对于采样稀少的细胞运动,速度与转弯之间自然会产生相关性。

IF 2 4区 生物学 Q4 BIOCHEMISTRY & MOLECULAR BIOLOGY Physical biology Pub Date : 2023-01-26 DOI:10.1088/1478-3975/acb18c
Vitaly V Ganusov, Viktor S Zenkov, Barun Majumder
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引用次数: 0

摘要

细胞运动的调节机制尚不完全清楚。细胞运动的一个特点是持久性,即细胞在与先前运动方向相似的方向上进行运动的能力。因此,持续性是由两次连续位移之间的转角(TA)决定的,可以用平均转角或持续时间来表征。最近记录斑马鱼 T 细胞运动的研究发现,细胞的平均速度和平均转角呈负相关,这表明存在一种基本的细胞内在程序,即转角越小(持续时间越长)的细胞内在速度越快(或速度快的细胞转角越小)。在本文中,我们对小鼠淋巴结或肝脏中 CD8 T 细胞三维运动的六个不同数据集进行了分析,证实了转动与速度之间存在相关性。有趣的是,在肝脏定位的 CD8 T 细胞因随血流漂浮而迅速移位的实验中,也观察到了 TA 与速度之间的负相关,这表明除了细胞内在程序外,可能还有其他机制在起作用。通过使用两种不同的框架(一种基于冯-米塞斯-费舍尔(von Mises-Fisher,vMF)分布,另一种基于奥恩斯坦-乌伦贝克(Ornstein-Uhlenbeck,OU)过程)模拟相关随机行走,我们发现,当细胞轨迹被子采样时,即采样频率低于细胞通常运动的频率时,速度与转向之间的负相关性自然会产生。当采样频率的数量级为细胞持续时间的倒数时,以及当细胞的持续时间不同时,这种效应最强。产生这种效应的部分原因是估计的细胞速度对成像频率很敏感,成像频率越低,细胞速度越慢。有趣的是,通过使用我们两个数据集中细胞的估计持续时间和使用 OU 过程模拟细胞运动,我们可以部分重现实验观察到的 TA 与速度之间的相关性,而无需将这两个过程联系起来的细胞内在程序。因此,我们的研究结果表明,至少在某些细胞轨迹数据中,子取样可能有助于(或许完全可以解释)观察到的速度与转向之间的相关性,并强调了取样频率在推断细胞运动的关键细胞参数(如速度)中的作用。
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Correlation between speed and turning naturally arises for sparsely sampled cell movements.

Mechanisms regulating cell movement are not fully understood. One feature of cell movement that determines how far cells displace from an initial position is persistence, the ability to perform movements in a direction similar to the previous movement direction. Persistence is thus determined by turning angles (TA) between two sequential displacements and can be characterized by an average TA or persistence time. Recent studies documenting T cell movement in zebrafish found that a cell's average speed and average TA are negatively correlated, suggesting a fundamental cell-intrinsic program whereby cells with a lower TA (and larger persistence time) are intrinsically faster (or faster cells turn less). In this paper we confirm the existence of the correlation between turning and speed for six different datasets on 3D movement of CD8 T cells in murine lymph nodes or liver. Interestingly, the negative correlation between TA and speed was observed in experiments in which liver-localized CD8 T cells rapidly displace due to floating with the blood flow, suggesting that other mechanisms besides cell-intrinsic program may be at play. By simulating correlated random walks using two different frameworks (one based on the von Mises-Fisher (vMF) distribution and another based on the Ornstein-Uhlenbeck (OU) process) we show that the negative correlation between speed and turning naturally arises when cell trajectories are sub-sampled, i.e. when the frequency of sampling is lower than frequency at which cells typically make movements. This effect is strongest when the sampling frequency is of the order of magnitude of the inverse of persistence time of cells and when cells vary in persistence time. The effect arises in part due to the sensitivity of estimated cell speeds to the frequency of imaging whereby less frequent imaging results in slower speeds. Interestingly, by using estimated persistence times for cells in two of our datasets and simulating cell movements using the OU process, we could partially reproduce the experimentally observed correlation between TA and speed without a cell-intrinsic program linking the two processes. Our results thus suggest that sub-sampling may contribute to (and perhaps fully explains) the observed correlation between speed and turning at least for some cell trajectory data and emphasize the role of sampling frequency in the inference of critical cellular parameters of cell motility such as speeds.

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来源期刊
Physical biology
Physical biology 生物-生物物理
CiteScore
4.20
自引率
0.00%
发文量
50
审稿时长
3 months
期刊介绍: Physical Biology publishes articles in the broad interdisciplinary field bridging biology with the physical sciences and engineering. This journal focuses on research in which quantitative approaches – experimental, theoretical and modeling – lead to new insights into biological systems at all scales of space and time, and all levels of organizational complexity. Physical Biology accepts contributions from a wide range of biological sub-fields, including topics such as: molecular biophysics, including single molecule studies, protein-protein and protein-DNA interactions subcellular structures, organelle dynamics, membranes, protein assemblies, chromosome structure intracellular processes, e.g. cytoskeleton dynamics, cellular transport, cell division systems biology, e.g. signaling, gene regulation and metabolic networks cells and their microenvironment, e.g. cell mechanics and motility, chemotaxis, extracellular matrix, biofilms cell-material interactions, e.g. biointerfaces, electrical stimulation and sensing, endocytosis cell-cell interactions, cell aggregates, organoids, tissues and organs developmental dynamics, including pattern formation and morphogenesis physical and evolutionary aspects of disease, e.g. cancer progression, amyloid formation neuronal systems, including information processing by networks, memory and learning population dynamics, ecology, and evolution collective action and emergence of collective phenomena.
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