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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 Read source abstracts and check manuscript versions; preprints are not peer reviewed.

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A Model for Time Interval Learning in The Purkinje Cell

Recent experimental findings indicate that Purkinje cells in the cerebellum represent time intervals by mechanisms other than conventional synaptic weights. This finding adds to the theoretical and experimental observations suggesting the presence of intra-cellular mechanisms for adaptation and processing. To account for these experimental results we developed a biophysical model for time interval learning in a Purkinje cell. The numerical model focuses on a classical delay conditioning task (e.g. eyeblink conditioning) and relies on a few computational steps. In particular, the model posits the activation by the parallel fiber input of a local intra-cellular calcium store which can be modulated by intra-cellular pathways. The reciprocal interaction of the calcium signal with several proteins forming negative and positive feedback loops ensures that the timing of inhibition in the Purkinje cell anticipates the interval between parallel and climbing fiber inputs during training. We show that the model is able to learn along the 150-1000 ms interval range. Finally, we discuss how this model would allow the cerebellum to detect and generate specific spatio-temporal patterns, a classical theory for cerebellar function.\n\nAuthor SummaryThe prevailing view in neurosciences considers synaptic weights between neurons the determinant factor for learning and processing information in the nervous system. Theoretical considerations [1, 2] and experiments [3, 4] examined some potential limitations of this classical paradigm, pointing out that adaptation and computation might also have to rely on other mechanisms besides the learning of synaptic weights. Recent experimental findings [5-7] indicate that Purkinje cells in the cerebellum represent time intervals by mechanisms other than conventional synaptic weights. We propose here a biologically plausible model which complements the modification of synaptic weights for learning one time interval in one synapse of one Purkinje cell. In the model a calcium signal in a small domain keeps track of time. Several molecules read and modify this calcium signal to learn a time interval. We discuss how this model would allow the cerebellum to detect and generate specific patterns in space and time, a classical theory for cerebellar function proposed by Braitenberg [8, 9].

neuroscience

Brian2GeNN: a system for accelerating alarge variety of spiking neural networkswith graphics hardware

\"Brian\" is a popular Python-based simulator for spiking neural networks, commonly used in computational neuroscience. GeNN is a C++-based meta-compiler for accelerating spiking neural network simulations using consumer or high performance grade graphics processing units (GPUs). Here we introduce a new software package, Brian2GeNN, that connects the two systems so that users can make use of GeNN GPU acceleration when developing their models in Brian, without requiring any technical knowledge about GPUs, C++ or GeNN. The new Brian2GeNN software uses a pipeline of code generation to translate Brian scripts into C++ code that can be used as input to GeNN, and subsequently can be run on suitable NVIDIA GPU accelerators. From the users perspective, the entire pipeline is invoked by adding two simple lines to their Brian scripts. We have shown that using Brian2GeNN, typical models can run tens to hundreds of times faster than on CPU.

neuroscience

Simultaneous task-based BOLD-fMRI and FDG functional PET for measurement of neuronal metabolism in the human visual cortex

Studies of task-evoked brain activity are the cornerstone of cognitive neuroscience, and unravel the spatial and temporal brain dynamics of cognition in health and disease. Blood oxygenation level dependent functional magnetic resonance imaging (BOLD-fMRI) is one of the most common methods of studying brain function in humans. BOLD-fMRI indirectly infers neuronal activity from regional changes in blood oxygenation and is not a quantitative metric of brain function. Regional variation in glucose metabolism, measured using [18-F] fluorodeoxyglucose positron emission tomography (FDG-PET), provides a more direct and interpretable measure of neuronal activity. However, while the temporal resolution of BOLD-fMRI is in the order of seconds, standard FDG-PET protocols provide a static snapshot of glucose metabolism. Here, we develop a novel experimental design for measurement of task-evoked changes in regional blood oxygenation and glucose metabolism with high temporal resolution. Over a 90-min simultaneous BOLD-fMRI/FDG-PET scan, [18F] FDG was constantly infused to 10 healthy volunteers, who viewed a flickering checkerboard presented in a hierarchical block design. Dynamic task-related changes in blood oxygenation and glucose metabolism were examined with temporal resolution of 2.5sec and 1-min, respectively. Task-related, temporally coherent brain networks of haemodynamic and metabolic connectivity were maximally related in the visual cortex, as expected. Results demonstrate that the hierarchical block design, together with the infusion FDG-PET technique, enabled both modalities to track task-related neural responses with high temporal resolution. The simultaneous MR-PET approach has the potential to provide unique insights into the dynamic haemodynamic and metabolic interactions that underlie cognition in health and disease.

neuroscience

Active membrane conductances and morphology of a collision detection neuron broaden its impedance profile and improve membrane synchrony

Our brain processes information through the coordinated efforts of billions of individual neurons, each of which transforms a small part of the overall information stream. Central to this is how neurons integrate and transform complex patterns of synaptic inputs. The neuronal membrane impedance determines the change in membrane potential in response to input currents, and therefore sets the gain and timing for synaptic integration. Using single and dual dendritic recordings in vivo, pharmacology, and computational modeling, we characterized the role of two active conductances gH and gM, meditated respectively by hyperpolarization-activated cyclic nucleotide gated (HCN) channels and by muscarine sensitive M-channels, in shaping the membrane impedance of a collision detection neuron in female Schistocerca americana grasshoppers. The neuron is known by its acronym LGMD, which stands for lobula giant movement detector. In contrast to other neurons where these conductances have been studied, we found that gH and gM promote broadband, synchronous integration over the LGMDs functional range of membrane potentials and input frequencies. Additionally, we found that the branching morphology of the LGMD helped increase both the gain and synchrony associated with the neurons membrane impedance. The same result held for a wide range of dendritic morphologies, including those of mammalian neocortical pyramidal neurons and cerebellar Purkinje cells. Thus, these findings further our understanding of the integration properties of individual neurons by showing the unexpected role played by two widespread active conductances and by dendritic morphology in shaping synaptic integration.\n\nSignificance StatementInformation in the brain is processed by neurons that receive thousands of synaptic inputs. Understanding how neurons integrate these inputs is critical to neuroscience. Neuronal integration depends on complex interactions of synaptic input patterns and the electrochemical properties of dendrites. Although examining the input patterns and dendritic processing in vivo is not yet possible in the mammalian brain, it is within simpler nervous systems. Here, we used an identified collision detection neuron in grasshoppers to examine how its morphology and membrane properties determine the gain and synchrony of synaptic integration in relation to the computations it performs. The neuronal properties examined are ubiquitous and therefore will further a general understanding of neuronal computations, including those in our own brain.

neuroscience

MIND the gap: methodological considerations and guidance for structural MRI similarity network analysis with MIND

Structural similarity networks quantify the similarity of structural properties across cortical regions, providing a macroscopic window onto the organisation of cortical architecture. Morphometric inverse divergence (MIND) is a multivariate metric of similarity between cortical areas, based on the Kullback-Leibler (KL) divergence between areal distributions of multiple MRI features or morphometric variables locally measured at voxel or vertex resolution. MIND has demonstrated technical robustness and biological validity and is increasingly widely used as a measure of cortico-cortical similarity in clinical and developmental network neuroscience. Here we provide in-depth methodological background on KL divergence and MIND, highlighting possible sources of bias, critical user decision points in the design of a MIND processing pipeline, and recommendations for technical risk mitigation in using MIND as a metric of cortical similarity. We use simulated data and observational MRI datasets from adults (UK Biobank, N = 500 T1-weighted and diffusion scans) and neonates (Developing Human Connectome Project, N = 752 T2-weighted scans), to show how the estimator of KL divergence implemented in MIND is potentially influenced or biased by five properties of input MRI feature maps: (i) their smoothness; (ii) the proportion of identical values; (iii) analysis in native or common space and the choice of vertex mesh resolution; (iv) parcellation choice; and (v) covariance between input features. We offer principled and practical guidance for investigators wanting to specify and implement the MIND processing pipeline that is best suited to the constraints and opportunities of the MRI data available to them. These recommendations outline which pipeline steps should be used sparingly, such as vertex map smoothing; which should be used with informed caution, such as parcellation choice or vertex mesh resampling; and which could be newly implemented for more robust estimation of MIND, such as the use of principal component analysis to preprocess multivariate MRI features. To support further development of structural MRI similarity network analysis, and wider adoption of robust MIND methods, we also publish the code used to generate the results in this paper as an open resource.

neuroscience

State-dependent information processing in gene regulatory networks

Cellular information processing is generally attributed to the complex networks of genes and proteins that regulate cell behavior. It is still unclear, however, what are the main features of those networks that allow a cell to encode and interpret its ever changing environment. Here we address this question by studying the computational capabilities of the transcriptional regulatory networks of five evolutionary distant organisms. We identify in all cases a cyclic recurrent structure, formed by a small core of genes, that is essential for dynamical encoding and information integration. The recent history of the cell is encoded by the transient dynamics of this recurrent reservoir of nodes, while the rest of the network forms a readout layer devoted to decode and interpret the high-dimensional dynamical state of the recurrent core. This separation of roles allows for the integration of temporal information, while facilitating the learning of new environmental conditions and preventing catastrophic interference between those new inputs and the previously stored information. This resembles the reservoir-computing paradigm recently proposed in computational neuroscience and machine learning. Our results reveal that gene regulatory networks act as echo-state networks that perform optimally in standard memory-demanding tasks, and confirms that most of their memory resides in the recurrent reservoir. We also show that the readout layer can learn to decode the information stored in the reservoir via standard evolutionary strategies. Our work thus suggests that recurrent dynamics is a key element for the processing of complex time-dependent information by cells.\n\nSummaryCells must monitor the dynamics of their environment continuously, in order to adapt to present conditions and anticipate future changes. But anticipation requires processing temporal information, which in turn requires memory. Here we propose that cells can perform such dynamical information processing via the reservoir computing paradigm. According to this concept, a structure with recurrent (cyclic) paths, known as the reservoir, stores in its dynamics a record of the cells recent history. A much simpler feedforward structure then reads and decodes that information. We show that the transcriptional gene regulatory networks of five evolutionary distant organisms are organized in this manner, allowing them to store complex time-dependent signals entering the cell in a biologically realistic manner.

Synthetic Biology

SCIE: Information Extraction for Spinal Cord Injury Preclinical Experiments - A Webservice and Open Source Toolkit

Translational neuroscience in the field of spinal cord injuries (SCI) faces a strong disproportion between immense preclinical research efforts and a lack of therapeutic approaches successful in human patients: Currently, preclinical research on SCI yields more than 3,000 new publications per year (8,000 when including the whole central nervous system, growing at an exponential rate), whereas none of the resulting therapeutic concepts has led to functional recovery of neural tissue in humans. Improving clinical researchers information access therefore carries the potential to support more effective selection of promising therapy candidates from preclinical studies. Thus, automated information extraction from scientific publications contributes to enabling meta studies and therapy grading by aggregating relevant information from the entire body of previous work on SCI.\n\nWe present SCIE, an automated information extraction pipeline capable of detecting relevant information in SCI publications based on ontological entity and probabilistic relation detection. The input are plain text or PDF documents. As output, the user choses between an online visualization or a machine-readable format. Compared to human gold standard annotations, our system achieves an average extraction performance of 76 % precision and 52 % recall (F1-measure 0.59).\n\nAn instance of the webservice is available at http://scie.sc.cit-ec.uni-bielefeld.de/. SCIE is free software licensed under the AGPL and can be downloaded for local installation at http://opensource.cit-ec.de/projects/scie/.

Bioinformatics

How can we study the evolution of animal minds?

AbstractDuring the last 50 years, comparative cognition and neurosciences have improved our understanding of animal minds while evolutionary ecology has revealed how selection acts on traits through evolutionary time. We describe how this evolutionary approach can be used to understand the evolution of animal cognition. We recount how comparative and fitness methods have been used to understand the evolution of cognition and outline how these methods could be extended to gain new insights into cognitive evolution. The fitness approach, in particular, offers unprecedented opportunities to study the evolutionary mechanisms responsible for variation in cognition within species and could allow us to investigate both proximate (ie: neural and developmental) and ultimate (ie: ecological and evolutionary) underpinnings of animal cognition together. Our goal in this review is to build a bridge between cognitive neuroscientist and evolutionary biologists, illustrate how their research could be complementary, and encourage evolutionary ecologists to include explicit attention to cognitive processes in their studies of behaviour. We believe that in doing so, we can break new ground in our understanding of the evolution of cognition as well as gain a much better understanding of animal behaviour.

Animal Behavior and Cognition

A new Defective Helper RNA to produce Sindbis virus that infects neurons but does not propagate

Recombinant Sindbis viruses are important tools in neuroscience because they combine rapid and high transgene expression with a capacity to carry large transgenes. Currently, two packaging systems based on the DH(26S)5SIN and the DH-BB(tRNA;TE12) Defective Helper (DH) RNAs are available for making recombinant Sindbis virus that is neurotropic (able to infect neurons and potentially other cells). Both systems produce a fraction of viral particles that can propagate beyond the primary infected neuron. When injected into mouse brains, viruses produced using these DH RNAs label neurons at the injection site, but also elsewhere in the brain. Such ectopic labeling caused recombinant Sindbis viruses to be classified as anterograde viruses with limited retrograde spread, and can complicate the interpretation of neuroanatomical and other experiments.\n\nHere we describe a new DH RNA, DH-BB(5SIN;TE12ORF), that can be used to produce virus that is both neurotropic and propagation-incompetent. We show in mice that DH-BB(5SIN;TE12ORF)- packaged virus eliminates infection of cells outside the injection site. We also provide evidence that ectopically labeled cells observed in previous experiments with recombinant Sindbis virus resulted from secondary infection by propagation-competent virus, rather than from inefficient retrograde spread.\n\nVirus produced with our new packaging system retains all the advantages of previous recombinant Sindbis viruses, but minimizes the risks of confounding results with unwanted ectopic labeling. It should therefore be considered in future studies in which a neurotropic, recombinant Sindbis virus is needed.

Microbiology

Drosophila learn efficient paths to a food source

Elucidating the genetic, and neuronal bases for learned behavior is a central problem in neuroscience. A leading system for neurogenetic discovery is the vinegar fly Drosophila melanogaster; fly memory research has identified genes and circuits that mediate aversive and appetitive learning. However, methods to study adaptive food-seeking behavior in this animal have lagged decades behind rodent feeding analysis, largely due to the challenges presented by their small scale. There is currently no method to dynamically control flies access to food. In rodents, protocols that use dynamic food delivery are a central element of experimental paradigms that date back to the influential work of Skinner. This method is still commonly used in the analysis of learning, memory, addiction, feeding, and many other subjects in experimental psychology. The difficulty of microscale food delivery means this is not a technique used in fly behavior. In the present manuscript we describe a microfluidic chip integrated with machine vision and automation to dynamically control defined liquid food presentations and sensory stimuli. Strikingly, repeated presentations of food at a fixed location produced improvements in path efficiency during food approach. This shows that improved path choice is a learned behavior. Active control of food availability using this microfluidic system is a valuable addition to the methods currently available for the analysis of learned feeding behavior in flies.

Animal Behavior and Cognition

DAVID: An open-source platform for real-time emotional speech transformation. With 25 applications in the behavioral sciences

We present an open-source software platform that transforms the emotions expressed by speech signals using audio effects like pitch shifting, inflection, vibrato, and filtering. The emotional transformations can be applied to any audio file, but can also run in real-time (with less than 20-millisecond latency), using live input from a microphone. We anticipate that this tool will be useful for the study of emotions in psychology and neuroscience, because it enables a high level of control over the acoustical and emotional content of experimental stimuli in a variety of laboratory situations, including real-time social situations. We present here results of a series of validation experiments showing that transformed emotions are recognized at above-chance levels in the French, English, Swedish and Japanese languages, with a naturalness comparable to natural speech. Then, we provide a list of twenty-five experimental ideas applying this new tool to important topics in the behavioral sciences.

Animal Behavior and Cognition

Zika Fetal Neuropathogenesis: Etiology of a Viral Syndrome

The ongoing Zika Virus epidemic in the Americas, and the observed association with both fetal abnormalities (primary microcephaly) and adult autoimmune pathology (Guillain-Barre syndrome) has brought attention to this neglected pathogen. While initial case studies generated significant interest in the Zika virus outbreak, larger prospective epidemiology and basic virology studies examining the mechanisms of Zika viral infection and associated pathophysiology are only now starting to be published. In this review, we analyze Zika fetal neuropathogenesis from a comparative pathology perspective, using the historic metaphor of \"TORCH\" viral pathogenesis to provide context. By drawing parallels to other viral infections of the fetus, we identify common themes and mechanisms that may illuminate the observed pathology. The existing data on the susceptibility of various cells to both Zika and other flavivirus infections are summarized. Finally, we highlight relevant aspects of the known molecular mechanisms of flavivirus replication.\n\nKey Learning PointsO_LIViral TORCH pathogens reveal common patterns of fetal pathophysiology and vertical transmission which are relevant to Zika Virus fetal neuropathogenesis.\nC_LIO_LIThe teratogenic effects of Zika Virus infection during the first trimester may involve infection of the trophoblast, viral translocation across the placenta, migration of infected cells resulting in embryonic infection, or indirect effects associated with high levels of inflammatory cytokines produced by infected placenta.\nC_LIO_LIPre-existing maternal non-neutralizing antibody to Zika virus may enhance the probability of infection or more severe disease in the fetus.\nC_LIO_LIAXL has been identified as a major receptor for Zika Virus.\nC_LIO_LIZika virus activation of Toll Like Receptor 3 (TLR-3) pathways in central nervous system cells may trigger apoptosis and attenuate neurogenesis, directly contributing to fetal neuropathology.\nC_LIO_LIFlaviviruses subvert host autophagy and noncoding RNA regulatory pathways.\nC_LIO_LIRecognition of viral sequences by regulatory RNA binding proteins such as Musashi may have a role in Zika pathogenesis and host tissue tropism.\nC_LIO_LIEvidence from other TORCH viral pathogen studies indicate multiple plausible hypotheses for transplacental infection by Zika virus during the second or third trimester, including transcytosis of non-neutralizing antibody-coated Zika virus complexes.\nC_LI\n\nKey ReferencesAdibi JJ, Marques ET Jr, Cartus A, Beigi RH. Teratogenic effects of the Zika virus and the role of the placenta. Lancet 2016; 387: 1587-90 (Hypothesis)\nAdams Waldorf KM, McAdams RM. Influence of infection during pregnancy on fetal development. Reproduction. 2013 Oct 1;146(5) (Review)\nHamel R, Dejarnac O, Wichit S, Ekchariyawat P, Neyret A, Luplertlop N, et al. Biology of Zika Virus Infection in Human Skin Cells. J Virol. 2015;89(17):8880-96.\nMlakar J, Korva M, Tul N, Popovi[c] M, Polj[s]ak-Prijatelj M, Mraz J, et al. Zika Virus Associated with Microcephaly. N Engl J Med. 2016 Feb 10.\nPaul LM, Carlin ER, Jenkins MM, Tan AL, Barcellona CM, Nicholson CO, Trautmann L, Michael SF, Isern S. Dengue Virus Antibodies Enhance Zika Virus Infection. bioRxiv doi: http://dx.doi.org/10.1101/050112\nCrow YJ, Manel N. Aicardi-Goutieres syndrome and the type I interferonopathies. Nat Rev Immunol. 2015;15(7):429-40.\nTonduti D, Orcesi S, Jenkinson EM, Dorboz I, Renaldo F, Panteghini C, et al. Clinical, radiological and possible pathological overlap of cystic leukoencephalopathy without megalencephaly and Aicardi-Goutieres syndrome. Eur J Paediatr Neurol. 2016.\nCipolat Mis MS, Brajkovic S, Frattini E, Di Fonzo A, Corti S. Autophagy in motor neuron disease: Key pathogenetic mechanisms and therapeutic targets. Molecular and Cellular Neurosciences. 2016;72:84-90.\nDang J, Tiwari SK, Lichinchi G, Qin Y, Patil VS, Eroshkin AM, Rana TM. Zika Virus Depletes Neural Progenitors in Human Cerebral Organoids through Activation of the Innate Immune Receptor TLR3. Cell Stem Cell. 2016: 19: 1-8.\nVianna FS, Schuler-Faccini L, Leite JC, de Sousa SH, da Costa LM, Dias MF, et al. Recognition of the phenotype of thalidomide embryopathy in countries endemic for leprosy: new cases and review of the main dysmorphological findings. Clin Dysmorphol. 2013;22(2):59-63.

Developmental Biology

An open-hardware platform for optogenetics and photobiology

In optogenetics, researchers use light and genetically encoded photoreceptors to control biological processes with unmatched precision. However, outside of neuroscience, the impact of optogenetics has been limited by a lack of user-friendly, flexible, accessible hardware. Here, we engineer the Light Plate Apparatus (LPA), a device that can deliver two independent 310 to 1550 nm light signals to each well of a 24-well plate with intensity control over three orders of magnitude and millisecond resolution. Signals are programmed using an intuitive web tool named Iris. All components can be purchased for under $400 and the device can be assembled and calibrated by a non-expert in one day. We use the LPA to precisely control gene expression from blue, green, and red light responsive optogenetic tools in bacteria, yeast, and mammalian cells and simplify the entrainment of cyanobacterial circadian rhythm. The LPA dramatically reduces the entry barrier to optogenetics and photobiology experiments.

Bioengineering

Ecological Representations

Mainstream cognitive science and neuroscience both rely heavily on the notion of representation in order to explain the full range of our behavioral repertoire. The relevant feature of representation is its ability to designate (stand in for) spatially or temporally distant properties, When we organize our behavior with respect to mental or neural representations, we are (in principle) organizing our behavior with respect to the property it designates. While representational theories are a potentially a powerful foundation for a good cognitive theory, problems such as grounding and system-detectable error remain unsolved. For these and other reasons, ecological explanations reject the need for representations and do not treat the nervous system as doing any mediating work. However, this has left us without a straight-forward vocabulary to engage with so-called representation-hungry problems or the role of the nervous system in cognition. In an effort to develop such a vocabulary, here we show that James J Gibsons ecological information functions to designate the ecologically-scaled dynamical world to an organism. We then show that this designation analysis of information leads to an ecological conceptualization of the neural activity caused by information, which in turn we argue can together support intentional behavior with respect to spatially and temporally distal properties. Problems such as grounding and error detection are solved via law-based specification. This analysis extends the ecological framework into the realm of representation-hungry problems, making it as powerful a potential basis for theories of behavior as traditional cognitive approaches. The resulting analysis does, according to some definitions, allow information and the neural activity to be conceptualized as representations; however, the key work is done by information and the analysis remains true to Gibsons ecological ontology.

Animal Behavior and Cognition

Scanning the Horizon: challenges and solutions for neuroimaging research

Functional neuroimaging techniques have transformed our ability to probe the neurobiological basis of behaviour and are increasingly being applied by the wider neuroscience community. However, concerns have recently been raised that the conclusions drawn from some human neuroimaging studies are either spurious or not generalizable. Problems such as low statistical power, flexibility in data analysis, software errors, and lack of direct replication apply to many fields, but perhaps particularly to fMRI. Here we discuss these problems, outline current and suggested best practices, and describe how we think the field should evolve to produce the most meaningful answers to neuroscientific questions.

Scientific Communication and Education

Adaptation of the Arizona Cognitive Task Battery for use with the Ts65Dn Mouse Model of Down Syndrome

We propose and validate a clear strategy to efficiently and comprehensively characterize neurobehavioral deficits in the Ts65Dn mouse model of Down syndrome. This novel approach uses neurocognitive theory to design and select behavioral tasks that test specific hypotheses concerning the results of Down syndrome. In this manuscript we model in Ts65Dn mice the Arizona Cognitive Task Battery used to study human populations with Down syndrome. We observed specific deficits for spatial memory, impaired long-term memory for visual objects, acquisition and reversal of motor responses, reduced motor dexterity, and impaired adaptive function as measured by nesting and anxiety tasks. The Ts65Dn mice showed intact temporal ordering, novelty detection, and visual object recognition with short delays. These results phenocopy the performance of participants with Down syndrome on the Arizona Cognitive Task Battery. This approach extends the utility of mouse models of Down syndrome by integrating the expertise of clinical neurology and cognitive neuroscience into the mouse behavioral laboratory. Further, by directly emphasizing the reciprocal translation of research between human disease states and the associated mouse models, we demonstrate that it is possible for both groups to mutually inform each others research to more efficiently generate hypotheses and elucidate treatment strategies.

Preprint

Reproducibility and replicability of rodent phenotyping in preclinical studies

The scientific community is increasingly concerned with cases of published \"discoveries\" that are not replicated in further studies. The field of mouse behavioral phenotyping was one of the first to raise this concern, and to relate it to other complicated methodological issues: the complex interaction between genotype and environment; the definitions of behavioral constructs; and the use of the mouse as a model animal for human health and disease mechanisms. In January 2015, researchers from various disciplines including genetics, behavior genetics, neuroscience, ethology, statistics and bioinformatics gathered in Tel Aviv University to discuss these issues. The general consent presented here was that the issue is prevalent and of concern, and should be addressed at the statistical, methodological and policy levels, but is not so severe as to call into question the validity and the usefulness of model organisms as a whole. Well-organized community efforts, coupled with improved data and metadata sharing, were agreed by all to have a key role to play in identifying specific problems and promoting effective solutions. As replicability is related to validity and may also affect generalizability and translation of findings, the implications of the present discussion reach far beyond the issue of replicability of mouse phenotypes but may be highly relevant throughout biomedical research.

Scientific Communication and Education

Steroid Hormone Induction Of Temporal Gene Expression In Drosophila Brain Neuroblasts Generates Neuronal And Glial Diversity

An important question in neuroscience is how stem cells generate neuronal diversity. During Drosophila embryonic development, neural stem cells (neuroblasts) sequentially express transcription factors that generate neuronal diversity; regulation of the embryonic temporal transcription factor cascade is lineage-intrinsic. In contrast, larval neuroblasts generate longer {small tilde}50 division lineages, and currently only one mid-larval molecular transition is known: Chinmo/Imp/Lin-28+ neuroblasts transition to Syncrip+ neuroblasts. Here we show that the hormone ecdysone is required to down-regulate Chinmo/Imp and activate Syncrip, plus two late neuroblast factors, Broad and E93. We show that Seven-up triggers Chinmo/Imp to Syncrip/Broad/E93 transition by inducing expression of the Ecdysone receptor in mid-larval neuroblasts, rendering them competent to respond to the systemic hormone ecdysone. Importantly, late temporal gene expression is essential for proper neuronal and glial cell type specification. This is the first example of hormonal regulation of temporal factor expression in Drosophila embryonic or larval neural progenitors.\n\nSummaryHormone induction of temporal gene expression in neural progenitors

developmental biology