Neuronal messenger ribonucleoprotein transport follows an aging Levy walk.
Ontology highlight
ABSTRACT:
SUBMITTER: Song MS
PROVIDER: S-EPMC5783941 | biostudies-literature |
REPOSITORIES: biostudies-literature
Similar Datasets
Project description:Individual swimming bacteria are known to bias their random trajectories in search of food and to optimize survival. The motion of bacteria within a swarm, wherein they migrate as a collective group over a solid surface, is fundamentally different as typical bacterial swarms show large-scale swirling and streaming motions involving millions to billions of cells. Here by tracking trajectories of fluorescently labelled individuals within such dense swarms, we find that the bacteria are performing super-diffusion, consistent with Lévy walks. Lévy walks are characterized by trajectories that have straight stretches for extended lengths whose variance is infinite. The evidence of super-diffusion consistent with Lévy walks in bacteria suggests that this strategy may have evolved considerably earlier than previously thought.
| S-EPMC4598630 | biostudies-literature
Project description:Similar to other animal groups, human crowds exhibit various collective patterns that emerge from self-organization. Recent studies have emphasized that individuals anticipate their neighbours' motions to seek their paths in dynamical pedestrian flow. This path-seeking behaviour results in deviation of pedestrians from their desired directions (i.e. the direct path to their destination). However, the strategies that individuals adopt for the behaviour and how the deviation of individual movements impact the emergent organization are poorly understood. We here show that the path-seeking behaviour is performed through a scale-free movement strategy called a Lévy walk, which might facilitate transition to the group-level behaviour. In an experiment of lane formation, a striking example of self-organized patterning in human crowds, we observed how flows of oppositely moving pedestrians spontaneously separate into several unidirectional lanes. We found that before (but not after) lane formation, pedestrians deviate from the desired direction by Lévy walk process, which is considered optimal when searching unpredictably distributed resources. Pedestrians balance a trade-off between seeking their direct paths and reaching their goals as quickly as possible; they may achieve their optimal paths through Lévy walk process, facilitating the emergent lane formation.
| S-EPMC6505560 | biostudies-literature
Project description:Escherichia coli cells swim in aqueous environment in a random walk of alternating runs and tumbles. The diffusion characteristics of this random walk remains unclear. In this study, by tracking the swimming of wild-type cells in a three-dimensional (3D) homogeneous environment, we found that their trajectories are superdiffusive, consistent with Lévy walk behavior. For comparison, we tracked the swimming of mutant cells that lack the chemotaxis signaling noise (the steady-state fluctuation of the concentration of the chemotaxis response regulator CheY-P) and found that their trajectories are normal diffusive. Therefore, wild-type E. coli cells explore the environment by Lévy walk, which originates from the chemotaxis signaling noise. This Lévy walk pattern enhances their efficiency in environmental exploration.IMPORTANCEE. coli cells explore the environment in a random walk of alternating runs and tumbles. By tracking the 3D trajectories of E. coli cells in an aqueous environment, we found that their trajectories are superdiffusive, with a power-law shape for the distribution of run lengths, which is characteristics of Lévy walk. We further show that this Lévy walk behavior is due to the random fluctuation of the output level of the bacterial chemotaxis pathway, and it enhances the efficiency of the bacteria in exploring the environment.
| S-EPMC8105014 | biostudies-literature
Project description:Recent experimental and observational data have revealed that the internal structures of collective animal groups are not fixed in time. Rather, individuals can produce noise continuously within their group. These individuals' movements on the inside of the group, which appear to collapse the global order and information transfer, can enable interactions with various neighbors. In this study, we show that noise generated inherently in a school of ayus (Plecoglossus altivelis) is characterized by various power-law behaviors. First, we show that individual fish move faster than Brownian walkers with respect to the center of the mass of the school as a super-diffusive behavior, as seen in starling flocks. Second, we assess neighbor shuffling by measuring the duration of pair-wise contact and find that this distribution obeys the power law. Finally, we show that an individual's movement in the center of a mass reference frame displays a Lévy walk pattern. Our findings suggest that inherent noise (i.e., movements and changes in the relations between neighbors in a directed group) is dynamically self-organized in both time and space. In particular, Lévy walk in schools can be regarded as a well-balanced movement to facilitate dynamic collective motion and information transfer throughout the group.
| S-EPMC4454141 | biostudies-literature
Project description:We investigate, for the first time, navigation on networks with a Lévy walk strategy such that the step probability scales as pij ~ dij(-α), where dij is the Manhattan distance between nodes i and j, and α is the transport exponent. We find that the optimal transport exponent α(opt) of such a diffusion process is determined by the fractal dimension df of the underlying network. Specially, we theoretically derive the relation α(opt) = df + 2 for synthetic networks and we demonstrate that this holds for a number of real-world networks. Interestingly, the relationship we derive is different from previous results for Kleinberg navigation without or with a cost constraint, where the optimal conditions are α = df and α = df + 1, respectively. Our results uncover another general mechanism for how network dimension can precisely govern the efficient diffusion behavior on diverse networks.
| S-EPMC4658568 | biostudies-other
Project description:Lévy walks describe patterns of intermittent motion with variable step sizes. In complex biological systems, Lévy walks (non-Brownian, superdiffusive random walks) are associated with behaviors such as search patterns of animals foraging for food. Here we show that Lévy walks also describe patterns of oscillatory activity in primate cerebral cortex. We used a combination of empirical observation and modeling to investigate high-frequency (gamma band) local field potential activity in visual motion-processing cortical area MT of marmoset monkeys. We found that gamma activity is organized as localized burst patterns that propagate across the cortical surface with Lévy walk dynamics. Lévy walks are fundamentally different from either global synchronization, or regular propagating waves, because they include large steps that enable activity patterns to move rapidly over cortical modules. The presence of Lévy walk dynamics therefore represents a previously undiscovered mode of brain activity, and implies a novel way for the cortex to compute. We apply a biophysically realistic circuit model to explain that the Lévy walk dynamics arise from critical-state transitions between asynchronous and localized propagating wave states, and that these dynamics yield optimal spatial sampling of the cortical sheet. We hypothesise that Lévy walk dynamics could help the cortex to efficiently process variable inputs, and to find links in patterns of activity among sparsely spiking populations of neurons.
| S-EPMC8206356 | biostudies-literature
Project description:When searching for food, many organisms adopt a superdiffusive, scale-free movement pattern called a Lévy walk, which is considered optimal when foraging for heterogeneously located resources with little prior knowledge of distribution patterns [Viswanathan GM, da Luz MGE, Raposo EP, Stanley HE (2011) The Physics of Foraging: An Introduction to Random Searches and Biological Encounters]. Although memory of food locations and higher cognition may limit the benefits of random walk strategies, no studies to date have fully explored search patterns in human foraging. Here, we show that human hunter-gatherers, the Hadza of northern Tanzania, perform Lévy walks in nearly one-half of all foraging bouts. Lévy walks occur when searching for a wide variety of foods from animal prey to underground tubers, suggesting that, even in the most cognitively complex forager on Earth, such patterns are essential to understanding elementary foraging mechanisms. This movement pattern may be fundamental to how humans experience and interact with the world across a wide range of ecological contexts, and it may be adaptive to food distribution patterns on the landscape, which previous studies suggested for organisms with more limited cognition. Additionally, Lévy walks may have become common early in our genus when hunting and gathering arose as a major foraging strategy, playing an important role in the evolution of human mobility.
| S-EPMC3896191 | biostudies-other
Project description:Immune responses are based on the coordinated searching behaviors of immunocytes that are aimed at tracking down specific targets. The search efficiency of immunocytes significantly affects the speed of initiation and development of immune responses. Previous studies have shown that not only the intermittent walk but also the zigzag turning preference of immunocytes contributes to the search efficiency. However, among existing models describing immunocytes' search strategy, none has captured both features. Here we propose a zigzag generalized Lévy walk model to describe the search strategy of immunocytes more accurately and comprehensively by considering both the intermittent and the zigzag-turning walk features. Based on the analysis of the searching behaviors of typical immune cell types, dendritic cells and leukocytes, in their native physiological environment, we demonstrate that the model can describe the in vivo search strategy of immunocytes well. Furthermore, by analyzing the search efficiency, we find that this type of search strategy enables immunocytes to capture rare targets in approximately half the time than the previously proposed generalized Lévy walk. This study sheds new light on the fundamental mechanisms that drive the efficient initiation and development of immune responses and in turn may lead to the development of novel therapeutic approaches for diseases ranging from infection to cancer.
| S-EPMC4568454 | biostudies-other
Project description:The cytoplasmic fates of mRNAs are influenced by interactions between RNA-binding proteins and cis regulatory motifs. In the cytoplasm, mRNAs are present as messenger ribonucleoprotein particles, which include not only proteins that bind directly to the mRNA, but also additional proteins that are recruited via protein-protein interactions. Many labs have sought to purify such particles from cells, with limited success. We here describe a simple two-step procedure to purify actively translated mRNAs, with their associated proteins, from polysomes. We use a reporter mRNA that encodes a protein with three streptavidin binding peptides at the N-terminus. The polysomal reporter mRNA, with associated proteins, is purified via binding to a streptavidin matrix. The method takes four days, and can be applied in any cell that can be genetically manipulated. Using Trypanosoma brucei as a model system, we routinely purified 8% of the input reporter mRNA, with roughly 22-fold enrichment relative to un-tagged mRNAs, a final reporter-mRNA:total-mRNA ratio of about 1:10, and a protein purification factor of slightly over 1000-fold. Although the overall reporter mRNP composition is masked by the presence of proteins that are associated with many polysomal mRNAs, our method can be used to detect association of an RNA-binding protein that binds to specifically to a reporter mRNA.
| S-EPMC4726818 | biostudies-literature
Project description:Disruption of mitochondria axonal transport, essential for the maintenance of synaptic and neuronal integrity and function, has been identified in neurodegenerative diseases. Whether HIV-1 viral proteins affect mitochondria axonal transport is unknown, albeit HIV-associated neurocognitive disorders occur in around half of the patients living with HIV. Therefore, we sought to examine the effect of HIV-1 viral protein R (Vpr) on mitochondria axonal transport. Using mice primary neuronal cultures, we demonstrated that 4-day Vpr treatment reduced the ratio of moving mitochondria associated with (i) less energy (ATP) supply, (ii) reduction in Miro-1 and (iii) increase of α-synuclein which led to loss of microtubule stability as demonstrated by inconsecutive distribution of acetylated α-tubulin along the axons. Interestingly, the effect of Vpr on mitochondria axonal transport was partially restored in the presence of bongkrekic acid, a compound that negatively affected the Vpr-adenine nucleotide translocator (ANT) interaction and totally restored the ATP level in neurons. This indicated Vpr impaired mitochondria axonal transport partially related to its interaction with ANT. The above effect of Vpr was similar to the data obtained from hippocampal tissues isolated from 18-month-old aging mice compared to 5-month-old mice. In accord with previous clinical findings that HIV infection prematurely ages the brain and increases the susceptibility to HAND, we found that Vpr induced aging markers in neurons. Thus, we concluded that instead of causing cell death, low concentration of HIV-1 Vpr altered neuronal function related with inhibition of mitochondria axonal transport which might contribute to the accelerated neuronal aging.
| S-EPMC5397298 | biostudies-literature