The Research Progress of Dynamic Behaviors of Nematodes in Fluids
-
摘要:
综述了线虫在流体环境中动力学行为的研究进展,内容涵盖其在不同环境中的个体运动与力学响应,以及群体聚集行为、理论模型、数值模拟和外部控制模型等方面.秀丽隐杆线虫(Caenorhabditis elegans)具有易观察性、高培养成活率及短生命周期等特点,已成为流体力学研究中常用的模式生物,为揭示生命运动的非平衡态物理规律及开发仿生微纳系统提供了研究平台.当前研究面临的主要挑战包括如何解析神经肌肉流体的多尺度耦合机制,原位捕捉群体行为的微观涌现过程,建立统一的多尺度计算框架,以及实现多物理场的协同精准调控.目前的研究已从机理上揭示了线虫个体运动的适应规律与集群行为的涌现机制,构建了跨尺度的理论模型与数值模拟方法,并开发了多物理场外部控制策略.未来研究将聚焦于高分辨率多模态测量技术开发、多尺度融合模型验证、多物理场协同调控策略创新、人工智能驱动的新方法学构建以及开源科学生态的完善,以期深化对生命运动规律的理解,并为先进仿生系统与生物医学技术的突破提供理论支撑.
Abstract:The advancements in understanding the dynamic behaviors of nematodes in fluid environments were reviewed, with foci on their individual locomotion and mechanical responses in various environments, collective aggregation behaviors, theoretical modeling, numerical simulations, and external control strategies. The Caenorhabditis elegans, owing to its advantages such as ease of observation, high culturing survival rates, and short life cycles, has become a widely used model organism in fluid dynamics research. It serves as a valuable platform for uncovering the physical principles of life motions under non-equilibrium conditions and for advancing the development of bioinspired micro/nano systems. Current research faces major challenges, including deciphering the multi-scale coupling mechanisms among neural, muscular, and fluidic systems, in situ capturing of the microscopic emergence processes of collective behaviors, establishing a unified multi-scale computational framework, and achieving synergistic and precise control via multi-physical fields. To date, studies have mechanistically elucidated the adaptive principles of individual locomotion and the emergence mechanisms of collective behaviors, developed cross-scale theoretical models and high-fidelity numerical simulation methods, and innovated external control strategies utilizing multi-physical fields. Future research will focus on advancing high-resolution multimodal measurement technologies, validating multi-scale integrated models, innovating multi-physics field control strategies, developing AI-driven methodologies, and improving open-source scientific ecosystems. These efforts aim to deepen the understanding of fundamental principles of biological motions and provide theoretical supports for breakthroughs in advanced biomimetic systems and biomedical technologies.
-
Key words:
- Caenorhabditis elegans /
- hydrodynamic characteristic /
- cluster behavior
-
Spagnolie S E, Underhill P T. Swimming in complex fluids[J].Annual Review of Condensed Matter Physics,2023,14: 381-415. [2]Sevilla F J. The non-equilibrium nature of active motion[M]//Olivares-Quiroz L,Resendis-Antonio O.Quantitative Models for Microscopic to Macroscopic Biological Macromolecules and Tissues. Cham Switzerland: Springer International Publishing, 2018: 59-86. [3]Te Vrugt M, Wittkowski R. Metareview: a survey of active matter reviews[J].The European Physical Journal E,2025,48: 12. [4]Malvar S, Carmo B S, Cunha F R. Rheology of a nematic active suspension undergoing oscillatory shear and step strain flows[J].Rheologica Acta,2019,58: 771-779. [5]Malvar S, Gontijo R G, Carmo B S, et al. On the kinematics-wave motion of living particles in suspension[J].Biomicrofluidics,2017,11(4): 044112. [6]Freund J B. Numerical simulation of flowing blood cells[J].Annual Review of Fluid Mechanics,2014,46: 67-95. [7]Ishimoto K, Gaffney E A. Hydrodynamic clustering of human sperm in viscoelastic fluids[J].Scientific Reports,2018,8: 15600. [8]Zaferani M, Cheong S H, Abbaspourrad A. Rheotaxis-based separation of sperm with progressive motility using a microfluidic corral system[J].Proceedings of the National Academy of Sciences,2018,115(33): 8272-8277. [9]Bloodgood R A. Flagella-dependent gliding motility in Chlamydomonas[J].Protoplasma,1981,106: 183-192. [10]Ostapenko T, Schwarzendahl F J, Bddeker T J, et al. Curvature-guided motility of microalgae in geometric confinement[J].Physical Review Letters,2018,120(6): 068002. [11]Krajacic P, Shen X, Purohit P K, et al. Biomechanical profiling of Caenorhabditis elegans motility[J].Genetics,2012,191(3): 1015-1021. [12]Ward S, Roberts T M, Nelson G A, et al. The development and motility of Caenorhabditis elegans spermatozoa[J].Journal of Nematology,1982,14(2): 259-266. [13]Gerardi M H.Wastewater Bacteria[M]. New Jersey, USA: John Wiley and Sons, 2006. [14]Gourgou E, Mirzakhalili E, Zhang Y, et al. The effect of internalized paramagnetic nanoparticles on Caenorhabditis elegans locomotion in the presence of magnetic field[J].Journal of Nanomaterials,2023,2023(1): 1634691. [15]Pierce-Shimomura J T, Chen B L, Mun J J, et al. Genetic analysis of crawling and swimming locomotory patterns in C. elegans[J].Proceedings of the National Academy of Sciences,2008,105(52): 20982-20987. [16]Palikaras K, Tavernarakis N. Caenorhabditis elegans (Nematode)[M]//Brenner’s Encyclopedia of Genetics. 2nd ed. Academic Press, 2013: 404-408. [17]Lin L C, Chuang H S. Analyzing the locomotory gaitprint of Caenorhabditis elegans on the basis of empirical mode decomposition[J].PLoS One,2017,12(7):e0181469. [18]Thomases B, Guy R D. Mechanisms of elastic enhancement and hindrance for finite-length undulatory swimmers in viscoelastic fluids[J].Physical Review Letters,2014,113(9): 098102. [19]Butler V J,Branicky R, Yemini E, et al. A consistent muscle activation strategy underlies crawling and swimming in Caenorhabditis elegans[J].Journal of the Royal Society Interface,2015,12(102): 20140963. [20]Harada S, Hashizume T, Nemoto K, et al. Fluid dynamics alter Caenorhabditis elegans body length via TGF-β/DBL-1 neuromuscular signaling[J].npj Microgravity,2016,2: 16006. [21]Ikeda Y, Jurica P, Kimura H, et al. C. elegans episodic swimming is driven by multifractal kinetics[J].Scientific Reports,2020,10: 14775. [22]Ge A, Wang X, Ge M, et al. Profile analysis of C. elegans rheotaxis behavior using a microfluidic device[J].Lab on a Chip,2019,19(3): 475-483. [23]Gupta B P, Rezai P. Microfluidic approaches for manipulating, imaging, and screening C. elegans[J].Micromachines,2016,7(7): 123. [24]Ji C W, Park Y S, Cui Y, et al. Analyzing the response behavior of Lumbriculus variegatus (Oligochaeta: Lumbriculidae) to different concentrations of copper sulfate based on line body shape detection and a recurrent self-organizing map[J].International Journal of Environmental Research and Public Health,2020,17(8): 2627. [25]Lockery S R, Lawton K J, Doll J C, et al. Artificial dirt: microfluidic substrates for nematode neurobiology and behavior[J].Journal of Neurophysiology,2008,99(6): 3136-3143. [26]Purcell E M. Life at low Reynolds number[C]//Physics and Our World: Reissue of the Proceedings of a Symposium in Honor of Victor F Weisskopf. Cambridge, UK: MIT Press, 2014: 47-67. [27]Ali N, Nand S, Kiran A, et al. Oscillating rheological behavior of Turbatrix aceti nematodes[J].Physics of Fluids,2023,35: 011906. [28]Binagia J P, Guido C J, Shaqfeh E S G. Three-dimensional simulations of undulatory and amoeboid swimmers in viscoelastic fluids[J].Soft Matter,2019,15(24): 4836-4855. [29]Wallace H R. The dynamics of nematode movement[J].Annual Review of Phytopathology,1968,6: 91-114. [30]Yuan J, Raizen D M, Bau H H. A hydrodynamic mechanism for attraction of undulatory microswimmers to surfaces (bordertaxis)[J].Journal of the Royal Society Interface,2015,12(109): 20150227. [31]Yuan J.Microswimmers and Microfluidics: Understanding and Manipulating the Locomotion of Undulatory Microswimmers[M]. Philadelphia, Pennsylvania, USA: University of Pennsylvania, 2015. [32]Yuan J, Raizen D M, Bau H H. Propensity of undulatory swimmers, such as worms, to go against the flow[J].Proceedings of the National Academy of Sciences,2015,112(12): 3606-3611. [33]Bau H H, Raizen D, Yuan J. Why do worms go against the flow? C. elegans behaviors explained by simple physics[J].Worm,2015,4(4): e1118606. [34]Ji H, Fouad A D, Li Z, et al. A proprioceptive feedback circuit drives Caenorhabditis elegans locomotor adaptation through dopamine signaling[J].Proceedings of the National Academy of Sciences,2023,120(20): e2219341120. [35]Park S, Hwang H, Nam S W, et al. Enhanced Caenorhabditis elegans locomotion in a structured microfluidic environment[J].PLoS One,2008,3(6): e2550. [36]Majmudar T, Keaveny E E, Zhang J, et al. Experiments and theory of undulatory locomotion in a simple structured medium[J].Journal of the Royal Society Interface,2012,9(73): 1809-1823. [37]Lebois F, Sauvage P, Py C, et al. Locomotion control of Caenorhabditis elegans through confinement[J].Biophysical Journal,2012,102(12): 2791-2798. [38]Bilbao A, Wajnryb E, Vanapalli S A, et al. Nematode locomotion in unconfined and confined fluids[J].Physics of Fluids,2013,25(8): 081902. [39]Schulman R D, Backholm M, Ryu W S, et al. Undulatory microswimming near solid boundaries[J].Physics of Fluids,2014,26(10): 101902. [40]Biswas A, Kudrolli A. Escape dynamics of confined undulating worms[J].Soft Matter,2023,19(23): 4376-4384. [41]Bilbao A, Patel A K, Rahman M, et al. Roll maneuvers are essential for active reorientation of Caenorhabditis elegans in 3D media[J].Proceedings of the National Academy of Sciences,2018,115(16): E3616-E3625. [42]Gray J, Lissmann H W. The locomotion of nematodes[J].Journal of Experimental Biology,1964,41(1): 135-154. [43]Sznitman J, Shen X, Sznitman R, et al. Propulsive force measurements and flow behavior of undulatory swimmers at low Reynolds number[J].Physics of Fluids,2010,22(12): 121901. [44]Sznitman J, Shen X, Purohit P K, et al. The effects of fluid viscosity on the kinematics and material properties of C. elegans swimming at low Reynolds number[J].Experimental Mechanics,2010,50: 1303-1311. [45]Fang-Yen C, Wyart M, Xie J, et al. Biomechanical analysis of gait adaptation in the nematode Caenorhabditis elegans[J].Proceedings of the National Academy of Sciences,2010,107(47): 20323-20328. [46]Backholm M, Kasper A K S, Schulman R D, et al. The effects of viscosity on the undulatory swimming dynamics of C elegans[J].Physics of Fluids,2015,27(9): 091901. [47]Boyle J H, Berri S, Cohen N. Gait modulation in C. elegans: an integrated neuromechanical model[J].Frontiers in Computational Neuroscience,2012,6: 10. [48]Zareei A, Jalali M A, Saadat M, et al. Propulsion and mixing generated by the digitized gait of Caenorhabditis elegans[J].Physical Review Applied,2019,11: 014065. [49]Gagnon D, Thomases B, Guy R D, et al. Undulatory swimming in viscoelastic fluids under confinement[PP/OL].V1. arXiv(2023-11-08)[2025-06-25]. https://doi.org/10.48550/arXiv.2311.05027. [50]Gagnon D A, Shen X N, Arratia P E. Undulatory swimming in fluids with polymer networks[J].Europhysics Letters,2013,104(1): 14004. [51]Shen X, Gagnon D, Arratia P. Undulatory swimming in shear-thinning fluids[C]//APS Division of Fluid Dynamics Meeting Abstracts. College Park, MD, USA: American Physical Society, 2012. [52]Gagnon D A, Arratia P E. The cost of swimming in generalized Newtonian fluids: experiments with C. elegans[J].Journal of Fluid Mechanics,2016,800: 753-765. [53]Park J S, Kim D, Shin J H, et al. Efficient nematode swimming in a shear thinning colloidal suspension[J].Soft Matter,2016,12(6): 1892-1897. [54]Vicsek T, Zafeiris A. Collective motion[J].Physics Reports,2012,517(3/4): 71-140. [55]Sugi T, Ito H, Nishimura M, et al. C. elegans collectively forms dynamical networks[J].Nature Communications,2019,10: 683. [56]Demir E, Yaman Y I, Basaran M, et al. Dynamics of pattern formation and emergence of swarming in Caenorhabditis elegans[J].eLife,2020,9: e52781. [57]Bak P, Tang C, Wiesenfeld K. Self-organized criticality: an explanation of the 1/f noise[J].Physical Review Letters,1987,59(4): 381-384. [58]Cavagna A, Cimarelli A, Giardina I, et al. Scale-free correlations in starling flocks[J].Proceedings of the National Academy of Sciences,2010,107(26): 11865-11870. [59]Yuan J, Raizen D M, Bau H H. Gait synchronization in Caenorhabditis elegans[J].Proceedings of the National Academy of Sciences,2014,111(19): 6865-6870. [60]Quillen A C, Peshkov A, Wright E, et al. Metachronal waves in concentrations of swimming Turbatrix aceti nematodes and an oscillator chain model for their coordinated motions[J].Physical Review E,2021,104: 014412. [61]Peshkov A, McGaffigan S, Quillen A C. Synchronized oscillations in swarms of nematode Turbatrix aceti[J].Soft Matter,2022,18(6): 1174-1182. [62]Wen Q, Po M D, Hulme E, et al. Proprioceptive coupling within motor neurons drives C. elegans forward locomotion[J].Neuron,2012,76(4): 750-761. [63]Acebrón J A, Bonilla L L, Pérez Vicente C J, et al. The Kuramoto model: a simple paradigm for synchronization phenomena[J].Reviews of Modern Physics,2005,77(1): 137-185. [64]Ajikumar A, Lei K F. Microfluidic technologies in advancing cancer research[J].Micromachines,2024,15(12): 1444. [65]Sumpter D J T.Collective Animal Behavior[M]. Princeton, USA: Princeton University Press, 2010. [66]Cohen N, Ranner T. A new computational method for a model of C. elegans biomechanics: insights into elasticity and locomotion performance[PP/OL]. V1. arXiv (2017-02-16)[2025-06-25]. https://doi.org/10.48550/arXiv.1702.04988. [67]Niebur E, Erds P. Theory of the locomotion of nematodes: dynamics of undulatory progression on a surface[J].Biophysical Journal,1991,60(5): 1132-1146. [68]Battista N A. Diving into a simple anguilliform swimmer’s sensitivity[J].Integrative and Comparative Biology,2020,60(5): 1236-1250. [69]Padmanabhan V, Khan Z S, Solomon D E, et al. Locomotion of C. elegans: a piecewise-harmonic curvature representation of nematode behavior[J].PLoS One,2012,7(7): e40121. [70]Leshansky A M. Enhanced low-Reynolds-number propulsion in heterogeneous viscous environments[J].Physical Review E,2009,80(5): 051911. [71]Deutz L. Gait modulation of undulatory microswimmers through the lens of optimality[D]. Leeds, UK: University of Leeds, 2024. [72]Wang Y, Ranner T, Ilett T P, et al. A monolithic optimal control method for displacement tracking of Cosserat rod with application to reconstruction of C. elegans locomotion[J].Computational Mechanics,2023,71(3): 409-432. [73]Gagnon D A, Keim N C, Shen X, et al. Fluid-induced propulsion of rigid particles in wormlike micellar solutions[J].Physics of Fluids,2014,26(10): 103101. [74]Tsang A C H, Tong P W, Nallan S, et al. Self-learning how to swim at low Reynolds number[J].Physical Review Fluids,2020,5(7): 074101. [75]Srivastava N, Clark D A, Samuel A D T. Temporal analysis of stochastic turning behavior of swimming C. elegans[J].Journal of Neurophysiology,2009,102(2): 1172-1179. [76]Taniguchi H, Suzuki D, Yoshida R. Characterization of autonomously oscillating viscosity induced by swelling/deswelling oscillation of the microgels[J].The Journal of Physical Chemistry B,2010,114(7): 2405-2410. [77]Inui K, Saito I, Yoshida R, et al. High-frequency swelling/deswelling oscillation of poly (oligoethylene glycol) methacrylate-based hydrogel microspheres with a tris (2, 2’-bipyridyl) ruthenium catalyst[J].ACS Applied Polymer Materials,2021,3(7): 3298-3306. [78]Jung S. Caenorhabditis elegans swimming in a saturated particulate system[J].Physics of Fluids,2010,22(3): 031903. [79]Montenegro-Johnson T D, Gagnon D A, Arratia P E, et al. Flow analysis of the low Reynolds number swimmer C. elegans[J].Physical Review Fluids,2016,1(5): 053202. [80]Ranner T. A stable finite element method for low inertia undulatory locomotion in three dimensions[J].Applied Numerical Mathematics,2020,156: 422-445. [81]Restif C, Ibáez-Ventoso C, Vora M M, et al. CeleST: computer vision software for quantitative analysis of C. elegans swim behavior reveals novel features of locomotion[J].PLoS Computational Biology,2014,10(7): e1003702. [82]Szigeti B, Gleeson P, Vella M, et al.OpenWorm: an open-science approach to modeling Caenorhabditis elegans[J].Frontiers in Computational Neuroscience,2014,8: 137. [83]Emmons S W. The beginning of connectomics: a commentary on Whiteet al.(1986) ‘The structure of the nervous system of the nematode Caenorhabditis elegans’[J].Philosophical Transactions of the Royal Society B:Biological Sciences,2015,370(1666): 20140309. [84]Biswas A, Huynh T, Desai B, et al. Dynamics of magnetoelastic robots in water-saturated granular beds[J].Physical Review Fluids,2023,8(9): 094304. [85]Arratia P E. Life in complex fluids: swimming in polymers[J].Physical Review Fluids,2022,7(11): 110515. [86]He J, Huang M, Wang D, et al. Magnetic separation techniques in sample preparation for biological analysis: a review[J].Journal of Pharmaceutical and Biomedical Analysis,2014,101: 84-101. [87]Al Harraq A, Feng M, Gauri H M, et al. Magnetic control of nonmagnetic living organisms[J].ACS Applied Materials & Interfaces,2024,16(14): 17339-17346. [88]Skjeltorp A T. One-and two-dimensional crystallization of magnetic holes[J].Physical Review Letters,1983,51(25): 2306-2309. [89]Cernák J, Helgesen G, Skjeltorp A T. Aggregation dynamics of nonmagnetic particles in a ferrofluid[J].Physical Review E,2004,70(3): 031504. [90]Hejazian M, Nguyen N T. Negative magnetophoresis in diluted ferrofluid flow[J].Lab on a Chip,2015,15(14): 2998-3005. [91]Dong X, Kheiri S, Lu Y, et al. Toward a living soft microrobot through optogenetic locomotion control of Caenorhabditis elegans[J].Science Robotics,2021,6(55): eabe3950. [92]Rezai P, Siddiqui A, Selvaganapathy P R, et al. Electrotaxis of Caenorhabditis elegans in a microfluidic environment[J].Lab on a Chip,2010,10(2): 220-226. [93]Shi J, Ahmed D, Mao X, et al. Acoustic tweezers: patterning cells and microparticles using standing surface acoustic waves (SSAW)[J].Lab on a Chip,2009,9(20): 2890-2895. [94]Albrecht D R, Bargmann C I. High-content behavioral analysis of Caenorhabditis elegans in precise spatiotemporal chemical environments[J].Nature Methods,2011,8(7): 599-605. [95]Zhang Y, Lu H, Bargmann C I. Pathogenic bacteria induce aversive olfactory learning in Caenorhabditis elegans[J].Nature,2005,438(7065): 179-184. [96]Chung K, Lu H. Automated high-throughput cell microsurgery on-chip[J].Lab on a Chip,2009,9(19): 2764-2766. [97]Chen J, Wang Y, Sun Y, et al. Path guided motion synthesis for Drosophila larvae[J].Frontiers of Information Technology & Electronic Engineering,2023,24(10): 1482-1496. -
计量
- 文章访问数: 142
- HTML全文浏览量: 19
- PDF下载量: 5
- 被引次数: 0
下载:
渝公网安备50010802005915号