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Articles by Mark C. Leake
A protein-dependent riboswitch activates ribosomal frameshifting in cardioviruses
Keywords translation ribosome frameshifting riboswitch RNA cardiovirus picornavirus X-ray crystallography SAXS FRET Get full text access Log in, subscribe or purchase for full access. References 1. Hill, C.H. ∙ Brierley, I. Structural and functional insights into viral programmed ribosomal frameshifting Annu. Rev. Virol. 2023; 17:18 2. Atkins, J.F. ∙ Loughran, G. ∙ Bhatt, P.R. ...
Containers in VMs or on Bare Metal: There’s a Clear Choice
When containers first burst onto the technology scene, they sparked an intense debate that continues today: should containers run on virtual machines or directly on bare metal servers? A new white paper from IDC by Gary Chen, Research Director, cuts through the noise with insights that may surprise many in the industry. IDC forecasts that 85% of containers will run in VMs by 2028, continuing a trend that’s already dominant in today’s data centers.
A Decision Framework for Future-Proofing IT Infrastructure
With the rise of AI, hybrid cloud environments, and digital transformation initiatives, IT infrastructure is under unprecedented pressure. For IT leaders and enterprise architects, the challenge isn’t just about keeping up—it’s about making strategic, forward-looking decisions while continuing to leverage existing technology investments.
Forrester Opportunity Snapshot: A Single Platform Approach to Managing Containers and VMs
Today, technology modernization isn’t a choice—it’s a necessity. IT leaders seeking a competitive edge are prioritizing a modern, resilient infrastructure that can support advanced applications and drive innovation. This new focus is squarely on cloud-native ecosystems, with both containers and virtual machines (VMs) seen as core elements of an enterprise modernization strategy. The challenge, as always, lies in managing increasing complexity.
VEL-dependent polymerization maintains the chromatin association of Polycomb proteins for the switch to epigenetic silencing
Keywords epigenetics Polycomb silencing PRC2 accessory proteins head-to-tail-polymerization higher-order protein assemblies FLC vernalization Introduction The clustering of macromolecules is an important mechanism in the regulation of cellular processes. Such high local concentration of these macromolecules, often described as biomolecular condensation, enables efficient interactions between them.
SlimVar: rapid in vivo single-molecule tracking of chromatin regulators in plants
Abstract Epigenetic regulation occurs over many rounds of cell division in higher organisms. However, visualisation of the regulators in vivo is limited by imaging dynamic molecules deep in tissue. We report new technology - Variable-angle Slimfield microscopy (SlimVar) - that enables tracking of single fluorescent reporters to 30 μm depth through multiple Arabidopsis thaliana root tip cell layers. SlimVar uses rapid photobleaching to resolve tracked particles to molecular steps in intensity.
[2504.11276] Invention, Innovation, and Commercialisation in British Biophysics
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A promiscuous mechanism to phase separate eukaryotic carbon fixation in the green lineage - Nature Plants
Abstract CO2 fixation is commonly limited by inefficiency of the CO2-fixing enzyme Rubisco. Eukaryotic algae concentrate and fix CO2 in phase-separated condensates called pyrenoids, which complete up to one-third of global CO2 fixation. Condensation of Rubisco in pyrenoids is dependent on interaction with disordered linker proteins that show little conservation between species. We developed a sequence-independent bioinformatic pipeline to identify linker proteins in green algae.
Multiple intermediates in the detergent-induced fusion of lipid vesicles - Communications Materials
Abstract Detergent-induced vesicle interactions, critical for applications including virus inactivation, varies according to the detergent type and membrane composition, but the underlying mechanistic details remain underexplored. Here, we use a lipid mixing assay based on Förster resonance energy transfer (FRET), and single-vesicle characterization approaches to identify that sub-micron-sized vesicles are induced to fuse by the non-ionic detergent Triton-X-100.
SlimVar: rapid in vivo single-molecule tracking of chromatin regulators in plants
Abstract Epigenetic regulation maintains gene expression patterns over many rounds of cell division in higher organisms. However, visualization of factors regulating epigenetic switches in vivo is limited by the challenge of imaging cells deep in living tissue, with molecular sensitivity and rapid sampling.
iPAR: a new reporter for eukaryotic cytoplasmic protein aggregation
Abstract Cells employ myriad regulatory mechanisms to maintain protein homeostasis, termed proteostasis, to ensure correct cellular function. Dysregulation of proteostasis, which is often induced by physiological stress and ageing, often results in protein aggregation in cells. These aggregated structures can perturb normal physiological function, compromising cell integrity and viability, a prime example being early onset of several neurodegenerative diseases.
Constructive ignorance in the Physics of Life Network - Nature Physics
Physics of Life research in the UK is transforming scientific insight and translational impact. Here I discuss its disruptive potential and barriers to interdisciplinary research through the lens of the activities of one of its pioneers, Tom McLeish. Biophysics — the field of biology-led questions requiring physics to resolve them — is supported by pillars set in the foundations of 1950s physiology and structural biology1.
Fluidification of Entanglements by a DNA Bending Protein
Abstract In spite of the nanoscale and single-molecule insights into nucleoid associated proteins (NAPs), their role in modulating the mesoscale viscoelasticity of entangled DNA has been overlooked so far. By combining microrheology and molecular dynamics simulation, we find that the abundant NAP “integration host factor” (IHF) lowers the viscosity of entangled λDNA 20-fold at physiological concentrations and stoichiometries.
A guide to small fluorescent probes for single-molecule biophysics
I. BACKGROUND Single-molecule sensing techniques are revolutionizing our understanding of biological systems by enabling the molecular building blocks of life to be studied with extraordinary levels of detail,11. H. Miller, Z. Zhou, J. Shepherd, A. J. M. Wollman, and M. C. Leake, “ Single-molecule techniques in biophysics: A review of the progress in methods and applications,” Rep. Prog. Phys. 81(2), 024601 (2018).
SerraNA: a program to determine nucleic acids elasticity from simulation data
SerraNA: a program to determine nucleic acids elasticity from simulation data† Victor Velasco-Berrelleza,a Matthew Burman,a Jack W. Shepherd,a Mark C.
The case for biophysics super-groups in physics departments
But a few centuries ago, physics and biology were primordial components of a single discipline initially called natural philosophy and later natural science, prior to bifurcating along different intellectual paths. By the early 20th century, however, aspects of physics and biology were reunited, exemplified in D'Arcy Wentworth Thompson's mechanical description of biological growth and shape [1].
Low-Code/No-Code Is Far More Disruptive than You Think | @CloudExpo #AI #DX #SDX #DevOps
A common misconception about the cloud is that one size fits all. Companies expecting to run all of their operations using one cloud solution or service must realize that doing so is akin to forcing the totality of their business functionality into a straightjacket. Unlocking the full potential of the cloud means embracing the multi-cloud future where businesses use their own cloud, and/or clouds from different vendors, to support separate functions or product groups.
Multi-Cloud Movement | @CloudExpo @VMware #DataCenter #Compliance #DigitalTransformation
As more technologies become software-defined, their adoption demands a significant shift in thinking about how a business organizes its value stream. This shift may be difficult, but it enables you to anticipate changes and position your business to react when software-defined technologies emerge. Recently a new set of tools and practices has emerged to create and manage environments. Known as Infrastructure as Code (IaC), it enables infrastructure management through a software-defined layer.
Announcing @Cloudistics Named “Bronze Sponsor” of @CloudExpo Silicon Valley | #Cloud #Agile #DevOps
As more technologies become software-defined, their adoption demands a significant shift in thinking about how a business organizes its value stream. This shift may be difficult, but it enables you to anticipate changes and position your business to react when software-defined technologies emerge. Recently a new set of tools and practices has emerged to create and manage environments. Known as Infrastructure as Code (IaC), it enables infrastructure management through a software-defined layer.
Multi-Cloud Movement | @CloudExpo @VMware #DataCenter #Compliance #DigitalTransformation
As more technologies become software-defined, their adoption demands a significant shift in thinking about how a business organizes its value stream. This shift may be difficult, but it enables you to anticipate changes and position your business to react when software-defined technologies emerge. Recently a new set of tools and practices has emerged to create and manage environments. Known as Infrastructure as Code (IaC), it enables infrastructure management through a software-defined layer.
[video] Microservices: Choosing the Right Cloud Services | @CloudExpo @IBMCloud #Cloud #DevOps
As more technologies become software-defined, their adoption demands a significant shift in thinking about how a business organizes its value stream. This shift may be difficult, but it enables you to anticipate changes and position your business to react when software-defined technologies emerge. Recently a new set of tools and practices has emerged to create and manage environments. Known as Infrastructure as Code (IaC), it enables infrastructure management through a software-defined layer.
Multi-Cloud Movement | @CloudExpo @VMware #DataCenter #Compliance #DigitalTransformation
As more technologies become software-defined, their adoption demands a significant shift in thinking about how a business organizes its value stream. This shift may be difficult, but it enables you to anticipate changes and position your business to react when software-defined technologies emerge. Recently a new set of tools and practices has emerged to create and manage environments. Known as Infrastructure as Code (IaC), it enables infrastructure management through a software-defined layer.
[slides] #Monitoring with #ArtificialIntelligence | @CloudExpo @Dynatrace #DevOps #AI #ML #DX
As more technologies become software-defined, their adoption demands a significant shift in thinking about how a business organizes its value stream. This shift may be difficult, but it enables you to anticipate changes and position your business to react when software-defined technologies emerge. Recently a new set of tools and practices has emerged to create and manage environments. Known as Infrastructure as Code (IaC), it enables infrastructure management through a software-defined layer.
Multi-Cloud Movement | @CloudExpo @VMware #DataCenter #Compliance #DigitalTransformation
A common misconception about the cloud is that one size fits all. Companies expecting to run all of their operations using one cloud solution or service must realize that doing so is akin to forcing the totality of their business functionality into a straightjacket. Unlocking the full potential of the cloud means embracing the multi-cloud future where businesses use their own cloud, and/or clouds from different vendors, to support separate functions or product groups.
Multi-Cloud Movement | @CloudExpo @VMware #DataCenter #Compliance #DigitalTransformation
The size of competitors and the longevity of their brands, are less predictive of future success than the quality and speed of their information logistics systems, and their ability to use it as a competitive advantage. More data is being generated today than ever before, and successful companies are investing in business analytics and big data solutions to mine competitive advantages.
Keeping Pace with the Multi-Cloud Movement | @CloudExpo #Cloud #Storage #Compliance
With major technology companies and startups seriously embracing Cloud strategies, now is the perfect time to attend 21st Cloud Expo October 31 - November 2, 2017, at the Santa Clara Convention Center, CA, and June 12-14, 2018, at the Javits Center in New York City, NY, and learn what is going on, contribute to the discussions, and ensure that your enterprise is on the right path to Digital Transformation.
Keeping Pace with the Multi-Cloud Movement | @CloudExpo #Cloud #Storage #Compliance
Internet of @ThingsExpo, taking place October 31 - November 2, 2017, at the Santa Clara Convention Center in Santa Clara, CA, is co-located with 21st Cloud Expo and will feature technical sessions from a rock star conference faculty and the leading industry players in the world. The Internet of Things (IoT) is the most profound change in personal and enterprise IT since the creation of the Worldwide Web more than 20 years ago.
Keeping Pace with the Multi-Cloud Movement | @CloudExpo #Cloud #Storage #Compliance
Digital technology innovations and advancements, and our adoption of them, have changed us. We are different consumers, employers and employees. Our expectations have increased. We have become mobile, impatient and demanding. We are global. We demand immediate, accurate and real-time responses. We use our technology not just for reading historic events and news, but also for predicting our future turn while navigating at 60 MPH.
Keeping Pace with the Multi-Cloud Movement | @CloudExpo #Cloud #Storage #Compliance
Mark Burgess (@markburgess_osl) is a theoretical physicist, but in his keynote at the 2016 All Day DevOps conference, he talked more about economics and human interactives than physics. What does either have to do as the keynote for a conference on DevOps? Well, for a little more background, Mark Burgess is also the founder and former CTO of CFEngine, a configuration management and automation framework, and is the author of Promise Theory. While at CFEngine, Mark worked to apply a theory of how...
Keeping Pace with the Multi-Cloud Movement | @CloudExpo #Cloud #Storage #Compliance
What's disruptive innovation, and why does it matter to leaders in the C-suite? It's how the savvy non-conformist will target market opportunities. How does this happen, when established companies seem to have the advantage? Creative software developers can quickly apply new technologies and digital business models to capture untapped demand.
Multi-Cloud Movement | @CloudExpo @VMware #DataCenter #Compliance #DigitalTransformation
No hype cycles or predictions of zillions of things here. IoT is big. You get it. You know your business and have great ideas for a business transformation strategy. What comes next? Time to make it happen. In his session at @ThingsExpo, Jay Mason, Associate Partner at M&S Consulting, presented a step-by-step plan to develop your technology implementation strategy.
Keeping Pace with the Multi-Cloud Movement | @CloudExpo #Cloud #Storage #Compliance
What's disruptive innovation, and why does it matter to leaders in the C-suite? It's how the savvy non-conformist will target market opportunities. How does this happen, when established companies seem to have the advantage? Creative software developers can quickly apply new technologies and digital business models to capture untapped demand.
Multi-Cloud Movement | @CloudExpo @VMware #DataCenter #Compliance #DigitalTransformation
A common misconception about the cloud is that one size fits all. Companies expecting to run all of their operations using one cloud solution or service must realize that doing so is akin to forcing the totality of their business functionality into a straightjacket. Unlocking the full potential of the cloud means embracing the multi-cloud future where businesses use their own cloud, and/or clouds from different vendors, to support separate functions or product groups.
Millisecond single-molecule localization microscopy combined with convolution analysis and automated image segmentation to determine protein concentrations in complexly structured, functional cells, one cell at a time - Faraday Discussions (RSC Publishing
We present a single-molecule tool called the CoPro (concentration of proteins) method that uses millisecond imaging with convolution analysis, automated image segmentation and super-resolution localization microscopy to generate robust estimates for protein concentration in different compartments of single living cells, validated using realistic simulations of complex multiple compartment cell types.
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