scholarly journals Geometric Effect for Biological Reactors and Biological Fluids

2018 ◽  
Vol 5 (4) ◽  
pp. 110 ◽  
Author(s):  
Kazusa Beppu ◽  
Ziane Izri ◽  
Yusuke Maeda ◽  
Ryota Sakamoto
Keyword(s):  
Biological Fluids ◽  
Biological Systems ◽  
Self Organization ◽  
Active Matter ◽  
Confined Space ◽  
Self Organized ◽  
Motile Cells ◽  
Recent Developments ◽  
A Cell

As expressed “God made the bulk; the surface was invented by the devil” by W. Pauli, the surface has remarkable properties because broken symmetry in surface alters the material properties. In biological systems, the smallest functional and structural unit, which has a functional bulk space enclosed by a thin interface, is a cell. Cells contain inner cytosolic soup in which genetic information stored in DNA can be expressed through transcription (TX) and translation (TL). The exploration of cell-sized confinement has been recently investigated by using micron-scale droplets and microfluidic devices. In the first part of this review article, we describe recent developments of cell-free bioreactors where bacterial TX-TL machinery and DNA are encapsulated in these cell-sized compartments. Since synthetic biology and microfluidics meet toward the bottom-up assembly of cell-free bioreactors, the interplay between cellular geometry and TX-TL advances better control of biological structure and dynamics in vitro system. Furthermore, biological systems that show self-organization in confined space are not limited to a single cell, but are also involved in the collective behavior of motile cells, named active matter. In the second part, we describe recent studies where collectively ordered patterns of active matter, from bacterial suspensions to active cytoskeleton, are self-organized. Since geometry and topology are vital concepts to understand the ordered phase of active matter, a microfluidic device with designed compartments allows one to explore geometric principles behind self-organization across the molecular scale to cellular scale. Finally, we discuss the future perspectives of a microfluidic approach to explore the further understanding of biological systems from geometric and topological aspects.

scholarly journals Non-associative phase separation in an evaporating droplet as a model for prebiotic compartmentalization

2020 ◽  
Author(s):  
Wei Guo ◽  
Andrew Kinghorn ◽  
Yage Zhang ◽  
Qingchuan Li ◽  
Aditi Poonam ◽  
...  
Keyword(s):  
Phase Separation ◽  
In Vitro Transcription ◽  
Droplet Surface ◽  
Self Organization ◽  
Sessile Droplet ◽  
Self Organized ◽  
A Cell ◽  
Quantitative Understanding ◽  
Compositional Gradients

Abstract Liquid-liquid phase separation (LLPS) is a mechanism by which membraneless organelles form inside cells, and has been hypothesized as a mechanism for prebiotic compartmentalization. Here we present a prebiotically plausible pathway for non-associative phase separation, which could drive biopolymer self-organization and compartmentalization to form the earliest membraneless compartments, within an evaporating all-aqueous sessile droplet. Through a quantitative understanding of the kinetic pathway of phase separation, we find that non-uniform evaporation rates across the droplet surface induce compositional gradients and surface tension differences, triggering LLPS and polymer self-organization inside the sessile droplet. With the ability to undergo LLPS, the drying droplets provide a robust mechanism for formation of prebiotic membraneless compartments. These self-organized membraneless compartments, with volumes comparable to subcellular structures, could represent a mechanism for the enrichment of information-carrying molecules and formation of RNA-containing organelles. We demonstrated compartmentalized localization and storage of nucleic acids, in vitro transcription, as well as a three-fold enhancement of ribozyme activity. This model system demonstrates a cell-like, aqueous, macromolecular crowded and thermodynamically non-equilibrium microenvironment. Such a mechanism for compartmentalization is feasible on wet organophilic silica-rich surfaces during early molecular evolution.

scholarly journals A cell-free framework for biological systems engineering

2015 ◽  
Author(s):  
Henrike Niederholtmeyer ◽  
Zachary Sun ◽  
Yutaka Hori ◽  
Enoch Yeung ◽  
Amanda Verpoorte ◽  
...  
Keyword(s):  
Negative Feedback ◽  
Biological Systems ◽  
Biological Engineering ◽  
Free System ◽  
Node Negative ◽  
A Cell ◽  
Free Environment ◽  
Synthetic Networks

While complex dynamic biological networks control gene expression and metabolism in all living organisms, engineering comparable synthetic networks remains challenging1,2. Conducting extensive, quantitative and rapid characterization during the design and implementation process of synthetic networks is currently severely limited due to cumbersome molecular cloning and the difficulties associated with measuring parts, components and systems in cellular hosts. Engineering gene networks in a cell-free environment promises to be an efficient and effective approach to rapidly develop novel biological systems and understand their operating regimes3-5. However, it remains questionable whether complex synthetic networks behave similarly in cells and a cell-free environment, which is critical for in vitro approaches to be of significance to biological engineering. Here we show that synthetic dynamic networks can be readily implemented, characterized, and engineered in a cell-free framework and consequently transferred to cellular hosts. We implemented and characterized the “repressilator”6, a three-node negative feedback oscillator in vitro. We then used our cell-free framework to engineer novel three-node, four-node, and five-node negative feedback architectures going from the characterization of circuit components to the rapid analysis of complete networks. We validated our cell-free approach by transferring these novel three-node and five-node oscillators to Escherichia coli, resulting in robust and synchronized oscillations reflecting the in vitro observation. We demonstrate that comprehensive circuit engineering can be performed in a cell-free system and that the in vitro results have direct applicability in vivo. Cell-free synthetic biology thus has the potential to drastically speed up design-build-test cycles in biological engineering and enable the quantitative characterization of synthetic and natural networks.

scholarly journals Pattern-induced local symmetry breaking in active-matter systems

2020 ◽  
Vol 117 (50) ◽  
pp. 31623-31630
Author(s):  
Jonas Denk ◽  
Erwin Frey
Keyword(s):  
Symmetry Breaking ◽  
Biological Systems ◽  
Local Symmetry ◽  
Theoretical Explanation ◽  
Feedback Mechanism ◽  
Hydrodynamic Theory ◽  
Active Matter ◽  
Theoretical Understanding ◽  
Self Organized ◽  
Microscopic Interactions

The emergence of macroscopic order and patterns is a central paradigm in systems of (self-)propelled agents and a key component in the structuring of many biological systems. The relationships between the ordering process and the underlying microscopic interactions have been extensively explored both experimentally and theoretically. While emerging patterns often show one specific symmetry (e.g., nematic lane patterns or polarized traveling flocks), depending on the symmetry of the alignment interactions patterns with different symmetries can apparently coexist. Indeed, recent experiments with an actomysin motility assay suggest that polar and nematic patterns of actin filaments can interact and dynamically transform into each other. However, theoretical understanding of the mechanism responsible remains elusive. Here, we present a kinetic approach complemented by a hydrodynamic theory for agents with mixed alignment symmetries, which captures the experimentally observed phenomenology and provides a theoretical explanation for the coexistence and interaction of patterns with different symmetries. We show that local, pattern-induced symmetry breaking can account for dynamically coexisting patterns with different symmetries. Specifically, in a regime with moderate densities and a weak polar bias in the alignment interaction, nematic bands show a local symmetry-breaking instability within their high-density core region, which induces the formation of polar waves along the bands. These instabilities eventually result in a self-organized system of nematic bands and polar waves that dynamically transform into each other. Our study reveals a mutual feedback mechanism between pattern formation and local symmetry breaking in active matter that has interesting consequences for structure formation in biological systems.

scholarly journals Cardiac Progenitor Cells from Stem Cells: Learning from Genetics and Biomaterials

Cells ◽  
2019 ◽  
Vol 8 (12) ◽  
pp. 1536 ◽  
Author(s):  
Sara Barreto ◽  
Leonie Hamel ◽  
Teresa Schiatti ◽  
Ying Yang ◽  
Vinoj George
Keyword(s):  
Stem Cells ◽  
Progenitor Cells ◽  
Genetic Factors ◽  
Induced Pluripotent Stem Cell ◽  
Significant Shift ◽  
Cardiac Progenitor Cells ◽  
Recent Developments ◽  
A Cell ◽  
Induced Pluripotent

Cardiac Progenitor Cells (CPCs) show great potential as a cell resource for restoring cardiac function in patients affected by heart disease or heart failure. CPCs are proliferative and committed to cardiac fate, capable of generating cells of all the cardiac lineages. These cells offer a significant shift in paradigm over the use of human induced pluripotent stem cell (iPSC)-derived cardiomyocytes owing to the latter’s inability to recapitulate mature features of a native myocardium, limiting their translational applications. The iPSCs and direct reprogramming of somatic cells have been attempted to produce CPCs and, in this process, a variety of chemical and/or genetic factors have been evaluated for their ability to generate, expand, and maintain CPCs in vitro. However, the precise stoichiometry and spatiotemporal activity of these factors and the genetic interplay during embryonic CPC development remain challenging to reproduce in culture, in terms of efficiency, numbers, and translational potential. Recent advances in biomaterials to mimic the native cardiac microenvironment have shown promise to influence CPC regenerative functions, while being capable of integrating with host tissue. This review highlights recent developments and limitations in the generation and use of CPCs from stem cells, and the trends that influence the direction of research to promote better application of CPCs.

Ultrastructure of melanocyte-keratinocyte interactions and pigment transfer in vitro

1978 ◽  
Vol 36 (2) ◽  
pp. 650-651
Author(s):  
Raul I. Garcia ◽  
Evelyn A. Flynn ◽  
George Szabo
Keyword(s):  
Direct Injection ◽  
Skin Pigmentation ◽  
Freeze Fracture ◽  
Pigment Granule ◽  
Time Lapse ◽  
Ultrastructural Level ◽  
Lanthanum Tracer ◽  
A Cell

Skin pigmentation in mammals involves the interaction of epidermal melanocytes and keratinocytes in the structural and functional unit known as the Epidermal Melanin Unit. Melanocytes(M) synthesize melanin within specialized membrane-bound organelles, the melanosome or pigment granule. These are subsequently transferred by way of M dendrites to keratinocytes(K) by a mechanism still to be clearly defined. Three different, though not necessarily mutually exclusive, mechanisms of melanosome transfer have been proposed: cytophagocytosis by K of M dendrite tips containing melanosomes, direct injection of melanosomes into the K cytoplasm through a cell-to-cell pore or communicating channel formed by localized fusion of M and K cell membranes, release of melanosomes into the extracellular space(ECS) by exocytosis followed by K uptake using conventional phagocytosis. Variability in methods of transfer has been noted both in vivo and in vitro and there is evidence in support of each transfer mechanism. We Have previously studied M-K interactions in vitro using time-lapse cinemicrography and in vivo at the ultrastructural level using lanthanum tracer and freeze-fracture.

Using FRET to Measure the Time it Takes for a Cell to Destroy a Virus

2019 ◽  
Author(s):  
Candace E. Benjamin ◽  
Zhuo Chen ◽  
Olivia Brohlin ◽  
Hamilton Lee ◽  
Stefanie Boyd ◽  
...  
Keyword(s):  
Cellular Uptake ◽  
Rhodamine B ◽  
Virus Like Particle ◽  
A Cell ◽  
Viral Nanoparticles ◽  
The Stability ◽  
Open Question ◽  
Viral Surface ◽  
Fret Pair

<div><div><div><p>The emergence of viral nanotechnology over the preceding two decades has created a number of intellectually captivating possible translational applications; however, the in vitro fate of the viral nanoparticles in cells remains an open question. Herein, we investigate the stability and lifetime of virus-like particle (VLP) Qβ - a representative and popular VLP for several applications - following cellular uptake. By exploiting the available functional handles on the viral surface, we have orthogonally installed the known FRET pair, FITC and Rhodamine B, to gain insight of the particle’s behavior in vitro. Based on these data, we believe VLPs undergo aggregation in addition to the anticipated proteolysis within a few hours of cellular uptake.</p></div></div></div>

Preincubation with Sn-complexes causes intensive intracellular retention of 99mTc in thyroid cells in vitro

2012 ◽  
Vol 51 (05) ◽  
pp. 179-185 ◽  
Author(s):  
M. Wendisch ◽  
D. Aurich ◽  
R. Runge ◽  
R. Freudenberg ◽  
J. Kotzerke ◽  
...  
Keyword(s):  
Cell Model ◽  
Low Energy ◽  
Thyroid Cells ◽  
Low Energy Electrons ◽  
A Cell ◽  
Vitro Model ◽  
Uptake Studies ◽  
Radiobiological Effects ◽  
Radioactivity Retention

SummaryTechnetium radiopharmaceuticals are well established in nuclear medicine. Besides its well-known gamma radiation, 99mTc emits an average of five Auger and internal conversion electrons per decay. The biological toxicity of these low-energy, high-LET (linear energy transfer) emissions is a controversial subject. One aim of this study was to estimate in a cell model how much 99mTc can be present in exposed cells and which radiobiological effects could be estimated in 99mTc-overloaded cells. Methods: Sodium iodine symporter (NIS)- positive thyroid cells were used. 99mTc-uptake studies were performed after preincubation with a non-radioactive (cold) stannous pyro - phosphate kit solution or as a standard 99mTc pyrophosphate kit preparation or with pure pertechnetate solution. Survival curves were analyzed from colony-forming assays. Results: Preincubation with stannous complexes causes irreversible intracellular radioactivity retention of 99mTc and is followed by further pertechnetate influx to an unexpectedly high 99mTc level. The uptake of 99mTc pertechnetate in NIS-positive cells can be modified using stannous pyrophosphate from 3–5% to >80%. The maximum possible cellular uptake of 99mTc was 90 Bq/cell. Compared with nearly pure extracellular irradiation from routine 99mTc complexes, cell survival was reduced by 3–4 orders of magnitude after preincubation with stannous pyrophosphate. Conclusions: Intra cellular 99mTc retention is related to reduced survival, which is most likely mediated by the emission of low-energy electrons. Our findings show that the described experiments constitute a simple and useful in vitro model for radiobiological investigations in a cell model.

Analysis of the Dynamics of the Electric Capacitance of a Cell Monolayer at the Late Stages of Caco-2 cell Differentiation

2019 ◽  
Vol 35 (6) ◽  
pp. 87-90
Author(s):  
S.V. Nikulin ◽  
V.A. Petrov ◽  
D.A. Sakharov
Keyword(s):  
Impedance Spectroscopy ◽  
Cell Monolayer ◽  
Microfluidic Chips ◽  
Russian Science ◽  
Electric Capacitance ◽  
A Cell ◽  
Static Conditions ◽  
Late Stages

The real-time monitoring of electric capacitance (impedance spectroscopy) allowed obtaining evidence that structures which look like intestinal villi can be formed during the cultivation under static conditions as well as during the cultivation in microfluidic chips. It was shown in this work via transcriptome analysis that the Hh signaling pathway is involved in the formation of villus-like structures in vitro, which was previously shown for their formation in vivo. impedance spectroscopy, intestine, villi, electric capacitance, Hh The study was funded by the Russian Science Foundation (Project 16-19-10597).

Cerium oxide nanomaterial with dual antioxidative scavenging potential: Synthesis and characterization

2021 ◽  
pp. 088532822110134
Author(s):  
Sushant Singh ◽  
Udit Kumar ◽  
David Gittess ◽  
Tamil S Sakthivel ◽  
Balaashwin Babu ◽  
...  
Keyword(s):  
Cerium Oxide ◽  
Biological Systems ◽  
Mixed Valence ◽  
Stable Solution ◽  
Ability To Act ◽  
Valence States ◽  
Transmission Electron ◽  
Efficient Reduction ◽  
Rich Media

Many studies have linked reactive oxygen species (ROS) to various diseases. Biomedical research has therefore sought a way to control and regulate ROS produced in biological systems. In recent years, cerium oxide nanoparticles (nanoceria, CNPs) have been pursued due to their ability to act as regenerative ROS scavengers. In particular, they are shown to have either superoxide dismutase (SOD) or catalase mimetic (CAT) potential depending on the ratio of Ce3+/Ce4+ valence states. Moreover, it has been demonstrated that SOD mimetic activity can be diminished by the presence of phosphate, which can be a problem given that many biological systems operate in a phosphate-rich environment. Herein, we report a CNP formulation with both SOD and catalase mimetic activity that is preserved in a phosphate-rich media. Characterization demonstrated a highly dispersed, stable solution of uniform-sized, spherical-elliptical shaped CNP of 12 ± 2 nm, as determined through dynamic light scattering, zeta potential, and transmission electron microscopy. Mixed valence states of Ce ions were observed via UV/Visible spectroscopy and XPS (Ce3+/Ce4+ > 1) (Ce3+∼ 62%). X-ray diffraction and XPS confirmed the presence of oxygen-deficient cerium oxide (CeO2-x) particles. Finally, the CNP demonstrated very good biocompatibility and efficient reduction of hydrogen peroxide under in-vitro conditions.

Sign in / Sign up

Export Citation Format

Share Document