Publications

2019
Lisa Voelker, Bishal Upadhyaya, Denise M Ferkey, Sarah Woldemariam, Noelle D L'Etoile, Ithai Rabinowitch, and Jihong Bai. 2019. “INX-18 and INX-19 play distinct roles in electrical synapses that modulate aversive behavior in Caenorhabditis elegans.” PLoS Genet, 15, 10, Pp. e1008341. Abstract
In order to respond to changing environments and fluctuations in internal states, animals adjust their behavior through diverse neuromodulatory mechanisms. In this study we show that electrical synapses between the ASH primary quinine-detecting sensory neurons and the neighboring ASK neurons are required for modulating the aversive response to the bitter tastant quinine in C. elegans. Mutant worms that lack the electrical synapse proteins INX-18 and INX-19 become hypersensitive to dilute quinine. Cell-specific rescue experiments indicate that inx-18 operates in ASK while inx-19 is required in both ASK and ASH for proper quinine sensitivity. Imaging analyses find that INX-19 in ASK and ASH localizes to the same regions in the nerve ring, suggesting that both sides of ASK-ASH electrical synapses contain INX-19. While inx-18 and inx-19 mutant animals have a similar behavioral phenotype, several lines of evidence suggest the proteins encoded by these genes play different roles in modulating the aversive quinine response. First, INX-18 and INX-19 localize to different regions of the nerve ring, indicating that they are not present in the same synapses. Second, removing inx-18 disrupts the distribution of INX-19, while removing inx-19 does not alter INX-18 localization. Finally, by using a fluorescent cGMP reporter, we find that INX-18 and INX-19 have distinct roles in establishing cGMP levels in ASK and ASH. Together, these results demonstrate that electrical synapses containing INX-18 and INX-19 facilitate modulation of ASH nociceptive signaling. Our findings support the idea that a network of electrical synapses mediates cGMP exchange between neurons, enabling modulation of sensory responses and behavior.
Ithai Rabinowitch. 2019. “What would a synthetic connectome look like?.” Phys Life Rev. Abstract
A major challenge of contemporary neuroscience is to unravel the structure of the connectome, the ensemble of neural connections that link between different functional units of the brain, and to reveal how this structure relates to brain function. This thriving area of research largely follows the general tradition in biology of reverse-engineering, which consists of first observing and characterizing a biological system or process, and then deconstructing it into its fundamental building blocks in order to infer its modes of operation. However, a complementary form of biology has emerged, synthetic biology, which emphasizes construction-based forward-engineering. The synthetic biology approach comprises the assembly of new biological systems out of elementary biological parts. The rationale is that the act of building a system can be a powerful method for gaining deep understanding of how that system works. As the fields of connectomics and synthetic biology are independently growing, I propose to consider the benefits of combining the two, to create synthetic connectomics, a new form of neuroscience and a new form of synthetic biology. The goal of synthetic connectomics would be to artificially design and construct the connectomes of live behaving organisms. Synthetic connectomics could serve as a unifying platform for unraveling the complexities of brain operation and perhaps also for generating new forms of artificial life, and, in general, could provide a valuable opportunity for empirically exploring theoretical predictions about network function. What would a synthetic connectome look like? What purposes would it serve? How could it be constructed? This review delineates the novel notion of a synthetic connectome and aims to lay out the initial steps towards its implementation, contemplating its impact on science and society.
2018
Yee Lian Chew, Yoshinori Tanizawa, Yongmin Cho, Buyun Zhao, Alex J Yu, Evan L Ardiel, Ithai Rabinowitch, Jihong Bai, Catharine H Rankin, Hang Lu, Isabel Beets, and William R Schafer. 2018. “An Afferent Neuropeptide System Transmits Mechanosensory Signals Triggering Sensitization and Arousal in C. elegans.” Neuron, 99, 6, Pp. 1233-1246.e6. Abstract
Sensitization is a simple form of behavioral plasticity by which an initial stimulus, often signaling danger, leads to increased responsiveness to subsequent stimuli. Cross-modal sensitization is an important feature of arousal in many organisms, yet its molecular and neural mechanisms are incompletely understood. Here we show that in C. elegans, aversive mechanical stimuli lead to both enhanced locomotor activity and sensitization of aversive chemosensory pathways. Both locomotor arousal and cross-modal sensitization depend on the release of FLP-20 neuropeptides from primary mechanosensory neurons and on their receptor FRPR-3. Surprisingly, the critical site of action of FRPR-3 for both sensory and locomotor arousal is RID, a single neuroendocrine cell specialized for the release of neuropeptides that responds to mechanical stimuli in a FLP-20-dependent manner. Thus, FLP-20 peptides function as an afferent arousal signal that conveys mechanosensory information to central neurons that modulate arousal and other behavioral states.
2017
Bicheng Han, Yongming Dong, Lin Zhang, Yan Liu, Ithai Rabinowitch, and Jihong Bai. 2017. “Dopamine signaling tunes spatial pattern selectivity in C. elegans.” Elife, 6. Abstract
Animals with complex brains can discriminate the spatial arrangement of physical features in the environment. It is unknown whether such sensitivity to spatial patterns can be accomplished in simpler nervous that lack long-range sensory modalities such as vision and hearing. Here we show that the nematode can discriminate spatial patterns in its surroundings, despite having a nervous system of only 302 neurons. This spatial pattern selectivity requires touch-dependent dopamine signaling, including the mechanosensory TRP-4 channel in dopaminergic neurons and the D2-like dopamine receptor DOP-3. We find that spatial pattern selectivity varies significantly among wild isolates. Electrophysiological recordings show that natural variations in TRP-4 reduce the mechanosensitivity of dopaminergic neurons. Polymorphic substitutions in either TRP-4 or DOP-3 alter the selectivity of spatial patterns. Together, these results demonstrate an ancestral role for dopamine signaling in tuning spatial pattern preferences in a simple nervous system.
2016
Ithai Rabinowitch, Millet Treinin, and Jihong Bai. 2016. “Artificial Optogenetic TRN Stimulation of C. elegans.” Bio Protoc, 6, 20. Abstract
Optogenetics is a powerful tool for manipulating neuronal activity with high temporal and spatial precision. In the nematode C. elegans optogentics is especially useful and easy to apply. This is because C. elegans is translucent, so its neurons are highly accessible to optic stimulation. In addition, many of its neurons can be exclusively targeted using cell-specific promoters. We have recently taken advantage of optogentics to deliver artificial patterns of prolonged activation to a class of mechanosensory neurons, called touch receptor neurons (TRNs) in worms that lack touch sensation due to a genetic mutation. Our aim was to examine whether we can counteract the effects of sensory loss by artificially activating the sensory neurons. Here we describe in detail the various components of the protocol that we used. This consists of exposing worms expressing the light-sensitive ion channel Channelrohdopsin 2 (ChR2) in TRNs to long-term random flashes of light.
Ithai Rabinowitch and Jihong Bai. 2016. “The foundations of cross-modal plasticity.” Commun Integr Biol, 9, 2, Pp. e1158378. Abstract
Cross-modal plasticity is a striking adaptive feature of the brain, whereby the loss of one sensory modality induces cortical reorganization that leads to enhanced sensory performance in remaining modalities. Much is known about the macroscopic modifications in the brain that underly cross-modal plasticity and the associated changes in sensory performance. In contrast there is relatively scant information about the molecular and cellular underpinnings of this mechanism. We hypothesized that cross-modal plasticity is a fundamental feature of the nervous system. As such, it should be found in organisms with brains that are substantially less complex than our own. Indeed, we discovered a cross-modal plasticity mechanism in the roundworm Caenorhabditis elegans, whose nervous system is composed of only 302 neurons. Taking advantage of the simplicity of the C. elegans nervous system, we were able to comprehensively study cross-modal plasticity from molecule through circuit to behavior.
Ithai Rabinowitch, Patrick Laurent, Buyun Zhao, Denise Walker, Isabel Beets, Liliane Schoofs, Jihong Bai, William R Schafer, and Millet Treinin. 2016. “Neuropeptide-Driven Cross-Modal Plasticity following Sensory Loss in Caenorhabditis elegans.” PLoS Biol, 14, 1, Pp. e1002348. Abstract
Sensory loss induces cross-modal plasticity, often resulting in altered performance in remaining sensory modalities. Whereas much is known about the macroscopic mechanisms underlying cross-modal plasticity, only scant information exists about its cellular and molecular underpinnings. We found that Caenorhabditis elegans nematodes deprived of a sense of body touch exhibit various changes in behavior, associated with other unimpaired senses. We focused on one such behavioral alteration, enhanced odor sensation, and sought to reveal the neuronal and molecular mechanisms that translate mechanosensory loss into improved olfactory acuity. To this end, we analyzed in mechanosensory mutants food-dependent locomotion patterns that are associated with olfactory responses and found changes that are consistent with enhanced olfaction. The altered locomotion could be reversed in adults by optogenetic stimulation of the touch receptor (mechanosensory) neurons. Furthermore, we revealed that the enhanced odor response is related to a strengthening of inhibitory AWC→AIY synaptic transmission in the olfactory circuit. Consistently, inserting in this circuit an engineered electrical synapse that diminishes AWC inhibition of AIY counteracted the locomotion changes in touch-deficient mutants. We found that this cross-modal signaling between the mechanosensory and olfactory circuits is mediated by neuropeptides, one of which we identified as FLP-20. Our results indicate that under normal function, ongoing touch receptor neuron activation evokes FLP-20 release, suppressing synaptic communication and thus dampening odor sensation. In contrast, in the absence of mechanosensory input, FLP-20 signaling is reduced, synaptic suppression is released, and this enables enhanced olfactory acuity; these changes are long lasting and do not represent ongoing modulation, as revealed by optogenetic experiments. Our work adds to a growing literature on the roles of neuropeptides in cross-modal signaling, by showing how activity-dependent neuropeptide signaling leads to specific cross-modal plastic changes in neural circuit connectivity, enhancing sensory performance.
2015
Ithai Rabinowitch and William R Schafer. 2015. “Engineering new synaptic connections in the C. elegans connectome.” Worm, 4, 2, Pp. e992668. Abstract
Most of what we currently know about how neural circuits work we owe to methods based on the electrical or optical recording of neural activity. This is changing dramatically. First, the advent of optogenetic techinques has enabled precise manipulation of the activity of specific neurons. Second, the development of super-resolution methods for obtaining detailed maps of synaptic connectivity has paved the way for uncovering the connectomes of entire brains or brain regions. We describe a third and complementary new strategy for investigating and manipulating neural circuits: the artificial insertion of new synapses into existing neural circuits using genetic engineering tools. We have successfully accomplished this in C. elegans. Thus, In addition to being the first animal with an entirely mapped connectome, C. elegans is now also the first animal to have an editable connectome. Variations on this approach may be applicable in more complex nervous systems.
2014
Ithai Rabinowitch, Marios Chatzigeorgiou, Buyun Zhao, Millet Treinin, and William R Schafer. 2014. “Rewiring neural circuits by the insertion of ectopic electrical synapses in transgenic C. elegans.” Nat Commun, 5, Pp. 4442. Abstract
Neural circuits are functional ensembles of neurons that are selectively interconnected by chemical or electrical synapses. Here we describe a synthetic biology approach to the study of neural circuits, whereby new electrical synapses can be introduced in novel sites in the neuronal circuitry to reprogram behaviour. We added electrical synapses composed of the vertebrate gap junction protein Cx36 between Caenorhabditis elegans chemosensory neurons with opposite intrinsic responses to salt. Connecting these neurons by an ectopic electrical synapse led to a loss of lateral asymmetry and altered chemotaxis behaviour. In a second example, introducing Cx36 into an inhibitory chemical synapse between an olfactory receptor neuron and an interneuron changed the sign of the connection from negative to positive, and abolished the animal's behavioural response to benzaldehyde. These data demonstrate a synthetic strategy to rewire behavioural circuits by engineering synaptic connectivity in C. elegans.
2013
Ithai Rabinowitch, Marios Chatzigeorgiou, and William R Schafer. 2013. “A gap junction circuit enhances processing of coincident mechanosensory inputs.” Curr Biol, 23, 11, Pp. 963-7. Abstract
Electrical synapses have been shown to be important for enabling and detecting neuronal synchrony in both vertebrates and invertebrates. Hub-and-spoke circuits, in which a central hub neuron is electrically coupled to several input neurons, are an overrepresented motif in the C. elegans nervous system and may represent a conserved functional unit. The functional relevance of this configuration has been demonstrated for circuits mediating aggregation behavior and nose touch perception. Modeling approaches have been useful for understanding structurally and dynamically more complex electrical circuits. Therefore, we formulated a simple analytical model with minimal assumptions to obtain insight into the properties of the hub-and-spoke microcircuit motif. A key prediction of the model is that an active input neuron should facilitate activity throughout the network, whereas an inactive input should suppress network activity through shunting; this prediction was supported by cell ablation and in vivo neuroimaging experiments in the C. elegans nose touch circuit. Thus, the hub-and-spoke architecture may implement an analog coincidence detector enabling distinct responses to distributed and localized patterns of sensory input.
2010
Juliette Ben Arous, Yoshinori Tanizawa, Ithai Rabinowitch, Didier Chatenay, and William R Schafer. 2010. “Automated imaging of neuronal activity in freely behaving Caenorhabditis elegans.” J Neurosci Methods, 187, 2, Pp. 229-34. Abstract
In order to understand how neuronal circuits control locomotory patterns it is necessary to record neuronal activity of freely behaving animals. Here, using a new automated system for simultaneous recording of behavior and neuronal activity in freely moving Caenorhabditis elegans on standard agar plates, we show that spontaneous reversals from forward to backward locomotion reflect precisely the activity of the AVA command interneurons. We also witness spontaneous activity transients in the PLM sensory neurons during free behavior of the worm in standard conditions. We show that these activity transients are coupled to short spontaneous forward accelerations of the worm.
2008
Ithai Rabinowitch and William Schafer. 2008. “Neuronal remodeling on the evolutionary timescale.” J Biol, 7, 10, Pp. 37. Abstract
Despite its remarkable capacity to undergo change at timescales ranging from a fraction of a second to a lifetime, there are many aspects of the nervous system that can be modified only at the enormously longer evolutionary timescale. A new study in BMC Biology using nematodes illustrates such evolutionary neuronal remodeling.
Ithai Rabinowitch and Idan Segev. 2008. “Two opposing plasticity mechanisms pulling a single synapse.” Trends Neurosci, 31, 8, Pp. 377-83. Abstract
Homeostatic synaptic plasticity (HSP) has been suggested to act as a negative feedback mechanism responsible for globally and uniformly scaling (up or down) the strength of all synapses in the neuron, in compensation for chronically aberrant (too low or too high) levels of activity. Such global scaling preserves the relative strengths of synapses and thus keeps 'Hebbian-like' memory traces (long-term potentiations, LTP, or depressions, LTD). However, new experimental findings demonstrate that HSP can operate locally, controlling each synapse individually. Seemingly, this finding implies that HSP can abolish any modification of synaptic strength (erase LTP/LTD). We propose that dendrites offer an inherent solution to this 'paradox' and that in fact local HSP might confer upon the neuron several surprising benefits, which are demonstrated using computer simulations.
2006
A common assumption in the literature on mixed-model assembly line balancing is that a task that is common to multiple models must be assigned to a single station. In this paper, we relax this restriction, and allow a common task to be assigned to different stations for different models. We seek to minimize the sum of costs of the stations and the task duplication. We develop an optimal solution procedure based on a backtracking branch-and-bound algorithm and evaluate its performance via a large set of experiments. A branch-and-bound based heuristic is then developed for solving large-scale problems. The heuristic solutions are compared with a lower bound and experiments show that the heuristic provides much better solutions than those obtained by traditional approaches. (c) 2005 Elsevier B.V. All rights reserved.
We investigated analytically and numerically the interplay between two opposing forms of synaptic plasticity: positive-feedback, long-term potentiation/depression (LTP/LTD), and negative-feedback, homeostatic synaptic plasticity (HSP). A detailed model of a CA1 pyramidal neuron, with numerous HSP-modifiable dendritic synapses, demonstrates that HSP may have an important role in selecting which spatial patterns of LTP/LTD are to last. Several measures are developed for predicting the net residual potentiation/depression after HSP from the initial spatial pattern of LTP/LTD. Under a local dendritic HSP mechanism, sparse patterns of LTP/LTD, which we show, using information theoretical tools, to have a significant impact on the output of the postsynaptic neuron, will persist. In contrast, spatially clustered patterns with a smaller impact on the output will diminish. A global somatic HSP mechanism, conversely, will favor distally occurring LTP/LTDs over proximal ones. Despite the negative-feedback nature of HSP, under both local and global HSP, numerous synaptic potentiations/depressions can persist. These experimentally testable results imply that HSP could be significantly involved in shaping the spatial distribution of synaptic weights in the dendrites and not just normalizing it, as is currently believed.
Ithai Rabinowitch and Idan Segev. 2006. “The interplay between homeostatic synaptic plasticity and functional dendritic compartments.” J Neurophysiol, 96, 1, Pp. 276-83. Abstract
Homeostatic synaptic plasticity (HSP) is an important mechanism attributed with the slow regulation of the neuron's activity. Whenever activity is chronically enhanced, HSP weakens the weights of the synapses in the dendrites and vice versa. Because dendritic morphology and its electrical properties partition the dendritic tree into functional compartments, we set out to explore the interplay between HSP and dendritic compartmentalization. For this purpose, we used a detailed model of a CA1 pyramidal neuron receiving a large number of activity-dependent plastic synapses and developed a novel approach for specifying functional dendritic subunits. We found that the degree of dendritic compartmentalization and the location-specificity of HSP are strongly tied. A local HSP mechanism, operating at the level of the individual synapse, will regard the neuron as a multiunit distributed system, each unit consisting of many synapses, and will thus support dendritic compartmentalization, whereas a global HSP mechanism, modifying all synapses in unison, will treat the neuron as a single centralized unit. Both local and global HSP can successfully counterbalance persistent, cell-wide perturbations of dendritic activity. The spatial distribution of synaptic weights throughout the dendrites will markedly differ under the local versus global HSP mechanisms. We suggest an experimental paradigm to unravel which type of HSP mechanism operates in the dendritic tree. The answer to this question will have important implications to our understanding of the functional organization of the neuron.