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Johnson, B.

Publications and source records attributed to Johnson, B..

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Impact of oral administration of yeast derived complex dietary-polysaccharide on gut inflammation, microbiota composition, and short-chain fatty acid production

Background{beta}-Glucans (BGs), a group of complex non-digestible polysaccharides, are considered to have beneficial health effects due to their immune modulatory properties and are considered as dietary supplements. However, the impact of oral administration of high-pure, well-defined BGs on gut inflammation, and the influence of intestinal microbiota and short-chain fatty acid (SCFA) on the therapeutic effect are largely unknown.\n\nObjectivesThe aim of this study, using a mouse model of chemical induced colitis, was to investigate the impact of oral administration of high-pure yeast BG (YBG) on the susceptibility to colitis, gut immune function, and structure and function of microbiota.\n\nMethodsTo determine the impact of oral administration of YBG on colitis susceptibility, eight week old C57BL/6 (B6) mice were pre-treated with YBG (250 g/mouse/day) and given dextran sulfate sodium (DSS) in drinking water (2.5% w/v) and examined for the symptoms and features of colitis. To assess the effect of oral administration of YBG on gut mucosa and microbiota structure and function, and gut immune regulation, we determined the microbiota composition, fecal SCFA levels, and intestinal T cell phenotype and cytokine secretion. The role of gut microbiota in YBG treatment induced modulation of gut inflammation and immune function were determined in B6 mice treated with broad-spectrum antibiotic cocktail (1 g/L ampicillin, 0.5 g/L vancomycin, 1 g/L neomycin, and 1 g/L metronidazole) in drinking water.\n\nResultsCompared to untreated mice, B6 mice that received prolonged pre-treatment with YBG showed diminished severity of different features of DSS-induced colitis including overall loss of body weight (P<0.001), shortening of colon (P=0.016) and histopathology (P=0.01). However, high-pure YBG has no beneficial effect in terms of suppressing colitis severity when consumed only during the disease stage. Compared to untreated controls, YBG pre-treated mice showed higher regulatory T cell (Treg) frequencies (P=0.043) in the gut mucosa, a shift in the abundance of gut microbiota towards polysaccharide-fermenting bacterial phyla Bacteroides (P=0.049) and Verrucomicrobia (Mean{+/-}SD: control=13.0{+/-}0.33 vs YBG=10.9.7{+/-}0.69) and diminished Firmicutes (P<0.001) and Proteobacteria (P<0.001), and significantly higher production of SCFA such as acetic acid (P=0.016), propionic acid (P=0.026) and butyric acid (P=0.013). Depletion of gut microbiota in YBG-fed B6 mice using broad spectrum antibiotics caused not only elimination of YBG treatment associated SCFA production and Treg increase, but also profound aggravation of the pathological features of colitis such as loss of body weight (P<0.01) and colonic inflammation (P=0.04) compared to that of YBG treated control mice.\n\nConclusionsOral consumption of high-pure BG promotes a healthy gut homeostasis and immune regulation, and minimizes susceptibility to DSS induced colitis in B6 mice in a microbiota (and microbial SCFA) - dependent manner. On the contrary, YBG consumption when gut mucosa and microbiota are compromised not only reverses this protection but also increases the susceptibility to gut inflammation and disease severity, perhaps through its direct interaction with gut immune cells. In conclusion, while YBG consumption may be beneficial for gut health and to prevent gut inflammation in healthy individuals and under intact microbiota, this immune stimulatory dietary supplement may not have any health benefits in individuals with active gut inflammation and could cause adverse effect in those who are on oral antibiotics.

immunology↗

Developmental Changes in Movement Related Brain Activity in Early Childhood

In a previous MEG study of movement-related brain activity in preschool age children, we reported that pre-movement fields and sensorimotor cortex oscillations differed from those typically observed in adults, suggesting that maturation of cortical motor networks is still incomplete by late preschool age (Cheyne et al., 2014). Here we describe the same measurements in an older group of school-aged children (6 to 8 years old) and an adult control group, in addition to repeated recordings in seven children from the original study approximately two years later. Differences were observed both longitudinally within children and between age groups. Pre-movement (readiness) fields were still not present in the oldest children, however both frequency and magnitude of movement-related mu (8-12Hz) and beta (15-30Hz) oscillations demonstrated linear increases with age. In contrast, movement-evoked gamma synchronization demonstrated a step-like transition from low (30-50 Hz) to high (70-90 Hz) narrow-band oscillations, and this occurred at different ages in different children. These data provide novel evidence of linear and non-linear changes in motor cortex oscillations and delayed development of the readiness field throughout early childhood. Individual children showed large differences in maturation of movement-related brain activity, possibly reflecting differing rates of motor development.

neuroscience↗

Functional Connectivity of Corticostriatal Circuitry and Psychosis-Like Experiences in the General Community

BackgroundPsychotic symptoms are proposed lie on a continuum, ranging from isolated psychosis-like experiences (PLEs) in non-clinical populations to frank disorder. Here, we investigate neurobiological correlates of this symptomatologic continuum by examining whether functional connectivity of dorsal corticostriatal circuitry, which is disrupted in patients and high-risk individuals, is associated with the severity of subclinical PLEs.\n\nMethodsA community sample of 672 adults with no history of psychiatric or neurological illnesses completed a battery of seven questionnaires spanning various PLE domains. Principal component analysis (PCA) estimated major dimensions of PLEs from the questionnaires. PCA dimension scores were then correlated with whole-brain voxelwise functional connectivity (FC) maps of the striatum in a subset of 353 participants who completed a resting-state neuroimaging protocol.\n\nResultsPCA identified two dimensions of PLEs accounting for 62.57% of variance in the measures, corresponding to positive and negative PLEs. Reduced FC between the dorsal striatum and prefrontal cortex correlated with higher positive PLEs. Negative PLEs correlated with increased FC between the dorsal striatum and visual and sensorimotor areas. In the ventral corticostriatal system, positive and negative PLEs were both associated with FC between the ventro-rostral putamen and sensorimotor cortices.\n\nConclusionsConsistent with past findings in patients and high-risk individuals, subthreshold positive symptomatology is associated with reduced FC of the dorsal circuit. These findings suggest that the connectivity of this circuit tracks the expression of psychotic phenomena across a broad spectrum of severity, extending from the subclinical domain to clinical diagnosis.

neuroscience↗

Large-scale experimental removal of non-native slider turtles has unexpected consequences on basking behavior for both conspecifics and a native, threatened turtle

The red-eared slider turtle (Trachemys scripta elegans; RES) is one of the worlds most invasive species. Native to the central United States, RES are now widely established in freshwater habitats across the globe, largely due to release of unwanted pets. Laboratory and mesocosm experiments suggest that introduced RES are competitively dominant to native turtles, but such competition remains untested in the wild. Here, we experimentally removed introduced RES to test whether they compete for critical basking habitat with native, threatened western pond turtles (Emys marmorata; WPT), a species being considered for listing under the U.S. Endangered Species Act. Following removal, we found that both the remaining RES as well as WPT altered their basking distribution but in a manner inconsistent with strong interspecific competition. However, these findings suggest strong intraspecific competition for basking sites amongst RES and that interspecific competition between WPT and introduced RES likely occurs at higher RES densities. Our works suggests RES influence the behavior of native species in the wild and indicates that RES removal may be most beneficial at high RES densities. This experiment highlights the importance of considering experimental venue when evaluating competition between native and non-native species and should encourage conservation biologists to treat removal efforts as experiments.

ecology↗

Human hippocampal high-gamma activity during rest periods in a virtual navigation task

In rodents, hippocampal cell assemblies formed during learning of a navigation task are observed to re-emerge during resting (offline) periods, accompanied by high-frequency oscillations (HFOs). This phenomenon is believed to reflect mechanisms for strengthening newly-formed memory traces. Using magnetoencephalography recordings and a beamforming source location algorithm (synthetic aperture magnetometry), we investigated high-gamma (80 - 140 Hz) oscillations in the hippocampal region in 18 human participants during inter-trial rest periods in a virtual navigation task. We found right hippocampal gamma oscillations mirrored the pattern of theta power in the same region during navigation, varying as a function of environmental novelty. Gamma power during inter-trial rest periods was positively correlated with theta power during navigation in the first training set when the environment was new and predicted faster learning in the subsequent training set two where the environment became familiar. These findings provide evidence for human hippocampal reactivation accompanied by high-gamma activities immediately after learning and establish a link between hippocampal high-gamma activities and memory consolidation.

neuroscience↗

MatchMiner: An open source computational platform for real-time matching of cancer patients to precision medicine clinical trials using genomic and clinical criteria

BackgroundMolecular profiling of cancers is now routine at many cancer centers, and the number of precision cancer medicine clinical trials, which are informed by profiling, is steadily rising. Additionally, these trials are becoming increasingly complex, often having multiple arms and many genomic eligibility criteria. Currently, it is a challenging for physicians to match patients to relevant clinical trials using the patients genomic profile, which can lead to missed opportunities. Automated matching against uniformly structured and encoded genomic eligibility criteria is essential to keep pace with the complex landscape of precision medicine clinical trials.\n\nResultsTo meet these needs, we built and deployed an automated clinical trial matching platform called MatchMiner at the Dana-Farber Cancer Institute (DFCI). The platform has been integrated with Profile, DFCIs enterprise genomic profiling project, which contains tumor profile data for >20,000 patients, and has been made available to physicians across the Institute. As no current standard exists for encoding clinical trial eligibility criteria, a new language called Clinical Trial Markup Language (CTML) was developed, and over 178 genomically-driven clinical trials were encoded using this language. The platform is open source and freely available for adoption by other institutions.\n\nConclusionMatchMiner is the first open platform developed to enable computational matching of patient-specific genomic profiles to precision cancer medicine clinical trials. Creating MatchMiner required developing clinical trial eligibility standards to support genome-driven matching and developing intuitive interfaces to support practical use-cases. Given the complexity of tumor profiling and the rapidly changing multi-site nature of genome-driven clinical trials, open source software is the most efficient, scalable, and economical option for matching cancer patients to clinical trials.

bioinformatics↗

Phenology supports the eco-environmental hypothesis for Ebola spillover events

Ebola virus disease outbreaks in animals (including humans and great apes) start with sporadic host switches from unknown reservoir species. The factors leading to such spillover events are little explored. Filoviridae viruses have a wide range of natural hosts and are unstable once outside hosts. Spillover events, which involve the physical transfer of viral particles across species, could therefore be directly promoted by conditions of host ecology and environment. In this report we outline a proof of concept that temporal fluctuations of a set of ecological and environmental variables describing the dynamics of the host ecosystem are able to predict such events of Ebola virus spillover to humans and animals. We compiled a dataset of climate and plant phenology variables and Ebola virus disease spillovers in humans and animals. We identified critical biotic and abiotic conditions for spillovers via multiple regression and neural networks based time series regression. Phenology variables proved to be overall better predictors than climate variables. African phenology variables are not yet available as a comprehensive online resource. Given the likely importance of phenology for forecasting the likelihood of future Ebola spillover events, our results highlight the need for cost-effective transect surveys to supply phenology data for predictive modelling efforts.

epidemiology↗