self-organization

自组织
  • 文章类型: Journal Article
    动物群体需要达成并保持共识,以最大程度地减少个体之间的冲突并防止群体分裂。共识挑战的一个很好的例子是合作运输,多个人合作一起移动一个大项目。这种行为,只由蚂蚁和人类定期展示,要求个人同意向哪个方向移动。不像人类,蚂蚁不能使用口头交流,但很可能依靠私人信息和/或通过携带物品感知到的机械力来协调它们的行为。这里,我们研究了编织蚂蚁群体如何在使用系留对象协议的协作传输过程中达成共识,蚂蚁不得不运输一个用细绳拴在适当位置的猎物。该协议允许将知情蚂蚁的运动与不知情的个体的运动脱钩。我们表明,织工蚂蚁将所有小组成员的意见汇集在一起,以提高其导航准确性。我们使用对称破缺任务证实了这个结果,我们挑战蚂蚁在开放式走廊上航行。织草蚂蚁是第一个报告的蚂蚁物种使用“人群智慧”策略进行合作运输,证明共识机制可能因每个物种的生态而异。
    Animal groups need to achieve and maintain consensus to minimize conflict among individuals and prevent group fragmentation. An excellent example of a consensus challenge is cooperative transport, where multiple individuals cooperate to move a large item together. This behaviour, regularly displayed by ants and humans only, requires individuals to agree on which direction to move in. Unlike humans, ants cannot use verbal communication but most likely rely on private information and/or mechanical forces sensed through the carried item to coordinate their behaviour. Here, we investigated how groups of weaver ants achieve consensus during cooperative transport using a tethered-object protocol, where ants had to transport a prey item that was tethered in place with a thin string. This protocol allows the decoupling of the movement of informed ants from that of uninformed individuals. We showed that weaver ants pool together the opinions of all group members to increase their navigational accuracy. We confirmed this result using a symmetry-breaking task, in which we challenged ants with navigating an open-ended corridor. Weaver ants are the first reported ant species to use a \'wisdom-of-the-crowd\' strategy for cooperative transport, demonstrating that consensus mechanisms may differ according to the ecology of each species.
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  • 文章类型: Journal Article
    干细胞分裂过程中变异表型的空间排列在细胞组织的自组织中起着至关重要的作用。在这些细胞组件中观察到的模式,多种表型争夺空间和资源,在很大程度上受到不同扩散化学信号的混合影响。这个复杂的过程是在细胞内和细胞间事件相互作用的时间顺序框架内进行的。这包括接受外部兴奋剂,无论是由其他人分泌还是由环境提供,解释这些环境信号,并结合信息来指定细胞命运。这里,给定图灵系统产生的两种不同的信号模式,我们研究了使用这些信号作为改变生产率的外部线索的分化细胞的空间分布。通过提出一个计算地图,我们发现多重信号和发育细胞模式之间存在对应关系。换句话说,该模型为多信号中分化细胞的最终结构提供了适当的预测,多小区环境。相反,当给出细胞模式的最终快照时,我们的算法可以部分识别影响细胞结构形成的信号模式,前提是信令模式的管理动态是已知的。
    The spatial arrangement of variant phenotypes during stem cell division plays a crucial role in the self-organization of cell tissues. The patterns observed in these cellular assemblies, where multiple phenotypes vie for space and resources, are largely influenced by a mixture of different diffusible chemical signals. This complex process is carried out within a chronological framework of interplaying intracellular and intercellular events. This includes receiving external stimulants, whether secreted by other individuals or provided by the environment, interpreting these environmental signals, and incorporating the information to designate cell fate. Here, given two distinct signaling patterns generated by Turing systems, we investigated the spatial distribution of differentiating cells that use these signals as external cues for modifying the production rates. By proposing a computational map, we show that there is a correspondence between the multiple signaling and developmental cellular patterns. In other words, the model provides an appropriate prediction for the final structure of the differentiated cells in a multi-signal, multi-cell environment. Conversely, when a final snapshot of cellular patterns is given, our algorithm can partially identify the signaling patterns that influenced the formation of the cellular structure, provided that the governing dynamic of the signaling patterns is already known.
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  • 文章类型: Journal Article
    进化需要选择。分子/化学/前达尔文进化论也不例外。必须选择一个分子而不是另一个分子才能发生和推进分子进化。Evolution,然而,没有目标。物理定律没有功利的欲望,意图或熟练程度。法律和约束对“有用性”视而不见。“那么潜在的多步骤过程是如何被预期的,无生命性质的重视和追求?正式系统的编排可以物理化学自发吗?混沌理论的纯物理动力学自排序和不可逆的非平衡热力学“不平衡转换引擎”既不能实现编排,也不能实现正式组织。自然选择是一种被动的、事后的选择。达尔文的选择减少了适者生存的差异和繁殖。在自然发生的情况下,选择必须是1)活跃的,2)Pre-Function,3)有效。选择必须在存在非平凡功能过程之前在分子水平上进行。它不可能是被动的或次要的。什么自然主义机制可能在起作用?
    Evolution requires selection. Molecular/chemical/preDarwinian evolution is no exception. One molecule must be selected over another for molecular evolution to occur and advance. Evolution, however, has no goal. The laws of physics have no utilitarian desire, intent or proficiency. Laws and constraints are blind to \"usefulness.\" How then were potential multi-step processes anticipated, valued and pursued by inanimate nature? Can orchestration of formal systems be physico-chemically spontaneous? The purely physico-dynamic self-ordering of Chaos Theory and irreversible non-equilibrium thermodynamic \"engines of disequilibria conversion\" achieve neither orchestration nor formal organization. Natural selection is a passive and after-the-fact-of-life selection. Darwinian selection reduces to the differential survival and reproduction of the fittest already-living organisms. In the case of abiogenesis, selection had to be 1) Active, 2) Pre-Function, and 3) Efficacious. Selection had to take place at the molecular level prior to the existence of non-trivial functional processes. It could not have been passive or secondary. What naturalistic mechanisms might have been at play?
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  • 文章类型: Journal Article
    背景:初级保健通常被描述为变化缓慢。但是通过复杂性理论概念化,初级保健在不可预测的情况下不断变化,通过自组织过程的非线性方式。事实证明,自组织很难直接研究。我们旨在开发一种方法来研究自组织,并描述初级保健诊所如何随着时间的推移自我组织。
    方法:我们从2021年5月至11月完成了一个城市初级保健诊所的虚拟案例研究,应用参与者网络理论的方法论见解来研究自组织的复杂性理论概念。我们选择将注意力集中在改变组织惯例的自组织活动上。数据包括观察到的团队会议的现场笔记,文档集合,采访诊所成员,以及每周简短讨论的笔记,以检测改变临床和管理程序的措施。适应模式分析,我们按时间顺序描述了不同组织例程的变化,然后探索交叉变化。我们从参与的诊所寻求对结果的反馈。
    结果:在COVID-19大流行中,重新建立平衡仍然具有挑战性。初级保健诊所继续自我组织,以应对不断变化的卫生政策,早期适应的意外后果,工作人员变动,和临床护理计划。物理空间,技术,外部和内部政策,指导方针,和诊所成员都影响了自我组织。改变一个创造的涟漪效果,有时会产生新的,意想不到的问题。成员检查证实,在案例研究期间,我们捕获了组织例程的大部分更改。
    结论:通过参与者网络理论的见解,适用于研究改变组织惯例所采取的行动,有可能将自组织的理论建构付诸实施。我们的方法阐明了初级保健诊所作为一个不断变化的实体,具有共存和交叉的自组织过程,以应对变化的压力。
    BACKGROUND: Primary care is often described as slow to change. But conceptualized through complexity theory, primary care is continually changing in unpredictable, non-linear ways through self-organization processes. Self-organization has proven hard to study directly. We aimed to develop a methodology to study self-organization and describe how a primary care clinic self-organizes over time.
    METHODS: We completed a virtual case study of an urban primary care clinic from May-Nov 2021, applying methodological insights from actor-network theory to examine the complexity theory concept of self-organization. We chose to focus our attention on self-organization activities that alter organizational routines. Data included fieldnotes of observed team meetings, document collection, interviews with clinic members, and notes from brief weekly discussions to detect actions to change clinical and administrative routines. Adapting schema analysis, we described changes to different organizational routines chronologically, then explored intersecting changes. We sought feedback on results from the participating clinic.
    RESULTS: Re-establishing equilibrium remained challenging well into the COVID-19 pandemic. The primary care clinic continued to self-organize in response to changing health policies, unintended consequences of earlier adaptations, staff changes, and clinical care initiatives. Physical space, technologies, external and internal policies, guidelines, and clinic members all influenced self-organization. Changing one created ripple effects, sometimes generating new, unanticipated problems. Member checking confirmed we captured most of the changes to organizational routines during the case study period.
    CONCLUSIONS: Through insights from actor-network theory, applied to studying actions taken that alter organizational routines, it is possible to operationalize the theoretical construct of self-organization. Our methodology illuminates the primary care clinic as a continually changing entity with co-existing and intersecting processes of self-organization in response to varied change pressures.
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  • 文章类型: Journal Article
    自组织蛋白质模式对生命系统至关重要,控制重要的细胞过程,如极化和分裂。虽然蛋白质自组织领域已经达到了可以使用纯化的蛋白质在体外重建基本模式形成机制的地步,了解细胞如何动态切换和调节这些模式,尤其是在暂时需要的时候,这是一个有趣的前沿。这里,我们证明了通过调节简单的生物物理膜参数对自组织蛋白模式的有效调节。我们的研究重点是膜亲和力变化对由大肠杆菌脂质或最小脂质组成的脂质膜上Min蛋白模式的影响。我们提出了三个主要结果。首先,我们观察到一系列不同的模式表型的出现,从波浪形图案到雪花状结构。第二,我们证明了这些模式对蛋白质-膜接头密度的依赖性。最后,我们证明了雪花状图案的形状是通过膜电荷进行微调的。我们的结果表明,膜连接作为控制蛋白质模式形成的直接生物物理参数的显着影响。我们的研究指出了一种简单而有趣的机制,通过这种机制,细胞可以在中尺度上巧妙地调整和切换蛋白质模式。
    Self-organizing protein patterns are crucial for living systems, governing important cellular processes such as polarization and division. While the field of protein self-organization has reached a point where basic pattern-forming mechanisms can be reconstituted in vitro using purified proteins, understanding how cells can dynamically switch and modulate these patterns, especially when transiently needed, remains an interesting frontier. Here, we demonstrate the efficient regulation of self-organizing protein patterns through the modulation of simple biophysical membrane parameters. Our investigation focuses on the impact of membrane affinity changes on Min protein patterns at lipid membranes composed of Escherichia coli lipids or minimal lipid compositions, and we present three major results. First, we observed the emergence of a diverse array of pattern phenotypes, ranging from waves over flower-shaped patterns to snowflake-like structures. Second, we demonstrated the dependency of these patterns on the density of protein-membrane linkers. Finally, we demonstrate that the shape of snowflake-like patterns is fine-tuned by membrane charge. Our results demonstrate the significant influence of membrane linkage as a straightforward biophysical parameter governing protein pattern formation. Our research points towards a simple yet intriguing mechanism by which cells can adeptly tune and switch protein patterns on the mesoscale.
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  • 文章类型: Journal Article
    在整个生物学中,大型集体中的个体的自组织发生。数学模型可以帮助阐明这些动态背后的个体层面机制,但是分析的可操作性往往是以生物学直觉为代价的。离散模型通过跟踪每个个体来提供简单的解释,但在计算上可能是昂贵的。或者,连续模型通过表示无限主体的“有效”动力学来提供大规模的视角,但是他们的结果往往很难转化为实验相关的见解。我们通过将连续模型的时空动态和环境中基于个体的数据与生物现实联系起来,随时间变化的细胞数量。具体来说,我们在连续模型中引入并拟合了缩放参数,以解决由于低细胞数量和局部相互作用而导致的差异。我们以斑马鱼皮肤模式形成为动机的例子说明了我们的方法,在其中,我们创建了一个连续的框架,通过从离散模型中放大规则来描述单个细胞群的运动和增殖。当迁移或增殖单独起作用时,我们得到的连续模型准确地描述了基于平均试剂的整体解决方案。有趣的是,当两个过程同时起作用时,相同的参数不是最优的,强调了在结合迁移和增殖如何影响离散和连续动力学方面的丰富差异。
    Self-organization of individuals within large collectives occurs throughout biology. Mathematical models can help elucidate the individual-level mechanisms behind these dynamics, but analytical tractability often comes at the cost of biological intuition. Discrete models provide straightforward interpretations by tracking each individual yet can be computationally expensive. Alternatively, continuous models supply a large-scale perspective by representing the \'effective\' dynamics of infinite agents, but their results are often difficult to translate into experimentally relevant insights. We address this challenge by quantitatively linking spatio-temporal dynamics of continuous models and individual-based data in settings with biologically realistic, time-varying cell numbers. Specifically, we introduce and fit scaling parameters in continuous models to account for discrepancies that can arise from low cell numbers and localized interactions. We illustrate our approach on an example motivated by zebrafish-skin pattern formation, in which we create a continuous framework describing the movement and proliferation of a single cell population by upscaling rules from a discrete model. Our resulting continuous models accurately depict ensemble average agent-based solutions when migration or proliferation act alone. Interestingly, the same parameters are not optimal when both processes act simultaneously, highlighting a rich difference in how combining migration and proliferation affects discrete and continuous dynamics.
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  • 文章类型: Journal Article
    类器官是源自干细胞的3D培养组织,类似于活体器官的结构。根据神经发育方面积累的知识,通过诱导干细胞的自组织神经分化产生了概括神经组织的神经类器官。神经类器官技术已应用于人类多能干细胞以在培养中分化3D人类神经组织。已经开发了各种方法来产生不同区域的神经组织。目前,神经类器官技术有几个显著的局限性,它们正在被克服,试图创造更忠实地概括活大脑的神经类器官。快速发展的神经类器官技术使活体人类神经组织成为研究材料,并有助于我们对发展的理解,人类神经系统的结构和功能,并有望用于克服神经系统疾病和再生医学。
    Organoids are 3D cultured tissues derived from stem cells that resemble the structure of living organs. Based on the accumulated knowledge of neural development, neural organoids that recapitulate neural tissue have been created by inducing self-organized neural differentiation of stem cells. Neural organoid techniques have been applied to human pluripotent stem cells to differentiate 3D human neural tissues in culture. Various methods have been developed to generate neural tissues of different regions. Currently, neural organoid technology has several significant limitations, which are being overcome in an attempt to create neural organoids that more faithfully recapitulate the living brain. The rapidly advancing neural organoid technology enables the use of living human neural tissue as research material and contributes to our understanding of the development, structure and function of the human nervous system, and is expected to be used to overcome neurological diseases and for regenerative medicine.
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  • 文章类型: Journal Article
    基于三乙醇胺(TEOA)合成的有机磷支化多元醇(AEPAs),正磷酸(OPA),和MW=400(PEG)的聚乙二醇,获得了透气聚氨酯离聚物(AEPA-PEG-PU)。在AEPAs的合成过程中,在很宽的温度范围和不同的起始组分摩尔比下,研究了OPA醚化与聚乙二醇的反应。事实证明,OPA同时与三乙醇胺和PEG进行催化活化的醚化反应。TEOA完全参与醚化反应后,过量的OPA不与AEPA-PEG的末端羟基或剩余量的PEG反应。保持在未反应状态的正磷酸参与与AEPA的磷酸根离子的缔合相互作用。将合成温度从40°C增加至110°C导致OPA转化率的增加。然而,对于在100°C和110°C下获得的基于AEPA-PEG的AEPA-PEG-PU,正磷酸不再与AEPA的磷酸根离子发生缔合相互作用。由于聚乙二醇的亲水性,聚氨酯结构中磷酸根离子的存在,以及它们与未反应的正磷酸的缔合结合,聚氨酯中水分子的扩散增强,并获得了较高的蒸汽渗透率和拉伸强度值。
    Based on organophosphorus branched polyols (AEPAs) synthesized using triethanolamine (TEOA), ortho-phosphoric acid (OPA), and polyoxyethylene glycol with MW = 400 (PEG), vapor-permeable polyurethane ionomers (AEPA-PEG-PUs) were obtained. During the synthesis of AEPAs, the reaction of the OPA etherification with polyoxyethylene glycol was studied in a wide temperature range and at different molar ratios of the starting components. It turned out that OPA simultaneously undergoes a catalytically activated etherification reaction with triethanolamine and PEG. After TEOA is fully involved in the etherification reaction, excess OPA does not react with the terminal hydroxyl groups of AEPA-PEG or the remaining amount of PEG. The ortho-phosphoric acid remaining in an unreacted state is involved in associative interactions with the phosphate ions of the AEPA. Increasing the synthesis temperature from 40 °C to 110 °C leads to an increase in OPA conversion. However, for the AEPA-PEG-PU based on AEPA-PEG obtained at 100 °C and 110 °C, ortho-phosphoric acid no longer enters into associative interactions with the phosphate ions of the AEPA. Due to the hydrophilicity of polyoxyethylene glycol, the presence of phosphate ions in the polyurethane structure, and their associative binding with the unreacted ortho-phosphoric acid, the diffusion of water molecules in polyurethanes is enhanced, and high values of vapor permeability and tensile strength were achieved.
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  • 文章类型: Journal Article
    许多复杂的系统——从互联网到社交,生物,和通信网络-被认为表现出无标度结构。然而,普遍的解释要求网络随着时间的推移而增长,在一些现实世界中失败的假设。这里,我们解释了无标度结构如何通过网络自组织在没有增长的情况下出现。从任意网络开始,我们允许连接从随机节点分离,然后在优先和随机连接的混合下重新连接。虽然节点和边的数量保持固定,度分布向幂律演变,指数γ=11p,仅取决于优先(而不是随机)附着的比例p。将我们的模型应用于几个真实的网络,我们直接从数据中推断p,并预测网络规模与程度异质性之间的关系。一起,这些结果确定了无标度结构如何在恒定大小和密度的网络中出现,对复杂系统的结构和功能具有广泛的影响。
    Many complex systems-from the Internet to social, biological, and communication networks-are thought to exhibit scale-free structure. However, prevailing explanations require that networks grow over time, an assumption that fails in some real-world settings. Here, we explain how scale-free structure can emerge without growth through network self-organization. Beginning with an arbitrary network, we allow connections to detach from random nodes and then reconnect under a mixture of preferential and random attachment. While the numbers of nodes and edges remain fixed, the degree distribution evolves toward a power-law with an exponent γ = 1 + 1 p that depends only on the proportion p of preferential (rather than random) attachment. Applying our model to several real networks, we infer p directly from data and predict the relationship between network size and degree heterogeneity. Together, these results establish how scale-free structure can arise in networks of constant size and density, with broad implications for the structure and function of complex systems.
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  • 文章类型: Journal Article
    发育是建立在细胞及其相互作用基础上的自组织过程。细胞在基因表达上是异质的,增长,和分裂;然而,尽管有这样的异质性,发展如何稳健是一个令人着迷的问题。这里,我们回顾了这个主题的最新进展,强调如何通过自组织实现发展稳健性。我们将首先讨论异质性的来源,包括随机基因表达,增长率和方向的异质性,以及分割率和精度的异质性。然后我们讨论缓冲这种噪音的细胞机制,包括Paf1C和miRNA介导的去噪,时空生长平均和补偿,提高细胞分裂精度的机制,以及器官不同部位之间生长速度和发育时间的协调。我们还讨论了这种异质性没有缓冲而是用于开发的情况。最后,我们强调了未来噪声和发展鲁棒性研究的潜在方向。
    Development is a self-organized process that builds on cells and their interactions. Cells are heterogeneous in gene expression, growth, and division; yet how development is robust despite such heterogeneity is a fascinating question. Here, we review recent progress on this topic, highlighting how developmental robustness is achieved through self-organization. We will first discuss sources of heterogeneity, including stochastic gene expression, heterogeneity in growth rate and direction, and heterogeneity in division rate and precision. We then discuss cellular mechanisms that buffer against such noise, including Paf1C- and miRNA-mediated denoising, spatiotemporal growth averaging and compensation, mechanisms to improve cell division precision, and coordination of growth rate and developmental timing between different parts of an organ. We also discuss cases where such heterogeneity is not buffered but utilized for development. Finally, we highlight potential directions for future studies of noise and developmental robustness.
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