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On 3 August 2018, a single specimen of the Dusky-footed Woodrat, Neotoma fuscipes, was collected as the 1st occurrence of the species in Nevada.

Understanding host-ectoparasite relationships can inform the conservation and management of host species and their potential role in the transmission of zoonotic pathogens. Although the dusky-footed woodrat (Neotoma fuscipes) is a recognized reservoir of several important vector-borne disease agents in California, it remains unknown whether its sister species, the big-eared woodrat (N. macrotis), serves a similar role. To evaluate the effects of season (spring and fall) and host-associated attributes on ectoparasite infestations, we counted ticks (Acari: Ixodidae) and botfly warbles (Diptera: Oestridae) on big-eared woodrats live-trapped in central-coastal California oak woodland during 2005-2013. We detected these parasites on 13.5% (n = 589) of the 4,367 individual woodrats that we captured. Tick and warble intensity (number per woodrat) and prevalence (proportion of woodrats infected) were higher on male than female woodrats. Adults hosted 2.5 times more ticks and a third higher prevalence of ticks than juvenile woodrats. In sharp contrast, botfly warble intensity and prevalence were six times greater on juveniles. Additionally, the smallest juveniles (50-90 g) hosted the most warbles whereas the largest adults (215-343 g) harbored the most ticks. During our study, tick intensity and prevalence were higher on big-eared woodrats in spring whereas these metrics were higher for warbles in fall. The big-eared woodrat might play an important role as a reservoir host of zoonotic disease agents in Southern California oak woodlands.

Understanding how species have responded to past climate change may help refine projections of how species and biotic communities will respond to future change. Here, we integrate estimates of genome-wide genetic variation with demographic and niche modeling to investigate the historical biogeography of an important ecological engineer: the dusky-footed woodrat, Neotoma fuscipes. We use RADseq to generate a genome-wide dataset for 71 individuals from across the geographic distribution of the species in California. We estimate population structure using several model-based methods and infer the demographic history of regional populations using a site frequency spectrum-based approach. Additionally, we use ecological niche modeling to infer current and past (Last Glacial Maximum) environmental suitability across the species’ distribution. Finally, we estimate the directionality and possible spatial origins of regional population expansions. Our analyses indicate this species is subdivided into three regionally distinct populations, with the deepest divergence occurring ~1.7 million years ago across the modern-day San Francisco-Bay Delta region; a common biogeographic barrier for the flora and fauna of California. Our models of environmental suitability through time coincide with our estimates of population expansion, with relative long-term stability in the southern portion of the range, and more recent expansion into the northern end of the range. Our study illustrates how the integration of genome-wide data with spatial and demographic modeling can reveal the timing and spatial extent of historic events that determine patterns of biotic diversity and may help predict biotic response to future change.

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.

Identifying the effects of human‐driven perturbations, such as species introductions or habitat fragmentation, on the ecology and dynamics of infectious disease has become a central focus of disease ecologists. Yet, comparatively little is known about how the ecology of zoonotic disease systems responds to catastrophic disturbance events such as wildfires or hurricanes. In California, wildfire disturbance is centrally important to the ecology of forests and oak woodlands and is projected to increase in severity and extent under future climate change. Here, taking advantage of a recent wildfire as a natural experiment, we investigate the effects of wildfire disturbance on the ecology of tick‐borne disease in California oak woodlands. We find that wildfire leads to elevated abundance of questing adult and nymphal western blacklegged ticks (Ixodes pacificus) in the year following fire, relative to unburned control plots, but that vector tick abundance declines sharply in the following two years. We find that the abundance of non‐competent hosts (western fence lizards) for the Lyme disease bacterium is unaffected by fire, but that the abundances of important reproductive hosts (deer) for ticks and reservoir hosts (dusky‐footed woodrats) for tick‐borne pathogens are significantly negatively affected by fire. We found ticks and hosts infected with Borrelia burgdorferi sensu lato only within the burn extent and only in the year following the wildfire, though rates of infection were exceedingly low representing little risk to humans. In aggregate, due to the differential effects of this catastrophic disturbance event on different key host species and vector tick life stages in the transmission of tick‐borne pathogens, we conclude that wildfire may potentially increase risk of exposure to vector ticks in the first year following wildfire in California, but that risk is dampened substantially in following years due to tick population declines and loss of key reservoir hosts from the system.

Bartonella spp. are endemic in wild rodents in many parts of the world. A study conducted in two northern California counties (Sonoma and Yolo) sampling California ground squirrels (Otospermophilus beecheyi) and four other rodent species (Peromyscus maniculatus, P. boylii, P. truei and Neotoma fuscipes) led to the isolation of small Gram-negative bacilli which were identified as Bartonella spp. based on colony morphology, polymerase chain reaction–restriction fragment length polymorphism (PCR–RFLP) and partial gene sequencing. Overall, Bartonella spp. were isolated from the blood of 71% (32/45) of the ground squirrels and one third (22/66) of the other rodents. PCR–RFLP analysis of the gltA and 16S rRNA genes yielded seven unique profiles, four for the ground squirrels and three for the other rodents. Isolates from each PCR–RFLP profiles were submitted for partial sequencing. Ground squirrel isolates were most closely related to B. washoensis, whereas the other rodent isolates were closest to B. vinsonii subsp. vinsonii and B. vinsonii subsp. arupensis. Two of these three species or subspecies are known zoonotic agents.

New research suggests that birds could be involved in the spread of Lyme disease in the western US (PLoS ONE 2015; doi:10.1371/journal.pone.0118146). Lyme disease, caused by a form of the bacterium Borrelia burgdorferi, is spread to humans by infected ticks, and manifests initially as a reddish rash, fever, fatigue, chills, jointpain, and sometimes neurological complications, often months after initial infection. In northwestern California, where the research was performed, the culprit is the western black-legged tick (Ixodes pacificus). Although it infests many vertebrate species, the dusky-footed woodrat (Neotoma fuscipes) and the western gray squirrel (Sciurus griseus) are widely regarded as the primary reservoirs of the disease-carrying bacterium in the region. However, epidemiologists may now want to pay more attention to birds.

Invasive species, including pathogens, can have important effects on local ecosystems, including indirect consequences on native species. This study focuses on the effects of an invasive plant pathogen on a vertebrate community and Ixodes pacificus, the vector of the Lyme disease pathogen (Borrelia burgdorferi) in California. Phytophthora ramorum, the causative agent of sudden oak death, is a nonnative pathogen killing trees in California and Oregon. We conducted a multi-year study using a gradient of SOD-caused disturbance to assess the impact on the dusky-footed woodrat (Neotoma fuscipes) and the deer mouse (Peromyscus maniculatus), two reservoir hosts of B. burgdorferi, as well as the impact on the Columbian black-tailed deer (Odocoileus hemionus columbianus) and the western fence lizard (Sceloporus occidentalis), both of which are important hosts for I. pacificus but are not pathogen reservoirs. Abundances of P. maniculatus and S. occidentalis were positively correlated with greater SOD disturbance, whereas N. fuscipes abundance was negatively correlated. We did not find a change in space use by O. hemionus. Our data show that SOD has a positive impact on the density of nymphal ticks, which is expected to increase the risk of human exposure to Lyme disease all else being equal. A positive correlation between SOD disturbance and the density of nymphal ticks was expected given increased abundances of two important hosts: deer mice and western fence lizards. However, further research is needed to integrate the direct effects of SOD on ticks, for example via altered abiotic conditions with host-mediated indirect effects.

Livestock grazing is common and widespread throughout North America, yet few studies have evaluated its effects on small mammals. We studied small mammals in mixed-conifer forests and oak woodlands on the Cascade–Siskiyou National Monument in southern Oregon, USA, to 1) evaluate small-mammal microhabitat associations, 2) identify riparian-associated species, and 3) test the hypothesis that grazing does not influence small mammals after accounting for microhabitat associations. We live-trapped small mammals at 16 study sites and used logistic regression to model probability of capture on measured habitat characteristics at each trap station and to evaluate effects of grazing. Over 2 years, we trapped 1,270 individual small mammals representing 18 species. Odds of capturing western harvest mice (Reithrodontomys megalotis), dusky-footed woodrats (Neotoma fuscipes), and long-tailed voles (Microtus longicaudus) were lower (P < 0.05) on heavily versus lightly grazed sites. Odds of capture for deer mice (Peromyscus maniculatus) were lower (P < 0.05) on heavily versus lightly grazed sites in woodlands, but there was less difference in the odds of capture between grazing intensities in conifer forests. Odds of capturing Townsend's vole (Microtus townsendii) were lower on heavily versus lightly grazed riparian areas. Western harvest mice, long-tailed voles, and Townsend's voles were associated with, but not obligated to, riparian areas. Deer mice were ubiquitous, but captures were also higher (P < 0.05) in riparian areas compared with uplands. Siskiyou chipmunks (Tamias siskiyou) and piñon mice (Peromyscus truei) were associated with uplands (P < 0.05) rather than riparian areas. Trowbridge's shrews (Sorex trowbridgii), Siskiyou chipmunks, and bushy-tailed woodrats (Neotoma cinerea) were positively associated with coarse woody debris. Land managers should anticipate that small mammals associated with herbaceous or shrub cover, particularly in riparian areas, will decline when cattle remove this cover.