collective motion

  • 文章类型: Journal Article
    在低雷诺活性流体中观察到湍流,表现出与经典惯性湍流相似的现象学,但性质不同。理解这种新型湍流对维度的依赖性是非平衡物理学中的一个基本挑战。从二维到三维实验测量了细菌湍流的实空间结构和动能谱。湍流显示了三个由两个临界限制高度隔开的状态,由于细菌长度的竞争,涡流的大小和限制高度。同时,动能谱在准2D和3D状态下显示出不同的通用标度定律,独立于细菌活动,长度,和禁闭高度,而缩放指数在临界高度周围分两步过渡。我们开发的水动力学模型很好地捕获了缩放行为,它采用图像系统来表示限制边界的效果。该研究提出了一个框架,用于研究维度对非平衡自组织系统的影响。
    Turbulent flows are observed in low-Reynolds active fluids, which display similar phenomenology to the classical inertial turbulence but are of a different nature. Understanding the dependence of this new type of turbulence on dimensionality is a fundamental challenge in non-equilibrium physics. Real-space structures and kinetic energy spectra of bacterial turbulence are experimentally measured from two to three dimensions. The turbulence shows three regimes separated by two critical confinement heights, resulting from the competition of bacterial length, vortex size and confinement height. Meanwhile, the kinetic energy spectra display distinct universal scaling laws in quasi-2D and 3D regimes, independent of bacterial activity, length, and confinement height, whereas scaling exponents transition in two steps around the critical heights. The scaling behaviors are well captured by the hydrodynamic model we develop, which employs image systems to represent the effects of confining boundaries. The study suggests a framework for investigating the effect of dimensionality on non-equilibrium self-organized systems.
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  • 文章类型: Journal Article
    细胞增殖的调节是组织发育和体内平衡的一个重要方面,在形态发生中起着重要作用。伤口愈合,和肿瘤侵袭。这种调节的现象是接触抑制,描述了扩散的急剧放缓,当多个细胞彼此接触时,细胞迁移和单个细胞生长。虽然许多生理,分子和遗传因素是已知的,接触抑制的机理尚不完全清楚。特别是,由于界面接触引起的细胞信号传导与接触抑制的相关性仍存在争议。过去,细胞自动机(CA)已被用作数值有效的数学模型来研究细胞集合的动力学,但是它们不适合探索接触抑制的起源,因为这种基于试剂的模型假设细胞大小固定。我们开发了一个最小的,数据驱动模型通过扩展概率CA来模拟平面细胞培养物的动力学,以纳入生长和细胞分裂过程中单个细胞的大小变化。我们成功地将此模型应用于先前关于上皮组织接触抑制的体外实验:在系统校准模型参数以测量单细胞动力学之后,我们的CA模型定量地再现了对突发事件的独立测量,文化广泛的特点,像菌落大小一样,细胞密度和集体细胞迁移。特别是,CA模型的动力学还表现出从低密度汇合状态到静止的汇合后状态的过渡,细胞大小和运动迅速减小。这意味着体积排除原则,机械约束是模型中唯一包含的细胞间相互作用,与大小依赖性增殖率配对足以产生观察到的接触抑制。我们讨论了我们的方法如何在CA框架中引入有效的生物机械相互作用,以供未来研究使用。
    Regulation of cell proliferation is a crucial aspect of tissue development and homeostasis and plays a major role in morphogenesis, wound healing, and tumor invasion. A phenomenon of such regulation is contact inhibition, which describes the dramatic slowing of proliferation, cell migration and individual cell growth when multiple cells are in contact with each other. While many physiological, molecular and genetic factors are known, the mechanism of contact inhibition is still not fully understood. In particular, the relevance of cellular signaling due to interfacial contact for contact inhibition is still debated. Cellular automata (CA) have been employed in the past as numerically efficient mathematical models to study the dynamics of cell ensembles, but they are not suitable to explore the origins of contact inhibition as such agent-based models assume fixed cell sizes. We develop a minimal, data-driven model to simulate the dynamics of planar cell cultures by extending a probabilistic CA to incorporate size changes of individual cells during growth and cell division. We successfully apply this model to previous in-vitro experiments on contact inhibition in epithelial tissue: After a systematic calibration of the model parameters to measurements of single-cell dynamics, our CA model quantitatively reproduces independent measurements of emergent, culture-wide features, like colony size, cell density and collective cell migration. In particular, the dynamics of the CA model also exhibit the transition from a low-density confluent regime to a stationary postconfluent regime with a rapid decrease in cell size and motion. This implies that the volume exclusion principle, a mechanical constraint which is the only inter-cellular interaction incorporated in the model, paired with a size-dependent proliferation rate is sufficient to generate the observed contact inhibition. We discuss how our approach enables the introduction of effective bio-mechanical interactions in a CA framework for future studies.
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  • 文章类型: Journal Article
    融合的上皮单层中的细胞集体运动涉及许多过程,例如胚胎发育,癌侵袭,伤口愈合。开发新的化学策略以实现对细胞集体运动的大规模控制对于生物医学应用至关重要。在这里,合成了一系列不同尺寸的DNA纳米结构,并研究了它们对上皮单层细胞集体迁移和包装行为的影响。我们发现,带框的DNA纳米组件通过增加细胞的刚性有效地降低了细胞的速度,而脂质-DNA胶束对细胞投影面积和形状因子的影响更为明显。这些DNA纳米结构都显著增强了细胞速度对其形状因子的依赖性。我们的结果表明,单层细胞的迁移率可以通过化学细胞间相互作用来操纵,而无需任何遗传干预。这可能为组织工程和肿瘤治疗提供新的化学策略。
    Cellular collective motion in confluent epithelial monolayers is involved in many processes such as embryo development, carcinoma invasion, and wound healing. The development of new chemical strategies to achieve large-scale control of cells\' collective motion is essential for biomedical applications. Here a series of DNA nanostructures with different dimensions were synthesized and their influences on cells\' collective migration and packing behaviors in epithelial monolayers were investigated. We found that the framed DNA nanoassemblies effectively reduced the cells\' speed by increasing the rigidity of cells, while the lipid-DNA micelles had a more pronounced effect on cells\' projection area and shape factor. These DNA nanostructures all significantly enhanced the dependence of cells\' speed on their shape factor. Our results indicate that cells\' mobility in monolayers can be manipulated by chemical intercellular interactions without any genetic intervention. This may provide a new chemical strategy for tissue engineering and tumor therapy.
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  • 文章类型: Journal Article
    群体运动现象在自然界中普遍存在,从鱼群,鸟类和昆虫,雪崩,滑坡和沙流。如果我们把物体视为集体移动的粒子,这种现象可以从物理的角度来研究,对多身体系统的研究证明,最简单的个体可以产生奇妙的效果。许多个体的运动呈现与系统的排序相关的不同的动态阶段。然而,通常很难通过实验来研究动态有序及其过渡。在二维电子气中形成的电子气泡状态,作为一种电子固体,可以由外部电场驱动,为研究动态集体行为提供平台。这里,我们证明了噪声谱是研究气泡状态动力学的有效方法。我们不仅观察到动态有序和无序结构的现象,但他们之间也有意想不到的交替。我们的结果表明,在调整全局参数时,耗散系统可以在混沌结构和有序结构之间进行转换。这在电阻或电导的常规传输测量中是隐藏的。此外,对物体充电以研究集体运动中的电噪声谱可以是揭示动态有序过渡的另一种方法。
    The phenomenon of group motion is common in nature, ranging from the schools of fish, birds and insects, to avalanches, landslides and sand drift. If we treat objects as collectively moving particles, such phenomena can be studied from a physical point of view, and the research on many-body systems has proved that marvelous effects can arise from the simplest individuals. The motion of numerous individuals presents different dynamic phases related to the ordering of the system. However, it is usually difficult to study the dynamic ordering and its transitions through experiments. Electron bubble states formed in a two-dimensional electron gas, as a type of electron solids, can be driven by an external electric field and provide a platform to study the dynamic collective behaviors. Here, we demonstrate that the noise spectrum is a powerful method to investigate the dynamics of bubble states. We observed not only the phenomena of dynamically ordered and disordered structures, but also unexpected alternations between them. Our results show that a dissipative system can convert between chaotic structures and ordered structures when tuning global parameters, which is concealed in conventional transport measurements of resistance or conductance. Moreover, charging the objects to study the electrical noise spectrum in collective motions can be an additional approach to revealing dynamic ordering transitions.
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  • 文章类型: Journal Article
    集体运动在所有动物类群中都很常见,从成群的昆虫到成群的鱼群。集体运动需要个体之间复杂的行为整合,然而,关于大脑形态的进化变化如何影响个体协调群体行为的能力知之甚少。在这项研究中,我们利用选择性繁殖的孔雀鱼相对端脑大小,大脑形态的一个方面,通常与高级认知功能有关,使用开放场测定法检查其在集体运动中的作用。我们分析了由8个人组成的同性浅滩的高分辨率跟踪数据,以评估集体运动的不同方面,例如对齐,吸引附近的浅滩成员,游泳速度。我们的发现表明,孔雀鱼鱼群集体运动的变化可能不会受到相对端脑大小变化的强烈影响。我们的研究表明,集体移动动物的群体动力学可能不是由高级认知功能驱动的,而是由邻近个体之间相对简单的规则产生的基本认知过程驱动的。
    Collective motion is common across all animal taxa, from swarming insects to schools of fish. The collective motion requires intricate behavioral integration among individuals, yet little is known about how evolutionary changes in brain morphology influence the ability for individuals to coordinate behavior in groups. In this study, we utilized guppies that were selectively bred for relative telencephalon size, an aspect of brain morphology that is normally associated with advanced cognitive functions, to examine its role in collective motion using an open-field assay. We analyzed high-resolution tracking data of same-sex shoals consisting of 8 individuals to assess different aspects of collective motion, such as alignment, attraction to nearby shoal members, and swimming speed. Our findings indicate that variation in collective motion in guppy shoals might not be strongly affected by variation in relative telencephalon size. Our study suggests that group dynamics in collectively moving animals are likely not driven by advanced cognitive functions but rather by fundamental cognitive processes stemming from relatively simple rules among neighboring individuals.
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  • 文章类型: Journal Article
    微型和纳米机器人研究的前沿涉及开发模拟自然系统复杂性的智能游泳微型机器,例如通常在动物和微生物中观察到的群居和集体行为,高效的任务执行。这项研究介绍了具有聚合物螯合剂“手”装饰磁芯的磁控微型机器人。在外部磁场的影响下,功能化磁珠从单个微粒动态自组装成不同尺寸的明确定义的旋转平面,允许调节他们的推进速度,展示集体运动。这些可移动的微型机器人群可以主动捕获自由游动的细菌和分散的微塑料“即时”,从而清洁水生环境。与传统方法不同,这些微型机器人可以从复杂介质中收集,并可以以可控的方式在第二容器中释放捕获的污染物,也就是说,使用超声波,为在净化过程中重复使用提供可持续的解决方案。此外,对残留的水进行紫外线照射以消除任何残留的细菌,提供全面的清洁解决方案。总之,这项研究显示了用于水去污过程的蜂拥而至的微型机器人设计。
    The forefront of micro- and nanorobot research involves the development of smart swimming micromachines emulating the complexity of natural systems, such as the swarming and collective behaviors typically observed in animals and microorganisms, for efficient task execution. This study introduces magnetically controlled microrobots that possess polymeric sequestrant \"hands\" decorating a magnetic core. Under the influence of external magnetic fields, the functionalized magnetic beads dynamically self-assemble from individual microparticles into well-defined rotating planes of diverse dimensions, allowing modulation of their propulsion speed, and exhibiting a collective motion. These mobile microrobotic swarms can actively capture free-swimming bacteria and dispersed microplastics \"on-the-fly\", thereby cleaning aquatic environments. Unlike conventional methods, these microrobots can be collected from the complex media and can release the captured contaminants in a second vessel in a controllable manner, that is, using ultrasound, offering a sustainable solution for repeated use in decontamination processes. Additionally, the residual water is subjected to UV irradiation to eliminate any remaining bacteria, providing a comprehensive cleaning solution. In summary, this study shows a swarming microrobot design for water decontamination processes.
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  • 文章类型: Journal Article
    集体运动在自然界中无处不在;一群动物,比如鱼,鸟,有蹄类动物似乎作为一个整体移动,表现出丰富的行为方式,范围从定向运动到铣削到无序的蜂群。通常,这种宏观模式源于分散,组成成分之间的局部相互作用(例如,学校里的个体鱼)。这个过程的杰出模型将个体描述为自我推进的粒子,受到自我产生的运动和“社会力量”的影响,例如短程排斥和远程吸引或对准。然而,有机体不是粒子;它们是概率决策者。这里,我们介绍了一种基于主动推理的集体行为建模方法。这种认知框架将行为投射为单个命令的结果:最小化惊喜。我们证明了许多经验观察到的集体现象,包括凝聚力,铣削,和定向运动,当考虑由主动贝叶斯推理驱动的行为时,自然会出现-没有明确地将行为规则或目标构建到个体代理中。此外,我们证明,当代理人试图抑制与他们的期望相冲突的预测错误时,主动推理可以恢复和推广社会力量的经典概念。通过探索基于信念模型的参数空间,我们揭示了个人信念和群体属性之间的非平凡关系,例如极化和访问不同集体状态的趋势。我们还探讨了个人对不确定性的信念如何决定集体决策的准确性。最后,我们展示了代理人如何随着时间的推移更新他们的生成模型,导致群体共同对外部波动更敏感,信息编码更稳健。
    Collective motion is ubiquitous in nature; groups of animals, such as fish, birds, and ungulates appear to move as a whole, exhibiting a rich behavioral repertoire that ranges from directed movement to milling to disordered swarming. Typically, such macroscopic patterns arise from decentralized, local interactions among constituent components (e.g., individual fish in a school). Preeminent models of this process describe individuals as self-propelled particles, subject to self-generated motion and \"social forces\" such as short-range repulsion and long-range attraction or alignment. However, organisms are not particles; they are probabilistic decision-makers. Here, we introduce an approach to modeling collective behavior based on active inference. This cognitive framework casts behavior as the consequence of a single imperative: to minimize surprise. We demonstrate that many empirically observed collective phenomena, including cohesion, milling, and directed motion, emerge naturally when considering behavior as driven by active Bayesian inference-without explicitly building behavioral rules or goals into individual agents. Furthermore, we show that active inference can recover and generalize the classical notion of social forces as agents attempt to suppress prediction errors that conflict with their expectations. By exploring the parameter space of the belief-based model, we reveal nontrivial relationships between the individual beliefs and group properties like polarization and the tendency to visit different collective states. We also explore how individual beliefs about uncertainty determine collective decision-making accuracy. Finally, we show how agents can update their generative model over time, resulting in groups that are collectively more sensitive to external fluctuations and encode information more robustly.
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  • 文章类型: Journal Article
    迄今为止,对集体运动的研究一直由热力学观点主导,在热力学观点中,根据其时间平均的方向和空间特性分析了新兴的“成群”阶段。试图仔细检查从最初的随机配置自发驱动这些羊群形成的动态过程的研究更为罕见,也许是由于上述过程的发生远离系统的最终长期稳定状态,因此超出了传统统计力学的范围。对于动力学是数值模拟的系统,系统配置的非平稳分布可以在不同的时间点进行采样,系统的平均结构特性的时间演变可以量化。在本文中,我们使用这种策略来描述标准Vicsek植绒模型的空间动力学,使用凝聚态物理学常见的两个相关函数。我们证明,对于800到2000个代理的适度系统大小,自组装动力学可以通过三个不同和不同的时间尺度来表征,我们将它们与相应的聚类物理过程(压实)相关联,放松(扩张),和混合(重排)。我们进一步表明,这些相关函数的行为可用于可靠地区分具有不同潜在相互作用的现象学相似模型,在某些情况下,甚至提供关键模型参数的直接测量。
    Studies of collective motion have heretofore been dominated by a thermodynamic perspective in which the emergent \"flocked\" phases are analyzed in terms of their time-averaged orientational and spatial properties. Studies that attempt to scrutinize the dynamical processes that spontaneously drive the formation of these flocks from initially random configurations are far more rare, perhaps owing to the fact that said processes occur far from the eventual long-time steady state of the system and thus lie outside the scope of traditional statistical mechanics. For systems whose dynamics are simulated numerically, the nonstationary distribution of system configurations can be sampled at different time points, and the time evolution of the average structural properties of the system can be quantified. In this paper, we employ this strategy to characterize the spatial dynamics of the standard Vicsek flocking model using two correlation functions common to condensed matter physics. We demonstrate, for modest system sizes with 800 to 2000 agents, that the self-assembly dynamics can be characterized by three distinct and disparate time scales that we associate with the corresponding physical processes of clustering (compaction), relaxing (expansion), and mixing (rearrangement). We further show that the behavior of these correlation functions can be used to reliably distinguish between phenomenologically similar models with different underlying interactions and, in some cases, even provide a direct measurement of key model parameters.
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  • 文章类型: Journal Article
    间歇性运动在动物运动中普遍存在。特别感兴趣的是集体运动,其中必须处理社会和环境信息,以建立协调的运动。我们在蝗虫中探索了这种联系,专注于间歇性运动如何与蜂群相关的基于视觉的决策相互作用。使用一种新颖的方法,我们比较了蝗虫个体对连续运动刺激的反应,它们在半闭环条件下的反应,其中刺激与蝗虫行走同相移动,或者异相,即只在蝗虫暂停期间。我们的发现清楚地表明,在停顿期间出现视觉刺激时,蝗虫做出反应并“加入成群运动”的趋势更大。因此,本研究强烈证实了先前的迹象,即停顿在蝗虫集体运动相关决策中的主导作用。提出的见解有助于更深入地了解间歇性运动如何促进动物群中的群体凝聚力和协调性。
    Intermittent motion is prevalent in animal locomotion. Of special interest is the case of collective motion, in which social and environmental information must be processed in order to establish coordinated movement. We explored this nexus in locust, focusing on how intermittent motion interacts with swarming-related visual-based decision-making. Using a novel approach, we compared individual locust behaviour in response to continuously moving stimuli, with their response in semi-closed-loop conditions, in which the stimuli moved either in phase with the locust walking, or out of phase, i.e. only during the locust\'s pauses. Our findings clearly indicate the greater tendency of a locust to respond and \'join the swarming motion\' when the visual stimuli were presented during its pauses. Hence, the current study strongly confirms previous indications of the dominant role of pauses in the collective motion-related decision-making of locusts. The presented insights contribute to a deeper general understanding of how intermittent motion contributes to group cohesion and coordination in animal swarms.
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  • 文章类型: Journal Article
    复杂系统中的一个基本问题是如何将各个组件之间的相互作用(“微观描述”)与系统的全局属性(“宏观描述”)联系起来。此外,尚不清楚这种宏观描述是否存在,以及这种描述是否可以捕获大规模属性。这里,我们以沙漠蝗虫的集体运动为例,解决了对复杂生物系统进行宏观描述的有效性。世界上最具破坏性的昆虫瘟疫之一始于不会飞的幼年蝗虫形成“行进乐队”。这些乐队显示出惊人的协调运动,穿越半干旱的栖息地寻找食物。我们研究了宏观物理模型如何很好地描述条带内蝗虫的流动。为此,在肯尼亚爆发疫情期间,我们在游行乐队中拍摄了蝗虫,并自动跟踪所有通过摄像机框架的人。我们首先分析了最近邻的空间拓扑,发现个体是各向同性分布的。尽管有这种明显的随机性,在径向分布函数的高密度区域中观察到局部顺序,类似于有序的液体。此外,重建单个蝗虫的轨迹显示出高度一致的运动,与Toner-Tu方程的一维版本一致,流体的Navier-Stokes方程的推广,用于描述活性颗粒的等效宏观流体性质。利用这个有效的碳粉-图方程,将压力梯度与加速度联系起来,我们表明,蝗虫的有效“压力”作为具有最高极化的片段中密度的线性函数而增加(对于一维近似是最合适的)。因此,我们的研究证明了鼠疫蝗虫群中流动动力学的有效流体动力学描述。
    A fundamental question in complex systems is how to relate interactions between individual components (\'microscopic description\') to the global properties of the system (\'macroscopic description\'). Furthermore, it is unclear whether such a macroscopic description exists and if such a description can capture large-scale properties. Here, we address the validity of a macroscopic description of a complex biological system using the collective motion of desert locusts as a canonical example. One of the world\'s most devastating insect plagues begins when flightless juvenile locusts form \'marching bands\'. These bands display remarkable coordinated motion, moving through semiarid habitats in search of food. We investigated how well macroscopic physical models can describe the flow of locusts within a band. For this, we filmed locusts within marching bands during an outbreak in Kenya and automatically tracked all individuals passing through the camera frame. We first analyzed the spatial topology of nearest neighbors and found individuals to be isotropically distributed. Despite this apparent randomness, a local order was observed in regions of high density in the radial distribution function, akin to an ordered fluid. Furthermore, reconstructing individual locust trajectories revealed a highly aligned movement, consistent with the one-dimensional version of the Toner-Tu equations, a generalization of the Navier-Stokes equations for fluids, used to describe the equivalent macroscopic fluid properties of active particles. Using this effective Toner-Tu equation, which relates the gradient of the pressure to the acceleration, we show that the effective \'pressure\' of locusts increases as a linear function of density in segments with the highest polarization (for which the one-dimensional approximation is most appropriate). Our study thus demonstrates an effective hydrodynamic description of flow dynamics in plague locust swarms.
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