Gene dynamics of toll-like receptor 4 through a population bottleneck in an insular population of water voles (Arvicola amphibius)

Acknowledgments We would like to thank all colleagues who have contributed to fieldwork and sampling during this study. We would especially like to thank Marius Wenzel and Sandra Telfer for collaboration with different aspects of the study, and Dave Jones and Nat Jones for Bartonella PCR assays. This work was supported by the BBSRC studentship to MKG (BB/J01446X/1) and a NERC studentship to MKO. The research was carried out under project license PPL 40/1813.Peer reviewedPublisher PD

Biodiversity in a forest island: reptiles and amphibians of the West African Togo Hills

Our recent surveys of the herpetological diversity of the West African Togo Hills documented a total of 65 reptile and amphibian species, making Kyabobo National Park one of the most diverse sites surveyed in Ghana. We provide accounts for all species recorded along with photographs to aid in identification. We recorded 26 amphibians, including six new records for Kyabobo N. P., one of which is a record for the Togo Hills. Our collection of reptile species (22 lizards, 16 snakes, and one crocodile) also provides new records and range extensions for Kyabobo N. P., such as the first observation of the dwarf crocodile, Osteolaemus tetraspis. Amphibian species still lacking from our surveys in the Togo Hills include several species that are adapted to fast running water or large closed forests, like the Togo toad, Bufo togoensis and the slippery frog, Conraua derooi. Appropriate habitat for such species still remains in Kyabobo, highlighting the need for additional survey work. We draw attention to the importance of conserving forest stream habitats, which will in turn help ensure the persistence of forest-restricted species. We also highlight those species that may prove most useful for evolutionary studies of West African rain forest biogeography

Ecological traps for large-scale invasive species control: predicting settling rules by recolonising American mink post-culling

1. Management programs worldwide seeking to reduce the density of invasive species must overcome compensatory processes, such as recolonisation by dispersers from non- or partially-controlled areas. However, the scale and drivers of dispersal in such context are poorly known. 2. We investigated the dispersal patterns of American mink reinvading 20,000 km2 of their non-native range following a culling programme led by citizen conservationists. Using multinomial models, we estimated the contributions of density dependence, proxies for patch quality and distance from the natal patch on mink settlement. 3. Seventy seven percent of mink dispersed and settled in non-natal patches. Dispersal distances were large with settlement probabilities only reduced by half at ~60 km, and 20% of mink dispersing > 80 km. 4. Females were more attracted to patches of high quality mostly found at low altitudes. Males favoured patches with intermediate current densities and consistently high quality. Synthesis and applications. Predicting post-culling recolonisation by a non-native mobile carnivore over large spatial scale could was using information on relative densities obtained during management interventions largely implemented by citizen conservationists. This was made possible by a monitoring component designed to feed into the adaptive management process implemented in this project. High mink mobility dictates management should take place on very large spatial scales to minimise reinvasion from un-controlled areas. Both males and females were attracted to patches that were previously consistently occupied, providing a degree of predictability to patterns of recolonisation. Targeting control to patches attractive to immigrant mink requires knowledge of current mink density. Creating so-called ecological traps in the face of ongoing immigration from peripheral areas provides a promising tool to effectively control mobile invasive species

Cosmological Parameter Estimation Using 21 cm Radiation from the Epoch of Reionization

A number of radio interferometers are currently being planned or constructed to observe 21 cm emission from reionization. Not only will such measurements provide a detailed view of that epoch, but, since the 21 cm emission also traces the distribution of matter in the Universe, this signal can be used to constrain cosmological parameters at 6 < z < 20. The sensitivity of an interferometer to the cosmological information in the signal may depend on how precisely the angular dependence of the 21 cm 3-D power spectrum can be measured. Utilizing an analytic model for reionization, we quantify all the effects that break the spherical symmetry of the 3-D 21 cm power spectrum and produce physically motivated predictions for this power spectrum. We find that upcoming observatories will be sensitive to the 21 cm signal over a wide range of scales, from larger than 100 to as small as 1 comoving Mpc. We consider three methods to measure cosmological parameters from the signal: (1) direct fitting of the density power spectrum to the signal, (2) using only the velocity field fluctuations in the signal, (3) looking at the signal at large enough scales such that all fluctuations trace the density field. With the foremost method, the first generation of 21 cm observations should moderately improve existing constraints on cosmological parameters for certain low-redshift reionization scenarios, and a two year observation with the second generation interferometer MWA5000 can improve constraints on Omega_w, Omega_m h^2, Omega_b h^2, Omega_nu, n_s, and alpha_s. If the Universe is substantially ionized by z = 12 or if spin temperature fluctuations are important, we show that it will be difficult to place competitive constraints on cosmological parameters with any of the considered methods.Comment: 20 pages, 12 figures, accepted by Ap

Molecular ecology and risk factors for third-generation cephalosporin-resistant Escherichia coli carriage by dogs living in urban and nearby rural settings

OBJECTIVES: To compare faecal third-generation cephalosporin-resistant (3GC-R) Escherichia coli isolates from dogs living in a city and in a rural area ∼30 km away; to compare isolates from dogs, cattle and humans in these regions; and to determine risk factors associated with 3GC-R E. coli carriage in these two cohorts of dogs. METHODS: Six hundred dogs were included, with faecal samples processed to recover 3GC-R E. coli using 2 mg/L cefotaxime. WGS was by Illumina and risk factor analyses were by multivariable linear regression using the results of an owner-completed survey. RESULTS: 3GC-R E. coli were excreted by 20/303 rural and 31/297 urban dogs. The dominant canine 3GC-R ST was ST963 (bla(CMY-2)), which also accounted for 25% of CMY-2-producing E. coli in humans. Phylogenetic overlap between cattle and rural dog CTX-M-14-producing E. coli ST117 was observed as well as acquisition of pMOO-32-positive E. coli ST10 by a rural dog, a plasmid common on cattle farms in the area. Feeding raw meat was associated with carrying 3GC-R E. coli in rural dogs, but not in urban dogs, where swimming in rivers was a weak risk factor. CONCLUSIONS: Given clear zoonotic potential for resistant canine E. coli, our work suggests interventions that may reduce this threat. In rural dogs, carriage of 3GC-R E. coli, particularly CTX-M producers, was phylogenetically associated with interaction with local cattle and epidemiologically associated with feeding raw meat. In urban dogs, sources of 3GC-R E. coli appear to be more varied and include environments such as rivers

Hypoxia alters posterior cingulate cortex metabolism during a memory task: a 1H fMRS study

Environmental hypoxia (fraction of inspired oxygen (F(I)O(2)) ~ 0.120) is known to trigger a global increase in cerebral blood flow (CBF). However, regionally, a heterogeneous response is reported, particularly within the posterior cingulate cortex (PCC) where decreased CBF is found after two hours of hypoxic exposure. Furthermore, hypoxia reverses task-evoked BOLD signals within the PCC, and other regions of the default mode network, suggesting a reversal of neurovascular coupling. An alternative explanation is that the neural architecture supporting cognitive tasks is reorganised. Therefore, to confirm if this previous result is neural or vascular in origin, a measure of neural activity that is not haemodynamic-dependant is required. To achieve this, we utilised functional magnetic resonance spectroscopy to probe the glutamate response to memory recall in the PCC during normoxia (F(I)O(2) = 0.209) and after two hours of poikilocapnic hypoxia (F(I)O(2) = 0.120). We also acquired ASL-based measures of CBF to confirm previous findings of reduced CBF within the PCC in hypoxia. Consistent with previous findings, hypoxia induced a reduction in CBF within the PCC and other regions of the default mode network. Under normoxic conditions, memory recall was associated with an 8% increase in PCC glutamate compared to rest (P = 0.019); a change which was not observed during hypoxia. However, exploratory analysis of other neurometabolites showed that PCC glucose was reduced during hypoxia compared to normoxia both at rest (P = 0.039) and during the task (P = 0.046). We conclude that hypoxia alters the activity-induced increase in glutamate, which may reflect a reduction in oxidative metabolism within the PCC. The reduction in glucose in hypoxia reflects continued metabolism, presumably by non-oxidative means, without replacement of glucose due to reduced CBF

The impact of carbon addition on the organisation of rhizosheath of chickpea

Spatio-temporal development of the rhizosheath during root elongation has the potential to modify the function of the rhizosphere under abiotic stress. We quantified the impact of carbon (i.e. glucose) addition on the development and function of rhizosheath of drought tolerant and sensitive chickpea (Cicer arietinum L.) by integrating soil pore volume obtained from X-ray microtomography (µCT), soil physical and microbial respiration measures, and measurements of root traits. Structural equation modelling indicated the feedback mechanisms between added carbon, root traits, pore geometry, and soil functions differed between the cultivars in a fashion congruent with the concept of soil as a self-organising system that interacts with an introduced root system. The drought tolerant cultivar partitioned more photosynthetically fixed carbon to the roots, had more root hairs and more porous rhizosheath, as compared with the sensitive cultivar

Use of alternative bioassays to explore the impact of pyrethroid resistance on LLIN efficacy

Background: There is substantial concern that the spread of insecticide resistance will render long-lasting insecticide-treated nets (LLINs) ineffective. However, there is limited evidence supporting a clear association between insecticide resistance and malaria incidence or prevalence in the field. We suggest that one reason for this disconnect is that the standard WHO assays used in surveillance to classify mosquito populations as resistant are not designed to determine how resistance might impact LLIN efficacy. The standard assays expose young, unfed female mosquitoes to a diagnostic insecticide dose in a single, forced exposure, whereas in the field, mosquitoes vary in their age, blood-feeding status, and the frequency or intensity of LLIN exposure. These more realistic conditions could ultimately impact the capacity of "resistant" mosquitoes to transmit malaria. Methods: Here, we test this hypothesis using two different assays that allow female mosquitoes to contact a LLIN as they host-seek and blood-feed. We quantified mortality after both single and multiple exposures, using seven different strains of Anopheles ranging in pyrethroid resistance intensity. Results: We found that strains classified as 1×-resistant to the pyrethroid insecticide deltamethrin in the standard WHO assay exhibited > 90% mortality over 24 h following more realistic LLIN contact. Mosquitoes that were able to blood-feed had increased survival compared to their unfed counterparts, but none of the 1×-resistant strains survived for 12 days post-exposure (the typical period for malaria parasite development within the mosquito). Mosquitoes that were 5×- and 10×-resistant (i.e. moderate or high intensity resistance based on the WHO assays) survived a single LLIN exposure well. However, only about 2-3% of these mosquitoes survived multiple exposures over the course of 12 days and successfully blood-fed during the last exposure. Conclusions: These results suggest that the standard assays provide limited insight into how resistance might impact LLIN efficacy. In our laboratory setting, there appears little functional consequence of 1×-resistance and even mosquitoes with moderate (5×) or high (10×) intensity resistance can suffer substantial reduction in transmission potential. Monitoring efforts should focus on better characterizing intensity of resistance to inform resistance management strategies and prioritize deployment of next generation vector control products.[Figure not available: see fulltext.

Molecular Epidemiology of Escherichia coli Producing CTX-M and pAmpC β-Lactamases from Dairy Farms Identifies a Dominant Plasmid Encoding CTX-M-32 but No Evidence for Transmission to Humans in the Same Geographical Region

Third-generation cephalosporin resistance (3GC-R) in Escherichia coli is a rising problem in human and farmed-animal populations. We conducted whole-genome sequencing analysis of 138 representative 3GC-R isolates previously collected from dairy farms in southwest England and confirmed by PCR to carry acquired 3GC-R genes. This analysis identified bla(CTX-M) (131 isolates encoding CTX-M-1, -14, -15, -and 32 and the novel variant CTX-M-214), bla(CMY-2) (6 isolates), and bla(DHA-1) (1 isolate). A highly conserved plasmid was identified in 73 isolates, representing 27 E. coli sequence types. This novel ∼220-kb IncHI2 plasmid carrying bla(CTX-M-32) was sequenced to closure and designated pMOO-32. It was found experimentally to be stable in cattle and human transconjugant E. coli even in the absence of selective pressure and was found by multiplex PCR to be present on 26 study farms representing a remarkable range of transmission over 1,500 square kilometers. However, the plasmid was not found among human urinary E. coli isolates we recently characterized from people living in the same geographical location, collected in parallel with farm sampling. There were close relatives of two bla(CTX-M) plasmids circulating among eight human and two cattle isolates, and a closely related bla(CMY-2) plasmid was found in one cattle and one human isolate. However, phylogenetic evidence of recent sharing of 3GC-R strains between farms and humans in the same region was not found. IMPORTANCE Third-generation cephalosporins (3GCs) are critically important antibacterials, and 3GC resistance (3GC-R) threatens human health, particularly in the context of opportunistic pathogens such as Escherichia coli. There is some evidence for zoonotic transmission of 3GC-R E. coli through food, but little work has been done examining possible transmission via interaction of people with the local near-farm environment. We characterized acquired 3GC-R E. coli found on dairy farms in a geographically restricted region of the United Kingdom and compared these with E. coli from people living in the same region, collected in parallel. While there is strong evidence for recent farm-to-farm transmission of 3GC-R strains and plasmids—including one epidemic plasmid that has a remarkable capacity to be transmitted—there was no evidence that 3GC-R E. coli found on study farms had a significant impact on circulating 3GC-R E. coli strains or plasmids in the local human population