Relevant bibliographies by topics / Myosin-based machine

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Academic literature on the topic 'Myosin-based machine'

Author: Grafiati
Published: 14 March 2023

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Journal articles on the topic "Myosin-based machine"

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Bianco, Pasquale, Irene Pertici, Luca Melli, Giulia Falorsi, Danut-Adrian Cojoc, Tamás Bozó, Miklos Kellermayer, and Vincenzo Lombardi. "Force and Power of a Synthetic Myosin II-Based Machine." Biophysical Journal 112, no. 3 (February 2017): 116a—117a. http://dx.doi.org/10.1016/j.bpj.2016.11.656.

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Matsuura, H., M. Nakano, and T. Nemoto. "3L1015 Kinetic Thoery of Molecular Machine based on Thermal Noise : Actin-Myosin and Molecular Motor." Seibutsu Butsuri 42, supplement2 (2002): S185. http://dx.doi.org/10.2142/biophys.42.s185_4.

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Pertici, Irene, Lorenzo Bongini, Luca Melli, Giulia Falorsi, Danut-Adrian Cojoc, Tamás Bozó, Miklós S. Z. Kellermayer, Vincenzo Lombardi, and Pasquale Bianco. "The Power of a Synthetic Machine Based on the Fast Myosin Isoform of Skeletal Muscle." Biophysical Journal 114, no. 3 (February 2018): 211a. http://dx.doi.org/10.1016/j.bpj.2017.11.1181.

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4

Horowitz, R. A., C. M. Powers, P. Valero, and R. Craig. "The Three Dimensional Organization of Smooth Muscle: Information from Serial Section Reconstructions." Microscopy and Microanalysis 4, S2 (July 1998): 438–39. http://dx.doi.org/10.1017/s1431927600022315.

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Smooth muscle is a machine consisting of working and supporting elements whose structure and 3D organization must be elucidated for the mechanics of shortening and tension generation to be understood. Based on longitudinal and serial transverse sections of rabbit portal vein it was suggested that the contractile elements of smooth muscle formed “mini-sarcomeres”, analogous to skeletal muscle, containing parallel arrays of 3-5 myosin filaments 1.6-2.2 um long. Observations at the light microscopic level were consistent with this idea. The past decade has seen little further investigation into the in situ ultrastructure of this or other smooth muscles, and the general applicability of these findings remains unknown. We have taken advantage of recent methodological advances, which can provide full 3D computer representations of cellular organization based on EM data, using guinea pig taenia coli muscle as a model system.Serial transverse sections (Fig 1) were used to generate 3D reconstructions of the organization of the myosin filaments and their relation to dense bodies, actin bundles, mitochondria and other organelles.
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Lansing Taylor, D. "Temporal and Spatial Dynamics of the Actin-Based Cytoskeleton." Proceedings, annual meeting, Electron Microscopy Society of America 48, no. 2 (August 12, 1990): 546. http://dx.doi.org/10.1017/s0424820100136337.

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There has been a renaissance and revolution in the use of light microscopy in the biomedical sciences. The renaissance has been due to the importance of studying the temporal and spatial dynamics of ions, metabolites and macromolecules in living cells and tissues. The revolution has been due to the integration of developments in molecular biology, fluorescent probe chemistry, machine vision, and imaging technology. It is now possible to use the living cell as a microcuvette and to explore the chemical and molecular dynamics responsible for cellular functions.We have been investigating the formation, transport and contraction of stress fibers in Swiss 3T3 cells. Fluorescent analogs of actin, myosin, vinculin and profilin have been investigated in serum deprived cells before, during and after stimulation with thrombin. The activities of these components of the actin-based cytoskeleton have been quantified using time-lapse imaging, fluorescence redistribution after photobleaching, video-enhanced contrast and reflection interference contrast microscopy.
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Willison, Keith Robert. "The structure and evolution of eukaryotic chaperonin-containing TCP-1 and its mechanism that folds actin into a protein spring." Biochemical Journal 475, no. 19 (October 5, 2018): 3009–34. http://dx.doi.org/10.1042/bcj20170378.

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Actin is folded to its native state in eukaryotic cytosol by the sequential allosteric mechanism of the chaperonin-containing TCP-1 (CCT). The CCT machine is a double-ring ATPase built from eight related subunits, CCT1–CCT8. Non-native actin interacts with specific subunits and is annealed slowly through sequential binding and hydrolysis of ATP around and across the ring system. CCT releases a folded but soft ATP-G-actin monomer which is trapped 80 kJ/mol uphill on the folding energy surface by its ATP-Mg2+/Ca2+ clasp. The energy landscape can be re-explored in the actin filament, F-actin, because ATP hydrolysis produces dehydrated and more compact ADP-actin monomers which, upon application of force and strain, are opened and closed like the elements of a spring. Actin-based myosin motor systems underpin a multitude of force generation processes in cells and muscles. We propose that the water surface of F-actin acts as a low-binding energy, directional waveguide which is recognized specifically by the myosin lever-arm domain before the system engages to form the tight-binding actomyosin complex. Such a water-mediated recognition process between actin and myosin would enable symmetry breaking through fast, low energy initial binding events. The origin of chaperonins and the subsequent emergence of the CCT–actin system in LECA (last eukaryotic common ancestor) point to the critical role of CCT in facilitating phagocytosis during early eukaryotic evolution and the transition from the bacterial world. The coupling of CCT-folding fluxes to the cell cycle, cell size control networks and cancer are discussed together with directions for further research.
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Eggers, Britta, Karin Schork, Michael Turewicz, Katalin Barkovits, Martin Eisenacher, Rolf Schröder, Christoph S. Clemen, and Katrin Marcus. "Advanced Fiber Type-Specific Protein Profiles Derived from Adult Murine Skeletal Muscle." Proteomes 9, no. 2 (June 8, 2021): 28. http://dx.doi.org/10.3390/proteomes9020028.

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Skeletal muscle is a heterogeneous tissue consisting of blood vessels, connective tissue, and muscle fibers. The last are highly adaptive and can change their molecular composition depending on external and internal factors, such as exercise, age, and disease. Thus, examination of the skeletal muscles at the fiber type level is essential to detect potential alterations. Therefore, we established a protocol in which myosin heavy chain isoform immunolabeled muscle fibers were laser microdissected and separately investigated by mass spectrometry to develop advanced proteomic profiles of all murine skeletal muscle fiber types. All data are available via ProteomeXchange with the identifier PXD025359. Our in-depth mass spectrometric analysis revealed unique fiber type protein profiles, confirming fiber type-specific metabolic properties and revealing a more versatile function of type IIx fibers. Furthermore, we found that multiple myopathy-associated proteins were enriched in type I and IIa fibers. To further optimize the assignment of fiber types based on the protein profile, we developed a hypothesis-free machine-learning approach, identified a discriminative peptide panel, and confirmed our panel using a public data set.
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Chen, Zhongning, Tyler Fugere, and Yadav Pandey. "Expression profile of micro-RNA of lymphovascular invasive colon cancer." Journal of Clinical Oncology 38, no. 15_suppl (May 20, 2020): e16109-e16109. http://dx.doi.org/10.1200/jco.2020.38.15_suppl.e16109.

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e16109 Background: Lymphovascular invasion (LVI) is an independent predictor of disease progression in patients with colorectal cancer, and is often associated with high tumor grade and advanced tumor stage. In concordance, micro-RNA(miRNA), which are small non-coding RNA that regulate post-transcriptional gene expression, have also recently been shown to be promising biomarkers to predict disease prognosis. The purpose of this study is to investigate [1] potential mechanism of tumor invasion by identifying miRNA that are differentially expressed with respect to LVI status, and [2] create a model to predict likelihood of SVI. Methods: Data was obtained from the TCGA database. Patients were selected based on biopsy proven diagnosis of adenocarcinoma of the colon. Patients were divided into based on the status of lymphovascular invasion (209 patients LVI negative, and 145 patients positive). A total of 130 miRNA were analyzed after filtering out miRNA expression counts < 10. The differential expression profile of the miRNA between the two groups were analyzed using a quasi-likelihood F test implemented by bioconductor package, edgeR. This package is well documented for analyzing RNA-seq data due to adjustment for biological variations and measuring error using a negative binomial distribution. After adjusting for gender, the expression of miRNA |Log2FC| > .3 and P value < 0.05 were obtained. A model was created using support vector machine (SVM) using miRNA that are differentially expressed. Results: Compared to negative LVI group, the positive LVI group has a miRNA profile with the down regulation of hsa-let-7f-1, hsa-let-7f-2, hsa-mir-200c, hsa-mir-92a-1, hsa-mir-92a-2, hsa-mir-378a, hsa-mir-374a, hsa-mir-361, hsa-mir-128-1, and hsa-mir-200b, and up regulation of hsa-mir-142, hsa-mir-199b, hsa-mir-199a-1, and hsa-mir-199a-2. A support vector machine classifier with a predict power of 70% was created using the miRNA described as above. Conclusions: This miRNA expression profile unifies known pathways for LVI, such as over expression of myosin heavy chain 9 gene, or dysregulation of zinc finger E-box binding homeobox 1. They also act as biomarkers to predict the likelihood of LVI.
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Matsunaga, Yasuhiro, Sotaro Fuchigami, Tomonori Ogane, and Shoji Takada. "End-to-end differentiable blind tip reconstruction for noisy atomic force microscopy images." Scientific Reports 13, no. 1 (January 4, 2023). http://dx.doi.org/10.1038/s41598-022-27057-2.

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AbstractObserving the structural dynamics of biomolecules is vital to deepening our understanding of biomolecular functions. High-speed (HS) atomic force microscopy (AFM) is a powerful method to measure biomolecular behavior at near physiological conditions. In the AFM, measured image profiles on a molecular surface are distorted by the tip shape through the interactions between the tip and molecule. Once the tip shape is known, AFM images can be approximately deconvolved to reconstruct the surface geometry of the sample molecule. Thus, knowing the correct tip shape is an important issue in the AFM image analysis. The blind tip reconstruction (BTR) method developed by Villarrubia (J Res Natl Inst Stand Technol 102:425, 1997) is an algorithm that estimates tip shape only from AFM images using mathematical morphology operators. While the BTR works perfectly for noise-free AFM images, the algorithm is susceptible to noise. To overcome this issue, we here propose an alternative BTR method, called end-to-end differentiable BTR, based on a modern machine learning approach. In the method, we introduce a loss function including a regularization term to prevent overfitting to noise, and the tip shape is optimized with automatic differentiation and backpropagations developed in deep learning frameworks. Using noisy pseudo-AFM images of myosin V motor domain as test cases, we show that our end-to-end differentiable BTR is robust against noise in AFM images. The method can also detect a double-tip shape and deconvolve doubled molecular images. Finally, application to real HS-AFM data of myosin V walking on an actin filament shows that the method can reconstruct the accurate surface geometry of actomyosin consistent with the structural model. Our method serves as a general post-processing for reconstructing hidden molecular surfaces from any AFM images. Codes are available at https://github.com/matsunagalab/differentiable_BTR.
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Jang, Yongwoo, Sung Min Kim, Eunyoung Kim, Dong Yeop Lee, Tong Mook Kang, and Seon Jeong Kim. "Biomimetic cell-actuated artificial muscle with nanofibrous bundles." Microsystems & Nanoengineering 7, no. 1 (September 3, 2021). http://dx.doi.org/10.1038/s41378-021-00280-z.

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AbstractBiohybrid artificial muscle produced by integrating living muscle cells and their scaffolds with free movement in vivo is promising for advanced biomedical applications, including cell-based microrobotic systems and therapeutic drug delivery systems. Herein, we provide a biohybrid artificial muscle constructed by integrating living muscle cells and their scaffolds, inspired by bundled myofilaments in skeletal muscle. First, a bundled biohybrid artificial muscle was fabricated by the integration of skeletal muscle cells and hydrophilic polyurethane (HPU)/carbon nanotube (CNT) nanofibers into a fiber shape similar to that of natural skeletal muscle. The HPU/CNT nanofibers provided a stretchable basic backbone of the 3-dimensional fiber structure, which is similar to actin-myosin scaffolds. The incorporated skeletal muscle fibers contribute to the actuation of biohybrid artificial muscle. In fact, electrical field stimulation reversibly leads to the contraction of biohybrid artificial muscle. Therefore, the current development of cell-actuated artificial muscle provides great potential for energy delivery systems as actuators for implantable medibot movement and drug delivery systems. Moreover, the innervation of the biohybrid artificial muscle with motor neurons is of great interest for human-machine interfaces.
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Dissertations / Theses on the topic "Myosin-based machine"

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Pertici, Irene. "The power output of a myosin II-based nanomachine mimicking the striated muscle." Doctoral thesis, Università di Siena, 2018. http://hdl.handle.net/11365/1041106.

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This thesis reports the realization and first application of a synthetic nanomachine, able to reproduce in vitro the performance emerging from the array arrangement of myosin II motors in the sarcomere of the striated muscle. The nanomachine consists of an ensemble of less than ten myosin dimers from fast skeletal muscle disposed on a functionalized support carried by a piezoelectric nanopositioner and brought to interact with an actin filament attached with the correct polarity via gelsolin to a bead (Bead Tailed Actin, BTA) trapped into the focus of a Dual Laser Optical Tweezers (DLOT). In solution with [ATP] = 2 mM the nanomachine is able to produce steady force and shortening, delivering a maximum power of 5 aW. The nanomachine performances are interpreted with a kinetic model based on mechanics and energetics of fast skeletal muscle. In this way it is possible to define the minimal conditions that allow an actomyosin system in vitro to produce force and power with the efficiency of the striated muscle, in the absence of the confusing contribution of the other sarcomeric proteins. In turn, since the system is assembled one piece at a time, it allows different degrees of reconstitution of the sarcomeric assembly. Therefore it will be possible to characterize the function of native and engineered contractile, regulatory and accessory proteins. For future investigations on the Ca2+-dependent thin filament activation, the preparation of BTA has been implemented using a Ca2+-independent gelsolin fragment and the procedure for thin filament reconstitution has been established during my visit to the Institute for Biophysical Chemistry, MHH, Germany.
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Conference papers on the topic "Myosin-based machine"

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Culver, Dean, Bryan Glaz, and Samuel Stanton. "A Dynamic Escape Problem of Molecular Motors." In ASME 2018 International Mechanical Engineering Congress and Exposition. American Society of Mechanical Engineers, 2018. http://dx.doi.org/10.1115/imece2018-88612.

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Animal skeletal muscle exhibits very interesting behavior at near-stall forces (when the muscle is loaded so strongly that it can barely contract). Near this physical limit, the actinmyosin cross bridges do more work than their energy releasing molecules, Adenosine TriPhosphate (ATP) suggest they can. It has been shown that the advantageous utilization of thermal agitation is a likely source for this increased capacity. Here, we propose a spatially two-dimensional mechanical model to illustrate how thermal agitation can be harvested for useful mechanical work in molecular machinery without rate functions or empirically-inspired spatial potential functions. Additionally, the model accommodates variable lattice spacing, and it paves the way for a full three dimensional model of cross-bridge interactions where myosin II may be azimuthally misaligned with actin binding sites. With potential energy sources based entirely on realizable components, this model lends itself to the design of artificial, molecular-scale motors.
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