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The growing interest in active nematics and the emerging evidence of the relevance of topological defects in biology asks for reliable data analysis tools to identify, classify and track such defects in simulation and microscopy data. We…

Soft Condensed Matter · Physics 2020-02-10 Dennis Wenzel , Michael Nestler , Sebastian Reuther , Maximilian Simon , Axel Voigt

Living active collectives have evolved with remarkable self-patterning ability to meet the physical and biological constraints for growth and survival. However, how complex multicellular patterns emerge from a single founder cell remains…

Biological Physics · Physics 2022-11-30 Changhao Li , Japinder Nijjer , Luyi Feng , Qiuting Zhang , Jing Yan , Sulin Zhang

We introduce a general theoretical framework to study the shape dynamics of actively growing and remodeling surfaces. Using this framework we develop a physical model for growing bacterial cell walls and study the interplay of cell shape…

Biological Physics · Physics 2016-04-08 Shiladitya Banerjee , Norbert F. Scherer , Aaron R. Dinner

With exquisite precision and reproducibility, cells orchestrate the cooperative action of thousands of nanometer-sized molecular motors to carry out mechanical tasks at much larger length scales, such as cell motility, division and…

Soft Condensed Matter · Physics 2013-01-08 Tim Sanchez , Daniel T. N. Chen , Stephen J. DeCamp , Michael Heymann , Zvonimir Dogic

Surface tension governed by differential adhesion can drive fluid particle mixtures to sort into separate regions, i.e., demix. Does the same phenomenon occur in confluent biological tissues? We begin to answer this question for epithelial…

We consider active nematodynamics on deformable surfaces. Based on a thermodynamically consistent surface Beris-Edwards model we add nematic activity and focus on the emerging additional coupling mechanism between the nematic field, the…

Soft Condensed Matter · Physics 2024-05-24 Ingo Nitschke , Axel Voigt

The colonisation of a soft passive material by motile cells such as bacteria is common in biology. The resulting colonies of the invading cells are often observed to exhibit intricate patterns whose morphology and dynamics can depend on a…

Soft Condensed Matter · Physics 2021-01-12 Mohammad Imaran , Mandar Inamdar , Ranganathan Prabhakar , Raghunath Chelakkot

Colonies of the social bacterium Myxococcus xanthus go through a morphological transition from a thin colony of cells to three-dimensional droplet-like fruiting bodies as a strategy to survive starvation. The biological pathways that…

In the growth of bacterial colonies, a great variety of complex patterns are observed in experiments, depending on external conditions and the bacterial species. Typically, existing models employ systems of reaction-diffusion equations or…

Biological Physics · Physics 2019-11-12 Lautaro Vassallo , David Hansmann , Lidia A. Braunstein

Collective migration -- the directed, coordinated motion of many self-propelled agents -- is a fascinating emergent behavior exhibited by active matter that has key functional implications for biological systems. Extensive studies have…

Biological Physics · Physics 2022-06-07 Tapomoy Bhattacharjee , Daniel B. Amchin , Ricard Alert , J. A. Ott , Sujit S. Datta

Active nematic systems consist of rod-like internally driven subunits that interact with one another to form large-scale coherent flows. They are important examples of far-from-equilibrium fluids, which exhibit a wealth of nonlinear…

Soft Condensed Matter · Physics 2025-06-27 Kevin A. Mitchell , Md Mainul Hasan Sabbir , Sean Ricarte , Brandon Klein , Daniel A. Beller

There is now growing evidence of the emergence and biological functionality of liquid crystal features, including nematic order and topological defects, in cellular tissues. However, how such features that intrinsically rely on particle…

Soft Condensed Matter · Physics 2019-02-06 Romain Mueller , Julia Yeomans , Amin Doostmohammadi

Unlike coffee and cream that homogenize when stirred, growing micro-organisms (e.g., bacteria, baker's yeast) can actively kill each other and avoid mixing. How do such antagonistic interactions impact the growth and survival of competing…

Populations and Evolution · Quantitative Biology 2025-04-01 Jonathan Bauermann , Roberto Benzi , David R. Nelson , Suraj Shankar , Federico Toschi

Active materials are those in which individual, uncoordinated local stresses drive the material out of equilibrium on a global scale. Examples of such assemblies can be seen across scales from schools of fish to the cellular cytoskeleton…

Soft Condensed Matter · Physics 2022-09-30 Nitin Kumar , Rui Zhang , Steven A. Redford , Juan J. de Pablo , Margaret L. Gardel

Real-life bacteria often swim in complex fluids, but our understanding of the interactions between bacteria and complex surroundings is still evolving. In this work, rod-like \textit{Bacillus subtilis} swims in a quasi-2D environment with…

Spontaneous demixing in active matter is a ubiquitous phenomenon that is crucial for numerous living processes ranging from bacterial swarming to sorting of cells in dense tissues. Here, we systematically investigate the effect of spatially…

Soft Condensed Matter · Physics 2026-05-29 Rashmi Trivedi , Subhajit Paul , Sumanta Kundu , Sunita Kumari

Many active systems display nematic order, while interacting with their environment. In this work, we show theoretically how environment-stored memory acts an effective external field that aligns active nematics. The coupling to the…

Soft Condensed Matter · Physics 2024-11-05 Ram M. Adar , Jean-François Joanny

We use a two-fluid model to study a confined mixture of an active nematic fluid and a passive isotropic fluid. We find that an extensile active fluid preferentially accumulates at a boundary if the anchoring is planar, whereas its boundary…

Soft Condensed Matter · Physics 2025-09-03 Saraswat Bhattacharyya , Julia M. Yeomans

We study non-equilibrium bacterial colony growth using a geometry-first, time-resolved analysis of morphology. From time-lapse microscopy data, we track the coupled evolution of area, perimeter, and boundary-sensitive shape descriptors…

Soft Condensed Matter · Physics 2026-02-06 Benjamin Evert Himberg , Sanghita Sengupta

The field of active matter explores the behaviors of self propelled agents out of equilibrium, with active suspensions, such as swimming bacteria in solutions, serving as impactful models. These systems exhibit spatio-temporal patterns akin…

Soft Condensed Matter · Physics 2025-08-26 Pratikshya Jena , Shradha Mishra