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Fox, S.

Publications and source records attributed to Fox, S..

5 recordsLinked to original sources

Prediction of Choice from Competing Mechanosensory and Choice-Memory Cues During Active Tactile Decision Making

Perceptual decision making is an active process where animals move their sense organs to extract task-relevant information. To investigate how the brain translates sensory input into decisions during active sensation, we developed a mouse active touch task where the mechanosensory input can be precisely measured and that challenges animals to use multiple mechanosensory cues. Mice were trained to localise a pole using a single whisker and to report their decision by selecting one of three choices. Using high-speed imaging and machine vision we estimated whisker-object mechanical forces at millisecond resolution. Mice solved the task by a sensory-motor strategy where both the strength and direction of whisker bending were informative cues to pole location. We found competing influences of immediate sensory input and choice memory on mouse choice. On correct trials, choice could be predicted from the direction and strength of whisker bending, but not from previous choice. In contrast, on error trials, choice could be predicted from previous choice but not from whisker bending. This study shows that animal choices during active tactile decision making can be predicted from mechanosenory and choice-memory signals; and provides a new task, well-suited for future study of the neural basis of active perceptual decisions.\n\nSIGNIFICANCE STATEMENTDue to the difficulty of measuring the sensory input to moving sense organs, active perceptual decision making remains poorly understood. The whisker system provides a way forward since it is now possible to measure the mechanical forces due to whisker-object contact during behaviour. Here we train mice in a novel behavioural task that challenges them to use rich mechanosensory cues, but can be performed using one whisker and enables task-relevant mechanical forces to be precisely estimated. This approach enables rigorous study of how sensory cues translate into action during active, perceptual decision making. Our findings provide new insight into active touch and how sensory/internal signals interact to determine behavioural choices.

animal behavior and cognition

Forecasting seasonal influenza in the U.S.: A collaborative multi-year, multi-model assessment of forecast performance

Influenza infects an estimated 9 to 35 million individuals each year in the United States and is a contributing cause for between 12,000 and 56,000 deaths annually. Seasonal outbreaks of influenza are common in temperate regions of the world, with highest incidence typically occurring in colder and drier months of the year. Real-time forecasts of influenza transmission can inform public health response to outbreaks. We present the results of a multi-institution collaborative effort to standardize the collection and evaluation of forecasting models for influenza in the US for the 2010/2011 through 2016/2017 influenza seasons. For these seven seasons, we assembled weekly real-time forecasts of 7 targets of public health interest from 22 different models. We compared forecast accuracy of each model relative to a historical baseline seasonal average. Across all regions of the US, over half of the models showed consistently better performance than the historical baseline when forecasting incidence of influenza-like illness 1, 2 and 3 weeks ahead of available data and when forecasting the timing and magnitude of the seasonal peak. In some regions, delays in data reporting were strongly and negatively associated with forecast accuracy. More timely reporting and an improved overall accessibility to novel and traditional data sources are needed to improve forecasting accuracy and its integration with real-time public health decision-making.

epidemiology

A highly conserved complete accessory Escherichia coli type III secretion system 2 is widespread in bloodstream isolates of the ST69 lineage

Bacterial type III secretion systems (T3SS) play an important role in pathogenesis of Gram-negative infections. Enteropathogenic and enterohemorrhagic Escherichia coli contain a well-defined T3SS but in addition a second T3SS termed E. coli T3SS 2 (ETT2) has been described in a number of strains of E. coli. The majority of E. coli contain elements of a genetic locus encoding ETT2, but which has undergone significant mutational attrition rendering it without predicted function. Only a very few strains have been reported to contain an intact ETT2 locus. To investigate the occurrence of the ETT2 locus in strains of human pathogenic E. coli, we carried out genomic sequencing of 162 isolates obtained from patient blood cultures in Scotland. We found that all 26 ST69 isolates from this collection contained an intact ETT2 together with an associated eip locus which encodes putative secreted ETT2 effectors as well as eilA, a gene encoding a putative transcriptional regulator of ETT2 associated genes. Using a reporter gene for eilA activation, we defined conditions under which this gene was differentially activated. However, comparison of secreted proteins from ST69 strains under high and low eilA activation failed to identify any ETT2 secreted substrates. The conservation of the genes encoding ETT2 in human pathogenic ST69 strains strongly suggests it has functional importance in infection, although its exact functional role remains obscure.\n\nImportanceOne of the commonest bacteria causing bloodstream infections in humans is Escherichia coli, which has a significant morbidity and mortality. Better understating of the mechanisms by which this microbe can invade blood could lead to more effective prevention and treatment. One mechanism by which some strains cause disease is by elaboration of a specialized secretion system, the type III secretion system (T3SS), encoded by the locus of enterocyte effacement (LEE). In addition to this well-defined T3SS, a second T3SS has been found in some E. coli strains termed E. coli type III secretion system 2 (ETT2). Most strains carry elements of the ETT2 locus, but with significant mutational attrition rendering it functionless. The significance of our work is that we have discovered that human bloodstream isolates of E. coli of sequence type 69 contain a fully intact ETT2 and associated genes, strongly suggesting its functional importance in human infection.

microbiology

Evidence for sex microchromosomes in a species with temperature-influenced sex determination (Crotaphytus collaris)

The characteristics of a species evolution can be powerfully influenced by its mode of sex determination and, indeed, sex determination mechanisms vary widely among eukaryotes. In non-avian reptiles, sex was long thought to be determined bimodally, either by temperature or genetics. Here we add to the growing evidence that sex determining mechanisms in reptiles fall along a continuum rather than existing as a mutually exclusive dichotomy. Using qPCR, we demonstrate that the lizard Crotaphytus collaris possesses sex-based gene dosage consistent with the presence of sex michrochromosomes, despite that extreme incubation temperatures can influence hatchling sex ratio. Our results suggest a temperature override that switches genotypic females to phenotypic males at high and low temperatures.

ecology

fingertipsR: an R package for accessing population health information in England

Fingertips is a major public repository of population and public health indicators for England, built and maintained by Public Health England (PHE). The indicators are arranged in thematic or topical profiles covering a wide range of health issues including:\n\nO_LIbroad Health Profiles\nC_LIO_LIspecific topics such as liver disease and end of life\nC_LIO_LIrisk factors including alcohol, smoking, physical activity\nC_LIO_LIpopulation healthcare health services data for general practices, cancer, mental health\nC_LIO_LIhealth protection data on general health protection, TB, antimicrobial resistance\nC_LIO_LIlifecourse profiles for younger and older people\nC_LIO_LImortality and morbidity.\nC_LI\n\nFingertips makes data available for more than 1,500 indicators spread across more than 70 profiles. The data can be accessed from https://fingertips.phe.org.uk where the data are visualised in variety of ways including heatmaps, choropleth maps, line charts for trends, \"spine\" charts (graphs which compare multiple indicators for a single geographic area), scatter plots and so on. Data can be obtained as downloads or figures which can be exported or cut and paste into reports and slides.\n\nA recent addition to the Fingertips platform was an Automated Programming Interface (API) to enable developers to re-use the data. To facilitate access to Fingertips data we have designed an R package - fingertipsR - enabling rapid and easy access to the data by analysts and data scientists. The package is available from the Comprehensive R Archive Network (CRAN).\n\nThis paper describes the fingertipsR package which provides tools accessing a wide range of public health data for England from the Fingertips website using its API.

epidemiology