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Results for “Neuroscience”

Search indexed bioRxiv preprints in genomics, neuroscience, cell biology and bioinformatics. Read source abstracts and check manuscript versions; preprints are not peer reviewed.

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At least 1,189 records · Page 66Linked to original sources
bioRxiv2016

Distinct cAMP signaling modalities mediate behavioral flexibility and consolidation of social status in Drosophila aggression.

Social rituals, like male-male aggression in Drosophila, are often stereotyped and the component behavioral patterns modular. The likelihood of transition from one behavioral pattern to another is malleable by experience and confers flexibility to the behavioral repertoire. Experience-dependent modification of innate aggressive behavior in flies alters fighting strategies during fights and establishes dominant-subordinate relationships. Dominance hierarchies resulting from agonistic encounters are consolidated to longer lasting social status-dependent behavioral modifications resulting in a robust loser effect.\n\nWe show that cyclic adenosine monophosphate (cAMP) dynamics regulated by the calcium/calmodulin-dependent adenylyl cyclase, Rut and the cAMP phosphodiesterase, Dnc but not the Amn gene product, in specific neuronal groups of the mushroom body and central complex, mediate behavioral plasticity necessary to establish dominant- subordinate relationships. rut and dnc mutant flies are unable to alter fighting strategies and establish dominance relationships during agonistic interactions. This real-time flexibility during a fight is independent of changes in aggression levels. Longer-term consolidation of social status in the form of a loser effect, however, requires additional Amn-dependent inputs to cAMP signaling and involves a circuit-level association between the /{beta} and {gamma} neurons of the mushroom body.\n\nOur findings implicate cAMP signaling in mediating plasticity of behavioral patterns in aggressive behavior and in the generation of a temporally stable memory trace that manifests as a loser effect.\n\nSUMMARY STATEMENTPhasic recruitment of different cAMP signaling modalities in specific neuronal groups lead to the formation of temporally distinct components of learning and memory in fly aggression.

neuroscience↗
bioRxiv2016

Hydrogen Bond Networks and HydrophobicEffects in the Amyloid β30-35 Chain in Water: A Molecular Dynamics Study

We study the conformational landscape of the C-terminal fragment of the Amyloid protein A{beta}30-35 in water using well-tempered metadynamics simulations and find that it resembles an intrinsically disordered protein. The conformational fluctuations of the protein are facilitated by a collective reorganization of both protein and water hydrogen bond networks, combined with electrostatic interactions between termini as well as hydrophobic interactions of the side chains. The stabilization of hydrophobic interactions in one of the conformers involves a collective collapse of the sidechains along with a squeeze out of water sandwiched in between. The charged N and C termini play a critical role in stabilizing different types of protein conformations including those involving contact ion salt-bridges as well as solvent mediated interactions of the termini and amide backbone. We examine this by probing the distribution of directed water wires forming the hydrogen bond network enveloping the polypeptide. Water wires and their fluctuations form an integral part of structural signature of the protein conformation.

neuroscience↗
bioRxiv2016

Retrotransposon Activation Contributes to Neurodegeneration in a DrosophilaTDP-43 Model of ALS.

Amyotrophic lateral sclerosis (ALS) and frontotemporal lobar degeneration (FTLD) are two incurable neurodegenerative disorders that exist on a symptomological spectrum and share both genetic underpinnings and pathophysiological hallmarks. Functional abnormality of TAR DNA-binding protein 43 (TDP-43), an aggregation-prone RNA and DNA binding protein, is observed in the vast majority of both familial and sporadic ALS cases and in [~]40% of FTLD cases, but the cascade of events leading to cell death are not understood. We have expressed human TDP-43 (hTDP-43) in Drosophila neurons and glia, a model that recapitulates many of the characteristics of TDP-43-linked human disease including protein aggregation pathology, locomotor impairment, and premature death. We report that such expression of hTDP-43 impairs small interfering RNA (siRNA) silencing, which is the major post-transcriptional mechanism of retrotransposable element (RTE) control in somatic tissue. This is accompanied by de-repression of a panel of both LINE and LTR families of RTEs, with somewhat different elements being active in response to hTDP-43 expression in glia versus neurons. hTDP-43 expression in glia causes an early and severe loss of control of a specific RTE, the endogenous retrovirus (ERV) gypsy. We demonstrate that gypsy causes the degenerative phenotypes in these flies because we are able to rescue the toxicity of glial hTDP-43 either by genetically blocking expression of this RTE or by pharmacologically inhibiting RTE reverse transcriptase activity. Moreover, we provide evidence that activation of DNA damage-mediated programmed cell death underlies both neuronal and glial hTDP-43 toxicity, consistent with RTE-mediated effects in both cell types. Our findings suggest a novel mechanism in which RTE activity contributes to neurodegeneration in TDP-43-mediated diseases such as ALS and FTLD.\n\nAUTHOR SUMMARYFunctional abnormality of TAR DNA-binding protein 43 (TDP-43), an aggregation-prone RNA and DNA binding protein, is observed in the vast majority of both familial and sporadic ALS cases and in [~]40% of FTLD cases, and mutations in TDP-43 are causal in a subset of familial ALS cases. Although cytoplasmic inclusions of this mostly nuclear protein are a hallmark of the disease, the cascade of events leading to cell death are not understood. We demonstrate that expression of human TDP-43 (hTDP-43) in Drosophila neurons or glial cells, which results in toxic cytoplasmic accumulation of TDP-43, causes broad expression of retrotransposons. In the case of glial hTDP-43 expression, the endogenous retrovirus (ERV) gypsy causally contributes to degeneration because inhibiting gypsy genetically or pharmacologically is sufficient to rescue the phenotypic effects. Moreover, we demonstrate that activation of DNA damage-mediated programmed cell death underlies hTDP-43 and gypsy mediated toxicity. Finally, we find that hTDP-43 pathology impairs small interfering RNA silencing, which is an essential system that normally protects the genome from RTEs. These findings suggest a novel mechanism in which a storm of retrotransposon activation drives neurodegeneration in TDP-43 mediated diseases such as ALS and FTLD.

neuroscience↗
bioRxiv2016

Behavioral evidence for feedback gain control by the inhibitory microcircuit of the substantia nigra

We recently demonstrated that the collaterals of substantia nigra (SN) projection neurons can implement divisive feedback inhibition, or gain control (Brown et al., 2014). While in vivo recordings were consistent with divisive feedback inhibition, a causal test was lacking. A gain control model of the nigral microcircuit implies behavioral effects of disrupting intranigral inhibition that are distinct from previous functional models. To test the model predictions experimentally, we develop a chemogenetic approach that can selectively suppress synaptic release within the substantial nigra without affecting the propagation of activity to extranigral targets. We observe behavioral consequences of suppressing intranigral inhibition that are uniquely consistent with a gain control model. Our data further suggest that if endogenous metabotropic signaling can modulate intranigral synapses, this would provide a circuit mechanism for an exploitation/exploration trade-off in which the timing and variability of goal-directed movements are controlled independently of changes in action.

neuroscience↗
bioRxiv2016

Estimation of time-varying decision thresholds from the choice and reaction times without assumptions on the shape

When a decision is made based on a series of samples of evidence, the threshold for decision may change over time. Here we propose a fast heuristic algorithm that estimates the time-varying thresholds without making an assumption on their shape. The algorithm gives an approximate best estimate of the time-varying thresholds for all time considered when all other parameters are fixed. The algorithm outperforms conventional methods that gradually adjust the threshold estimates during fitting, when fitting time is limited.

neuroscience↗
bioRxiv2016

Structural covariance networks across the lifespan, from 6-94 years of age

Structural covariance examines covariation of grey matter morphology between brain regions and across individuals. Despite significant interest in the influence of age on structural covariance patterns, no study to date has provided a complete lifespan perspective--bridging childhood with early, middle, and late adulthood--on the development of structural covariance networks. Here, we investigate the lifespan trajectories of structural covariance in six canonical neurocognitive networks: default, dorsal attention, frontoparietal control, somatomotor, ventral attention, and visual. By combining data from five open access data sources, we examine the structural covariance trajectories of these networks from 6-94 years of age in a sample of 1580 participants. Using partial least squares, we show that structural covariance patterns across the lifespan exhibit two significant, age-dependent trends. The first trend is a stable pattern whose integrity declines over the lifespan. The second trend is an inverted-U that differentiates young adulthood from other age groups. Hub regions, including posterior cingulate cortex and anterior insula, appear particularly influential in the expression of this second age-dependent trend. Overall, our results suggest that structural covariance provides a reliable definition of neurocognitive networks across the lifespan and reveal both shared and network-specific trajectories.

neuroscience↗
bioRxiv2016

Multimodal representations of person identity individuated with fMRI

AbtractRecognizing the identity of a person is fundamental to guide social interactions. We can recognize the identity of a person looking at her face, but also listening to her voice. An important question concerns how visual and auditory information come together, enabling us to recognize identity independently of the modality of the stimulus. This study reports converging evidence across univariate contrasts and multivariate classification showing that the posterior superior temporal sulcus (pSTS), previously known to encode polymodal visual and auditory representations, encodes information about person identity with invariance within and across modality. In particular, pSTS shows selectivity for faces, selectivity for voices, classification of face identity across image transformations within the visual modality, and classification of person identity across modality.

neuroscience↗
bioRxiv2016

Temporal anticipation based on memory

The fundamental role that our long-term memories play in guiding perception is increasingly recognised, but the functional and neural mechanisms are just beginning to be explored. Though experimental approaches are being developed to investigate the influence of long-term memories on perception, these remain mostly static and neglect their temporal and dynamic nature. Here we show we show that our long-term memories can guide attention proactively and dynamically based on learned temporal associations. Across two experiments we found that detection and discrimination of targets appearing within previously learned contexts are enhanced when the timing of target appearance matches the learned temporal contingency. Neural markers of temporal preparation revealed that the learned temporal associations trigger specific temporal predictions. Our findings emphasize the ecological role that memories play in predicting and preparing perception of anticipated events, calling for revision of the usual conceptualisation of contextual associative memory as a reflective and retroactive function.

neuroscience↗
bioRxiv2016

Recurring functional interactions predict network architecture of interictal and ictal states in neocortical epilepsy

Human epilepsy patients suffer from spontaneous seizures, which originate in brain regions that also subserve normal function. Prior studies demonstrate focal, neocortical epilepsy is associated with dysfunction, several hours before seizures. How does the epileptic network perpetuate dysfunction during baseline periods? To address this question, we developed an unsupervised machine learning technique to disentangle patterns of functional interactions between brain regions, or subgraphs, from dynamic functional networks constructed from approximately 100 hours of intracranial recordings in each of 22 neocortical epilepsy patients. Using this approach, we found: (i) subgraphs from ictal (seizure) and interictal (baseline) epochs are topologically similar, (ii) interictal subgraph topology and dynamics can predict brain regions that generate seizures, and (iii) subgraphs undergo slower and more coordinated fluctuations during ictal epochs compared to interictal epochs. Our observations suggest that the epileptic network drives dysfunction by controlling dynamics of functional interactions between brain regions that generate seizures and those that underlie normal function.

neuroscience↗
bioRxiv2016

Monozygotic twin pairs discordant for amyotrophic lateral sclerosis carry both common and unique epigenetic differences relevant to disease

Amyotrophic lateral sclerosis (ALS) is a devastating late-onset neurodegenerative disorder in which only a small proportion of patients carry an identifiable causative genetic lesion. Despite high heritability estimates, a genetic etiology for most sporadic ALS remains elusive. Here we report the epigenetic profiling of five monozygotic twin pairs discordant for ALS in whom previous genome sequencing excluded a genetic basis for their disease discordance. By studying cytosine methylation patterns in peripheral blood DNA we identified thousands of large between-twin differences at individual CpGs. While the specific sites of difference were largely idiosyncratic to a twin pair, a proportion (involving GABA signalling) were common to all affected individuals. In both instances the differences occurred within genes and pathways related to neurobiological function and dysfunction. Our findings reveal widespread changes in epigenetic marks in ALS patients, consistent with an epigenetic contribution to disease. These findings may be exploited to develop blood-based biomarkers of ALS and develop further insight into disease pathogenesis. We expect that our findings will provide a useful point of reference for further large scale studies of sporadic ALS.

neuroscience↗
bioRxiv2016

A Bayesian Heteroscedastic GLM with Application to fMRI Data with Motion Spikes

We propose a voxel-wise general linear model with autoregressive noise and heteroscedastic noise innovations (GLMH) for analyzing functional magnetic resonance imaging (fMRI) data. The model is analyzed from a Bayesian perspective and has the benefit of automatically down-weighting time points close to motion spikes in a data-driven manner. We develop a highly efficient Markov Chain Monte Carlo (MCMC) algorithm that allows for Bayesian variable selection among the regressors to model both the mean (i.e., the design matrix) and variance. This makes it possible to include a broad range of explanatory variables in both the mean and variance (e.g., time trends, activation stimuli, head motion parameters and their temporal derivatives), and to compute the posterior probability of inclusion from the MCMC output. Variable selection is also applied to the lags in the autoregressive noise process, making it possible to infer the lag order from the data simultaneously with all other model parameters. We use both simulated data and real fMRI data from OpenfMRI to illustrate the importance of proper modeling of heteroscedasticity in fMRI data analysis. Our results show that the GLMH tends to detect more brain activity, compared to its homoscedastic counterpart, by allowing the variance to change over time depending on the degree of head motion.

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bioRxiv2016

Resonance modulation, annihilation and generation of anti-resonance and anti-phasonance in 3D neuronal systems: interplay of resonant and amplifying currents with slow dynamics

Subthreshold (membrane potential) resonance and phasonance (preferred amplitude and zero-phase responses to oscillatory inputs) in single neurons arise from the interaction between positive and negative feedback effects provided by relatively fast amplifying currents and slower resonant currents. In 2D neuronal systems, amplifying currents are required to be slaved to voltage (instantaneously fast) for these phenomena to occur. In higher dimensional systems, additional currents operating at various effective time scales may modulate and annihilate existing resonances and generate antiresonance (minimum amplitude response) and antiphasonance (zero-phase response with phase monotonic properties opposite to phasonance). We use mathematical modeling, numerical simulations and dynamical systems tools to investigate the mechanisms underlying these phenomena in 3D linear models, which are obtained as the linearization of biophysical (conductance-based) models. We characterize the parameter regimes for which the system exhibits the various types of behavior mentioned above in the rather general case in which the underlying 2D system exhibits resonance. We consider two cases: (i) the interplay of two resonant gating variables, and (ii) the interplay of one resonant and one amplifying gating variables. Increasing levels of an amplifying current cause (i) a response amplification if the amplifying current is faster than the resonant current, (ii) resonance and phasonance attenuation and annihilation if the amplifying and resonant currents have identical dynamics, and (iii) antiresonance and antiphasonance if the amplifying current is slower than the resonant current. We investigate the underlying mechanisms by extending the envelope-plane diagram approach developed in previous work (for 2D systems) to three dimensions to include the additional gating variable, and constructing the corresponding envelope curves in these envelope-space diagrams. We find that antiresonance and antiphasonance emerge as the result of an asymptotic boundary layer problem in the frequency domain created by the different balances between the intrinsic time constants of the cell and the input frequency f as it changes. For large enough values of f the envelope curves are quasi-2D and the impedance profile decrease with the input frequency. In contrast, for f << 1 the dynamics is quasi-1D and the impedance profile increases above the limiting value in the other regime. Antiresonance is created because the continuity of the solution requires the impedance profile to connect the portions belonging to the two regimes. If in doing so the phase profile crosses the zero value, then antiphasonance is also generated.

neuroscience↗
bioRxiv2016

Mindboggling morphometry of human brains

Mindboggle (http://mindboggle.info) is an open source brain morphometry platform that takes in preprocessed T1-weighted MRI data and outputs volume, surface, and tabular data containing label, feature, and shape information for further analysis. In this article, we document the software and demonstrate its use in studies of shape variation in healthy and diseased humans. The number of different shape measures and the size of the populations make this the largest and most detailed shape analysis of human brains every conducted. Brain image morphometry shows great potential for providing much-needed biological markers for diagnosing, tracking, and predicting progression of mental health disorders. Very few software algorithms provide more than measures of volume and cortical thickness, and more subtle shape measures may provide more sensitive and specific biomarkers. Mindboggle computes a variety of (primarily surface-based) shapes: area, volume, thickness, curvature, depth, Laplace-Beltrami spectra, Zernike moments, etc. We evaluate Mindboggles algorithms using the largest set of manually labeled, publicly available brain images in the world and compare them against state-of-the-art algorithms where they exist. All data, code, and results of these evaluations are publicly available.\n\nAuthor SummaryBrains vary in many ways, including their shape. Analysing differences in shape between brains or changes in brain shape over time has been used to characterize morphology of diseased brains, but these analyses conventionally rely on simple volumetric shape measures. We believe that access to a greater variety of shape measures could provide greater sensitivity and specificity to morphological disturbances, and could aid in diagnosis, tracking, and prediction of the progression of mental health disorders. Mindboggle is open source software that provides neuroscientists (and indeed, anyone interested in computing shapes) tools for computing a variety of shape measures, including area, volume, thickness, curvature, geodesic depth, travel depth, Laplace-Beltrami spectra, and Zernike moments. In addition to algorithmic contributions, we conducted evaluations and applied Mindboggle to conduct the most detailed shape analysis of human brains.

neuroscience↗
bioRxiv2016

Cerebellar anodal tDCS increases implicit visuomotor remapping when strategic re-aiming is suppressed

The cerebellum is known to be critically involved in sensorimotor adaptation. Changes in cerebellar function alter behaviour when compensating for sensorimotor perturbations, as shown by non-invasive stimulation of the cerebellum and studies involving patients with cerebellar degeneration. It is known, 24 however, that behavioural responses to sensorimotor perturbations reflect both explicit processes (such as volitional aiming to one side of a target to counteract a rotation of visual feedback) and implicit, error-driven updating of sensorimotor maps. The contribution of the cerebellum to these explicit and implicit processes remains unclear. Here, we examined the role of the cerebellum in sensorimotor adaptation to a 30{degrees} rotation of visual feedback of hand position during target-reaching, when the capacity to use explicit processes was manipulated by controlling movement preparation times. Explicit re-aiming was suppressed in one condition by requiring subjects to initiate their movements within 300ms of target presentation, and permitted in another condition by requiring subjects to wait approximately 1050ms after target presentation before movement initiation. Similar to previous work, applying anodal transcranial direct current stimulation (tDCS; 1.5mA) to the right cerebellum during adaptation resulted in faster compensation for errors imposed by the rotation. After exposure to the rotation, we evaluated implicit remapping in no-feedback trials after providing participants with explicit knowledge that the rotation had been removed. Crucially, movements were more adapted in these no-feedback trials following cerebellar anodal tDCS than after sham stimulation in both long and short preparation groups. This suggests that cerebellar anodal tDCS increased implicit remapping during sensorimotor adaptation irrespective of preparation time constraints. This work shows that the cerebellum is critical in the formation of new visuomotor maps that correct perturbations in sensory feedback, both when explicit processes are suppressed and when allowed during sensorimotor adaptation.

neuroscience↗
bioRxiv2016

Training qualitatively shifts the neural mechanisms that support attentional selection

Attention supports the selection of relevant sensory information from competing irrelevant sensory information. This selective processing is thought to be supported via the attentional gain amplification of sensory responses evoked by attended compared to unattended stimuli. However, recent studies in highly trained subjects suggest that attentional gain plays a relatively modest role and that other types of neural modulations - such as a reduction in neural noise - better explain attention-related changes in behavior. We hypothesized that the amount of training may alter neural mechanisms that support attentional selection in visual cortex. To test this hypothesis, we investigated the influence of training on attentional modulations of stimulus-evoked visual responses by recording electroencephalography (EEG) from humans performing a selective visuospatial attention task over the course of one month. Early in training, visuospatial attention induced a robust attentional gain amplification of sensory-evoked responses in contralateral visual cortex that emerged within ~100ms after stimulus onset, and a quantitative model based on signal detection theory (SDT) successfully linked this attentional gain amplification to attention-related improvements in behavior. However, after training, this attentional gain amplification of visual responses was almost completely eliminated and modeling suggested that noise reduction was required to link the amplitude of visual responses with attentional modulations of behavior. These findings suggest that the neural mechanisms supporting selective attention can change as a function of training and expertise, and help to bridge different results from studies carried out in different model systems that require substantially different amount of training.

neuroscience↗
bioRxiv2016

Stimulus visibility controls the balance between attention-induced changes in contrast appearance and decision bias

While attention is known to improve information processing, whether attention can alter visual appearance has been a cornerstone of debate for 100+ years. Although recent studies suggest that attention can alter appearance, it has been argued that the reported appearance changes reflect response bias. Here, we provide a resolution to this debate by showing that attention has different effects on appearance and response bias depending on stimulus visibility. In a contrast judgment task where the contrast of attended and unattended stimuli varied across a full range of contrast values, human participants exhibited a substantial amount of response bias to the attended stimulus, when stimuli were hard to see. However, when stimuli were easier to see, response bias decreased and attention primarily increased perceived contrast. These results help constrain philosophical arguments about the cognitive penetrability of perception and reconcile the long-standing debate about the attention effect on appearance and response bias.

neuroscience↗
bioRxiv2016

The interaction of orientation-specific surround suppression and visual-spatial attention

Orientation selective surround suppression (OSSS) is a reduction in the perceived contrast of a stimulus, which occurs when a collinear grating is placed adjacent to the stimulus. Attention affects performance on many visual tasks, and we asked whether the perceptual effects of OSSS are mitigated through the allocation of voluntary visual-spatial attention. Participants were tested in a contrast discrimination task: at the beginning of each trial, one location on the screen was cued and a subsequent contrast judgment was then more likely (70%) to be performed in that location. Replicating previous results, we found that the point of subjective equality (PSE) was elevated for a collinear, relative to an orthogonal, surround. While the PSE was similar for validly and invalidly cued trials, the just noticeable difference (JND) was larger for invalid cue trials, and for collinear, relative to orthogonal surround, suggesting that while OSSS affects both perceived contrast and sensitivity, voluntary attention affects only perceptual sensitivity. In another experiment no informative cue was provided, and attention was distributed over the entire display. In this case, JND and PSE were shifted depending on the contrast of the distractor, suggesting that OSSS is affected by the allocation of visual-spatial attention, but only under conditions of distributed attention.

neuroscience↗
bioRxiv2016

Heterogeneous firing responses predict diverse couplings to presynaptic activity in mice layer V pyramidal neurons

In this study, we present a theoretical framework combining experimental characterizations and analytical calculus to capture the firing rate input-output properties of single neurons in the fluctuation-driven regime. Our framework consists of a two-step procedure to treat independently how the dendritic input translates into somatic fluctuation variables, and how the latter determine action potential firing. We use this framework to investigate the functional impact of the heterogeneity in firing responses found experimentally in young mice layer V pyramidal cells. We first design and calibrate in vitro a simplified morphological model of layer V pyramidal neurons with a dendritic tree following Rall's branching rule. Then, we propose an analytical derivation for the membrane potential fluctuations at the soma as a function of the properties of the synaptic input in dendrites. This mathematical description allows us to easily emulate various forms of synaptic input: either balanced, unbalanced, synchronized, purely proximal or purely distal synaptic activity. We find that those different forms of input activity lead to various impact on the membrane potential fluctuations properties, thus raising the possibility that individual neurons will differentially couple to specific forms of activity as a result of their different firing response. We indeed found such a heterogeneous coupling between synaptic input and firing response for all types of presynaptic activity. This heterogeneity can be explained by different levels of cellular excitability in the case of the balanced, unbalanced, synchronized and purely distal activity. A notable exception appears for proximal dendritic inputs: increasing the input level can either promote firing response in some cells, or suppress it in some other cells whatever their individual excitability. This behavior can be explained by different sensitivities to the speed of the fluctuations, which was previously associated to different levels of sodium channel inactivation and density. Because local network connectivity rather targets proximal dendrites, our results suggest that this aspect of biophysical heterogeneity might be relevant to neocortical processing by controlling how individual neurons couple to local network activity.

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