution of egg and clutch structure in amphibians","interactions":[],"lastModifiedDate":"2016-08-24T15:28:57","indexId":"5224854","displayToPublicDate":"2010-06-16T12:18:33","publicationYear":"2007","noYear":false,"publicationType":{"id":2,"text":"Article"},"publicationSubtype":{"id":10,"text":"Journal Article"},"seriesTitle":{"id":1896,"text":"Herpetological Monographs","active":true,"publicationSubtype":{"id":10}},"title":"Morphological diversity and evolution of egg and clutch structure in amphibians","docAbstract":"The first part of this synthesis summarizes the morphology of the jelly layers surrounding an amphibian ovum. We propose a standard terminology and discuss the evolution of jelly layers. The second part reviews the morphological diversity and arrangement of deposited eggs?the ovipositional mode; we recognize 5 morphological classes including 14 modes. We discuss some of the oviductal, ovipositional, and postovipositional events that contribute to these morphologies. We have incorporated data from taxa from throughout the world but recognize that other types will be discovered that may modify understanding of these modes. Finally, we discuss the evolutionary context of the diversity of clutch structure and present a first estimate of its evolution.","language":"English","doi":"10.1655/06-005.1","usgsCitation":"Altig, R., and McDiarmid, R.W., 2007, Morphological diversity and evolution of egg and clutch structure in amphibians: Herpetological Monographs, v. 21, no. 1, p. 1-32, https://doi.org/10.1655/06-005.1.","productDescription":"32 p.","startPage":"1","endPage":"32","costCenters":[{"id":531,"text":"Patuxent Wildlife Research Center","active":true,"usgs":true}],"links":[{"id":202170,"rank":0,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"}],"volume":"21","issue":"1","noUsgsAuthors":false,"publicationStatus":"PW","scienceBaseUri":"4f4e4b03e4b07f02db698f67","contributors":{"authors":[{"text":"Altig, Ronald","contributorId":114098,"corporation":false,"usgs":true,"family":"Altig","given":"Ronald","email":"","affiliations":[],"preferred":false,"id":342912,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"McDiarmid, Roy W. 0000-0002-7649-1796 rmcdiarmid@usgs.gov","orcid":"https://orcid.org/0000-0002-7649-1796","contributorId":3603,"corporation":false,"usgs":true,"family":"McDiarmid","given":"Roy","email":"rmcdiarmid@usgs.gov","middleInitial":"W.","affiliations":[{"id":531,"text":"Patuxent Wildlife Research Center","active":true,"usgs":true}],"preferred":true,"id":342911,"contributorType":{"id":1,"text":"Authors"},"rank":2}]}} ,{"id":5224815,"text":"5224815 - 2007 - Caribbean mangroves adjust to rising sea level through biotic controls on change in soil elevation","interactions":[],"lastModifiedDate":"2019-06-17T14:17:13","indexId":"5224815","displayToPublicDate":"2010-06-16T12:18:33","publicationYear":"2007","noYear":false,"publicationType":{"id":2,"text":"Article"},"publicationSubtype":{"id":10,"text":"Journal Article"},"seriesTitle":{"id":1839,"text":"Global Ecology and Biogeography","active":true,"publicationSubtype":{"id":10}},"title":"Caribbean mangroves adjust to rising sea level through biotic controls on change in soil elevation","docAbstract":"

Aim The long-term stability of coastal ecosystems such as mangroves and salt marshes depends upon the maintenance of soil elevations within the intertidal habitat as sea level changes. We examined the rates and processes of peat formation by mangroves of the Caribbean Region to better understand biological controls on habitat stability. Location Mangrove-dominated islands on the Caribbean coasts of Belize, Honduras and Panama were selected as study sites. Methods Biological processes controlling mangrove peat formation were manipulated (in Belize) by the addition of nutrients (nitrogen or phosphorus) to Rhizophora mangle (red mangrove), and the effects on the dynamics of soil elevation were determined over a 3-year period using rod surface elevation tables (RSET) and marker horizons. Peat composition and geological accretion rates were determined at all sites using radiocarbon-dated cores. Results The addition of nutrients to mangroves caused significant changes in rates of mangrove root accumulation, which influenced both the rate and direction of change in elevation. Areas with low root input lost elevation and those with high rates gained elevation. These findings were consistent with peat analyses at multiple Caribbean sites showing that deposits (up to 10 m in depth) were composed primarily of mangrove root matter. Comparison of radiocarbon-dated cores at the study sites with a sea-level curve for the western Atlantic indicated a tight coupling between peat building in Caribbean mangroves and sea-level rise over the Holocene. Main conclusions Mangroves common to the Caribbean region have adjusted to changing sea level mainly through subsurface accumulation of refractory mangrove roots. Without root and other organic inputs, submergence of these tidal forests is inevitable due to peat decomposition, physical compaction and eustatic sea-level rise. These findings have relevance for predicting the effects of sea-level rise and biophysical processes on tropical mangrove ecosystems.

","largerWorkType":{"id":2,"text":"Article"},"largerWorkSubtype":{"id":10,"text":"Journal Article"},"language":"English","publisher":"Blackwell","doi":"10.1111/j.1466-8238.2007.00317.x","usgsCitation":"McKee, K., Cahoon, D.R., and Feller, I., 2007, Caribbean mangroves adjust to rising sea level through biotic controls on change in soil elevation: Global Ecology and Biogeography, v. 16, no. 5, p. 545-556, https://doi.org/10.1111/j.1466-8238.2007.00317.x.","productDescription":"12 p.","startPage":"545","endPage":"556","costCenters":[{"id":455,"text":"National Wetlands Research Center","active":true,"usgs":true},{"id":531,"text":"Patuxent Wildlife Research Center","active":true,"usgs":true},{"id":17705,"text":"Wetland and Aquatic Research Center","active":true,"usgs":true}],"links":[{"id":201482,"rank":0,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"}],"country":"Belize, Honduras, Panama","otherGeospatial":"Caribbean Sea","geographicExtents":"{\n \"type\": \"FeatureCollection\",\n \"features\": [\n {\n \"type\": \"Feature\",\n \"properties\": {},\n \"geometry\": {\n \"type\": \"Polygon\",\n \"coordinates\": [\n [\n [\n -88.165283203125,\n 17.24574420800713\n ],\n [\n -88.165283203125,\n 17.24574420800713\n ],\n [\n -88.1597900390625,\n 17.24574420800713\n ],\n [\n -88.1597900390625,\n 17.24574420800713\n ],\n [\n -88.165283203125,\n 17.24574420800713\n ]\n ]\n ]\n }\n },\n {\n \"type\": \"Feature\",\n \"properties\": {},\n \"geometry\": {\n \"type\": \"Polygon\",\n \"coordinates\": [\n [\n [\n -88.10691833496094,\n 16.82064481599531\n ],\n [\n -88.09593200683594,\n 16.82064481599531\n ],\n [\n -88.09593200683594,\n 16.837075792983114\n ],\n [\n -88.10691833496094,\n 16.837075792983114\n ],\n [\n -88.10691833496094,\n 16.82064481599531\n ]\n ]\n ]\n }\n },\n {\n \"type\": \"Feature\",\n \"properties\": {},\n \"geometry\": {\n \"type\": \"Polygon\",\n \"coordinates\": [\n [\n [\n -86.60522460937499,\n 16.241046112641847\n ],\n [\n -86.10328674316406,\n 16.241046112641847\n ],\n [\n -86.10328674316406,\n 16.499299167397574\n ],\n [\n -86.60522460937499,\n 16.499299167397574\n ],\n [\n -86.60522460937499,\n 16.241046112641847\n ]\n ]\n ]\n }\n },\n {\n \"type\": \"Feature\",\n \"properties\": {},\n \"geometry\": {\n \"type\": \"Polygon\",\n \"coordinates\": [\n [\n [\n -82.27609634399414,\n 9.268167758464482\n ],\n [\n -82.2433090209961,\n 9.268167758464482\n ],\n [\n -82.2433090209961,\n 9.299170320830216\n ],\n [\n -82.27609634399414,\n 9.299170320830216\n ],\n [\n -82.27609634399414,\n 9.268167758464482\n ]\n ]\n ]\n }\n }\n ]\n}","volume":"16","issue":"5","noUsgsAuthors":false,"publicationDate":"2007-08-14","publicationStatus":"PW","scienceBaseUri":"4f4e49f4e4b07f02db5efe8b","contributors":{"authors":[{"text":"McKee, K.L. 0000-0001-7042-670X","orcid":"https://orcid.org/0000-0001-7042-670X","contributorId":77113,"corporation":false,"usgs":true,"family":"McKee","given":"K.L.","affiliations":[],"preferred":false,"id":342761,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"Cahoon, Donald R. 0000-0002-2591-5667","orcid":"https://orcid.org/0000-0002-2591-5667","contributorId":65424,"corporation":false,"usgs":true,"family":"Cahoon","given":"Donald","email":"","middleInitial":"R.","affiliations":[{"id":455,"text":"National Wetlands Research Center","active":true,"usgs":true},{"id":531,"text":"Patuxent Wildlife Research Center","active":true,"usgs":true}],"preferred":false,"id":342760,"contributorType":{"id":1,"text":"Authors"},"rank":2},{"text":"Feller, Ilka C.","contributorId":79990,"corporation":false,"usgs":true,"family":"Feller","given":"Ilka C.","affiliations":[],"preferred":false,"id":342762,"contributorType":{"id":1,"text":"Authors"},"rank":3}]}} ,{"id":5224816,"text":"5224816 - 2007 - Fourfold polyphyly of the genus formerly known as Upucerthia, with notes on the systematics and evolution of the avian subfamily Furnariinae","interactions":[],"lastModifiedDate":"2021-06-08T12:01:09.348733","indexId":"5224816","displayToPublicDate":"2010-06-16T12:18:33","publicationYear":"2007","noYear":false,"publicationType":{"id":2,"text":"Article"},"publicationSubtype":{"id":10,"text":"Journal Article"},"seriesTitle":{"id":2779,"text":"Molecular Phylogenetics and Evolution","active":true,"publicationSubtype":{"id":10}},"displayTitle":"Fourfold polyphyly of the genus formerly known as Upucerthia, with notes on the systematics and evolution of the avian subfamily Furnariinae","title":"Fourfold polyphyly of the genus formerly known as Upucerthia, with notes on the systematics and evolution of the avian subfamily Furnariinae","docAbstract":"

The traditional avian subfamily Furnariinae, a group of terrestrial ovenbirds typical of the Andean and Patagonian arid zones, consists of the genera Furnarius, Cinclodes, Geositta, Upucerthia, Chilia, and Eremobius. We investigated phylogenetic relationships within the Furnariinae, with particular attention to the nine species of the genus Upucerthia, using nuclear and mitochondrial DNA sequences from all genera in the subfamily. Upucerthia was found to be highly polyphyletic, its constituent species forming four non-sister clades: (1) a basal lineage consisting of two Upucerthia species, U. ruficaudus and U. andaecola, as well as the monotypic genera Eremobius and Chilia; (2) a lineage consisting of U. harterti and U. certhioides, two species behaviorally divergent from other Upucerthia species; (3) a lineage consisting of U. serrana, which is not closely related to any other Upucerthia species; and (4) a lineage, sister to Cinclodes, consisting of the four Upucerthia species U. dumetaria, U. albigula, U. validirostris, and U. jelskii. The larger Furnariinae was also found to be highly polyphyletic; the terrestrial open country ecotype characteristic of this subfamily occurs in four unrelated clades in the family Furnariidae, including a basal lineage as well as derived lineages. Although the large degree of divergence among Upucerthia clades was not previously recognized, owing to ecological, behavioral, and morphological similarities, the groupings correspond closely to relationships suggested by plumage. This is in contrast to studies of other avian genera in which plumage patterns have been shown to be extensively convergent. The generic names Upucerthia and Ochetorhynchus are available for two of the former Upucerthia clades; new generic names may be warranted for the other two.

","language":"English","publisher":"Elsevier","doi":"10.1016/j.ympev.2007.04.014","usgsCitation":"Chesser, R., Barker, F., and Brumfield, R., 2007, Fourfold polyphyly of the genus formerly known as Upucerthia, with notes on the systematics and evolution of the avian subfamily Furnariinae: Molecular Phylogenetics and Evolution, v. 44, no. 3, p. 1320-1332, https://doi.org/10.1016/j.ympev.2007.04.014.","productDescription":"13 p.","startPage":"1320","endPage":"1332","costCenters":[{"id":531,"text":"Patuxent Wildlife Research Center","active":true,"usgs":true}],"links":[{"id":196133,"rank":0,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"}],"volume":"44","issue":"3","noUsgsAuthors":false,"publicationStatus":"PW","scienceBaseUri":"4f4e4b1be4b07f02db6a915d","contributors":{"authors":[{"text":"Chesser, R.T. 0000-0003-4389-7092","orcid":"https://orcid.org/0000-0003-4389-7092","contributorId":34616,"corporation":false,"usgs":true,"family":"Chesser","given":"R.T.","email":"","affiliations":[],"preferred":false,"id":342764,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"Barker, F.K.","contributorId":68423,"corporation":false,"usgs":true,"family":"Barker","given":"F.K.","email":"","affiliations":[],"preferred":false,"id":342765,"contributorType":{"id":1,"text":"Authors"},"rank":2},{"text":"Brumfield, R.T.","contributorId":24882,"corporation":false,"usgs":true,"family":"Brumfield","given":"R.T.","email":"","affiliations":[],"preferred":false,"id":342763,"contributorType":{"id":1,"text":"Authors"},"rank":3}]}} ,{"id":5224876,"text":"5224876 - 2007 - The 1999-2003 Summary of the North American Breeding Bird Survey","interactions":[],"lastModifiedDate":"2012-02-02T00:15:30","indexId":"5224876","displayToPublicDate":"2010-06-16T12:18:33","publicationYear":"2007","noYear":false,"publicationType":{"id":2,"text":"Article"},"publicationSubtype":{"id":10,"text":"Journal Article"},"seriesTitle":{"id":1051,"text":"Bird Populations","active":true,"publicationSubtype":{"id":10}},"title":"The 1999-2003 Summary of the North American Breeding Bird Survey","docAbstract":"Data from the North American Breeding Bird Survey were used to estimate continental and regional changes in bird populations for the 5-yr period 1999-2003 and the 2-yr period 2002-2003. These short-term changes were placed in the context of population trends estimated over the 1966-2003 interval. During 1999-2003, 41% of all species exhibited positive trends over the entire survey area, while 64% of all species exhibited positive change between 2002-2003. The continental and regional percentages of species with positive trends were also analyzed for 12 species groups having shared life-history traits. Survey-wide for the entire survey period, grassland birds exhibited the lowest percentage of increasing species (14%), with their sharpest declines occurring in the West during 1999-2003 (10% increasing). During 1999-2003, short-distance migrants experienced significant declines in all regions, where numbers of species with increasing trends ranged from 22% - 34%. Most species fared well during the 2002-2003 period, with 64% (P < 0.05) increasing survey-wide. This was primarily a result of increases in the Central and Western BBS regions where 21 of 24 species groups exhibited significant increases in the number of species with positive trends.","largerWorkType":{"id":2,"text":"Article"},"largerWorkTitle":"Bird Populations","largerWorkSubtype":{"id":10,"text":"Journal Article"},"language":"English","collaboration":"6937_Pardieck.pdf","usgsCitation":"Pardieck, K., and Sauer, J., 2007, The 1999-2003 Summary of the North American Breeding Bird Survey: Bird Populations, v. 8, p. 28-45.","productDescription":"28-45","startPage":"28","endPage":"45","numberOfPages":"18","costCenters":[{"id":531,"text":"Patuxent Wildlife Research Center","active":true,"usgs":true}],"links":[{"id":16889,"rank":300,"type":{"id":11,"text":"Document"},"url":"https://birdpop.net/pubs/files/pardieck/2007/112_Pardieck2007.pdf","linkFileType":{"id":1,"text":"pdf"}},{"id":202246,"rank":0,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"}],"volume":"8","noUsgsAuthors":false,"publicationStatus":"PW","scienceBaseUri":"4f4e4ad5e4b07f02db683594","contributors":{"authors":[{"text":"Pardieck, K.L.","contributorId":41929,"corporation":false,"usgs":true,"family":"Pardieck","given":"K.L.","affiliations":[],"preferred":false,"id":342982,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"Sauer, J.R. 0000-0002-4557-3019","orcid":"https://orcid.org/0000-0002-4557-3019","contributorId":66197,"corporation":false,"usgs":true,"family":"Sauer","given":"J.R.","affiliations":[],"preferred":false,"id":342983,"contributorType":{"id":1,"text":"Authors"},"rank":2}]}} ,{"id":5224861,"text":"5224861 - 2007 - A sampling device for the fauna of storm water catch basins","interactions":[],"lastModifiedDate":"2012-02-02T00:15:12","indexId":"5224861","displayToPublicDate":"2010-06-16T12:18:33","publicationYear":"2007","noYear":false,"publicationType":{"id":2,"text":"Article"},"publicationSubtype":{"id":10,"text":"Journal Article"},"seriesTitle":{"id":3144,"text":"Proceedings of the Annual Meeting of the New Jersey Mosquito Control Association","active":true,"publicationSubtype":{"id":10}},"title":"A sampling device for the fauna of storm water catch basins","docAbstract":"Storm water drainage catch basins provide habitat to a variety of different aquatic organisms including arthropods, molluscs and annelid worms. Arthropods such as mosquitoes are known to use these environments as larval habitat. Because of health concerns, catch basins are often targeted for mosquito control exposing all inhabitants to pesticides such as methoprene or BTI. In this paper we describe a sampler that we used to evaluate catch basin communities in southern Rhode Island over a six month period. We also examine its efficacy and consistency. We found that the sampler effectively estimated organism abundances.","largerWorkType":{"id":2,"text":"Article"},"largerWorkTitle":"Proceedings of the Annual Meeting of the New Jersey Mosquito Control Association","largerWorkSubtype":{"id":10,"text":"Journal Article"},"language":"English","collaboration":"6917_Butler.pdf","usgsCitation":"Butler, M., Casagrande, R., LeBrun, R., Ginsberg, H., and Gettman, A., 2007, A sampling device for the fauna of storm water catch basins: Proceedings of the Annual Meeting of the New Jersey Mosquito Control Association, v. 94, p. 70-74.","productDescription":"70-74","startPage":"70","endPage":"74","numberOfPages":"5","costCenters":[{"id":531,"text":"Patuxent Wildlife Research Center","active":true,"usgs":true}],"links":[{"id":196176,"rank":0,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"}],"volume":"94","noUsgsAuthors":false,"publicationStatus":"PW","scienceBaseUri":"4f4e4b18e4b07f02db6a7119","contributors":{"authors":[{"text":"Butler, M.","contributorId":30313,"corporation":false,"usgs":true,"family":"Butler","given":"M.","email":"","affiliations":[],"preferred":false,"id":342935,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"Casagrande, R.","contributorId":94404,"corporation":false,"usgs":true,"family":"Casagrande","given":"R.","email":"","affiliations":[],"preferred":false,"id":342938,"contributorType":{"id":1,"text":"Authors"},"rank":2},{"text":"LeBrun, R.","contributorId":98409,"corporation":false,"usgs":true,"family":"LeBrun","given":"R.","email":"","affiliations":[],"preferred":false,"id":342939,"contributorType":{"id":1,"text":"Authors"},"rank":3},{"text":"Ginsberg, H.","contributorId":36248,"corporation":false,"usgs":true,"family":"Ginsberg","given":"H.","email":"","affiliations":[],"preferred":false,"id":342936,"contributorType":{"id":1,"text":"Authors"},"rank":4},{"text":"Gettman, A.","contributorId":81592,"corporation":false,"usgs":true,"family":"Gettman","given":"A.","email":"","affiliations":[],"preferred":false,"id":342937,"contributorType":{"id":1,"text":"Authors"},"rank":5}]}} ,{"id":5221151,"text":"5221151 - 2007 - Hierarchical spatial models of abundance and occurrence from imperfect survey data","interactions":[],"lastModifiedDate":"2021-05-25T11:55:12.355905","indexId":"5221151","displayToPublicDate":"2010-06-16T12:18:33","publicationYear":"2007","noYear":false,"publicationType":{"id":2,"text":"Article"},"publicationSubtype":{"id":10,"text":"Journal Article"},"seriesTitle":{"id":1459,"text":"Ecological Monographs","active":true,"publicationSubtype":{"id":10}},"title":"Hierarchical spatial models of abundance and occurrence from imperfect survey data","docAbstract":"Many estimation and inference problems arising from large-scale animal surveys are focused on developing an understanding of patterns in abundance or occurrence of a species based on spatially referenced count data. One fundamental challenge, then, is that it is generally not feasible to completely enumerate ('census') all individuals present in each sample unit. This observation bias may consist of several components, including spatial coverage bias (not all individuals in the Population are exposed to sampling) and detection bias (exposed individuals may go undetected). Thus, observations are biased for the state variable (abundance, occupancy) that is the object of inference. Moreover, data are often sparse for most observation locations, requiring consideration of methods for spatially aggregating or otherwise combining sparse data among sample units. The development of methods that unify spatial statistical models with models accommodating non-detection is necessary to resolve important spatial inference problems based on animal survey data. In this paper, we develop a novel hierarchical spatial model for estimation of abundance and occurrence from survey data wherein detection is imperfect. Our application is focused on spatial inference problems in the Swiss Survey of Common Breeding Birds. The observation model for the survey data is specified conditional on the unknown quadrat population size, N(s). We augment the observation model with a spatial process model for N(s), describing the spatial variation in abundance of the species. The model includes explicit sources of variation in habitat structure (forest, elevation) and latent variation in the form of a correlated spatial process. This provides a model-based framework for combining the spatially referenced samples while at the same time yielding a unified treatment of estimation problems involving both abundance and occurrence. We provide a Bayesian framework for analysis and prediction based on the integrated likelihood, and we use the model to obtain estimates of abundance and occurrence maps for the European Jay (Garrulus glandarius), a widespread, elusive, forest bird. The naive national abundance estimate ignoring imperfect detection and incomplete quadrat coverage was 77 766 territories. Accounting for imperfect detection added approximately 18 000 territories, and adjusting for coverage bias added another 131 000 territories to yield a fully corrected estimate of the national total of about 227 000 territories. This is approximately three times as high as previous estimates that assume every territory is detected in each quadrat.","language":"English","publisher":"Wiley","doi":"10.1890/06-0912.1","usgsCitation":"Royle, J., Kery, M., Gautier, R., and Schmid, H., 2007, Hierarchical spatial models of abundance and occurrence from imperfect survey data: Ecological Monographs, v. 77, no. 3, p. 465-481, https://doi.org/10.1890/06-0912.1.","productDescription":"17 p.","startPage":"465","endPage":"481","costCenters":[{"id":531,"text":"Patuxent Wildlife Research Center","active":true,"usgs":true}],"links":[{"id":193371,"rank":0,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"}],"volume":"77","issue":"3","noUsgsAuthors":false,"publicationStatus":"PW","scienceBaseUri":"4f4e4b1ae4b07f02db6a8794","contributors":{"authors":[{"text":"Royle, J. Andrew 0000-0003-3135-2167","orcid":"https://orcid.org/0000-0003-3135-2167","contributorId":96221,"corporation":false,"usgs":true,"family":"Royle","given":"J. Andrew","affiliations":[],"preferred":false,"id":333144,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"Kery, M.","contributorId":46637,"corporation":false,"usgs":true,"family":"Kery","given":"M.","affiliations":[],"preferred":false,"id":333142,"contributorType":{"id":1,"text":"Authors"},"rank":2},{"text":"Gautier, R.","contributorId":91950,"corporation":false,"usgs":true,"family":"Gautier","given":"R.","email":"","affiliations":[],"preferred":false,"id":333143,"contributorType":{"id":1,"text":"Authors"},"rank":3},{"text":"Schmid, Hans","contributorId":19648,"corporation":false,"usgs":true,"family":"Schmid","given":"Hans","affiliations":[],"preferred":false,"id":333141,"contributorType":{"id":1,"text":"Authors"},"rank":4}]}} ,{"id":5221636,"text":"5221636 - 2007 - A Bayesian state-space formulation of dynamic occupancy models","interactions":[],"lastModifiedDate":"2021-05-25T11:54:44.678155","indexId":"5221636","displayToPublicDate":"2010-06-16T12:18:33","publicationYear":"2007","noYear":false,"publicationType":{"id":2,"text":"Article"},"publicationSubtype":{"id":10,"text":"Journal Article"},"seriesTitle":{"id":1465,"text":"Ecology","active":true,"publicationSubtype":{"id":10}},"title":"A Bayesian state-space formulation of dynamic occupancy models","docAbstract":"Species occurrence and its dynamic components, extinction and colonization probabilities, are focal quantities in biogeography and metapopulation biology, and for species conservation assessments. It has been increasingly appreciated that these parameters must be estimated separately from detection probability to avoid the biases induced by nondetection error. Hence, there is now considerable theoretical and practical interest in dynamic occupancy models that contain explicit representations of metapopulation dynamics such as extinction, colonization, and turnover as well as growth rates. We describe a hierarchical parameterization of these models that is analogous to the state-space formulation of models in time series, where the model is represented by two components, one for the partially observable occupancy process and another for the observations conditional on that process. This parameterization naturally allows estimation of all parameters of the conventional approach to occupancy models, but in addition, yields great flexibility and extensibility, e.g., to modeling heterogeneity or latent structure in model parameters. We also highlight the important distinction between population and finite sample inference; the latter yields much more precise estimates for the particular sample at hand. Finite sample estimates can easily be obtained using the state-space representation of the model but are difficult to obtain under the conventional approach of likelihood-based estimation. We use R and Win BUGS to apply the model to two examples. In a standard analysis for the European Crossbill in a large Swiss monitoring program, we fit a model with year-specific parameters. Estimates of the dynamic parameters varied greatly among years, highlighting the irruptive population dynamics of that species. In the second example, we analyze route occupancy of Cerulean Warblers in the North American Breeding Bird Survey (BBS) using a model allowing for site-specific heterogeneity in model parameters. The results indicate relatively low turnover and a stable distribution of Cerulean Warblers which is in contrast to analyses of counts of individuals from the same survey that indicate important declines. This discrepancy illustrates the inertia in occupancy relative to actual abundance. Furthermore, the model reveals a declining patch survival probability, and increasing turnover, toward the edge of the range of the species, which is consistent with metapopulation perspectives on the genesis of range edges. Given detection/non-detection data, dynamic occupancy models as described here have considerable potential for the study of distributions and range dynamics.","language":"English","publisher":"Wiley","doi":"10.1890/06-0669.1","usgsCitation":"Royle, J., and Kery, M., 2007, A Bayesian state-space formulation of dynamic occupancy models: Ecology, v. 88, no. 7, p. 1813-1823, https://doi.org/10.1890/06-0669.1.","productDescription":"11 p.","startPage":"1813","endPage":"1823","costCenters":[{"id":531,"text":"Patuxent Wildlife Research Center","active":true,"usgs":true}],"links":[{"id":193508,"rank":0,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"}],"volume":"88","issue":"7","noUsgsAuthors":false,"publicationStatus":"PW","scienceBaseUri":"4f4e4b32e4b07f02db6b426f","contributors":{"authors":[{"text":"Royle, J. Andrew 0000-0003-3135-2167","orcid":"https://orcid.org/0000-0003-3135-2167","contributorId":96221,"corporation":false,"usgs":true,"family":"Royle","given":"J. Andrew","affiliations":[],"preferred":false,"id":334328,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"Kery, M.","contributorId":46637,"corporation":false,"usgs":true,"family":"Kery","given":"M.","affiliations":[],"preferred":false,"id":334327,"contributorType":{"id":1,"text":"Authors"},"rank":2}]}} ,{"id":5224829,"text":"5224829 - 2007 - [Obituary] Our respects: Lucille F. Stickel, 1915-2007","interactions":[],"lastModifiedDate":"2016-10-27T10:50:01","indexId":"5224829","displayToPublicDate":"2010-06-16T12:18:33","publicationYear":"2007","noYear":false,"publicationType":{"id":2,"text":"Article"},"publicationSubtype":{"id":10,"text":"Journal Article"},"seriesTitle":{"id":2508,"text":"Journal of Wildlife Management","active":true,"publicationSubtype":{"id":10}},"title":"[Obituary] Our respects: Lucille F. Stickel, 1915-2007","docAbstract":"

No abstract available.

","language":"English","publisher":"The Wildlife Society","doi":"10.2193/2007-333","usgsCitation":"Coon, N.C., and Perry, M., 2007, [Obituary] Our respects: Lucille F. Stickel, 1915-2007: Journal of Wildlife Management, v. 71, no. 8, p. 2827-2828, https://doi.org/10.2193/2007-333.","productDescription":"2 p.","startPage":"2827","endPage":"2828","numberOfPages":"2","costCenters":[{"id":531,"text":"Patuxent Wildlife Research Center","active":true,"usgs":true}],"links":[{"id":198238,"rank":0,"type":{"id":24,"text":"Thumbnail"},"url":"https://pubs.usgs.gov/thumbnails/outside_thumb.jpg"}],"volume":"71","issue":"8","noUsgsAuthors":false,"publicationDate":"2010-12-13","publicationStatus":"PW","scienceBaseUri":"4f4e478fe4b07f02db48a036","contributors":{"authors":[{"text":"Coon, Nancy C.","contributorId":176389,"corporation":false,"usgs":false,"family":"Coon","given":"Nancy","email":"","middleInitial":"C.","affiliations":[],"preferred":false,"id":342822,"contributorType":{"id":1,"text":"Authors"},"rank":1},{"text":"Perry, Matthew C. 0000-0001-6452-9534","orcid":"https://orcid.org/0000-0001-6452-9534","contributorId":91601,"corporation":false,"usgs":true,"family":"Perry","given":"Matthew C.","affiliations":[{"id":531,"text":"Patuxent Wildlife Research Center","active":true,"usgs":true}],"preferred":true,"id":342821,"contributorType":{"id":1,"text":"Authors"},"rank":2}]}} ]}