Article
Multidisciplinary Sciences
Jiliang Hu, Daniel R. Amor, Matthieu Barbier, Guy Bunin, Jeff Gore
Summary: Using bacterial microcosms, researchers found predictable emergent patterns of diversity and dynamics in ecological communities, showing that high biodiversity and fluctuations reinforce each other.
Article
Multidisciplinary Sciences
Yashar Bashirzadeh, Hossein Moghimianavval, Allen P. Liu
Summary: Cell shape changes during locomotion and cytokinesis are primarily driven by myosin-induced remodeling of cortical actin patterns. The architecture of actin networks, which largely determines the shape of the membrane, is influenced by passive crosslinkers such as alpha-actinin and fascin, as well as the actin nucleator Arp2/3 complex. By reconstituting actomyosin networks in cell-sized lipid bilayer vesicles, the study shows that the size of the vesicle and the concentrations of alpha-actinin and fascin can lead to the assembly of different actomyosin patterns, such as rings and aster-like structures.
Article
Cell Biology
Ines Staes, Leonard E. Backer, Kenneth Simoens, Kjerstin De Winter, Gasper Marolt, William Cenens, Sanne Wolput, Alan R. Vazquez, Peter Goos, Rob Lavigne, Kristel Bernaerts, Abram Aertsen
Summary: This study reveals the impact of phage-borne superinfection exclusion factors (SEFs) in P22-infected Salmonella populations, leading to a switch from vertical to horizontal transmission in the face of host-cell scarcity.
Article
Ecology
Jaime M. Anaya-Rojas, Ronald D. Bassar, Tomos Potter, Allison Blanchette, Shay Callahan, Nick Framstead, David Reznick, Joseph Travis
Summary: Theory suggests that competing species can coexist in a community when intraspecific competition is stronger than interspecific competition. This study found that the evolution of species- and size-dependent competitive asymmetries increased the likelihood of coexistence between interacting species. Furthermore, the research highlights the importance of integrating evolution and trait-based interactions into studies on species coexistence.
JOURNAL OF ANIMAL ECOLOGY
(2021)
Article
Environmental Sciences
S. Klesse, T. Wohlgemuth, K. Meusburger, Y. Vitasse, G. von Arx, M. Levesque, A. Neycken, S. Braun, V Dubach, A. Gessler, C. Ginzler, M. M. Gossner, F. Hagedorn, V Queloz, E. Samblas Vives, A. Rigling, E. R. Frei
Summary: Ongoing climate warming is exacerbating the impact of extreme droughts, as seen in the widespread defoliation of European beech forests in Central Europe in 2018. This study found that soil water availability is strongly related to crown damage severity, and that tree growth characteristics and site-level variables play a role in the within-stand variation of post-drought crown damage. The results suggest that European beech may struggle to cope with future extreme droughts caused by climate change.
SCIENCE OF THE TOTAL ENVIRONMENT
(2022)
Article
Cell Biology
Nawaraj Dulal, Audra Mae Rogers, Rinalda Proko, Baronger Dowell Bieger, Rohana Liyanage, Venkata Rao Krishnamurthi, Yong Wang, Martin John Egan
Summary: This study reveals that the formation and functionality of the appressorium used by the fungus Magnaporthe oryzae to invade rice leaves and initiate disease is dependent on the assembly of a cortical septin ring. The research shows that the contraction and remodeling of F-actin rings play a key role in maintaining the structural integrity of incipient septin discs, which also rely on an intact microtubule cytoskeleton. Additionally, the actin modulator coronin is identified as a protein associated with septin structures, and disruption of F-actin-mediated remodeling in the absence of coronin is observed.
JOURNAL OF CELL SCIENCE
(2021)
Article
Ecology
Nijat Narimanov, Tobias Bauer, Dries Bonte, Lorenz Fahse, Martin H. Entling
Summary: The invasive spider Mermessus trilobatus has been spreading rapidly in Europe, with its invaded range increasing from about 150 km in the 1980s to approximately 400 km between 2010 and 2020. The offspring of populations at the invasion front showed a higher propensity for dispersal compared to the core area, while there were no differences in reproduction or competitive ability among the studied populations.
GLOBAL ECOLOGY AND BIOGEOGRAPHY
(2022)
Article
Biology
Robert A. Sommer, Jerry T. DeWitt, Raymond Tan, Douglas R. Kellogg
Summary: The entry into the cell cycle is initiated by the cyclin Cln3, which drives an increase in cell cycle entry by inactivating Whi5. The concentration changes of Whi5 do not play a major role in controlling the cell cycle entry process, instead, cell growth triggers the entry by increasing the concentration of Cln3. Accumulation of Cln3 is dependent upon homologs of mammalian SGK kinases, suggesting a crucial link between cell growth and the cell cycle.
Article
Agriculture, Dairy & Animal Science
Angela Schwarm, Marcus Clauss, Sylvia Ortmann, Rasmus B. Jensen
Summary: This study conducted experiments on caecum-cannulated horses and found significant but small differences in digestion time between liquid and particle digesta, without any selective retention of particle size classes observed.
JOURNAL OF ANIMAL PHYSIOLOGY AND ANIMAL NUTRITION
(2022)
Article
Ecology
Edeline Eric, Loeuille Nicolas
Summary: Harvesting can lead to body downsizing and population declines, which are not only direct consequences of harvest selection but also result from changes in ecological features, indirectly reshaping natural selection through eco-evolutionary feedback loops.
Article
Behavioral Sciences
A. Malagnino, P. Marchand, M. Garel, B. Cargnelutti, C. Itty, Y. Chaval, A. J. M. Hewison, A. Loison, N. Morellet
Summary: Different age and sex groups of large herbivores exhibit varied spatial behavior strategies based on their life histories, with aging and reproductive activity being major determinants of their spatial behavior.
Article
Agronomy
Shuai Li, Qiqi Zhang, Huimin Zhang, Jie Wang, Jinjing Sun, Xueyong Yang, Sanwen Huang, Zhonghua Zhang
Summary: This study focused on a novel dwarf mutant dw2 in cucumber, and identified a candidate gene CsSMR1 that may be responsible for the dwarf phenotype through gene mapping and cloning. The down-regulation of CsSTM and CsWOX9 in dw2 was found to affect shoot apical meristem development, leading to reduced internode number and plant height. The findings provide new insights into cucumber architecture modification for mechanized production systems.
THEORETICAL AND APPLIED GENETICS
(2022)
Article
Ecology
Alix Bouffet-Halle, Jacques Meriguet, David Carmignac, Simon Agostini, Alexis Millot, Samuel Perret, Eric Motard, Beatriz Decenciere, Eric Edeline
Summary: Selective harvesting can lead to rapid changes in life history traits, which may not only be a result of direct selection against large body size, but also a relaxation of natural selection due to harvesting. This study found evidence of density-dependent selection favoring large-bodied individuals at high population densities in medaka fish populations, while direct harvesting selected against large body size and decreased population densities. Harvested and unharvested populations of medaka exhibited divergent life history traits, driven by density-dependent natural selection for larger body size in unharvested populations rather than direct selection for smaller body size in harvested populations.
Article
Ecology
Fernando M. Lansac-Toha, Luis M. Bini, Jani Heino, Bianca R. Meira, Bianca T. Segovia, Carla S. Pavanelli, Claudia C. Bonecker, Claudia P. de Deus, Evanilde Benedito, Geziele M. Alves, Gislaine I. Manetta, Juliana D. Dias, Ludgero C. G. Vieira, Luzia C. Rodrigues, Maria do Carmo Roberto, Mercer R. Brugler, Michael J. Lemke, Michael Tessler, Rob DeSalle, Roger P. Mormul, Sidineia Amadio, Solange F. Lolis, Susicley Jati, Tadeu Siqueira, Willian M. Silva, Janet Higuti, Fabio A. Lansac-Toha, Koen Martens, Luiz Felipe M. Velho
Summary: Evaluating the varying dispersal capabilities of different organismal groups and the signals of environmental, spatial, and temporal factors at multiple scales is crucial for understanding metacommunity theory. This study in Brazilian floodplains found that environmental factors play a larger role at smaller spatial scales, while spatial factors become increasingly important at larger scales for regulating community structure across different biological groups.
JOURNAL OF BIOGEOGRAPHY
(2021)
Article
Business
Donato Cutolo, Martin Kenney
Summary: Digital platforms play an increasingly important role in economic and societal activities, attracting a large number of entrepreneurs and driving the development of entire ecosystems. However, research often overlooks power imbalances for entrepreneurs within platform ecosystems and provides little guidance for competition.
ACADEMY OF MANAGEMENT PERSPECTIVES
(2021)
Article
Chemistry, Multidisciplinary
Hossein Moghimianavval, Chintan Patel, Sonisilpa Mohapatra, Sung-Won Hwang, Tunc Kayikcioglu, Yashar Bashirzadeh, Allen P. Liu, Taekjip Ha
Summary: InterSpy is introduced as a synthetic biology tool for engineering membrane-membrane interfaces. It allows tracking and reconstitution of functional fluorescent protein between apposing synthetic or cell membranes, demonstrating the potential for designing non-native cellular communication pathways and creating synthetic tissues. The technology is tested using a mammalian cell-free expression system and shows promising results.
Article
Chemistry, Physical
Carlos Floyd, Suriyanarayanan Vaikuntanathan, Aaron R. Dinner
Summary: In this study, a simulation platform for modeling viscoelastic media with tensorial elasticity is developed. By using the lattice Boltzmann algorithm and incorporating viscoelastic forces, elastic immersed objects, a microscopic orientation field, and coupling between viscoelasticity and the orientation field, the behavior of viscoelastic media can be accurately simulated. The study characterizes how the viscoelastic restoring force on a driven immersed object depends on various key parameters and the tensorial character of the elastic response. The results highlight the importance of considering previously neglected physical features, such as stress diffusion and the microscopic orientation field, in viscoelastic simulations.
JOURNAL OF CHEMICAL PHYSICS
(2023)
Article
Biochemical Research Methods
Lei Kai, Sonal, Tamara Heermann, Petra Schwille
Summary: Reversible membrane targeting of proteins is crucial for cellular interaction networks, but challenging to reconstitute in vitro. The researchers introduced cell-free prenylated protein synthesis (CFpPS), enabling the synthesis and membrane targeting of proteins, providing a new method for designing synthetic cells.
ACS SYNTHETIC BIOLOGY
(2023)
Article
Chemistry, Physical
Xiang Sherry Li, Brian Van Koten, Aaron R. Dinner, Erik H. Thiede
Summary: This paper investigates the error analysis of the MBAR estimator in the presence of correlated data, providing a central limit theorem to estimate the error. It also highlights the importance of addressing the effect of sample correlation by showing that the time required for the Markov chain to decorrelate in individual states can contribute considerably to the total MBAR error.
JOURNAL OF CHEMICAL PHYSICS
(2023)
Article
Chemistry, Physical
Subarna Sasmal, Martin McCullagh, Glen M. Hocky
Summary: In this work, we show that applying Linear Discriminant Analysis (LDA) to atomic positions is an effective way to obtain a good reaction coordinate between two different states of a biomolecule. The lack of rotational and translational invariance has prevented the use of atomic coordinates in enhanced sampling studies. However, by considering molecular configurations as members of equivalence classes in size-and-shape space, we overcome this issue and produce reaction coordinates that effectively characterize the transition between two states and allow for free energy estimation using enhanced sampling MD techniques.
JOURNAL OF CHEMICAL THEORY AND COMPUTATION
(2023)
Article
Multidisciplinary Sciences
Carlos Floyd, Arthur T. Molines, Xiangting Lei, Jerry E. Honts, Fred Chang, Mary Williard Elting, Suriyanarayanan Vaikuntanathan, Aaron R. Dinner, M. Saad Bhamla
Summary: In nature, certain ciliated protists can achieve ultrarapid movements using protein assemblies called myonemes, which respond to calcium ions. Existing theories fail to accurately describe these systems, so models are needed to understand their mechanisms. In this study, we analyze the contractile movements observed in two ciliated protists and propose a mathematical model based on their mechanochemistry. Our model demonstrates three distinct dynamic regimes, revealing unique scaling behaviors and kinematic signatures. This research not only provides insights into calcium-powered myoneme contraction in protists, but also has implications for designing ultrafast bioengineered systems.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2023)
Article
Chemistry, Multidisciplinary
Nishu Kanwa, Svetozar Gavrilovic, Gereon A. Brueggenthies, Yusuf Qutbuddin, Petra Schwille
Summary: Self-assembly of biological molecules and structures is essential to life, and lipid self-assembly plays a crucial role in cellular organization and membrane interactions. Lipid domains, known as rafts, recruit specific proteins and are involved in sorting and trafficking of membrane components. However, the relationship between protein recruitment and lipid domain formation has not been explored in depth.
ADVANCED MATERIALS INTERFACES
(2023)
Article
Chemistry, Physical
Maria Reverte-Lopez, Svetozar Gavrilovic, Adrian Merino-Salomon, Hiromune Eto, Ana Yaguee Relimpio, German Rivas, Petra Schwille
Summary: The bottom-up reconstitution of proteins can uncover hidden functions of proteins and in this study, it was shown that the bacterial Min proteins can transport diffusible cargo molecules directionally on membranes. The MinDE protein system was used to design 3D systems with surface patterning, demonstrating the ability to uniformly pattern bioactive molecules. Additionally, the MinDE system can form stationary patterns inside lipid vesicles, allowing for the targeting and clustering of higher-order protein structures. Min proteins are valuable tools for functionalizing artificial biosystems.
Article
Chemistry, Multidisciplinary
Sung-Won Hwang, Chung-Man Lim, Cong Truc Huynh, Hossein Moghimianavval, Nicholas A. Kotov, Eben Alsberg, Allen P. Liu
Summary: This study presents a strategy to confer mechano-responsive behavior on hydrogels by embedding hybrid vesicles. Under mechanical stress, these vesicles release encapsulated compounds that control the hydrogel network, offering promise for diverse biomedical applications.
ANGEWANDTE CHEMIE-INTERNATIONAL EDITION
(2023)
Article
Multidisciplinary Sciences
Beatrice Ramm, Dominik Schumacher, Andrea Harms, Tamara Heermann, Philipp Klos, Franziska Mueller, Petra Schwille, Lotte Sogaard-Andersen
Summary: The PomX/PomY/PomZ complex in the social bacterium Myxococcus xanthus directly positions and stimulates cytokinetic ring formation. The PomY forms liquid-like biomolecular condensates, while PomX self-assembles into filaments and enriches PomY through surface-assisted condensation. In vitro, PomY condensates selectively enrich FtsZ and nucleate its polymerization, suggesting a mechanism for spatiotemporally precise cell division.
NATURE COMMUNICATIONS
(2023)
Article
Multidisciplinary Sciences
Christian Niederauer, Chikim Nguyen, Miles Wang-Henderson, Johannes Stein, Sebastian Strauss, Alexander Cumberworth, Florian Stehr, Ralf Jungmann, Petra Schwille, Kristina A. Ganzinger
Summary: DNA-PAINT-SPT technique overcomes the limitations of fluorophore photobleaching and significantly improves observation times in in vitro SPT experiments. It is now extended to enable simultaneous dual-colour detection, allowing the quantification of protein dimerization and live cell membrane protein tracking. The technique demonstrates improved performance compared to single-dye SPT.
NATURE COMMUNICATIONS
(2023)
Article
Chemistry, Multidisciplinary
Yen-Yu Hsu, Samuel J. J. Chen, Julio Bernal-Chanchavac, Bineet Sharma, Hossein Moghimianavval, Nicholas Stephanopoulos, Allen P. P. Liu
Summary: In this study, a calcium-triggered DNA-mediated membrane fusion strategy was developed, where fusion was regulated by surface-bound PEG chains that can be cleaved by the calcium-activated protease calpain-1.
CHEMICAL COMMUNICATIONS
(2023)
Article
Chemistry, Physical
Gaurav Mitra, Chuan Chang, Angus McMullen, Daniela Puchall, Jasna Brujic, Glen M. Hocky
Summary: Colloidal particles with mobile binding molecules allow for spontaneous control over the number of droplet-droplet bonds by tuning the concentration of binders. A coarse-grained molecular dynamics model was used to study the self-assembly of these systems and explore how the valence of assembled structures can be controlled through the kinetics of binding and unbinding. This model provides insights into the molecular features governing valence control and can guide programmable design in experiments.
Article
Chemistry, Multidisciplinary
Benedikt Peter, Petra Schwille
Summary: Modern cells rely on evolved protein networks for essential functions, but primitive protocells required alternatives for genetic material dissemination. Temperature cycles on ancient earth were plausible driving forces for boosting protocellular complexity. Our study using confocal fluorescence microscopy demonstrates that freezing-thawing cycles promote content mixing between model protocells. We shed light on the exchange mechanism and show that destabilized membranes enable cargo molecule diffusion. This work reveals a simple scenario of inter-protocellular communication driven by freezing and melting of water.
Article
Chemistry, Multidisciplinary
Emilia Krok, Henri G. Franquelim, Madhurima Chattopadhyay, Hanna Orlikowska-Rzeznik, Petra Schwille, Lukasz Piatkowski
Summary: This study investigates the structural reorganization of lipid membranes under different hydration conditions. The findings show that reducing the hydration state of the membrane leads to increased lipid mixing between the liquid-disordered phase and the liquid-ordered phase. These changes are reversible upon membrane rehydration.