Forest-floor disturbance reduces chipmunk (Tamias spp.) abundance two years after variable-retention harvest of Pacific Northwestern forests

Treesearch

Randall J. Wilk; Timothy B. Harrington; Robert A. Gitzen; Chris C. Maguire

2015-01-01

We evaluated the two-year effects of variable-retention harvest on chipmunk (Tamias spp.) abundance (N^) and habitat in mature coniferous forests in western Oregon and Washington because wildlife responses to density/pattern of retained trees remain largely unknown. In a randomized complete-block design, six...

Natural infection of Cryptosporidium muris (Apicomplexa: Cryptosporiidae) in Siberian chipmunks.

PubMed

Hůrková, Lada; Hajdusek, Ondrej; Modrý, David

2003-04-01

Coprologic examination of nine Siberian chipmunks (Eutamias sibiricus) imported from Southeast Asia revealed infection with Cryptosporidium sp. Experimental inoculation of BALB/c mice proved their susceptibility to the infection. Infected mice shed oocysts 14-35 days postinfection. Oocyst morphology was similar to that reported for C. muris in previous studies, oocysts were 8.1 (7.0-9.0) x 5.9 (5.0-6.5) microns. Clinical signs were absent in naturally infected chipmunks and experimental mice. Histologic examinations of mice revealed numerous developmental stages of C. muris in the glandular stomach. Analysis of partial small subunit rRNA gene sequences confirmed identity of these isolates as C. muris. Our results represent the first report of C. muris in members of the family Sciuridae.

75 FR 34956 - Airworthiness Directives; Robert E. Rust, Jr. Model DeHavilland DH.C1 Chipmunk 21, DH.C1 Chipmunk...

Federal Register 2010, 2011, 2012, 2013, 2014

2010-06-21

... retraction of the flaps. This failure could lead to a stall during a landing approach. DATES: We must receive...-commanded retraction of the flaps. This failure could lead to a stall during a landing approach. Relevant... result in an un-commanded retraction of the flaps. This failure could lead to a stall during a landing...

Archaeological Inventory and Testing of Prehistoric Habitation Sites, Chief Joseph Dam Project, Washington.

DTIC Science & Technology

1985-01-01

Abundance1 Seasonality2 Yellow - bellied marmot Marmota fleviventnis Common Resident Least chipmunk Eutamias minimus Rare Resident Yellow pine chipmunk...sp. Jackcrabbit 6SYMLrlaua null L4 Nuttall cottontal 6 Manmota #a~diwnfri Yellow - bellied marmot 57 Castor canadensis Beaver 6 Oiidai zibeftec Muskrat... marmot , cottontails, ground squirrels, and badgers commonly dwell near the river. The uplands of Zone IV probably always were Because of their abundance

Ecology, distribution, and predictive occurrence modeling of Palmers chipmunk (Tamias palmeri): a high-elevation small mammal endemic to the Spring Mountains in southern Nevada, USA

USGS Publications Warehouse

Lowrey, Chris E.; Longshore, Kathleen M.; Riddle, Brett R.; Mantooth, Stacy

2016-01-01

Although montane sky islands surrounded by desert scrub and shrub steppe comprise a large part of the biological diversity of the Basin and Range Province of southwestern North America, comprehensive ecological and population demographic studies for high-elevation small mammals within these areas are rare. Here, we examine the ecology and population parameters of the Palmer’s chipmunk (Tamias palmeri) in the Spring Mountains of southern Nevada, and present a predictive GIS-based distribution and probability of occurrence model at both home range and geographic spatial scales. Logistic regression analyses and Akaike Information Criterion model selection found variables of forest type, slope, and distance to water sources as predictive of chipmunk occurrence at the geographic scale. At the home range scale, increasing population density, decreasing overstory canopy cover, and decreasing understory canopy cover contributed to increased survival rates.

Nesting songbirds assess spatial heterogeneity of predatory chipmunks by eavesdropping on their vocalizations.

PubMed

Emmering, Quinn C; Schmidt, Kenneth A

2011-11-01

1. Information benefits organisms living in a heterogeneous world by reducing uncertainty associated with decision making. For breeding passerines, information reliably associated with nest failure, such as predator activity, can be used to adjust breeding decisions leading to higher reproductive success. 2. Predator vocalizations may provide a source of current information for songbirds to assess spatial heterogeneity in risk that enables them to make appropriate nest-site and territory placement decisions. 3. To determine whether ground-nesting passerines eavesdrop on a common nest predator, the eastern chipmunk (Tamias striatus), we conducted a playback experiment to create spatial heterogeneity in perceived predation risk. We established three types of playback plots broadcasting: (i) chipmunk vocalizations (increased risk), (ii) frog calls (procedural control) and (iii) no playback (silent control). We conducted point counts from plot centres to compare bird activity among treatments and measured the distance of two ground-nesting species' nests, ovenbird (Seiurus aurocapilla) and veery (Catharus fuscescens), from playback stations. 4. Ground-nesting birds significantly reduced their activities up to 30 m from plot centres in response to playbacks of chipmunk calls suggesting an adjustment of territory placement or a reduction of overt behaviours (e.g. singing frequency). In contrast, less vulnerable canopy-nesting species showed no effect across experimental plots. Correspondingly, veeries and ovenbirds nested significantly further from chipmunk playback stations relative to control stations. Interestingly, the magnitude of this response was more than twice as high in ovenbirds than in veeries. 5. Our findings indicate that some breeding passerines may eavesdrop on predator communication, providing an explanation for how some birds assess spatial heterogeneity in predation risk to make breeding site decisions. Thus, heterospecific eavesdropping may be a common feature of predator-prey interactions that allows birds to avoid nest predators in space and provide greater stability to predator-prey dynamics. © 2011 The Authors. Journal of Animal Ecology © 2011 British Ecological Society.

Aircraft Readiness under Budget Constraint, Its Relationship with Logistics Resources; the Spare Parts Component, a Model for the Portuguese Air Force.

DTIC Science & Technology

1986-12-01

Additional Expenditures for Baseline Scenario .. 75 IV. Total Expenditures for Fiscal Year 1987 for the CHIPMUNK Aircraft Type ... e,........... 76 V. Source...flying hour program for the CHIPMUNK aircraft type. From the relevant information concerned with the fiscal year 1986, the following data elements were...validation goal is to compare model results with the level of budget assigned to this aircraft type. For the fiscal year of 1986 a 20,000,000$00

Mitochondrial cytochrome b sequence variations and population structure of Siberian chipmunk (Tamias sibiricus) in Northeastern Asia and population substructure in South Korea.

PubMed

Lee, Mu-Yeong; Lissovsky, Andrey A; Park, Sun-Kyung; Obolenskaya, Ekaterina V; Dokuchaev, Nikolay E; Zhang, Ya-Ping; Yu, Li; Kim, Young-Jun; Voloshina, Inna; Myslenkov, Alexander; Choi, Tae-Young; Min, Mi-Sook; Lee, Hang

2008-12-31

Twenty-five chipmunk species occur in the world, of which only the Siberian chipmunk, Tamias sibiricus, inhabits Asia. To investigate mitochondrial cytochrome b sequence variations and population structure of the Siberian chipmunk in northeastern Asia, we examined mitochondrial cytochrome b sequences (1140 bp) from 3 countries. Analyses of 41 individuals from South Korea and 33 individuals from Russia and northeast China resulted in 37 haplotypes and 27 haplotypes, respectively. There were no shared haplotypes between South Korea and Russia--northeast China. Phylogenetic trees and network analysis showed 2 major maternal lineages for haplotypes, referred to as the S and R lineages. Haplotype grouping in each cluster was nearly coincident with its geographic affinity. In particular, 3 distinct groups were found that mostly clustered in the northern, central and southern parts of South Korea. Nucleotide diversity of the S lineage was twice that of lineage R. The divergence between S and R lineages was estimated to be 2.98-0.98 Myr. During the ice age, there may have been at least 2 refuges in South Korea and Russia--northeast China. The sequence variation between the S and R lineages was 11.3% (K2P), which is indicative of specific recognition in rodents. These results suggest that T. sibiricus from South Korea could be considered a separate species. However, additional information, such as details of distribution, nuclear genes data or morphology, is required to strengthen this hypothesis.

Divergence with gene flow within the recent chipmunk radiation (Tamias)

PubMed Central

Sullivan, J; Demboski, J R; Bell, K C; Hird, S; Sarver, B; Reid, N; Good, J M

2014-01-01

Increasing data have supported the importance of divergence with gene flow (DGF) in the generation of biological diversity. In such cases, lineage divergence occurs on a shorter timescale than does the completion of reproductive isolation. Although it is critical to explore the mechanisms driving divergence and preventing homogenization by hybridization, it is equally important to document cases of DGF in nature. Here we synthesize data that have accumulated over the last dozen or so years on DGF in the chipmunk (Tamias) radiation with new data that quantify very high rates of mitochondrial DNA (mtDNA) introgression among para- and sympatric species in the T. quadrivittatus group in the central and southern Rocky Mountains. These new data (188 cytochrome b sequences) bring the total number of sequences up to 1871; roughly 16% (298) of the chipmunks we have sequenced exhibit introgressed mtDNA. This includes ongoing introgression between subspecies and between both closely related and distantly related taxa. In addition, we have identified several taxa that are apparently fixed for ancient introgressions and in which there is no evidence of ongoing introgression. A recurrent observation is that these introgressions occur between ecologically and morphologically diverged, sometimes non-sister taxa that engage in well-documented niche partitioning. Thus, the chipmunk radiation in western North America represents an excellent mammalian example of speciation in the face of recurrent gene flow among lineages and where biogeography, habitat differentiation and mating systems suggest important roles for both ecological and sexual selection. PMID:24781803

Contrasting stress responses of two co-occurring chipmunk species (Tamias alpinus and T. speciosus).

PubMed

Hammond, Talisin T; Palme, Rupert; Lacey, Eileen A

2015-01-15

Glucocorticoid (GC) hormones are important mediators of responses to environmental conditions. Accordingly, differences in GC physiology may contribute to interspecific variation in response to anthropogenically-induced patterns of climate change. To begin exploring this possibility, we validated the use of fecal cortisol/corticosterone metabolites (FCM) to measure baseline glucocorticoid levels in two species of co-occurring chipmunks that have exhibited markedly different patterns of response to environmental change. In Yosemite National Park, the alpine chipmunk (Tamias alpinus) has undergone a significant upward contraction of its elevational range over the past century; in contrast, the lodgepole chipmunk (Tamiasspeciosus) has experienced no significant change in elevational distribution over this period. To determine if GC levels in these species vary in response to external stimuli and to assess whether these responses differ between species, we compared FCM levels for the same individuals (1) at the time of capture in the field, (2) after a short period of captivity, and (3) after adrenocorticotropic hormone (ACTH), (4) handling, and (5) trapping challenges conducted while these animals were held in captivity. Our analyses indicate that T. alpinus was more responsive to several of these changes in external conditions. Although both species displayed a significant FCM response to ACTH challenge, only T. alpinus showed a significant response to our handling challenge and to captive housing conditions. These findings underscore the importance of species-specific validation studies and support the potential for studies of GC physiology to generate insights into interspecific differences in response to environmental change. Copyright © 2014 Elsevier Inc. All rights reserved.

Morphological and dietary responses of chipmunks to a century of climate change.

PubMed

Walsh, Rachel E; Aprígio Assis, Ana Paula; Patton, James L; Marroig, Gabriel; Dawson, Todd E; Lacey, Eileen A

2016-09-01

Predicting how individual taxa will respond to climatic change is challenging, in part because the impacts of environmental conditions can vary markedly, even among closely related species. Studies of chipmunks (Tamias spp.) in Yosemite National Park provide an important opportunity to explore the reasons for this variation in response. While the alpine chipmunk (T. alpinus) has undergone a significant elevational range contraction over the past century, the congeneric and partially sympatric lodgepole chipmunk (T. speciosus) has not experienced an elevational range shift during this period. As a first step toward identifying the factors underlying this difference in response, we examined evidence for dietary changes and changes in cranial morphology in these species over the past century. Stable isotope analyses of fur samples from modern and historical museum specimens of these species collected at the same localities indicated that signatures of dietary change were more pronounced in T. alpinus, although diet breadth did not differ consistently between the study species. Morphometric analyses of crania from these specimens revealed significant changes in cranial shape for T. alpinus, with less pronounced changes in shape for T. speciosus; evidence of selection on skull morphology was detected for T. alpinus, but not for T. speciosus. These results are consistent with growing evidence that T. alpinus is generally more responsive to environmental change than T. speciosus, but emphasize the complex and often geographically variable nature of such responses. Accordingly, future studies that make use of the taxonomically and spatially integrative approach employed here may prove particularly informative regarding relationships between environmental conditions, range changes, and patterns of phenotypic variation. © 2016 John Wiley & Sons Ltd.

Infectivity to experimental rodents of Cryptosporidium parvum oocysts from Siberian chipmunks (Tamias sibiricus) originated in the People's Republic of China.

PubMed

Matsui, T; Fujino, T; Kajima, J; Tsuji, M

2000-05-01

We isolated Cryptosporidium parvum-type oocysts from naturally infected siberian chipmunks which originated in the People's Republic of China and examined the infectivity to rodents as experimental animals. The naturally infected chipmunks did not show any clinical symptoms. The oocysts were 4.8 x 4.2 microm on average in size. They were ovoid and morphologically similar to the C. parvum oocysts isolated from human and cattle. Experimental rodents were inoculated with 1.6 x 10(6) original oocysts each. SCID mice began to shed oocysts on day 7 and the OPG value was 10(5) from 50 days. The oocysts were found from ICR mice on days 13 and 16 by only sugar flotation method, however, any oocysts were not detected from the rats, guinea pigs and rabbits until 30 days. Two infected SCID mice were necropsied on days 100 and 102 and examined for coccidian organisms. Merozoites and oocysts were found in the low part of jejunum and ileum, however, no parasites were detected in the stomach. Consequently, it was considered that the present species was C. parvum and was probably genotype 2 from result of infectivity to rodents.

An Experimental Test of Competition among Mice, Chipmunks, and Squirrels in Deciduous Forest Fragments

PubMed Central

Brunner, Jesse L.; Duerr, Shannon; Keesing, Felicia; Killilea, Mary; Vuong, Holly; Ostfeld, Richard S.

2013-01-01

Mixed hardwood forests of the northeast United States support a guild of granivorous/omnivorous rodents including gray squirrels (Sciurus carolinensis), eastern chipmunks (Tamias striatus), and white-footed mice (Peromyscus leucopus). These species coincide geographically, co-occur locally, and consume similar food resources. Despite their idiosyncratic responses to landscape and patch variables, patch occupancy models suggest that competition may influence their respective distributions and abundances, and accordingly their influence on the rest of the forest community. Experimental studies, however, are wanting. We present the result of a large-scale experiment in which we removed white-footed mice or gray squirrels from small, isolated forest fragments in Dutchess County, New York, and added these mammals to other fragments in order to alter the abundance of these two species. We then used mark–recapture analyses to quantify the population-level and individual-level effects on resident mice, squirrels, and chipmunks. Overall, we found little evidence of competition. There were essentially no within-season numerical responses to changes in the abundance of putative competitors. Moreover, while individual-level responses (apparent survival and capture probability) did vary with competitor densities in some models, these effects were often better explained by site-specific parameters and were restricted to few of the 19 sites we studied. With only weak or nonexistent competition among these three common rodent species, we expect their patterns of habitat occupancy and population dynamics to be largely independent of one another. PMID:23824654

Spatial clustering of Borrelia burgdorferi sensu lato within populations of Allen's chipmunks and dusky-footed woodrats in northwestern California

PubMed Central

Brown, Richard N.; Fedorova, Natalia; Girard, Yvette A.; Higley, Mark; Clueit, Bernadette; Lane, Robert S.

2018-01-01

The ecology of Lyme borreliosis is complex in northwestern California, with several potential reservoir hosts, tick vectors, and genospecies of Borrelia burgdorferi sensu lato. The primary objective of this study was to determine the fine-scale spatial distribution of different genospecies in four rodent species, the California ground squirrel (Otospermophilus beecheyi), northern flying squirrel (Glaucomys sabrinus), dusky-footed woodrat (Neotoma fuscipes), and Allen’s chipmunk (Neotamias senex). Rodents were live-trapped between June 2004 and May 2005 at the Hoopa Valley Tribal Reservation (HVTR) in Humboldt County, California. Ear-punch biopsies obtained from each rodent were tested by polymerase chain reaction (PCR) and sequencing analysis. The programs ArcGIS and SaTScan were used to examine the spatial distribution of genospecies. Multinomial log-linear models were used to model habitat and host-specific characteristics and their effect on the presence of each borrelial genospecies. The Akaike information criterion (AICc) was used to compare models and determine model fit. Borrelia burgdorferi sensu stricto was primarily associated with chipmunks and B. bissettiae largely with woodrats. The top model included the variables “host species”, “month”, and “elevation” (weight = 0.84). Spatial clustering of B. bissettiae was detected in the northwestern section of the HVTR, whereas B. burgdorferi sensu stricto was clustered in the southeastern section. We conclude that the spatial distribution of these borreliae are driven at least in part by host species, time-of-year, and elevation. PMID:29634745

Spatial clustering of Borrelia burgdorferi sensu lato within populations of Allen's chipmunks and dusky-footed woodrats in northwestern California.

PubMed

Hacker, Gregory M; Brown, Richard N; Fedorova, Natalia; Girard, Yvette A; Higley, Mark; Clueit, Bernadette; Lane, Robert S

2018-01-01

The ecology of Lyme borreliosis is complex in northwestern California, with several potential reservoir hosts, tick vectors, and genospecies of Borrelia burgdorferi sensu lato. The primary objective of this study was to determine the fine-scale spatial distribution of different genospecies in four rodent species, the California ground squirrel (Otospermophilus beecheyi), northern flying squirrel (Glaucomys sabrinus), dusky-footed woodrat (Neotoma fuscipes), and Allen's chipmunk (Neotamias senex). Rodents were live-trapped between June 2004 and May 2005 at the Hoopa Valley Tribal Reservation (HVTR) in Humboldt County, California. Ear-punch biopsies obtained from each rodent were tested by polymerase chain reaction (PCR) and sequencing analysis. The programs ArcGIS and SaTScan were used to examine the spatial distribution of genospecies. Multinomial log-linear models were used to model habitat and host-specific characteristics and their effect on the presence of each borrelial genospecies. The Akaike information criterion (AICc) was used to compare models and determine model fit. Borrelia burgdorferi sensu stricto was primarily associated with chipmunks and B. bissettiae largely with woodrats. The top model included the variables "host species", "month", and "elevation" (weight = 0.84). Spatial clustering of B. bissettiae was detected in the northwestern section of the HVTR, whereas B. burgdorferi sensu stricto was clustered in the southeastern section. We conclude that the spatial distribution of these borreliae are driven at least in part by host species, time-of-year, and elevation.

Wildlife feeding in parks: methods for monitoring the effectiveness of educational interventions and wildlife food attraction behaviors

USGS Publications Warehouse

Marion, Jeffrey L.; Dvorak, Robert G.; Manning, Robert E.

2008-01-01

Opportunities to view and interact with wildlife are often an important part of high quality recreational experiences. Such interactions frequently include wildlife feeding, resulting in food-conditioned behaviors that may cause harm to both wildlife and visitors. This study developed and applied efficient protocols for simultaneously evaluating wildlife feeding-related behaviors of visitors and related foraging behaviors of chipmunks along a trail in Zion National Park. Unobtrusive observation protocols permitted an evaluation of educational messages delivered, and documentation of wildlife success in obtaining human food and the strength of their food attraction behavior. Significant improvements were documented for some targeted visitor behaviors and human food available to chipmunks, with minor differences between treatments. Replication of these protocols as part of a long-term monitoring program can help protected area managers evaluate and improve the efficacy of their interventions and monitor the strength of food attraction behavior in wildlife.

Habitat use by sympatric species of Eutamias

DOE Office of Scientific and Technical Information (OSTI.GOV)

Sharples, F.E.

1983-11-01

Differences in habitat use were investigated for four species of chipmunk (Eutamias amoenus, E. speciosus, E. senex, and E. quadrimaculatus) that occupy overlapping areas of roughly equal elevation in the northern Sierra Nevada. Livetrapping on six study plots was conducted over a 3-year period. Differences in vegetation structure among plots were quantified, and factors correlated with occurrence of each chipmunk species were identified by discriminant analysis. Three of the congeners appeared to exhibit preferences for different habitats. Only E. senex was found in closed-canopy forest. E. speciosus was associated only with areas of scattered trees. E. amoenus was almost themore » exclusive resident of brush plots and other disturbed areas but overlapped extensively with E. speciosus in open forest. The data suggest that the existence of different vegetational types accommodates overlapping occurrence of these species within a single altitudinal zone.« less

Serologic evidence for Borrelia hermsii infection in rodents on federally owned recreational areas in California.

PubMed

Fritz, Curtis L; Payne, Jessica R; Schwan, Tom G

2013-06-01

Tick-borne relapsing fever (TBRF) is endemic in mountainous regions of the western United States. In California, the principal agent is the spirochete Borrelia hermsii, which is transmitted by the argasid tick Ornithodoros hermsi. Humans are at risk of TBRF when infected ticks leave an abandoned rodent nest in quest of a blood meal. Rodents are the primary vertebrate hosts for B. hermsii. Sciurid rodents were collected from 23 sites in California between August, 2006, and September, 2008, and tested for serum antibodies to B. hermsii by immunoblot using a whole-cell sonicate and a specific antigen, glycerophosphodiester phosphodiesterase (GlpQ). Antibodies were detected in 20% of rodents; seroprevalence was highest (36%) in chipmunks (Tamias spp). Seroprevalence in chipmunks was highest in the Sierra Nevada (41%) and Mono (43%) ecoregions and between 1900 and 2300 meters elevation (43%). The serological studies described here are effective in implicating the primary vertebrate hosts involved in the maintenance of the ticks and spirochetes in regions endemic for TBRF.

Response of small mammals to aerial applications of the nucleopolyhedrosis virus of the gypsy moth, Lymantria dispar

Treesearch

R.A. Lautenschlager; H. Rothenbacher; J.D. Podgwaite

1978-01-01

Resident populations of white-footed mice, Peromyscus leucopus Rafinesque, red-backed voles, Clethrionomys gapperi Vigers, opossums, Didelphis marsupialis L., chipmunks, Tamias striatus L., and raccoons, Procyon lotor L., were evaluated to detect any short term effects from...

Control of Vertebrate Pests of Forest Trees, Ornamentals, and Turf. Revised Copy.

ERIC Educational Resources Information Center

Wingard, Robert G.; Studholme, Clinton R.

This agriculture extension service publication from Pennsylvania State University discusses the control of vertebrate pests of urban and suburban ornamentals and turf. Specific pests described are blackbirds, chipmunks, moles, rabbits, and European starlings. Identification, habits, economic importance, and control methods ranging from poisoning…

Effects of new forest management strategies on squirrel populations.

Treesearch

Andrew B. Carey

2000-01-01

Two strategies for managing forests for multiple values have achieved prominence in debates in the Pacific Northwest: (1) legacy retention with passive management and long rotations, and (2) intensive management for timber with commercial thinnings and long rotations. Northern flying squirrels (Glaucomys sabrinus), Townsend's chipmunks (

PHOTOACTIVATED TOXICITY IN AMPHIPODS COLLECTED FROM POLYCYCLIC AROMATIC HYDROCARBON-CONTAMINATED SITES

EPA Science Inventory

The risk of photo-activated PAH toxicity in contaminated aquatic systems has not been well characterized. To better indicate this potential, amphipods (Gammarus spp.) were collected from two PAH contaminated sites (Hog Island and USX), as well as a reference site (Chipmunk Cove)...

Effects of wildfire severity on small mammals in northern Arizona ponderosa pine forests

Treesearch

Sean C. Kyle; William M. Block

2000-01-01

We examined effects of a varied-severity wildfire on the community structure of small mammals and populations of the 2 most abundant species, the deer mouse (Peromyscus maniculatus) and the gray-collared chipmunk (Tamias cinereicollis), in northern Arizona ponderosa pine (Pinus ponderosa) forests. We examined 2...

Using body size to predict perceptual range

Treesearch

Stephen G. Mech; Patrick A. Zollner

2002-01-01

We examined the relationship between body size and perceptual range (the distance at which an animal can perceive landscape elements) for a group of forest-dwelling rodents. We used previously published data on orientation ability at various distances for three sciurid species (gray squirrel, fox squirrel and chipmunk) and one murid species (white-footed mouse) to...

Ecological scale and forest development: squirrels, dietary fungi, and vascular plants in managed and unmanaged forests.

Treesearch

A.B. Carey; J. Kershner; B. Biswell; L.S. Dominguez de Toledo

1999-01-01

Understanding ecological processes and their spatial scales is key to managing ecosystems for biodiversity, especially for species associated with late-seral forest. We focused on 2 species of squirrel (Sciuridae: northern flying squirrel, Glaucomys sabrinus, and Townsend's chipmunk, Tamias townsendii) in a crosssectional survey of managed and natural stands in...

A reliable method of analyzing dietaries of mycophagous small mammals

Treesearch

W. Colgan; A.B. Carey; James M. Trappe

1997-01-01

Two methods of analyzing the dietaries of mycophagous small mammals were compared. Fecal pellets were collected from 11 northern flying squirrels and 12 Townsend's chipmunks, all caught live. In 1 method, pellets from each individual were examined microscopically; in the other, samples from 3 or 4 individuals from each species were pooled and the number of slides...

Making Connections. A Curriculum and Activity Guide to Mammoth Cave National Park. [Grades] K-3.

ERIC Educational Resources Information Center

National Park Service (Dept. of Interior), Washington, DC.

Kentucky's Mammoth Cave National Park is important because of its diversity of life on the surface and underground. Some of the plants in the park include trees such as oaks, hickories, tulip poplars, sycamores, and many types of bushes. The animal population is also very diverse and includes bats, squirrels, deer, raccoons, opossums, chipmunks,…

First records of two species of mammals in the Huachuca Mountains: results of ecological stewardship at Fort Huachuca

Treesearch

Ronnie Sidner; H. Sheridan Stone

2005-01-01

We report the first voucher of the cliff chipmunk (Neotamias dorsalis) and observations of Brazilian free-tailed bats (Tadarida brasiliensis) from the Huachuca Mountains, Arizona, where these species had not been documented. While presence of T. brasiliensis was expected on Fort Huachuca, N. dorsalis was a surprise after a century...

Spying on small wildlife sounds using affordable collar-mounted miniature microphones: an innovative method to record individual daylong vocalisations in chipmunks.

PubMed

Couchoux, Charline; Aubert, Maxime; Garant, Dany; Réale, Denis

2015-05-06

Technological advances can greatly benefit the scientific community by making new areas of research accessible. The study of animal vocal communication, in particular, can gain new insights and knowledge from technological improvements in recording equipment. Our comprehension of the acoustic signals emitted by animals would be greatly improved if we could continuously track the daily natural emissions of individuals in the wild, especially in the context of integrating individual variation into evolutionary ecology research questions. We show here how this can be accomplished using an operational tiny audio recorder that can easily be fitted as an on-board acoustic data-logger on small free-ranging animals. The high-quality 24 h acoustic recording logged on the spy microphone device allowed us to very efficiently collect daylong chipmunk vocalisations, giving us much more detailed data than the classical use of a directional microphone over an entire field season. The recordings also allowed us to monitor individual activity patterns and record incredibly long resting heart rates, and to identify self-scratching events and even whining from pre-emerging pups in their maternal burrow.

Spying on small wildlife sounds using affordable collar-mounted miniature microphones: an innovative method to record individual daylong vocalisations in chipmunks

PubMed Central

Couchoux, Charline; Aubert, Maxime; Garant, Dany; Réale, Denis

2015-01-01

Technological advances can greatly benefit the scientific community by making new areas of research accessible. The study of animal vocal communication, in particular, can gain new insights and knowledge from technological improvements in recording equipment. Our comprehension of the acoustic signals emitted by animals would be greatly improved if we could continuously track the daily natural emissions of individuals in the wild, especially in the context of integrating individual variation into evolutionary ecology research questions. We show here how this can be accomplished using an operational tiny audio recorder that can easily be fitted as an on-board acoustic data-logger on small free-ranging animals. The high-quality 24 h acoustic recording logged on the spy microphone device allowed us to very efficiently collect daylong chipmunk vocalisations, giving us much more detailed data than the classical use of a directional microphone over an entire field season. The recordings also allowed us to monitor individual activity patterns and record incredibly long resting heart rates, and to identify self-scratching events and even whining from pre-emerging pups in their maternal burrow. PMID:25944509

Field Manual of Wildlife Diseases. General Field Procedures and Diseases of Birds

DTIC Science & Technology

1999-01-01

The internal form of disease is referred to as wet pox and it is primarily a problem of young chickens and turkeys. This diphtheritic form...of Cranes 153 Chapter 18 Miscellaneous Herpesviruses of Birds 157 Chapter 19 Avian Pox 163 Chapter 20 Eastern Equine Encephalomyelitis 171...Raccoon Rats, mice, voles Muskrats, nutria Chipmunks Sea lions, fur seals Cottontail rabbits Chickens , turkeys Ducks, geese Pigeons Figure 7.4

Seasonal oscillation of liver-derived hibernation protein complex in the central nervous system of non-hibernating mammals

PubMed Central

Seldin, Marcus M.; Byerly, Mardi S.; Petersen, Pia S.; Swanson, Roy; Balkema-Buschmann, Anne; Groschup, Martin H.; Wong, G. William

2014-01-01

Mammalian hibernation elicits profound changes in whole-body physiology. The liver-derived hibernation protein (HP) complex, consisting of HP-20, HP-25 and HP-27, was shown to oscillate circannually, and this oscillation in the central nervous system (CNS) was suggested to play a role in hibernation. The HP complex has been found in hibernating chipmunks but not in related non-hibernating tree squirrels, leading to the suggestion that hibernation-specific genes may underlie the origin of hibernation. Here, we show that non-hibernating mammals express and regulate the conserved homologous HP complex in a seasonal manner, independent of hibernation. Comparative analyses of cow and chipmunk HPs revealed extensive biochemical and structural conservations. These include liver-specific expression, assembly of distinct heteromeric complexes that circulate in the blood and cerebrospinal fluid, and the striking seasonal oscillation of the HP levels in the blood and CNS. Central administration of recombinant HPs affected food intake in mice, without altering body temperature, physical activity levels or energy expenditure. Our results demonstrate that HP complex is not unique to the hibernators and suggest that the HP-regulated liver–brain circuit may couple seasonal changes in the environment to alterations in physiology. PMID:25079892

Climate, Deer, Rodents, and Acorns as Determinants of Variation in Lyme-Disease Risk

PubMed Central

Canham, Charles D; Oggenfuss, Kelly; Winchcombe, Raymond J; Keesing, Felicia

2006-01-01

Risk of human exposure to vector-borne zoonotic pathogens is a function of the abundance and infection prevalence of vectors. We assessed the determinants of Lyme-disease risk (density and Borrelia burgdorferi-infection prevalence of nymphal Ixodes scapularis ticks) over 13 y on several field plots within eastern deciduous forests in the epicenter of US Lyme disease (Dutchess County, New York). We used a model comparison approach to simultaneously test the importance of ambient growing-season temperature, precipitation, two indices of deer (Odocoileus virginianus) abundance, and densities of white-footed mice (Peromyscus leucopus), eastern chipmunks (Tamias striatus), and acorns ( Quercus spp.), in both simple and multiple regression models, in predicting entomological risk. Indices of deer abundance had no predictive power, and precipitation in the current year and temperature in the prior year had only weak effects on entomological risk. The strongest predictors of a current year's risk were the prior year's abundance of mice and chipmunks and abundance of acorns 2 y previously. In no case did inclusion of deer or climate variables improve the predictive power of models based on rodents, acorns, or both. We conclude that interannual variation in entomological risk of exposure to Lyme disease is correlated positively with prior abundance of key hosts for the immature stages of the tick vector and with critical food resources for those hosts. PMID:16669698

Outbreak of Campylobacteriosis Associated with Raccoon Contact at a Wildlife Rehabilitation Centre, Minnesota, 2013.

PubMed

Saunders, S; Smith, K; Schott, R; Dobbins, G; Scheftel, J

2017-05-01

Campylobacteriosis is an enteric illness caused by bacteria of the genus Campylobacter. There are approximately 900 culture-confirmed cases of campylobacteriosis reported annually to the Minnesota Department of Health (MDH). Case patients are interviewed about risk factors, including foods eaten, recreational and drinking water exposures and animal contact. In September 2013, MDH identified two Campylobacter jejuni cases who reported working at the same wildlife rehabilitation centre before illness onset. This report describes the investigation, which used a case-control study design, and identified 16 additional ill persons, for a total of 18 ill persons. Both cases and controls reported working with a variety of animals, including squirrels, chipmunks, mice, raccoons, opossums, rabbits, songbirds, waterfowl and reptiles. In univariate analyses, contact with a number of different animal species was significantly associated with illness, including raccoons (odds ratio [OR], 11.1; P < 0.001), chipmunks (OR, 3.65; P = 0.01), opossums (OR, 4.38; P = 0.005), mice (OR, 4.18; P = 0.01) and rabbits (OR, 4.36; P = 0.003). In a multivariate model, contact with raccoons was the only exposure independently associated with illness (adjusted OR, 12.2; P = 0.01). Bacterial culture and subtyping of the outbreak strain of C. jejuni from raccoon faecal samples further implicated raccoons as the source of the outbreak. Not all of the cases reported handling raccoons, suggesting that environmental contamination contributed to transmission. MDH worked with the wildlife rehabilitation centre's management to strengthen biosecurity and infection control protocols. © 2016 Blackwell Verlag GmbH.

Differences in host choice between the sibling species of treehole mosquitoes Aedes triseriatus and Aedes hendersoni.

PubMed

Nasci, R S

1982-03-01

Adult treehole mosquitoes were collected by vacuum-sweeping of vegetation in urban, suburban, and rural woodlots in northern Indiana. The sibling species Aedes triseriatus and Ae. hendersoni were identified by polyacrylamide gel electrophoresis. Blood meals were identified by the modified precipitin method. Ae. triseriatus fed predominantly on chipmunks and deer, and Ae. hendersoni fed mainly on tree squirrels and racoon. The relative rates of feeding on the major hosts were variable depending on the location of collection, and probably reflected differences in host density. No blood-feeding on humans was detected.

Double keystone bird in a keystone species complex.

PubMed

Daily, G C; Ehrlich, P R; Haddad, N M

1993-01-15

Species in a Colorado subalpine ecosystem show subtle interdependences. Red-naped sapsuckers play two distinct keystone roles. They excavate nest cavities in fungus-infected aspens that are required as nest sites by two species of swallows, and they drill sap wells into willows that provide abundant nourishment for themselves, hummingbirds, orange-crowned warblers, chipmunks, and an array of other sap robbers. The swallows thus depend on, and the sap robbers benefit from, a keystone species complex comprised of sapsuckers, willows, aspens, and a heartwood fungus. Disappearance of any element of the complex could cause an unanticipated unraveling of the community.

Cryptosporidium parvum Infection Involving Novel Genotypes in Wildlife from Lower New York State

PubMed Central

Perz, Joseph F.; Le Blancq, Sylvie M.

2001-01-01

Cryptosporidium, an enteric parasite of humans and a wide range of other mammals, presents numerous challenges to the supply of safe drinking water. We performed a wildlife survey, focusing on white-tailed deer and small mammals, to assess whether they may serve as environmental sources of Cryptosporidium. A PCR-based approach that permitted genetic characterization via sequence analysis was applied to wildlife fecal samples (n = 111) collected from September 1996 to July 1998 from three areas in lower New York State. Southern analysis revealed 22 fecal samples containing Cryptosporidium small-subunit (SSU) ribosomal DNA; these included 10 of 91 white-tailed deer (Odocoileus virginianus) samples, 3 of 5 chipmunk (Tamias striatus) samples, 1 of 2 white-footed mouse (Peromyscus leucopus) samples, 1 of 2 striped skunk (Mephitis mephitis) samples, 1 of 5 racoon (Procyon lotor) samples, and 6 of 6 muskrat (Ondatra zibethicus) samples. All of the 15 SSU PCR products sequenced were characterized as Cryptosporidium parvum; two were identical to genotype 2 (bovine), whereas the remainder belonged to two novel SSU sequence groups, designated genotypes 3 and 4. Genotype 3 comprised four deer-derived sequences, whereas genotype 4 included nine sequences from deer, mouse, chipmunk, and muskrat samples. PCR analysis was performed on the SSU-positive fecal samples for three other Cryptosporidium loci (dihydrofolate reductase, polythreonine-rich protein, and beta-tubulin), and 8 of 10 cloned PCR products were consistent with C. parvum genotype 2. These data provide evidence that there is sylvatic transmission of C. parvum involving deer and other small mammals. This study affirmed the importance of wildlife as potential sources of Cryptosporidium in the catchments of public water supplies. PMID:11229905

Cryptosporidium parvum infection involving novel genotypes in wildlife from lower New York State.

PubMed

Perz, J F; Le Blancq, S M

2001-03-01

Cryptosporidium, an enteric parasite of humans and a wide range of other mammals, presents numerous challenges to the supply of safe drinking water. We performed a wildlife survey, focusing on white-tailed deer and small mammals, to assess whether they may serve as environmental sources of Cryptosporidium. A PCR-based approach that permitted genetic characterization via sequence analysis was applied to wildlife fecal samples (n = 111) collected from September 1996 to July 1998 from three areas in lower New York State. Southern analysis revealed 22 fecal samples containing Cryptosporidium small-subunit (SSU) ribosomal DNA; these included 10 of 91 white-tailed deer (Odocoileus virginianus) samples, 3 of 5 chipmunk (Tamias striatus) samples, 1 of 2 white-footed mouse (Peromyscus leucopus) samples, 1 of 2 striped skunk (Mephitis mephitis) samples, 1 of 5 racoon (Procyon lotor) samples, and 6 of 6 muskrat (Ondatra zibethicus) samples. All of the 15 SSU PCR products sequenced were characterized as Cryptosporidium parvum; two were identical to genotype 2 (bovine), whereas the remainder belonged to two novel SSU sequence groups, designated genotypes 3 and 4. Genotype 3 comprised four deer-derived sequences, whereas genotype 4 included nine sequences from deer, mouse, chipmunk, and muskrat samples. PCR analysis was performed on the SSU-positive fecal samples for three other Cryptosporidium loci (dihydrofolate reductase, polythreonine-rich protein, and beta-tubulin), and 8 of 10 cloned PCR products were consistent with C. parvum genotype 2. These data provide evidence that there is sylvatic transmission of C. parvum involving deer and other small mammals. This study affirmed the importance of wildlife as potential sources of Cryptosporidium in the catchments of public water supplies.

Energetic cost of bot fly parasitism in free-ranging eastern chipmunks.

PubMed

Careau, Vincent; Thomas, Donald W; Humphries, Murray M

2010-02-01

The energy and nutrient demands of parasites on their hosts are frequently invoked as an explanation for negative impacts of parasitism on host survival and reproductive success. Although cuterebrid bot flies are among the physically largest and most-studied insect parasites of mammals, the only study conducted on metabolic consequences of bot fly parasitism revealed a surprisingly small effect of bot flies on host metabolism. Here we test the prediction that bot fly parasitism increases the resting metabolic rate (RMR) of free-ranging eastern chipmunks (Tamias striatus), particularly in juveniles who have not previously encountered parasites and have to allocate energy to growth. We found no effect of bot fly parasitism on adults. In juveniles, however, we found that RMR strongly increased with the number of bot fly larvae hosted. For a subset of 12 juveniles during a year where parasite prevalence was particularly high, we also compared the RMR before versus during the peak of bot fly prevalence, allowing each individual to act as its own control. Each bot fly larva resulted in a approximately 7.6% increase in the RMR of its host while reducing juvenile growth rates. Finally, bot fly parasitism at the juvenile stage was positively correlated with adult stage RMR, suggesting persistent effects of bot flies on RMR. This study is the first to show an important effect of bot fly parasitism on the metabolism and growth of a wild mammal. Our work highlights the importance of studying cost of parasitism over multiple years in natural settings, as negative effects on hosts are more likely to emerge in periods of high energetic demand (e.g. growing juveniles) and/or in harsh environmental conditions (e.g. low food availability).

HIPPOCAMPAL ADULT NEUROGENESIS: ITS REGULATION AND POTENTIAL ROLE IN SPATIAL LEARNING AND MEMORY

PubMed Central

Lieberwirth, Claudia; Pan, Yongliang; Liu, Yan; Zhang, Zhibin; Wang, Zuoxin

2016-01-01

Adult neurogenesis, defined here as progenitor cell division generating functionally integrated neurons in the adult brain, occurs within the hippocampus of numerous mammalian species including humans. The present review details various endogenous (e.g., neurotransmitters) and environmental (e.g., physical exercise) factors that have been shown to influence hippocampal adult neurogenesis. In addition, the potential involvement of adult-generated neurons in naturally-occurring spatial learning behavior is discussed by summarizing the literature focusing on traditional animal models (e.g., rats and mice), non-traditional animal models (e.g., tree shrews), as well as natural populations (e.g., chickadees and Siberian chipmunk). PMID:27174001

Infection of Ixodes ricinus by Borrelia burgdorferi sensu lato in peri-urban forests of France

PubMed Central

Perthame, Emeline; Sertour, Natacha; Garnier, Martine; Godard, Vincent

2017-01-01

Lyme borreliosis is the most common tick-borne disease in the northern hemisphere. In Europe, it is transmitted by Ixodes ticks that carry bacteria belonging to the Borrelia burgdorferi sensu lato complex. The objective of this work was to explore eco-epidemiological factors of Lyme borreliosis in peri-urban forests of France (Sénart, Notre-Dame and Rambouillet). We investigated whether the introduction of Tamias sibiricus in Sénart could alter the density of infected ticks. Moreover, the density and tick infection were investigated according to the tree species found in various patches of Sénart forest. For this purpose, ticks were sampled during 3 years. In the Sénart forest, the density of nymph and adult ticks showed no significant difference between 2008, 2009 and 2011. The nymph density varied significantly as a function of the month of collection. Regarding the nymphs, a higher rate of infection and infected density were found in 2009. Plots with chipmunks (C) presented a lower density of both nymphs and adult ticks than plots without chipmunks (NC) did. A higher rate of infection of nymphs with Borrelia was seen in C plots. The prevalence of the various species of Borrelia was also found to vary between C and NC plots with the year of the collect. The presence of chestnut trees positively influenced the density of both nymphs and adults. The infected nymph density showed a significant difference depending on the peri-urban forest studied, Sénart being higher than Rambouillet. The prevalence of Borrelia species also differed between the various forests studied. Concerning the putative role that Tamias sibiricus may play in the transmission of Borrelia, our results suggest that its presence is correlated with a higher rate of infection of questing ticks by Borrelia genospecies and if its population increases, it could play a significant role in the risk of transmission of Lyme borreliosis. PMID:28846709

Infection of Ixodes ricinus by Borrelia burgdorferi sensu lato in peri-urban forests of France.

PubMed

Marchant, Axelle; Le Coupanec, Alain; Joly, Claire; Perthame, Emeline; Sertour, Natacha; Garnier, Martine; Godard, Vincent; Ferquel, Elisabeth; Choumet, Valerie

2017-01-01

Lyme borreliosis is the most common tick-borne disease in the northern hemisphere. In Europe, it is transmitted by Ixodes ticks that carry bacteria belonging to the Borrelia burgdorferi sensu lato complex. The objective of this work was to explore eco-epidemiological factors of Lyme borreliosis in peri-urban forests of France (Sénart, Notre-Dame and Rambouillet). We investigated whether the introduction of Tamias sibiricus in Sénart could alter the density of infected ticks. Moreover, the density and tick infection were investigated according to the tree species found in various patches of Sénart forest. For this purpose, ticks were sampled during 3 years. In the Sénart forest, the density of nymph and adult ticks showed no significant difference between 2008, 2009 and 2011. The nymph density varied significantly as a function of the month of collection. Regarding the nymphs, a higher rate of infection and infected density were found in 2009. Plots with chipmunks (C) presented a lower density of both nymphs and adult ticks than plots without chipmunks (NC) did. A higher rate of infection of nymphs with Borrelia was seen in C plots. The prevalence of the various species of Borrelia was also found to vary between C and NC plots with the year of the collect. The presence of chestnut trees positively influenced the density of both nymphs and adults. The infected nymph density showed a significant difference depending on the peri-urban forest studied, Sénart being higher than Rambouillet. The prevalence of Borrelia species also differed between the various forests studied. Concerning the putative role that Tamias sibiricus may play in the transmission of Borrelia, our results suggest that its presence is correlated with a higher rate of infection of questing ticks by Borrelia genospecies and if its population increases, it could play a significant role in the risk of transmission of Lyme borreliosis.

Insights on the host associations and geographic distribution of Hymenolepis folkertsi (Cestoda: Hymenolepididae) among rodents across temperate latitudes of North America.

PubMed

Hoberg, E P; Makarikov, A A; Tkach, V V; Meagher, S; Nims, T N; Eckerlin, R P; Galbreath, K E

2016-12-01

Synoptic data and an understanding of helminth parasite diversity among diverse rodent assemblages across temperate latitudes of North America remain remarkably incomplete. Renewed attention to comprehensive survey and inventory to establish the structure of biodiverse faunas is essential in providing indicators and proxies for identifying the outcomes of accelerating change linked to climate warming and anthropogenic forcing. Subsequent to the description of Hymenolepis folkertsi in the oldfield mouse, Peromyscus polionotus, additional specimens of hymenolepidids were collected or discovered in archived museum repositories from multiple species of deer mice (Peromyscus maniculatus, Peromyscus leucopus), the golden mouse (Ochrotomys nuttalli), chipmunks (Tamias striatus, Tamias amoenus), the 13-lined ground squirrel (Ictidomys tridecemlineatus), and tree squirrels (Sciurus carolinensis, Sciurus niger) from disjunct localities in the USA spanning southern Georgia, Virginia, Pennsylvania, Connecticut, the Upper Peninsula of Michigan, Wisconsin, and central Idaho. Specimens were largely consistent morphologically with the original description of H. folkertsi. Initial DNA sequence data, from a portion of the mitochondrial NADH dehydrogenase subunit 1, demonstrated intraspecific variation among three apparently geographically isolated populations attributed to H. folkertsi (uncorrected genetic distances of 2.7 % (Idaho and Michigan), 2.4 % (Virginia + Pennsylvania and Michigan), and 1.89 % (VA + PA and ID). Geography rather than host association explains the distribution and occurrence of H. folkertsi, and host colonization among deer mice, chipmunks, and other sciurids within regional sites is indicated. Genetic divergence revealed across localities for H. folkertsi suggests historically isolated populations, consistent with extended evolutionary and biogeographic trajectories among hymenolepidids and species of Peromyscus and Tamias in North America. Field inventory, that revealed these parasite populations, substantially alters our understanding of the distribution of diversity and provides insights about the nature of the complex relationships that serve to determine cestode faunas in rodents.

Forest rodents provide directed dispersal of Jeffrey pine seeds

USGS Publications Warehouse

Briggs, J.S.; Wall, S.B.V.; Jenkins, S.H.

2009-01-01

Some species of animals provide directed dispersal of plant seeds by transporting them nonrandomly to microsites where their chances of producing healthy seedlings are enhanced. We investigated whether this mutualistic interaction occurs between granivorous rodents and Jeffrey pine (Pinus jeffreyi) in the eastern Sierra Nevada by comparing the effectiveness of random abiotic seed dispersal with the dispersal performed by four species of rodents: deer mice (Peromyscus maniculatus), yellow-pine and long-eared chipmunks (Tamias amoenus and T. quadrimaculatus), and golden-mantled ground squirrels (Spermophilus lateralis). We conducted two caching studies using radio-labeled seeds, the first with individual animals in field enclosures and the second with a community of rodents in open forest. We used artificial caches to compare the fates of seeds placed at the range of microsites and depths used by animals with the fates of seeds dispersed abiotically. Finally, we examined the distribution and survival of naturally establishing seedlings over an eight-year period.Several lines of evidence suggested that this community of rodents provided directed dispersal. Animals preferred to cache seeds in microsites that were favorable for emergence or survival of seedlings and avoided caching in microsites in which seedlings fared worst. Seeds buried at depths typical of animal caches (5–25 mm) produced at least five times more seedlings than did seeds on the forest floor. The four species of rodents differed in the quality of dispersal they provided. Small, shallow caches made by deer mice most resembled seeds dispersed by abiotic processes, whereas many of the large caches made by ground squirrels were buried too deeply for successful emergence of seedlings. Chipmunks made the greatest number of caches within the range of depths and microsites favorable for establishment of pine seedlings. Directed dispersal is an important element of the population dynamics of Jeffrey pine, a dominant tree species in the eastern Sierra Nevada. Quantifying the occurrence and dynamics of directed dispersal in this and other cases will contribute to better understanding of mutualistic coevolution of plants and animals and to more effective management of ecosystems in which directed dispersal is a keystone process.

Habitat interaction between two species of chipmunk in the Basin and Range Province of Nevada

USGS Publications Warehouse

Lowrey, Christopher; Longshore, Kathleen M.

2013-01-01

Interspecies interactions can affect how species are distributed, put constraints on habitat expansion, and reduce the fundamental niche of the affected species. Using logistic regression, we analyzed and compared 174 Tamias palmeri and 94 Tamias panamintinus within an isolated mountain range of the Basin and Range Province of southern Nevada. Tamias panamintinus was more likely to use pinyon/ponderosa/fir mixed forests than pinyon alone, compared to random sites. In the presence of T palmeri, however, interaction analyses indicated T. panamintinus was less likely to occupy the mixed forests and more likely near large rocks on southern aspects. This specie s-by-habitat interaction data suggest that T. palmeri excludes T panamintinus from areas of potentially suitable habitat. Climate change may adversely affect species of restricted distribution. Habitat isolation and species interactions in this region may thus increase survival risks as climate temperatures rise.

Directional selection effects on patterns of phenotypic (co)variation in wild populations

PubMed Central

Patton, J. L.; Hubbe, A.; Marroig, G.

2016-01-01

Phenotypic (co)variation is a prerequisite for evolutionary change, and understanding how (co)variation evolves is of crucial importance to the biological sciences. Theoretical models predict that under directional selection, phenotypic (co)variation should evolve in step with the underlying adaptive landscape, increasing the degree of correlation among co-selected traits as well as the amount of genetic variance in the direction of selection. Whether either of these outcomes occurs in natural populations is an open question and thus an important gap in evolutionary theory. Here, we documented changes in the phenotypic (co)variation structure in two separate natural populations in each of two chipmunk species (Tamias alpinus and T. speciosus) undergoing directional selection. In populations where selection was strongest (those of T. alpinus), we observed changes, at least for one population, in phenotypic (co)variation that matched theoretical expectations, namely an increase of both phenotypic integration and (co)variance in the direction of selection and a re-alignment of the major axis of variation with the selection gradient. PMID:27881744

Modeling the effects of fire severity and spatial complexity on Small Mammals in Yosemite National Park, California

USGS Publications Warehouse

Roberts, Susan L.; Van Wagtendonk, Jan W.; Miles, A. Keith; Kelt, Douglas A.; Lutz, James A.

2008-01-01

We evaluated the impact of fire severity and related spatial and vegetative parameters on small mammal populations in 2 yr- to 15 yr-old burns in Yosemite National Park, California, USA. We also developed habitat models that would predict small mammal responses to fires of differing severity. We hypothesized that fire severity would influence the abundances of small mammals through changes in vegetation composition, structure, and spatial habitat complexity. Deer mouse (Peromyscus maniculatus) abundance responded negatively to fire severity, and brush mouse (P. boylii) abundance increased with increasing oak tree (Quercus spp.) cover. Chipmunk (Neotamias spp.) abundance was best predicted through a combination of a negative response to oak tree cover and a positive response to spatial habitat complexity. California ground squirrel (Spermophilus beecheyi) abundance increased with increasing spatial habitat complexity. Our results suggest that fire severity, with subsequent changes in vegetation structure and habitat spatial complexity, can influence small mammal abundance patterns.

Tick-Borne Relapsing Fever Outbreak Among a High School Football Team at an Outdoor Education Camping Trip, Arizona, 2014.

PubMed

Jones, Jefferson M; Hranac, Carter R; Schumacher, Mare; Horn, Kim; Lee, Darlene M; Terriquez, Joel; Engelthaler, David M; Peoples, Marie; Corrigan, Jennifer; Replogle, Adam; Souders, Nina; Komatsu, Kenneth K; Nieto, Nathan C

2016-09-07

During August 2014, five high school students who had attended an outdoor education camp were hospitalized with a febrile illness, prompting further investigation. Ten total cases of tick-borne relapsing fever (TBRF) were identified-six cases confirmed by culture or visualization of spirochetes on blood smear and four probable cases with compatible symptoms (attack rate: 23%). All patients had slept in the campsite's only cabin. Before the camp, a professional pest control company had rodent proofed the cabin, but no acaricides had been applied. Cabin inspection after the camp found rodents and Ornithodoros ticks, the vector of TBRF. Blood samples from a chipmunk trapped near the cabin and from patients contained Borrelia hermsii with identical gene sequences (100% over 630 base pairs). Health departments in TBRF endemic areas should consider educating cabin owners and pest control companies to apply acaricides during or following rodent proofing, because ticks that lack rodents for a blood meal might feed on humans. © The American Society of Tropical Medicine and Hygiene.

Directional selection effects on patterns of phenotypic (co)variation in wild populations.

PubMed

Assis, A P A; Patton, J L; Hubbe, A; Marroig, G

2016-11-30

Phenotypic (co)variation is a prerequisite for evolutionary change, and understanding how (co)variation evolves is of crucial importance to the biological sciences. Theoretical models predict that under directional selection, phenotypic (co)variation should evolve in step with the underlying adaptive landscape, increasing the degree of correlation among co-selected traits as well as the amount of genetic variance in the direction of selection. Whether either of these outcomes occurs in natural populations is an open question and thus an important gap in evolutionary theory. Here, we documented changes in the phenotypic (co)variation structure in two separate natural populations in each of two chipmunk species (Tamias alpinus and T. speciosus) undergoing directional selection. In populations where selection was strongest (those of T. alpinus), we observed changes, at least for one population, in phenotypic (co)variation that matched theoretical expectations, namely an increase of both phenotypic integration and (co)variance in the direction of selection and a re-alignment of the major axis of variation with the selection gradient. © 2016 The Author(s).

Prevalence of Human-Active and Variant 1 Strains of the Tick-Borne Pathogen Anaplasma phagocytophilum in Hosts and Forests of Eastern North America

PubMed Central

Keesing, Felicia; McHenry, Diana J.; Hersh, Michelle; Tibbetts, Michael; Brunner, Jesse L.; Killilea, Mary; LoGiudice, Kathleen; Schmidt, Kenneth A.; Ostfeld, Richard S.

2014-01-01

Anaplasmosis is an emerging infectious disease caused by infection with the bacterium Anaplasma phagocytophilum. In the eastern United States, A. phagocytophilum is transmitted to hosts through the bite of the blacklegged tick, Ixodes scapularis. We determined the realized reservoir competence of 14 species of common vertebrate hosts for ticks by establishing the probability that each species transmits two important strains of A. phagocytophilum (A. phagocytophilum human-active, which causes human cases, and A. phagocytophilum variant 1, which does not) to feeding larval ticks. We also sampled questing nymphal ticks from ∼150 sites in a single county over 2 years and sampled over 6 years at one location. White-footed mice (Peromyscus leucopus) and Eastern chipmunks (Tamias striatus) were the most competent reservoirs for infection with the A. phagocytophilum human-active strain. Across the county, prevalence in ticks for both strains together was 8.3%; ticks were more than two times as likely to be infected with A. phagocytophilum human-active as A. phagocytophilum variant 1. PMID:24865688

Northern Goshawk diet in Minnesota: An Analysis using video recording systems

USGS Publications Warehouse

Smithers, B.L.; Boal, C.W.; Andersen, D.E.

2005-01-01

We used video-recording systems to collect diet information at 13 Northern Goshawk (Accipiter gentilis) nests in Minnesota during the 2000, 2001, and 2002 breeding seasons. We collected 4871 hr of video footage, from which 652 prey deliveries were recorded. The majority of prey deliveries identified were mammals (62%), whereas birds (38%) composed a smaller proportion of diet. Mammals accounted for 61% of biomass delivered, and avian prey items accounted for 39% of prey biomass. Sciurids and leporids accounted for 70% of the identified prey. Red squirrel (Tamiasciurus hudsonicus), eastern chipmunk (Tamias striatus), and snowshoe hare (Lepus americanus) were the dominant mammals identified in the diet, while American Crow (Corvus brachyrhynchos) and Ruffed Grouse (Bonasa umbellus) were the dominant avian prey delivered to nests. On average, breeding goshawks delivered 2.12 prey items/d, and each delivery averaged 275 g for a total of 551 g delivered/d. However, daily (P < 0.001) and hourly (P = 0.01) delivery rates varied among nests. Delivery rates (P = 0.01) and biomass delivered (P = 0.038) increased with brood size. Diversity and equitability of prey used was similar among nests and was low throughout the study area, most likely due to the dominance of red squirrel in the diet. ?? 2005 The Raptor Research Foundation, Inc.

The effect of predation on begging-call evolution in nestling wood warblers.

PubMed

Haskell

1999-04-01

I combined a comparative study of begging in ground- and tree-nesting wood warblers (Parulidae) with experimental measures of the predation costs of warbler begging calls. Throughout their development, ground-nesting warbler nestlings had significantly higher-frequency begging calls than did tree-nesting warblers. There was also a trend for ground-nesting birds to have less rapidly modulated calls. There were no consistent associations between nesting site and the amplitude of the calls. Using miniature walkie-talkies hidden inside artificial nests, I reciprocally transplanted the begging calls of 5- and 8-day-old black-throated blue warblers, Dendroica caerulescens (tree-nesting) and ovenbirds, Seiurus aurocapillus (ground-nesting) and measured the corresponding changes in rates of nest predation. For the begging calls of 8-day-old nestlings, but not those of 5-day-olds, the calls of the tree-nesting species coming from ground nests incurred greater costs than did the calls of ground nesters. The reciprocal transplant had little effect on the rate of predation. Tooth imprints on clay eggs placed in artificial nests indicated that eastern chipmunks, Tamias striatus, were responsible for the increased cost of begging for black-throated blue calls coming from the ground. These data suggest that nest predation may be responsible for maintaining some of the interspecific differences in the acoustic structure of begging calls. Copyright 1999 The Association for the Study of Animal Behaviour.

Nebula--a web-server for advanced ChIP-seq data analysis.

PubMed

Boeva, Valentina; Lermine, Alban; Barette, Camille; Guillouf, Christel; Barillot, Emmanuel

2012-10-01

ChIP-seq consists of chromatin immunoprecipitation and deep sequencing of the extracted DNA fragments. It is the technique of choice for accurate characterization of the binding sites of transcription factors and other DNA-associated proteins. We present a web service, Nebula, which allows inexperienced users to perform a complete bioinformatics analysis of ChIP-seq data. Nebula was designed for both bioinformaticians and biologists. It is based on the Galaxy open source framework. Galaxy already includes a large number of functionalities for mapping reads and peak calling. We added the following to Galaxy: (i) peak calling with FindPeaks and a module for immunoprecipitation quality control, (ii) de novo motif discovery with ChIPMunk, (iii) calculation of the density and the cumulative distribution of peak locations relative to gene transcription start sites, (iv) annotation of peaks with genomic features and (v) annotation of genes with peak information. Nebula generates the graphs and the enrichment statistics at each step of the process. During Steps 3-5, Nebula optionally repeats the analysis on a control dataset and compares these results with those from the main dataset. Nebula can also incorporate gene expression (or gene modulation) data during these steps. In summary, Nebula is an innovative web service that provides an advanced ChIP-seq analysis pipeline providing ready-to-publish results. Nebula is available at http://nebula.curie.fr/ Supplementary data are available at Bioinformatics online.

Predicting above-ground density and distribution of small mammal prey species at large spatial scales

PubMed Central

2017-01-01

Grassland and shrub-steppe ecosystems are increasingly threatened by anthropogenic activities. Loss of native habitats may negatively impact important small mammal prey species. Little information, however, is available on the impact of habitat variability on density of small mammal prey species at broad spatial scales. We examined the relationship between small mammal density and remotely-sensed environmental covariates in shrub-steppe and grassland ecosystems in Wyoming, USA. We sampled four sciurid and leporid species groups using line transect methods, and used hierarchical distance-sampling to model density in response to variation in vegetation, climate, topographic, and anthropogenic variables, while accounting for variation in detection probability. We created spatial predictions of each species’ density and distribution. Sciurid and leporid species exhibited mixed responses to vegetation, such that changes to native habitat will likely affect prey species differently. Density of white-tailed prairie dogs (Cynomys leucurus), Wyoming ground squirrels (Urocitellus elegans), and leporids correlated negatively with proportion of shrub or sagebrush cover and positively with herbaceous cover or bare ground, whereas least chipmunks showed a positive correlation with shrub cover and a negative correlation with herbaceous cover. Spatial predictions from our models provide a landscape-scale metric of above-ground prey density, which will facilitate the development of conservation plans for these taxa and their predators at spatial scales relevant to management. PMID:28520757

Adaptation and immunogenicity of Cryptosporidium parvum to immunocompetent mice.

PubMed

Matsuo, Tomohide; Tsuge, Yasuko; Umemiya-Shirafuji, Rika; Fujino, Takashi; Matsui, Toshihiro

2014-03-01

The adaptation and immunogenisity of Cryptosporidium parvum isolated from Siberian chipmunks (SC1 strain) in immunocompetent (ICR) mice were examined. The oocysts were received to the severe combined immunodeficiency (SCID) mice by repeated passage. The oocysts collected from the 18th SCID mice were inoculated to 5 ICR mice. The mice began to shed oocysts from 6 days after inoculation, the patency was 5 days, and the maximum oocysts per gram of feces (OPG) value was 10(4). The maximum of OPG value was gradually increased by successive passage, and finally that in the 22nd mice reached 10(6) (patency: 11 days). It is considered that these results indicate completion of their adaptation to ICR mice. To examine the immunogenicity of C. parvum to ICR mice, 8 groups of 5 mice each were inoculated with 1.3 × 10(6) oocysts of SC1 strain, which were collected after adaptation to SCID mice. All groups shed oocysts from 6th day, and their patency was from 8 to 12 days. On the 21st day after the primary infection, these mice were challenged with 1.3 × 10(6) oocysts. No oocysts shed from any groups, although 2 control groups shed oocysts from the 6th day, and their OPG values were more than 10(6). These results suggest that this strain has strong immunogenicity against ICR mice. Therefore, the immunological healthy mice were considered a useful experimental model to investigate immunological and drug treatments in the strain of C. parvum.

Factors determining the abundance and distribution of rodents in a shrub-steppe ecosystem: the role of shrubs.

PubMed

Parmenter, Robert R; MacMahon, James A

1983-09-01

This study addressed the relative importances of shrub "resources" on a rodent community in a sagebrush dominated shrub-steppe ecosystem in southwestern Wyoming. Direct effects of shrubs (i.e., providing rodents with "food and cover") were assessed by removing shrubs from a 1.25 ha study plot and monitoring both rodent populations and their food resources. Shrub architecture and shrub-related food resources were found to be unimportant to deermice (Peromyscus maniculatus), Great Basin pocket mice (Perognathus parvus) northern grasshopper mice (Onychomys leucogaster) and Uinta ground squirrels (Spermophilus armatus), as shrub removal caused no significant changes in population sizes, sex ratios or age structure. Least chipmunks (Eutamias minimus) responded to shrub removal by leaving the plot and moving into adjacent shrubland. The montane vole (Microtus montanus) population showed a slight increase following shrub removal. Shrub removal did not alter the abundance of major rodent food resources on the plot (percent cover of herbaceous vegetation, soil seed reserves and ground-dwelling arthropods). Micrometeorological data suggested that shrubs did not significantly ameliorate a nocturnal rodent's micro-climate, but may have affected diurnal rodents' thermal loading rates by removing shade. While shrub architecture and food resources do not directly affect most of the rodents in this shrub-steppe ecosystem, shrubs may be important to rodents in a long-term time frame. Shrubs provide "safe sites" for germination and growth of herbaceous vegetation, thereby enhancing the diversity of the potential rodent food resources.

Unlocking the vault: next generation museum population genomics

PubMed Central

Bi, Ke; Linderoth, Tyler; Vanderpool, Dan; Good, Jeffrey M; Nielsen, Rasmus; Moritz, Craig

2014-01-01

Natural history museum collections provide unique resources for understanding how species respond to environmental change, including the abrupt, anthropogenic climate change of the past century. Ideally, researchers would conduct genome-scale screening of museum specimens to explore the evolutionary consequences of environmental changes, but to date such analyses have been severely limited by the numerous challenges of working with the highly degraded DNA typical of historic samples. Here we circumvent these challenges by using custom, multiplexed, exon-capture to enrich and sequence ~11,000 exons (~4Mb) from early 20TH century museum skins. We used this approach to test for changes in genomic diversity accompanying a climate-related range retraction in the alpine chipmunks (Tamias alpinus) in the high Sierra Nevada area of California, USA. We developed robust bioinformatic pipelines that rigorously detect and filter-out base misincorporations in DNA derived from skins, most of which likely resulted from post-mortem damage. Furthermore, to accommodate genotyping uncertainties associated with low-medium coverage data, we applied a recently developed probabilistic method to call SNPs and estimate allele frequencies and the joint site frequency spectrum. Our results show increased genetic subdivision following range retraction, but no change in overall genetic diversity at either non-synonymous or synonymous sites. This case study showcases the advantages of integrating emerging genomic and statistical tools in museum collection-based population genomic applications. Such technical advances greatly enhance the value of museum collections, even where a pre-existing reference is lacking, and points to a broad range of potential applications in evolutionary and conservation biology. PMID:24118668

Unlocking the vault: next-generation museum population genomics.

PubMed

Bi, Ke; Linderoth, Tyler; Vanderpool, Dan; Good, Jeffrey M; Nielsen, Rasmus; Moritz, Craig

2013-12-01

Natural history museum collections provide unique resources for understanding how species respond to environmental change, including the abrupt, anthropogenic climate change of the past century. Ideally, researchers would conduct genome-scale screening of museum specimens to explore the evolutionary consequences of environmental changes, but to date such analyses have been severely limited by the numerous challenges of working with the highly degraded DNA typical of historic samples. Here, we circumvent these challenges by using custom, multiplexed, exon capture to enrich and sequence ~11,000 exons (~4 Mb) from early 20th-century museum skins. We used this approach to test for changes in genomic diversity accompanying a climate-related range retraction in the alpine chipmunks (Tamias alpinus) in the high Sierra Nevada area of California, USA. We developed robust bioinformatic pipelines that rigorously detect and filter out base misincorporations in DNA derived from skins, most of which likely resulted from postmortem damage. Furthermore, to accommodate genotyping uncertainties associated with low-medium coverage data, we applied a recently developed probabilistic method to call single-nucleotide polymorphisms and estimate allele frequencies and the joint site frequency spectrum. Our results show increased genetic subdivision following range retraction, but no change in overall genetic diversity at either nonsynonymous or synonymous sites. This case study showcases the advantages of integrating emerging genomic and statistical tools in museum collection-based population genomic applications. Such technical advances greatly enhance the value of museum collections, even where a pre-existing reference is lacking and points to a broad range of potential applications in evolutionary and conservation biology. © 2013 John Wiley & Sons Ltd.

Effects of climate and exurban development on nest predation and predator presence in the southern Appalachian Mountains (USA).

PubMed

Lumpkin, Heather A; Pearson, Scott M; Turner, Monica G

2012-08-01

In the eastern United States, land-use and climate change have likely contributed to declines in the abundance of Neotropical migrant birds that occupy forest interiors, but the mechanisms are not well understood. We conducted a nest-predation experiment in southern Appalachian Mountain forests (North Carolina, U.S.A.) during the 2009 and 2010 breeding seasons to determine the effects of exurban development and temperature on predator presence and the average number of days until eggs in an artificial nest were disturbed by predators. We baited artificial nests with quail (Excalfactoria chinensi) eggs and monitored them for 18 days. We used clay eggs, track plates, and motion-triggered cameras to detect and identify nest predators. The average number of days a nest was undisturbed decreased as mean temperature increased and, to a lesser extent, as the density of buildings increased. Nests on the ground were more often depredated than those in trees, likely due to increased predation by opossum (Didelphis virginiana) and other carnivores. Raccoons (Procyon lotor), opossums, corvids (Corvus brachyrhynchos and Cyanocitta cristata), chipmunks (Tamias striatus), black bears (Ursus americanus), and domestic cats (Felis catus) were the most commonly detected predators. Presence of these predators did not vary as a function of mean temperature. Domestic cats and corvids were detected more frequently in plots with high rather than low densities of buildings. Forest-interior specialists and Neotropical migrants often nest in cool, high-elevation areas with low housing density. These bird species, especially those that nest on the ground, may be most vulnerable to increased nest predation if temperature and exurban development increase at higher elevations as anticipated. ©2012 Society for Conservation Biology.

Corrective Action Plan for Corrective Action Unit 568: Area 3 Plutonium Dispersion Sites Nevada National Security Site, Nevada, Revision 0 with ROTC 1

DOE Office of Scientific and Technical Information (OSTI.GOV)

Matthews, Patrick; Burmeister, Mark

2016-05-01

The purpose of this CAP is to provide the plan for implementation of the recommended corrective action alternatives (CAAs) for CAU 568. Site characterization activities were performed in 2014, and the results are presented in Appendix A of the CAU 568 CADD. The CAAs were recommended in the CADD. The scope of work required to implement the recommended CAAs of closure in place and clean closure at 11 of the 14 CASs includes the following: The installation of physical barriers over the nine safety experiment ground zeroes to cover contamination at CASs 03-23-20 (Otero), 03-23-23 (San Juan and Pascal-C), 03-23-31more » (Pascal-B, Luna, Colfax), 03-23-32 (Pascal-A), 03-23-33 (Valencia), and 03-23-34 (Chipmunk); the characterization and removal of three soil and debris piles at CAS 03-08-04, and one HCA soil pile at CAS 03-23-30; the removal of three steel well head covers (PSM) from CASs 03-23-20 (Otero), 03-23-31 (Luna), and 03-23-33 (Valencia); the removal of soil and lead PSM from two locations at CAS 03-26-04; Implementation of FFACO use restrictions at nine safety experiment ground zeroes at CASs 03-23-20, 03-23-23, 03-23-31, 03-23-32, 03-23-33, and 03-23-34; the steel well head cover at CAS 03-23-23; the areas meeting HCA conditions at CASs 03-23-19 and 03-23-31; and the Boomer crater area at CAS 03-45-01. The FFACO use restriction boundaries will be presented in the CAU 568 closure report.« less

SEARCH: Spatially Explicit Animal Response to Composition of Habitat.

PubMed

Pauli, Benjamin P; McCann, Nicholas P; Zollner, Patrick A; Cummings, Robert; Gilbert, Jonathan H; Gustafson, Eric J

2013-01-01

Complex decisions dramatically affect animal dispersal and space use. Dispersing individuals respond to a combination of fine-scale environmental stimuli and internal attributes. Individual-based modeling offers a valuable approach for the investigation of such interactions because it combines the heterogeneity of animal behaviors with spatial detail. Most individual-based models (IBMs), however, vastly oversimplify animal behavior and such behavioral minimalism diminishes the value of these models. We present program SEARCH (Spatially Explicit Animal Response to Composition of Habitat), a spatially explicit, individual-based, population model of animal dispersal through realistic landscapes. SEARCH uses values in Geographic Information System (GIS) maps to apply rules that animals follow during dispersal, thus allowing virtual animals to respond to fine-scale features of the landscape and maintain a detailed memory of areas sensed during movement. SEARCH also incorporates temporally dynamic landscapes so that the environment to which virtual animals respond can change during the course of a simulation. Animals in SEARCH are behaviorally dynamic and able to respond to stimuli based upon their individual experiences. Therefore, SEARCH is able to model behavioral traits of dispersing animals at fine scales and with many dynamic aspects. Such added complexity allows investigation of unique ecological questions. To illustrate SEARCH's capabilities, we simulated case studies using three mammals. We examined the impact of seasonally variable food resources on the weight distribution of dispersing raccoons (Procyon lotor), the effect of temporally dynamic mortality pressure in combination with various levels of behavioral responsiveness in eastern chipmunks (Tamias striatus), and the impact of behavioral plasticity and home range selection on disperser mortality and weight change in virtual American martens (Martes americana). These simulations highlight the relevance of SEARCH for a variety of applications and illustrate benefits it can provide for conservation planning.

Genomics and museum specimens.

PubMed

Nachman, Michael W

2013-12-01

Nearly 25 years ago, Allan Wilson and colleagues isolated DNA sequences from museum specimens of kangaroo rats (Dipodomys panamintinus) and compared these sequences with those from freshly collected animals (Thomas et al. 1990). The museum specimens had been collected up to 78 years earlier, so the two samples provided a direct temporal comparison of patterns of genetic variation. This was not the first time DNA sequences had been isolated from preserved material, but it was the first time it had been carried out with a population sample. Population geneticists often try to make inferences about the influence of historical processes such as selection, drift, mutation and migration on patterns of genetic variation in the present. The work of Wilson and colleagues was important in part because it suggested a way in which population geneticists could actually study genetic change in natural populations through time, much the same way that experimentalists can do with artificial populations in the laboratory. Indeed, the work of Thomas et al. (1990) spawned dozens of studies in which museum specimens were used to compare historical and present-day genetic diversity (reviewed in Wandeler et al. 2007). All of these studies, however, were limited by the same fundamental problem: old DNA is degraded into short fragments. As a consequence, these studies mostly involved PCR amplification of short templates, usually short stretches of mitochondrial DNA or microsatellites. In this issue, Bi et al. (2013) report a breakthrough that should open the door to studies of genomic variation in museum specimens. They used target enrichment (exon capture) and next-generation (Illumina) sequencing to compare patterns of genetic variation in historic and present-day population samples of alpine chipmunks (Tamias alpinus) (Fig. 1). The historic samples came from specimens collected in 1915, so the temporal span of this comparison is nearly 100 years. © 2013 John Wiley & Sons Ltd.

Colorado animal-based plague surveillance systems: relationships between targeted animal species and prediction efficacy of areas at risk for humans.

PubMed

Lowell, Jennifer L; Eisen, Rebecca J; Schotthoefer, Anna M; Xiaocheng, Liang; Montenieri, John A; Tanda, Dale; Pape, John; Schriefer, Martin E; Antolin, Michael F; Gage, Kenneth L

2009-06-01

Human plague risks (Yersinia pestis infection) are greatest when epizootics cause high mortality among this bacterium's natural rodent hosts. Therefore, health departments in plague-endemic areas commonly establish animal-based surveillance programs to monitor Y. pestis infection among plague hosts and vectors. The primary objectives of our study were to determine whether passive animal-based plague surveillance samples collected in Colorado from 1991 to 2005 were sampled from high human plague risk areas and whether these samples provided information useful for predicting human plague case locations. By comparing locations of plague-positive animal samples with a previously constructed GIS-based plague risk model, we determined that the majority of plague-positive Gunnison's prairie dogs (100%) and non-prairie dog sciurids (85.82%), and moderately high percentages of sigmodontine rodents (71.4%), domestic cats (69.3%), coyotes (62.9%), and domestic dogs (62.5%) were recovered within 1 km of the nearest area posing high peridomestic risk to humans. In contrast, the majority of white-tailed prairie dog (66.7%), leporid (cottontailed and jack rabbits) (71.4%), and black-tailed prairie dog (93.0%) samples originated more than 1 km from the nearest human risk habitat. Plague-positive animals or their fleas were rarely (one of 19 cases) collected within 2 km of a case exposure site during the 24 months preceding the dates of illness onset for these cases. Low spatial accuracy for identifying epizootic activity prior to human plague cases suggested that other mammalian species or their fleas are likely more important sources of human infection in high plague risk areas. To address this issue, epidemiological observations and multi-locus variable number tandem repeat analyses (MLVA) were used to preliminarily identify chipmunks as an under-sampled, but potentially important, species for human plague risk in Colorado.

Influence of product placement in children's movies on children's snack choices.

PubMed

Brown, Callie L; Matherne, Camden E; Bulik, Cynthia M; Howard, Janna B; Ravanbakht, Sophie N; Skinner, Asheley C; Wood, Charles T; Bardone-Cone, Anna M; Brown, Jane D; Perrin, Andrew J; Levine, Cary; Steiner, Michael J; Perrin, Eliana M

2017-07-01

Media exposure affects health, including obesity risk. Children's movies often contain food placements-frequently unhealthy foods. However, it is not known if these cues influence children's food choices or consumption after viewing. We explored whether children's snack choices or consumption differs based on: 1) recent exposure to movies with high versus low product placement of unhealthy foods; and 2) children's weight status. Children ages 9-11 were assigned to watch a high ("Alvin and the Chipmunks," n = 54) or low ("Stuart Little," n = 60) product-placement movie. After viewing, participants selected a snack choice from each of five categories, several of which were specifically featured in "Alvin." Uneaten snacks from each participant were weighed upon completion. Snack choice and amount consumed by movie were compared by t-tests, and differences in snack choices by movie were tested with logistic regression. Participants consumed an average of 800.8 kcal; mean kcal eaten did not vary by movie watched. Participants who watched the high product-placement movie had 3.1 times the odds (95% CI 1.3-7.2) of choosing cheese balls (most featured snack) compared to participants who watched the low product-placement movie. Children who were overweight or obese consumed a mean of 857 kcal (95% CI: 789-925) compared to 783 kcal (95% CI: 742-823, p = 0.09) for children who were underweight or healthy weight. Children's weight status did not significantly affect their choice of snack. Branding and obesogenic messaging in children's movies influenced some choices that children made about snack foods immediately following viewing, especially food with greatest exposure time in the film, but did not affect total calories consumed. Future studies should examine how the accumulation of these messages affects children's long-term food choices. Copyright © 2017 Elsevier Ltd. All rights reserved.

Mechanistic understanding of the effects of natural gas development on sagebrush-obligate songbird nest predation rates

NASA Astrophysics Data System (ADS)

Hethcoat, Matthew G.

Natural gas development has rapidly increased within sagebrush ( Artemisia spp.) dominated landscapes of the Intermountain West. Prior research in the Upper Green River Basin, Wyoming demonstrated increased nest predation of sagebrush-obligate songbirds with higher densities of natural gas wells. To better understand the mechanisms underlying this pattern, I assessed this commonly used index of oil and gas development intensity (well density) for estimating habitat transformation and predicting nest survival for songbirds breeding in energy fields during 2008- 2009 and 2011-2012. We calculated landscape metrics (habitat loss, amount of edge, patch shape complexity, and mean patch size) to identify the aspect of landscape transformation most captured by well density. Well density was most positively associated with the amount of habitat loss within 1 square kilometer. Daily nest survival was relatively invariant with respect to well density for all three species. In contrast, nest survival rates of all three species consistently decreased with increased surrounding habitat loss due to energy development. Thus, although well density and habitat loss were strongly correlated, at times they provided contrasting estimates of nest survival probability. Additionally, we tested the hypothesis that surrounding habitat loss influenced local nest predation rates via increased predator activity. During 2011- 2012, we surveyed predators and monitored songbird nests at twelve sites in western Wyoming. Nine species, representing four mammalian and three avian families, were video-recorded depredating eggs and nestlings. Approximately 75% of depredation events were caused by rodents. While chipmunk (Tamias minimus) detections were negatively associated with increased habitat loss, mice (Peromyscus maniculatus and Reithrodontomys megalotis) and ground squirrels (Ictidomys tridecemlineatus and Urocitellus armatus) increased with greater surrounding habitat loss. Consistent with our predictions, nest survival significantly declined at study locations with greater predator activity for Brewer's Sparrows (Spizella breweri) and Sagebrush Sparrows (Artemisiospiza nevadensis ). Our work is among the few studies which have identified mechanisms underlying increased nest predation rates, linking predation patterns, nest predators, and human-induced habitat alteration. Our results demonstrate the importance of simultaneous study of habitat change, predators, and prey in understanding the mechanisms by which evolved predator-prey relationships can be affected by human-induced rapid environmental change.

Wood thrush nest success and post-fledging survival across a temporal pulse of small mammal abundance in an oak forest.

PubMed

Schmidt, Kenneth A; Rush, Scott A; Ostfeld, Richard S

2008-07-01

1. Synchronized mass production of seed crops, such as acorns, produces a resource pulse that may have far-reaching consequences for songbird populations through its effects on avian predators. Seed production in these forests represents only the first of several pulsed events. Secondary pulses emerge as mast-consuming rodents numerically respond to seed production and tertiary pulses emerge as generalist predators, such as raptors, numerically respond to rodents. In turn, these two groups reduce nest productivity and juvenile survivorship 1 and 2 years, respectively, after the initial pulse in seed production. 2. At our study site in south-eastern New York, USA, autumn acorn abundance (primary pulse) largely determines rodent abundance (secondary pulse) the following spring. We tested the hypotheses that the population dynamics of a shrub-nesting passerine (wood thrush Hylocichla mustelina), is influenced by rodents through the: (a) direct effect of predation by rodents; (b) indirect effect of rodents on the abundance of raptors (tertiary pulse); and (c) indirect effect of rodent abundance on raptor diet. The latter specifically hypothesizes that a crash in the rodent population in the wake of region-wide failure of acorn production leads to an extreme diet shift in raptors that increases post-fledging mortality in birds. 3. We conducted a 3-year study to examine variation in wood thrush nest success and fledgling survival, using radio telemetry, across a pulse of rodent abundance (i.e. low, medium and high). We also updated and reanalysed regional wood thrush population growth rates as a function of the annual variation in rodent abundance. 4. Fledgling survivorship, but not nest success, varied in relation to annual rodent abundance. Raptors and eastern chipmunks Tamias striatus were the most commonly identified predators on fledglings. Fledgling survivorship was greatest at intermediate rodent abundance consistent with a shift in raptor diet. Regional rate of wood thrush population growth showed a unimodal relationship with rodent abundance, peaking during years with intermediate rodent abundance. This unimodal pattern was due to wood thrush population growth rates near or below zero during rodent population crashes. 5. The telemetry study, pattern of regional abundance and synchronized population dynamics of coexisting thrushes suggest a common mechanism of behavioural changes in raptors in response to declines in rodent prey, which in turn affects thrush population dynamics.

Exposure pathways and biological receptors: baseline data for the canyon uranium mine, Coconino County, Arizona

USGS Publications Warehouse

Hinck, Jo E.; Linder, Greg L.; Darrah, Abigail J.; Drost, Charles A.; Duniway, Michael C.; Johnson, Matthew J.; Méndez-Harclerode, Francisca M.; Nowak, Erika M.; Valdez, Ernest W.; van Riper, Charles; Wolff, S.W.

2014-01-01

Recent restrictions on uranium mining within the Grand Canyon watershed have drawn attention to scientific data gaps in evaluating the possible effects of ore extraction to human populations as well as wildlife communities in the area. Tissue contaminant concentrations, one of the most basic data requirements to determine exposure, are not available for biota from any historical or active uranium mines in the region. The Canyon Uranium Mine is under development, providing a unique opportunity to characterize concentrations of uranium and other trace elements, as well as radiation levels in biota, found in the vicinity of the mine before ore extraction begins. Our study objectives were to identify contaminants of potential concern and critical contaminant exposure pathways for ecological receptors; conduct biological surveys to understand the local food web and refine the list of target species (ecological receptors) for contaminant analysis; and collect target species for contaminant analysis prior to the initiation of active mining. Contaminants of potential concern were identified as arsenic, cadmium, chromium, copper, lead, mercury, nickel, selenium, thallium, uranium, and zinc for chemical toxicity and uranium and associated radionuclides for radiation. The conceptual exposure model identified ingestion, inhalation, absorption, and dietary transfer (bioaccumulation or bioconcentration) as critical contaminant exposure pathways. The biological survey of plants, invertebrates, amphibians, reptiles, birds, and small mammals is the first to document and provide ecological information on .200 species in and around the mine site; this study also provides critical baseline information about the local food web. Most of the species documented at the mine are common to ponderosa pine Pinus ponderosa and pinyon–juniper Pinus–Juniperus spp. forests in northern Arizona and are not considered to have special conservation status by state or federal agencies; exceptions are the locally endemic Tusayan flameflower Phemeranthus validulus, the long-legged bat Myotis volans, and the Arizona bat Myotis occultus. The most common vertebrate species identified at the mine site included the Mexican spadefoot toad Spea multiplicata, plateau fence lizard Sceloporus tristichus, violetgreen swallow Tachycineta thalassina, pygmy nuthatch Sitta pygmaea, purple martin Progne subis, western bluebird Sialia mexicana, deermouse Peromyscus maniculatus, valley pocket gopher Thomomys bottae, cliff chipmunk Tamias dorsalis, black-tailed jackrabbit Lepus californicus, mule deer Odocoileus hemionus, and elk Cervus canadensis. A limited number of the most common species were collected for contaminant analysis to establish baseline contaminant and radiological concentrations prior to ore extraction. These empirical baseline data will help validate contaminant exposure pathways and potential threats from contaminant exposures to ecological receptors. Resource managers will also be able to use these data to determine the extent to which local species are exposed to chemical and radiation contamination once the mine is operational and producing ore. More broadly, these data could inform resource management decisions on mitigating chemical and radiation exposure of biota at high-grade uranium breccia pipes throughout the Grand Canyon watershed.