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Thomas Stanley, Ph.D. (Former Employee)

Science and Products

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Wind turbines in a corn field.

Biometrics

Mathematical and statistical methods used to analyze biological data are powerful research tools that play several important roles in conceptualizing and understanding the structure and dynamics of ecological systems. Through the development of specialized and sophisticated quantitative tools and models, the complex nature of data arising from studies of ecological systems can be understood.
By
Fort Collins Science Center
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Biometrics

Mathematical and statistical methods used to analyze biological data are powerful research tools that play several important roles in conceptualizing and understanding the structure and dynamics of ecological systems. Through the development of specialized and sophisticated quantitative tools and models, the complex nature of data arising from studies of ecological systems can be understood.
Learn More
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The sunset on the main city beach in Laguna Beach, CA.

Quantitative and Statistical Research Collaboration

Mathematical and statistical models are powerful research tools that play several important roles in conceptualizing and understanding the structure and dynamics of complicated ecological systems, including developing mechanistic hypotheses pertaining to ecological systems, designing studies that elucidate ecosystem structure and function, and extracting information from data.
By
Ecosystems Mission Area, Species Management Research Program, Fort Collins Science Center
link

Quantitative and Statistical Research Collaboration

Mathematical and statistical models are powerful research tools that play several important roles in conceptualizing and understanding the structure and dynamics of complicated ecological systems, including developing mechanistic hypotheses pertaining to ecological systems, designing studies that elucidate ecosystem structure and function, and extracting information from data.
Learn More
Filter Total Items: 51

Oral sylvatic plague vaccine does not adequately protect prairie dogs (Cynomys spp.) for endangered black-footed ferret (Mustela nigripes) conservation

The plague bacterium Yersinia pestis is lethal to endangered black-footed ferrets (Mustela nigripes, BFF) and the prairie dogs (Cynomys spp., PD) on which they depend for habitat and prey. We assessed the effectiveness of an oral sylvatic plague vaccine delivered in baits to black-tailed PD (Cynomys ludovicianus, BTPD) from 2013 to 2017 on the Charles M. Russell National Wildlife Refuge (CMR) in n
Authors
Marc R. Matchett, Thomas Stanley, Matthew F. McCollister, David A. Eads, Jesse Boulerice, Dean E. Biggins
By
Ecosystems Mission Area, Fort Collins Science Center

Temperature‐associated decreases in demographic rates of Afrotropical bird species over 30 years

Tropical mountains harbor globally significant levels of biodiversity and endemism. Climate change threatens many tropical montane species, yet little research has assessed the effects of climate change on the demographic rates of tropical species, particularly in the Afrotropics. Here, we report on the demographic rates of 21 Afrotropical bird species over 30 years in montane forests in Tanzania.
Authors
Monte Neate-Clegg, Thomas Stanley, Cagen Sekerciouglu, William Newmard
By
Ecosystems Mission Area, Fort Collins Science Center

Quantifying and addressing the prevalence and bias of study designs in the environmental and social sciences

Building trust in science and evidence-based decision-making depends heavily on the credibility of studies and their findings. Researchers employ many different study designs that vary in their risk of bias to evaluate the true effect of interventions or impacts. Here, we empirically quantify, on a large scale, the prevalence of different study designs and the magnitude of bias in their estimates.
Authors
Alec P. Christie, David Abecasis, Mehdi Adjeroud, Juan C. Alonso, Tatsuya Amano, Alvaro Anton, Barry P. Baldigo, Rafael Barrientos, Jake E. Bicknell, Deborah A. Buhl, Just Cebrian, Ricardo S. Ceia, Luciana Cibils-Martina, Sarah Clarke, Joachim Claudet, Michael D. Craig, Dominique Davoult, Annelies De Backer, Mary K. Donovan, Tyler D. Eddy, Filipe M. França, Jonathan P.A. Gardner, Bradley P. Harris, Ari Huusko, Ian L. Jones, Brendan P. Kelaher, Janne S. Kotiaho, Adrià López-Baucells, Heather L. Major, Aki Mäki-Petäys, Beatriz Martínez-López, Carlos A. Martín, Philip A. Martin, Daniel Mateos-Molina, Robert A. McConnaughey, Michele Meroni, Christoph F. J. Meyer, Kade Mills, Monica Montefalcone, Norbertas Noreika, Carlos Palacín, Anjali Pande, C. Roland Pitcher, Carlos Ponce, Matthew J. Rinella, Ricardo Rocha, María C. Ruiz-Delgado, Juan J. Schmitter-Soto, Jill A. Shaffer, Shailesh Sharma, Anna A. Sher, Doriane Stagnol, Thomas Stanley, Kevin D.E. Stokesbury, Aurora Torres, Oliver Tully, Teppo Vehanen, Corinne Watts, Qingyuan Zhao, William J. Sutherland
By
Ecosystems Mission Area, Northern Prairie Wildlife Research Center

Reproduction and denning by San Clemente Island Foxes: Age, sex, and polygamy

Channel Island foxes (Urocyon littoralis) live on six of the eight California Channel Islands, and each island is inhabited by a distinct subspecies. Until recently, four of these subspecies were listed under the Endangered Species Act as endangered. Although three of the four subspecies have been delisted, and one subspecies was downlisted to threatened, all subspecies are still vulnerable becaus
Authors
Emily E. Hamblen, William F. Andelt, Thomas R. Stanley
By
Ecosystems Mission Area, Fort Collins Science Center

Changes in capture rates and body size among vertebrate species occupying an insular urban habitat reserve

Long‐term ecological monitoring provides valuable and objective scientific information to inform management and decision‐making. In this article, we analyze 22 years of herpetofauna monitoring data from the Point Loma Ecological Conservation Area (PLECA), an insular urban reserve near San Diego, CA. Our analysis showed that counts of individuals for one of the four most common terrestrial vertebra
Authors
Thomas Stanley, Rulon W. Clark, Robert N. Fisher, Carlton J. Rochester, Stephanie A Root, Keith J Lombardo, Stacey D Ostermann-Kelm
By
Ecosystems Mission Area, Fort Collins Science Center, Western Ecological Research Center (WERC)

Brightness of the night sky affects loggerhead (Caretta caretta) sea turtle hatchling misorientation but not nest site selection

Sea turtles in the Gulf of Mexico, which are listed as either threatened or endangered under the US Endangered Species Act, face numerous threats from many sources but are particularly susceptible to the effects of light pollution on nesting beaches. Light pollution affects the distribution, density, and placement of nests on beaches, and disrupts seafinding in hatchlings emerging from nests – oft
Authors
Thomas Stanley, Jeremy White, Susan Teel, Mark Nicholas
By
Ecosystems Mission Area, Fort Collins Science Center

El Niño/Southern Oscillation-driven rainfall pulse amplifies predation by owls on seabirds via apparent competition with mice

Most approaches for assessing species vulnerability to climate change have focused on direct impacts via abiotic changes rather than indirect impacts mediated by changes in species interactions. Changes in rainfall regimes may influence species interactions from the bottom-up by increasing primary productivity in arid environments, but subsequently lead to less predictable top-down effects. Our st
Authors
Sarah K. Thomsen, David M. Mazurkiewicz, Thomas R. Stanley, David J. Green
By
Ecosystems Mission Area, Fort Collins Science Center

Comparison of estimators for monitoring long-term population trends in deer mice, Peromyscus maniculatus, on the California Channel Islands

Capture-recapture methods are commonly used to estimate abundance and density of wild animal populations. Although a variety of sophisticated analytical techniques are available to evaluate capture-recapture data, vertebrate monitoring programs often lack the resources (e.g., time, personnel, and/or analytical expertise) to apply these methods. As an alternative, simple population indices, such as
Authors
Catherin A. Schwemm, Charles A. Drost, John L. Orrock, Timothy J. Coonan, Thomas R. Stanley
By
Ecosystems Mission Area, Southwest Biological Science Center

Sea turtles, light pollution, and citizen science: A preliminary report

Sea turtles are an important ecological resource for Gulf Islands National Seashore’s (Gulf Islands) waters and shorelines. Regionally, sea turtles face anthropogenic threats from situations such as entanglement in fishing gear and ingestion of marine debris, as well as possible changes in sex ratios due to increasing temperatures related to human-induced global warming. Locally, light pollution f
Authors
Heather Afford, Susan Teel, Mark Nicholas, Thomas R. Stanley, Jeremy White
By
Ecosystems Mission Area, Fort Collins Science Center

A plan for the North American Bat Monitoring Program (NABat)

The purpose of the North American Bat Monitoring Program (NABat) is to create a continent-wide program to monitor bats at local to rangewide scales that will provide reliable data to promote effective conservation decisionmaking and the long-term viability of bat populations across the continent. This is an international, multiagency program. Four approaches will be used to gather monitoring data
Authors
Susan C. Loeb, Thomas J. Rodhouse, Laura E. Ellison, Cori L. Lausen, Jonathan D. Reichard, Kathryn M. Irvine, Thomas E. Ingersoll, Jeremy T. H. Coleman, Wayne E. Thogmartin, John R. Sauer, Charles M. Francis, Mylea L. Bayless, Thomas R. Stanley, Douglas H. Johnson
By
Ecosystems Mission Area, Species Management Research Program, Fort Collins Science Center, Northern Prairie Wildlife Research Center

Daily nest survival rates of Gunnison Sage-Grouse (Centrocercus minimus): assessing local- and landscape-scale drivers

The Gunnison Sage-Grouse (Centrocercus minimus) is a species of conservation concern and is a candidate for listing under the U.S. Endangered Species Act because of substantial declines in populations from historic levels. It is thought that loss, fragmentation, and deterioration of sagebrush (Artemisia spp.) habitat have contributed to the decline and isolation of this species into seven geograph
Authors
Thomas R. Stanley, Cameron L. Aldridge, Joanne Saher, Theresa Childers
By
Ecosystems Mission Area, Fort Collins Science Center

The influence of food abundance, food dispersion and habitat structure on territory selection and size of an Afrotropical terrestrial insectivore

Most tropical insectivorous birds, unlike their temperate counterparts, hold and defend a feeding and breeding territory year-around. However, our understanding of ecological factors influencing territory selection and size in tropical insectivores is limited. Here we examine three prominent hypotheses relating food abundance, food dispersion (spatial arrangement of food items), and habitat struct
Authors
Thomas R. Stanley, William D. Newmark
By
Ecosystems Mission Area, Fort Collins Science Center

Non-USGS Publications**

Stanley, T.R., Spann, J.W., Smith, G.J. et al. Arch. Environ. Contam. Toxicol. (1994) 26: 444. doi:10.1007/BF00214145
Stanley, T.R. 1996. European tools to consider. Review of the book: Managing habitats for conservation, by W.J. Sutherland and D.A. Hill (eds.). Conservation Biology. 10(4): 1300-1301.
Stanley, T.R. 1994. A cottontail-habitat model for evaluating the Conservation Reserve Program. Fort Collins, CO46 p.

**Disclaimer: The views expressed in Non-USGS publications are those of the author and do not represent the views of the USGS, Department of the Interior, or the U.S. Government.

CloseTest

CloseTest is a Windows program for testing capture-recapture data

By
Ecosystems Mission Area, Fort Collins Science Center

Science and Products

link
Wind turbines in a corn field.

Biometrics

Mathematical and statistical methods used to analyze biological data are powerful research tools that play several important roles in conceptualizing and understanding the structure and dynamics of ecological systems. Through the development of specialized and sophisticated quantitative tools and models, the complex nature of data arising from studies of ecological systems can be understood.
By
Fort Collins Science Center
link

Biometrics

Mathematical and statistical methods used to analyze biological data are powerful research tools that play several important roles in conceptualizing and understanding the structure and dynamics of ecological systems. Through the development of specialized and sophisticated quantitative tools and models, the complex nature of data arising from studies of ecological systems can be understood.
Learn More
link
The sunset on the main city beach in Laguna Beach, CA.

Quantitative and Statistical Research Collaboration

Mathematical and statistical models are powerful research tools that play several important roles in conceptualizing and understanding the structure and dynamics of complicated ecological systems, including developing mechanistic hypotheses pertaining to ecological systems, designing studies that elucidate ecosystem structure and function, and extracting information from data.
By
Ecosystems Mission Area, Species Management Research Program, Fort Collins Science Center
link

Quantitative and Statistical Research Collaboration

Mathematical and statistical models are powerful research tools that play several important roles in conceptualizing and understanding the structure and dynamics of complicated ecological systems, including developing mechanistic hypotheses pertaining to ecological systems, designing studies that elucidate ecosystem structure and function, and extracting information from data.
Learn More
Filter Total Items: 51

Oral sylvatic plague vaccine does not adequately protect prairie dogs (Cynomys spp.) for endangered black-footed ferret (Mustela nigripes) conservation

The plague bacterium Yersinia pestis is lethal to endangered black-footed ferrets (Mustela nigripes, BFF) and the prairie dogs (Cynomys spp., PD) on which they depend for habitat and prey. We assessed the effectiveness of an oral sylvatic plague vaccine delivered in baits to black-tailed PD (Cynomys ludovicianus, BTPD) from 2013 to 2017 on the Charles M. Russell National Wildlife Refuge (CMR) in n
Authors
Marc R. Matchett, Thomas Stanley, Matthew F. McCollister, David A. Eads, Jesse Boulerice, Dean E. Biggins
By
Ecosystems Mission Area, Fort Collins Science Center

Temperature‐associated decreases in demographic rates of Afrotropical bird species over 30 years

Tropical mountains harbor globally significant levels of biodiversity and endemism. Climate change threatens many tropical montane species, yet little research has assessed the effects of climate change on the demographic rates of tropical species, particularly in the Afrotropics. Here, we report on the demographic rates of 21 Afrotropical bird species over 30 years in montane forests in Tanzania.
Authors
Monte Neate-Clegg, Thomas Stanley, Cagen Sekerciouglu, William Newmard
By
Ecosystems Mission Area, Fort Collins Science Center

Quantifying and addressing the prevalence and bias of study designs in the environmental and social sciences

Building trust in science and evidence-based decision-making depends heavily on the credibility of studies and their findings. Researchers employ many different study designs that vary in their risk of bias to evaluate the true effect of interventions or impacts. Here, we empirically quantify, on a large scale, the prevalence of different study designs and the magnitude of bias in their estimates.
Authors
Alec P. Christie, David Abecasis, Mehdi Adjeroud, Juan C. Alonso, Tatsuya Amano, Alvaro Anton, Barry P. Baldigo, Rafael Barrientos, Jake E. Bicknell, Deborah A. Buhl, Just Cebrian, Ricardo S. Ceia, Luciana Cibils-Martina, Sarah Clarke, Joachim Claudet, Michael D. Craig, Dominique Davoult, Annelies De Backer, Mary K. Donovan, Tyler D. Eddy, Filipe M. França, Jonathan P.A. Gardner, Bradley P. Harris, Ari Huusko, Ian L. Jones, Brendan P. Kelaher, Janne S. Kotiaho, Adrià López-Baucells, Heather L. Major, Aki Mäki-Petäys, Beatriz Martínez-López, Carlos A. Martín, Philip A. Martin, Daniel Mateos-Molina, Robert A. McConnaughey, Michele Meroni, Christoph F. J. Meyer, Kade Mills, Monica Montefalcone, Norbertas Noreika, Carlos Palacín, Anjali Pande, C. Roland Pitcher, Carlos Ponce, Matthew J. Rinella, Ricardo Rocha, María C. Ruiz-Delgado, Juan J. Schmitter-Soto, Jill A. Shaffer, Shailesh Sharma, Anna A. Sher, Doriane Stagnol, Thomas Stanley, Kevin D.E. Stokesbury, Aurora Torres, Oliver Tully, Teppo Vehanen, Corinne Watts, Qingyuan Zhao, William J. Sutherland
By
Ecosystems Mission Area, Northern Prairie Wildlife Research Center

Reproduction and denning by San Clemente Island Foxes: Age, sex, and polygamy

Channel Island foxes (Urocyon littoralis) live on six of the eight California Channel Islands, and each island is inhabited by a distinct subspecies. Until recently, four of these subspecies were listed under the Endangered Species Act as endangered. Although three of the four subspecies have been delisted, and one subspecies was downlisted to threatened, all subspecies are still vulnerable becaus
Authors
Emily E. Hamblen, William F. Andelt, Thomas R. Stanley
By
Ecosystems Mission Area, Fort Collins Science Center

Changes in capture rates and body size among vertebrate species occupying an insular urban habitat reserve

Long‐term ecological monitoring provides valuable and objective scientific information to inform management and decision‐making. In this article, we analyze 22 years of herpetofauna monitoring data from the Point Loma Ecological Conservation Area (PLECA), an insular urban reserve near San Diego, CA. Our analysis showed that counts of individuals for one of the four most common terrestrial vertebra
Authors
Thomas Stanley, Rulon W. Clark, Robert N. Fisher, Carlton J. Rochester, Stephanie A Root, Keith J Lombardo, Stacey D Ostermann-Kelm
By
Ecosystems Mission Area, Fort Collins Science Center, Western Ecological Research Center (WERC)

Brightness of the night sky affects loggerhead (Caretta caretta) sea turtle hatchling misorientation but not nest site selection

Sea turtles in the Gulf of Mexico, which are listed as either threatened or endangered under the US Endangered Species Act, face numerous threats from many sources but are particularly susceptible to the effects of light pollution on nesting beaches. Light pollution affects the distribution, density, and placement of nests on beaches, and disrupts seafinding in hatchlings emerging from nests – oft
Authors
Thomas Stanley, Jeremy White, Susan Teel, Mark Nicholas
By
Ecosystems Mission Area, Fort Collins Science Center

El Niño/Southern Oscillation-driven rainfall pulse amplifies predation by owls on seabirds via apparent competition with mice

Most approaches for assessing species vulnerability to climate change have focused on direct impacts via abiotic changes rather than indirect impacts mediated by changes in species interactions. Changes in rainfall regimes may influence species interactions from the bottom-up by increasing primary productivity in arid environments, but subsequently lead to less predictable top-down effects. Our st
Authors
Sarah K. Thomsen, David M. Mazurkiewicz, Thomas R. Stanley, David J. Green
By
Ecosystems Mission Area, Fort Collins Science Center

Comparison of estimators for monitoring long-term population trends in deer mice, Peromyscus maniculatus, on the California Channel Islands

Capture-recapture methods are commonly used to estimate abundance and density of wild animal populations. Although a variety of sophisticated analytical techniques are available to evaluate capture-recapture data, vertebrate monitoring programs often lack the resources (e.g., time, personnel, and/or analytical expertise) to apply these methods. As an alternative, simple population indices, such as
Authors
Catherin A. Schwemm, Charles A. Drost, John L. Orrock, Timothy J. Coonan, Thomas R. Stanley
By
Ecosystems Mission Area, Southwest Biological Science Center

Sea turtles, light pollution, and citizen science: A preliminary report

Sea turtles are an important ecological resource for Gulf Islands National Seashore’s (Gulf Islands) waters and shorelines. Regionally, sea turtles face anthropogenic threats from situations such as entanglement in fishing gear and ingestion of marine debris, as well as possible changes in sex ratios due to increasing temperatures related to human-induced global warming. Locally, light pollution f
Authors
Heather Afford, Susan Teel, Mark Nicholas, Thomas R. Stanley, Jeremy White
By
Ecosystems Mission Area, Fort Collins Science Center

A plan for the North American Bat Monitoring Program (NABat)

The purpose of the North American Bat Monitoring Program (NABat) is to create a continent-wide program to monitor bats at local to rangewide scales that will provide reliable data to promote effective conservation decisionmaking and the long-term viability of bat populations across the continent. This is an international, multiagency program. Four approaches will be used to gather monitoring data
Authors
Susan C. Loeb, Thomas J. Rodhouse, Laura E. Ellison, Cori L. Lausen, Jonathan D. Reichard, Kathryn M. Irvine, Thomas E. Ingersoll, Jeremy T. H. Coleman, Wayne E. Thogmartin, John R. Sauer, Charles M. Francis, Mylea L. Bayless, Thomas R. Stanley, Douglas H. Johnson
By
Ecosystems Mission Area, Species Management Research Program, Fort Collins Science Center, Northern Prairie Wildlife Research Center

Daily nest survival rates of Gunnison Sage-Grouse (Centrocercus minimus): assessing local- and landscape-scale drivers

The Gunnison Sage-Grouse (Centrocercus minimus) is a species of conservation concern and is a candidate for listing under the U.S. Endangered Species Act because of substantial declines in populations from historic levels. It is thought that loss, fragmentation, and deterioration of sagebrush (Artemisia spp.) habitat have contributed to the decline and isolation of this species into seven geograph
Authors
Thomas R. Stanley, Cameron L. Aldridge, Joanne Saher, Theresa Childers
By
Ecosystems Mission Area, Fort Collins Science Center

The influence of food abundance, food dispersion and habitat structure on territory selection and size of an Afrotropical terrestrial insectivore

Most tropical insectivorous birds, unlike their temperate counterparts, hold and defend a feeding and breeding territory year-around. However, our understanding of ecological factors influencing territory selection and size in tropical insectivores is limited. Here we examine three prominent hypotheses relating food abundance, food dispersion (spatial arrangement of food items), and habitat struct
Authors
Thomas R. Stanley, William D. Newmark
By
Ecosystems Mission Area, Fort Collins Science Center

Non-USGS Publications**

Stanley, T.R., Spann, J.W., Smith, G.J. et al. Arch. Environ. Contam. Toxicol. (1994) 26: 444. doi:10.1007/BF00214145
Stanley, T.R. 1996. European tools to consider. Review of the book: Managing habitats for conservation, by W.J. Sutherland and D.A. Hill (eds.). Conservation Biology. 10(4): 1300-1301.
Stanley, T.R. 1994. A cottontail-habitat model for evaluating the Conservation Reserve Program. Fort Collins, CO46 p.

**Disclaimer: The views expressed in Non-USGS publications are those of the author and do not represent the views of the USGS, Department of the Interior, or the U.S. Government.

CloseTest

CloseTest is a Windows program for testing capture-recapture data

By
Ecosystems Mission Area, Fort Collins Science Center

*Disclaimer: Listing outside positions with professional scientific organizations on this Staff Profile are for informational purposes only and do not constitute an endorsement of those professional scientific organizations or their activities by the USGS, Department of the Interior, or U.S. Government

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