rudyvdbrink/CitationDatabase huggingface dataset:
Single Drosophila ommatidium dissection and imaging.
Journal of visualized experiments : JoVE, 2011

The fruit fly Drosophila melanogaster has made invaluable contributions to neuroscience research and has been used widely as a model for neurodegenerative diseases because of its powerful genetics(1). The fly eye in particular has been the organ of choice for neurodegeneration research, being the most accessible and life-dispensable part of the Drosophila nervous system. However the major caveat of intact eyes is the difficulty, because of the intense autofluorescence of the pigment, in imaging intracellular events, such as autophagy dynamics(2), which are paramount to understanding of neurodegeneration. We have recently used the dissection and culture of single ommatidia(3) that has been essential for our understanding of autophagic dysfunctions in a fly model of Dentatorubro-Pallidoluysian Atrophy (DRPLA)(3, 4). We now report a comprehensive description of this technique (Fig. 1), adapted from electrophysiological studies(5), which is likely to expand dramatically the possibility of fly models for neurodegeneration. This method can be adapted to image live subcellular events and to monitor effective drug administration onto photoreceptor cells (Fig. 2). If used in combination with mosaic techniques(6-8), the responses of genetically different cells can be assayed in parallel (Fig. 2).
Intermittent but not continuous access to cocaine produces individual variability in addiction susceptibility in rats.
Psychopharmacology, 2020

Drug addiction is a chronic disease defined by a complex set of characteristics, including loss of control over drug intake and persistent drug craving, which primarily affects a small percentage of people who try drugs. Although many models have been developed to study individual aspects of drug use, there is great translational value in having an animal model that encompasses multiple aspects of the human disease, including the variation in severity observed in humans. Here, we describe an intermittent access model of cocaine self-administration that produces a subset of rats that display many of the core features of addiction, including escalation of drug intake, a binge-like pattern of drug use, robust locomotor sensitization, and high levels of drug-seeking during cue-induced reinstatement. This group is compared with rats that have the same drug history but do not develop this pattern of drug-taking and drug-seeking, as well as rats that undergo a traditional continuous access paradigm. Finally, we observe that high levels of cocaine consumption produce long-term changes in intracellular calcium signaling in the dorsomedial striatum.
Neural and behavioral correlates associated with adolescent marijuana use.
Current addiction reports, 2020

Marijuana (MJ) is one of the most commonly used drugs among adolescents. Exposure to MJ during adolescence can lead to alterations in brain development, and, subsequently to the behavioral correlates regulated by the affected brain regions. In this review, we discuss findings from preclinical and human studies examining the relationship between adolescent MJ use and the neurobiological and behavioral correlates associated with it.
Intercellular Networks Underlying Developmental Decisions.
Neuron, 2016

In this issue of Neuron, Yuzwa et al. (2016) identify secreted factors that influence the cell fates of embryonic neural progenitor cells. Surprisingly, the major contributors are trophic factors from the GDNF family and a cytokine, interferon-γ. Advanced analysis of proteomic and transcriptome data discovered ligand receptors that influence cell-cell communication.
Seizures Alter Cortical Representations for Complex Movements.
Neuroscience, 2020

Alterations in the functional organization of motor cortex and interictal motor deficits are observed in people with epilepsy. While seizures in the rat lead to more cortical area devoted to simple cortical forelimb movement representations (motor maps) assessed using short-duration intracortical microstimulation (ICMS), the effect of seizures on complex movements derived with long-duration ICMS is unknown. Further, the relationship between motor map expression and motor impairment is not well understood. We used long-duration ICMS in the rat to test the hypothesis that repeated seizure activity (cortical kindling) increases the extent of overlapping cortical representation where multiple forelimb movements are evoked to stimulation. Cortical kindling (n = 7) significantly expanded (100%) forelimb motor maps characterized by a proportional increase in both complex and simple movement representation areas, and significantly increased (285%) overlapping forelimb representation compared to sham-kindled controls (n = 5). In a second experiment, motor maps were derived with long-duration ICMS under acute cortical application of bicuculline (n = 6) to reduce intracortical inhibition or saline control (n = 10). Bicuculline also significantly expanded forelimb motor maps (108%) but without increasing representational overlap. Moreover, expanded map areas in bicuculline rats evoked qualitatively distinct forelimb movements to long-duration, but not short-duration (n = 5), ICMS that were truncated. Our evidence indicates that motor map expansion following repeated experimental seizures is associated with reduced segregation between cortical movement representations that is not entirely due to reduced cortical inhibition but may contribute to interictal motor deficits in some individuals with epilepsy.
An investigation of auditory dimensional interaction in a bivariate bilateral conditioning paradigm in the rabbit.
The Journal of the Acoustical Society of America, 2009

The current study adapted the Garner paradigm for diagnosing separable versus integral perceptual dimensions to the eye-blink classical conditioning paradigm using rabbits. Specifically, this study examined the ability of rabbits to categorize stimuli based on one auditory dimension while ignoring a second, irrelevant dimension by displaying an appropriate eye-blink for bilaterally conditioned discriminative responses. Tones used in training varied along two dimensions, starting frequency and magnitude of frequency sweep upwards from the start. Rabbits first learned to categorize along a single dimension (blinking one eye for one category response and the other eye for the other response) and then continued to categorize tones in a second phase in which the irrelevant dimension was varied. The variation of the irrelevant dimension did not disrupt performance, indicating that rabbits perceive these dimensions as separable.
Caseous calcification of the mitral annulus associated with stroke: report of two cases.
Revue neurologique, 2015

Caseous calcification of the mitral annulus (CCAM) is a rare complication of mitral annulus calcification (MAC). Whether CCAM should be considered as a cardiac source of stroke or a simple marker of atherosclerosis remains a matter of debate.
Toeprinting Analysis of Translation Initiation Complex Formation on Mammalian mRNAs.
Journal of visualized experiments : JoVE, 2018

Translation initiation is the rate-limiting step of protein synthesis and represents a key point at which cells regulate their protein output. Regulation of protein synthesis is the key to cellular stress-response, and dysregulation is central to many disease states, such as cancer. For instance, although cellular stress leads to the inhibition of global translation by attenuating cap-dependent initiation, certain stress-response proteins are selectively translated in a cap-independent manner. Discreet RNA regulatory elements, such as cellular internal ribosome entry sites (IRESes), allow for the translation of these specific mRNAs. Identification of such mRNAs, and the characterization of their regulatory mechanisms, have been a key area in molecular biology. Toeprinting is a method for the study of RNA structure and function as it pertains to translation initiation. The goal of toeprinting is to assess the ability of in vitro transcribed RNA to form stable complexes with ribosomes under a variety of conditions, in order to determine which sequences, structural elements, or accessory factors are involved in ribosome binding-a pre-cursor for efficient translation initiation. Alongside other techniques, such as western analysis and polysome profiling, toeprinting allows for a robust characterization of mechanisms for the regulation of translation initiation.
The Enduring Experience in Dry Eye Diagnosis: A Non-Interventional Study Comparing the Experiences of Patients Living With and Without Sjögren's Syndrome.
Ophthalmology and therapy, 2021

Previous studies have examined the patient experience regarding the diagnosis and management of dry eye disease (DED). The current study explored the ways in which the DED diagnostic pathway differs for those living with and without Sjögren's syndrome (SS), to identify aspects that influence the patient experience and associated quality of life (QoL).
Does response link updating contribute to the negative compatibility effect?
Acta psychologica, 2016

Lleras and Enns (2004) argued that the negative compatibility effect (NCE) may partly originate from object updating (OU) between a prime and mask. This process could occur not only at the feature level, which facilitates target identification via feature updating (the updated feature is identical to the target in the feature), but also at the response level, which benefits target response via response link updating (an updated response link has an identical reaction to the target). This study aims to present experimental evidence for the latter hypothesis that response link updating is one process that triggers an NCE. The design used a 4 (stimuli) to 2 (responses) paradigm in which the left-hand response was assigned to "1" and "2" and the right-hand response was assigned to "3" and "4" (counterbalanced across the participants). Additionally, we manipulated the strength of OU (strong, "1" and "3" as primes versus weak OU condition, "2" and "4" as primes), response set of prime and target (e.g., same, "1" and "3" as both primes and targets versus different response set, "1" and "3" as primes or targets but "2" and "4" as targets or primes), and compatibility (compatible versus incompatible). The results showed a significant NCE in the strong OU (effective object updating) and different response set (separating response link updating from OU process) condition. Combined with the response time quartiles, which showed a special developmental course for this condition, the results suggest that response link updating is one process that triggers an NCE when the prime and target come from different response sets, and the processing of response link updating does not share identical developmental courses as the motor inhibition.
Replicable association between human cytomegalovirus infection and reduced white matter fractional anisotropy in major depressive disorder.
Neuropsychopharmacology : official publication of the American College of Neuropsychopharmacology, 2021

Major depressive disorder (MDD) is associated with reductions in white matter microstructural integrity as measured by fractional anisotropy (FA), an index derived from diffusion tensor imaging (DTI). The neurotropic herpesvirus, human cytomegalovirus (HCMV), is a major cause of white matter pathology in immunosuppressed populations but its relationship with FA has never been tested in MDD despite the presence of inflammation and weakened antiviral immunity in a subset of depressed patients. We tested the relationship between FA and HCMV infection in two independent samples consisting of 176 individuals with MDD and 44 healthy controls (HC) (Discovery sample) and 88 participants with MDD and 48 HCs (Replication sample). Equal numbers of HCMV positive (HCMV+) and HCMV negative (HCMV-) groups within each sample were balanced on ten different clinical/demographic variables using propensity score matching. Anti-HCMV IgG antibodies were measured using a solid-phase ELISA. In the Discovery sample, significantly lower FA was observed in the right inferior fronto-occipital fasciculus (IFOF) in HCMV+ participants with MDD compared to HCMV- participants with MDD (cluster size 1316 mm
Assessment of developmental milestones in rodents.
Current protocols in neuroscience, 2004

Developmental tests are used to characterize early markers of behavior for investigation of the neurobiology of these behaviors, and to assess the impact of early prenatal or postnatal insult. These perturbations may include pharmacological, environmental, and genetic manipulations. At birth the rat is capable of some specific activities, but its movements are uncoordinated and seemingly random, its tactile sensitivity is not fully developed, and its ear canals and eyes remain closed until several days after birth. Postnatal development consists mainly of the continuation of processes begun earlier. This unit presents protocols for the most commonly used animal tests of developmental reflexology, including negative geotaxis, cliff avoidance, placing responses, tactile and acoustic startle responses, surface and air righting reflexes, crossed extensor reflex, rooting reflex, grasp reflex, bar holding, and horizontal and vertical screen tests.
Designing a highly efficient chemical chaperone system using chitosan-coated alginate.
The protein journal, 2010

In the present work we prepared chitosan-coated alginate beads, to use as a chemical chaperone based on the electrostatic interaction between the carboxylate groups of alginate and the ammonium groups of chitosan. This procedure was an attempt for designing a highly efficient chemical chaperone to improve protein stability and refolding. Based on enzyme recovered activity, turbidity, far-UV CD and fluorescence data, alkaline phosphatase can be stabilized and refolded to a higher degree in the presence of alginate capsules compared with unassisted form and was further improved by including chitosan. Finally the maximum yield was obtained when the refolding process was achieved under a well worked out temperature program: incubation of the captured-enzyme for 20 min at 4 degrees C followed by overnight incubation at 22 degrees C, which showed that aggregation is a major limitation to refolding.
What Media Helps, What Media Hurts: A Mixed Methods Survey Study of Coping with COVID-19 Using the Media Repertoire Framework and the Appraisal Theory of Stress.
Journal of medical Internet research, 2020

Social and physical distancing in response to the coronavirus disease (COVID-19) pandemic has made screen-mediated information and communication technologies (media) indispensable. Whether an increase in screen use is a source of or a relief for stress remains to be seen.
Multiple embolic stroke on magnetic resonance imaging of the brain in a COVID-19 case with persistent encephalopathy.
Clinical imaging, 2021

The pulmonary manifestations of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infection or coronavirus disease 2019 (COVID-19) are well known. The literature on neurological manifestations and complications in patients with COVID-19 has been increasing but is still sparse. At present, there are only a few reported case reports and clinical studies on neurological manifestations of COVID-19, of which ischemic stroke is one of the most common ones. Coagulopathy and vascular endothelial dysfunction have been proposed as the complications of COVID-19 which can ultimately lead to ischemic stroke. In this case report, we present a case of multifocal ischemic stroke in a patient with COVID-19. This patient had persistent encephalopathy and dysarthria after recovering from hypoxic respiratory failure and subsequently developed ischemic stroke in multiple vascular territories during hospital admission.
In-TOX-icating neurogenesis.
The EMBO journal, 2015

Early development of the mammalian cerebral cortex proceeds via a sequence of proliferative and differentiative steps from neural stem cells toward neurons and glia. However, how these steps are molecularly orchestrated is still only partially understood. In this issue of The EMBO Journal, Artegiani and colleagues implicate Tox, a HMG-box transcription factor previously known only for its role in lymphocyte development, in early cortical development.
Psychology and neuroscience: How close are we to an integrative perspective? Reply to Staats (2016) and Tryon (2016).
The American psychologist, 2016

This article responds to commentaries written by Warren Tryon (2016) and Arthur Staats (2016) concerning Schwartz, Lilienfeld, Meca, and Sauvigné (2016). In this reply, we reiterate our key thesis-that psychology, and the problems it addresses, are likely best approached from multiple levels of analysis. Unlike Tryon, we are not convinced that neural networks and computational neuroscience provide a single template through which all of psychology can be integrated. We are in agreement with Staats that attempts to reduce psychological phenomena to neural events alone are likely to be misleading and unproductive. One important example where such reductionism has been alive and well is addiction, where prominent biomedical models have defined addiction as a "brain disease." Our reply article concludes by arguing that a multilevel approach to psychology is essential in guiding hiring practices, funding agency priorities, and training students. (PsycINFO Database Record
The influence of age-of-onset of antidepressant use on the acute CBF response to a citalopram challenge; a pharmacological MRI study.
Psychiatry research. Neuroimaging, 2020

Preclinical studies have demonstrated that antidepressant treatment in juvenile rodents affect the ontogeny of the serotonin system. However, whether early antidepressant use has similar effects on the development of the serotonin system in humans remains unknown. Therefore, we investigated whether effects of selective serotonin reuptake inhibitor (SSRI) treatment on the serotonin system are modulated by age. With pharmacological Magnetic Resonance Imaging the cerebral blood flow (CBF) response to an acute citalopram challenge was measured, as a proxy for serotonin function. Fifty-one females with major depressive disorder or anxiety disorder were stratified into three groups: 1) those treated with SSRIs <23 years of age, 2) those treated with SSRIs >23 years of age, and 3) those that were never treated with SSRIs. Additionally, a group of 14 healthy controls was included. CBF decreased after a citalopram challenge in the amygdala, hippocampus and orbitofrontal cortex across the whole sample. However, in contrast to preclinical studies, we did not find any age-dependent effect of SSRI exposure on the CBF response. In view of recent concerns on potential adverse effects of SSRIs administered to children, future studies are needed to replicate our negative findings in larger samples sizes and potentially in a prospective design.
More precise tracking of horizontal than vertical target motion with both the eyes and hand.
Cortex; a journal devoted to the study of the nervous system and behavior, 2021

When tracking targets moving in various directions with one's eyes, horizontal components of pursuit are more precise than vertical ones. Is this because horizontal target motion is predicted better or because horizontal movements of the eyes are controlled more precisely? When tracking a visual target with the hand, the eyes also track the target. We investigated whether the directional asymmetries that have been found during isolated eye movements are also present during such manual tracking, and if so, whether individual participants' asymmetry in eye movements is accompanied by a similar asymmetry in hand movements. We examined the data of 62 participants who used a joystick to track a visual target with a cursor. The target followed a smooth but unpredictable trajectory in two dimensions. Both the mean gaze-target distance and the mean cursor-target distance were about 20% larger in the vertical direction than in the horizontal direction. Gaze and cursor both followed the target with a slightly longer delay in the vertical than in the horizontal direction, irrespective of the target's trajectory. The delays of gaze and cursor were correlated, as were their errors in tracking the target. Gaze clearly followed the target rather than the cursor, so the asymmetry in both eye and hand movements presumably results from better predictions of the target's horizontal than of its vertical motion. Altogether this study speaks for the presence of anisotropic predictive processes that are shared across effectors.
Localization of zinc transporters in the spinal cord of cynomolgus monkey.
Journal of chemical neuroanatomy, 2017

Zinc is abundant in the spinal cord, where it participates in several physiological and pathophysiological processes, including neurotransmission, spinal cord injury, and amyotrophic lateral sclerosis. However, the mechanisms underlying zinc homeostasis in the spinal cord are largely unknown. Zinc transporters (ZnTs) are responsible for transporting zinc from the cytoplasm to the extracellular space or to intracellular compartments. In the present study, we examined the distribution of ZnT1-10 proteins in the spinal cord of cynomolgus monkey. Immunohistochemical studies demonstrate that all detected ZnT family members are expressed in the gray matter. ZnT1-10 immunoreactivity can be seen in both motor and sensory neurons in the dorsal and ventral horn from the cervical to sacral segments. No obvious immunostaining was found in the glia cells. The present study demonstrates that ZnT proteins are functionally important for regulating zinc metabolism in both motor and sensory functions in monkey spinal cord.
Epigenetic cell fate in Candida albicans is controlled by transcription factor condensates acting at super-enhancer-like elements.
Nature microbiology, 2020

Cell identity in eukaryotes is controlled by transcriptional regulatory networks that define cell-type-specific gene expression. In the opportunistic fungal pathogen Candida albicans, transcriptional regulatory networks regulate epigenetic switching between two alternative cell states, 'white' and 'opaque', that exhibit distinct host interactions. In the present study, we reveal that the transcription factors (TFs) regulating cell identity contain prion-like domains (PrLDs) that enable liquid-liquid demixing and the formation of phase-separated condensates. Multiple white-opaque TFs can co-assemble into complex condensates as observed on single DNA molecules. Moreover, heterotypic interactions between PrLDs support the assembly of multifactorial condensates at a synthetic locus within live eukaryotic cells. Mutation of the Wor1 TF revealed that substitution of acidic residues in the PrLD blocked its ability to phase separate and co-recruit other TFs in live cells, as well as its function in C. albicans cell fate determination. Together, these studies reveal that PrLDs support the assembly of TF complexes that control fungal cell identity and highlight parallels with the 'super-enhancers' that regulate mammalian cell fate.