Article
Multidisciplinary Sciences
Rong Wang, Yu Qin, Xiao-Song Xie, Xiaochun Li
Summary: This study identifies mEAK7 as an endogenous modulator of V-ATPase and determines its structure in complex with V-ATPase. The findings suggest that mEAK7 may function as an inhibitor of V-ATPase and potentially link mTOR signaling with V-ATPase activity.
NATURE COMMUNICATIONS
(2022)
Article
Chemistry, Multidisciplinary
Arpita Paikar, Alexander Novichkov, Anton Hanopolskyi, Viktoryia A. Smaliak, Xiaomeng Sui, Nir Kampf, Ekaterina Skorb, Sergey N. Semenov
Summary: In this study, hydrogel actuators regulated by chemical reaction networks are developed. The actuators use an autocatalytic front of thiols to release mechanical strain and transmit chemical signals. The control of the autocatalytic front allows for gradual actuation and signal conversion.
ADVANCED MATERIALS
(2022)
Article
Multidisciplinary Sciences
Yizhi Liang, Huojiao Sun, Linghao Cheng, Long Jin, Bai-Ou Guan
Summary: In optoacoustic sensing, photothermally induced acoustic vibrations can achieve high-performance spatial resolution sensing through a focused pulsed laser, overcoming the limitation of weak electrostrictive force. Through optical measurement and mechanical scanning, high spatial resolution acoustic impedance resolution up to 10 micrometers can be achieved.
NATURE COMMUNICATIONS
(2021)
Article
Mathematics, Applied
Tal Shnitzer, Hau-Tieng Wu, Ronen Talmon
Summary: This paper proposes an operator-based approach for spatiotemporal analysis of multivariate time-series data. The approach combines manifold learning, Riemannian geometry, and spectral analysis techniques to extract different dynamic modes.
APPLIED AND COMPUTATIONAL HARMONIC ANALYSIS
(2024)
Review
Plant Sciences
Fan Xu, Feng Yu
Summary: pH plays a crucial role in nutrient acquisition, osmotic stress response, and cell expansion in plants. Plasma membrane-localized proton pumps, cell-wall components, and cell wall-remodeling enzymes work together to maintain extracellular pH homeostasis. Plant cells need to sense subtle pH changes caused by the environment or neighboring cells to adapt and regulate growth and development.
TRENDS IN PLANT SCIENCE
(2023)
Article
Environmental Sciences
Huimin Cao, Xiaobo Luo, Yidong Peng, Tianshou Xie
Summary: This article proposes a spatiotemporal fusion (STF) network architecture based on multiscale and attention mechanisms (MANet) to obtain high-spatial-high-temporal (HTHS) resolution remote sensing images. Experimental results show that the proposed MANet method achieves better fusion results than existing machine learning-based and deep learning-based fusion methods by retaining more temporal and spatial information and obtaining more accurate predicted images.
Article
Chemistry, Multidisciplinary
Ushasi Roy, Divyoj Singh, Navin Vincent, Chinmay K. Haritas, Mohit Kumar Jolly
Summary: This study investigates the emergence of spatiotemporal patterns through modeling gene regulatory networks and molecular diffusion. The results provide insights into the mechanisms and design principles of pattern formation facilitated by these networks.
Article
Computer Science, Artificial Intelligence
Jiyao An, Liang Guo, Wei Liu, Zhiqiang Fu, Ping Ren, Xinzhi Liu, Tao Li
Summary: A novel spatiotemporal graph convolutional networks model is proposed for traffic flow prediction in urban road networks by fully considering an information geometry approach and attention-based mechanism. The model demonstrates better performance in capturing dynamic spatial dependencies of traffic compared to existing only-attention based models.
Article
Environmental Sciences
Ya Chen, Weina Zhen, Yu Li, Ninghui Zhang, Yishao Shi, Donghui Shi
Summary: This study extracted the urban blue space (UBS) in Beijing using remote sensing data and employed exploratory spatial data analysis (ESDA) methods to examine its spatial and temporal development over the past two decades. The findings indicate fluctuating growth in UBS area, stable spatial clustering, improvements in ecological conditions, and the influence of science and technology management-related factors, precipitation, population, and economic conditions on UBS.
Article
Multidisciplinary Sciences
Kobi J. Simpson-Lavy, Martin Kupiec
Summary: This study discovered a poly-histidine sequence in the pre-kinase region of the Snf1 kinase in yeast, which acts as a pH-sensing module and regulates Snf1 activity. This regulation mechanism is independent of the major phosphorylation control and is controlled by the Pma1 proton pump, linking the activity of the key enzyme with the metabolic status of the cell.
Article
Geochemistry & Geophysics
Xin Li, Feng Xu, Fan Liu, Runliang Xia, Yao Tong, Linyang Li, Zhennan Xu, Xin Lyu
Summary: This paper introduces attention mechanisms used in interpreting remote sensing images, and proposes a similarity-hybrid attention module to learn hyperbolic and Euclidean attention maps, which is proven effective through comparative experiments with other attention modules.
IEEE GEOSCIENCE AND REMOTE SENSING LETTERS
(2022)
Article
Nanoscience & Nanotechnology
Renjie Xu, Lifeng Zhu, Qirui Zhang, Zijian Wang, Lanyue Shen, Yunfeng Chen, Hao Lei, Xiangchao Ge, Jinxing Jiang, Jingya Liu, Yanyun Ma, Xuhui Sun, Zhen Wen
Summary: This work proposes a contact-separation mode laminated triboelectric nanogenerator (L-TENG) by introducing multifunctional layers to regulate triboelectric charges. The L-TENG exhibits high sensitivity, wide detection range, and stability in a humid environment. It has also been successfully demonstrated for monitoring various physical activities in humans.
ACS APPLIED MATERIALS & INTERFACES
(2022)
Article
Geochemistry & Geophysics
Bingze Song, Peng Liu, Jun Li, Lizhe Wang, Luo Zhang, Guojin He, Lajiao Chen, Jianbo Liu
Summary: This article proposes a new multilevel feature fusion with generative adversarial network (MLFF-GAN) for generating fusion high-temporal and high-spatial (HTHS) images. The MLFF-GAN uses a U-net-like architecture, with a generator composed of three stages: feature extraction, feature fusion, and image reconstruction. Experiment results show that the proposed MLFF-GAN outperforms other methods on multiple datasets.
IEEE TRANSACTIONS ON GEOSCIENCE AND REMOTE SENSING
(2022)
Article
Biochemistry & Molecular Biology
Fernando Valenzuela-Gomez, Ignacio Arechaga, Elena Cabezon
Summary: Bacterial conjugation is the main mechanism for the dissemination of antibiotic resistance genes. In this study, nanopore technology was used to investigate the unfolding states of the relaxase-DNA complex during translocation. The unfolding pathway of the relaxase depends on the tyrosine residue involved in conjugative DNA binding. This study provides new insights for applying nanopore sensing to study protein secretion.
NUCLEIC ACIDS RESEARCH
(2023)
Article
Multidisciplinary Sciences
Yuang Wu, Yue Sun, Evelyne Richet, Zhifu Han, Jijie Chai
Summary: This study reveals how MalY inhibits the activity of the E. coli maltose system by interacting with MalT, and elucidates the role of MalT in its own inhibition and activation. The findings provide new insights into the function of the STAND protein family in transcriptional regulation.
NATURE COMMUNICATIONS
(2023)
Review
Cell Biology
Petra Schwille, Bela P. Frohn
Summary: Bottom-up synthetic biology is a new research field that aims to construct living systems using minimal functional components. The challenges include identifying the necessary functions for a system to be considered alive and reconstituting these modules in vitro. Proteins, as candidates, may exhibit different functions outside the cellular context.
TRENDS IN CELL BIOLOGY
(2022)
Article
Chemistry, Multidisciplinary
Anna M. Wagner, Hiromune Eto, Anton Joseph, Shunshi Kohyama, Tamas Haraszti, Ricardo A. Zamora, Mariia Vorobii, Marina Giannotti, Petra Schwille, Cesar Rodriguez-Emmenegger
Summary: This study demonstrates the reconstitution of a bacterial divisome in fully synthetic dendrimersomes, showing that the interaction between biological machinery and synthetic membranes can be tailored to reproduce its dynamic behavior. This breakthrough is important for engineering synthetic cells with biological elements from the bottom-up.
ADVANCED MATERIALS
(2022)
Article
Chemistry, Physical
Haiyang Jia, Johannes Flommersfeld, Michael Heymann, Sven K. Vogel, Henri G. Franquelim, David B. Bruckner, Hiromune Eto, Chase P. Broedersz, Petra Schwille
Summary: This study presents a method of creating protein-based robotic structures using 3D printing technology, which can undergo micrometre-scale shape-morphing activity through the actuation of exoskeleton-like molecular motor assemblies. By utilizing an actomyosin cortex-like force production, low complexity motor arrangements can be achieved in a contractile meshwork that can be locally activated. This design allows for easy connection and assembly of micro-3D printed modules into larger structures, enabling mechanical work on a larger scale.
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, Multidisciplinary
Benedikt Peter, Antoine Levrier, Petra Schwille
Summary: Compartmentalization is the key to many cellular processes. In this study, reversible RNA-based liquid-liquid phase separation was used to propagate an enzymatic reaction across lipid vesicles. Compartmentalization in the condensed RNA-rich phase accelerated the reaction, while content exchange between vesicles occurred during freeze-thawing.
ANGEWANDTE CHEMIE-INTERNATIONAL EDITION
(2023)
Article
Physics, Multidisciplinary
Meifang Fu, Tom Burkart, Ivan Maryshev, Henri G. Franquelim, Adrian Merino-Salomon, Maria Reverte-Lopez, Erwin Frey, Petra Schwille
Summary: Through a mechanochemical feedback loop involving Min proteins of Escherichia coli, liposomes start to move, which may help to design motile artificial cells.
Article
Multidisciplinary Sciences
Frederik Steiert, Peter Schultz, Siegfried Hoefinger, Thomas D. Mueller, Petra Schwille, Thomas Weidemann
Summary: Evaluating protein structures in living cells is challenging. This study investigates Interleukin-4 receptor alpha (IL-4R alpha) by incorporating the non-canonical amino acid BCNK through genetic code expansion. Bioorthogonal click labeling with tetrazine-conjugated dyes is performed. The study shows that click efficiency is linked to structural perturbations and dynamics of the protein in the native plasma membrane.
NATURE COMMUNICATIONS
(2023)
Article
Multidisciplinary Sciences
Elia Salibi, Benedikt Peter, Petra Schwille, Hannes Mutschler
Summary: The authors show that through freeze-thaw cycles, ribozymes can assemble in active forms and replicate in populations of membrane vesicles.
NATURE COMMUNICATIONS
(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
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
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.