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venerdì 10 luglio 2020

# gst: the physics of squeezing; how to squeeze out (quantum) noise

<< 'Squeezing' is used in physics, among other things, to improve the resolution of measuring instruments. It allows disturbing noise to be suppressed in a way that smaller signals can be detected more sensitively. (..) (AA) has now been able to show how such a squeezed state can be measured in a much simpler way than with the existing methods. Moreover, the new method allows examining squeezed states in systems where such measurements were not possible before. >> [1]

<< In the experiment (..) the thermal fluctuations of a vibrating nanomechanical string resonator are squeezed. The nanostring can be thought of as a tiny guitar string, a thousand times thinner and shorter than a human hair. (..)  If the string is deflected far enough, it ceases to behave linearly. This means that the force that deflects the string is no longer proportional to the force that pulls it back to its original position. The strong drive alters the thermal fluctuations as a result of a violation of the time reversal symmetry. In phase space, they no longer look like a circle but like an ellipse: At least in one direction, its diameter, i.e. the noise, becomes significantly smaller—it is squeezed. >> [1]

<< Quantum squeezing was a theory that was first proposed in the 1980s, the general idea being that quantum vacuum noise can be represented as a sphere of uncertainty along two main axes: phase and amplitude. If this sphere were squeezed, like a stress ball, in a way that constricted the sphere along the amplitude axis, this would in effect shrink the uncertainty in the amplitude state of a vacuum (the squeezed part of the stress ball), while increasing the uncertainty in the phase state (stress ball's displaced, distended portion). Since it is predominantly the phase uncertainty that contributes noise to LIGO, shrinking it could make the detector more sensitive to astrophysical signals. (..) The heart of the squeezer is an optical parametric oscillator, or OPO — a bowtie-shaped device that holds a small crystal within a configuration of mirrors. When the researchers direct a laser beam to the crystal, the crystal's atoms facilitate interactions between the laser and the quantum vacuum in a way that rearranges their properties of phase versus amplitude, creating a new, "squeezed" vacuum that then continues down each of the detector's arm as it normally would. This squeezed vacuum has smaller phase fluctuations than an ordinary vacuum, allowing scientists to better detect gravitational waves. >> [2]

[1] - Measure squeezing in a novel way. University of Konstanz. Jun 25, 2020.   https://phys.org/news/2020-06-measure-squeezing-in-a-novel.html
J. S. Huber, G. Rastelli, et al. Spectral Evidence of Squeezing of a Weakly Damped Driven Nanomechanical Mode.  Phys. Rev. X 10, 021066 – Jun 23,  2020.   https://journals.aps.org/prx/abstract/10.1103/PhysRevX.10.021066 

[2] - Jennifer Chu. New instrument extends LIGO’s reach. Technology "squeezes" out quantum noise so more gravitational wave signals can be detected. MIT. Dec 5, 2019.   https://news.mit.edu/2019/ligo-reach-quantum-noise-wave-1205





giovedì 9 luglio 2020

# life: the transient floating entities suspended in the skies of Venus

<< From afar, Venus seems like the most uninhabitable planet of all. >>

<< NASA’s Magellan mission conducted radar mapping of the entire surface of Venus, penetrating its cloud layer and enabling (..) to reconstruct the first 3D map of the Venusian surface. >>

<< Beneath its carbon dioxide/nitrogen atmosphere, 90 times thicker than Earth’s, a hellscape of a surface awaits. >>

<< Although (..) successfully sent numerous landers, they’ve all failed after mere hours. The reason? A layer of sulfuric acid clouds enshrouds Venus at high altitudes. These radiation-reflecting clouds create a runaway greenhouse effect: responsible for Venus’s incredible temperatures. >>

<< At 60 kilometers (36 miles) in altitude, temperatures and atmospheric pressures are similar to Earth’s. The right ingredients for life, including carbon, oxygen, and nitrogen-rich molecules, are all abundant. Ultraviolet photos of Venus display "dark patches," which Harold Morowitz and Carl Sagan suggested could indicate microorganisms. >>

<< Above the cloud-tops, Venus has been called a "paradise planet." >>

Ethan Siegel. Yes, There Really Could Be Life In The Cloud Tops Of Venus. Jul 6, 2020. 






martedì 7 luglio 2020

# gst: 'transcriptional burst frequency' modulation (more or less noise) during gene regulation

<< In cells, genes are expressed through transcription, a process where genetic information encoded in DNA is copied into messenger RNA (mRNA). The mRNA is then translated to make protein molecules, the workhorses of cells. This entire process is subject to bursts of natural stochasticity—or randomness—which can impact the outcome of biological processes that proteins carry out. >>

<< This work for the first time identifies the role of randomness in altering the outcome of a developmental process.>> Madhav Mani. 

<< By analyzing experimental perturbations of Drosophila's senseless gene against mathematical models, the team determined the sources of the gene's stochasticity, and found that the randomness appears to be leveraged in order to accurately determine sensory neuron fates. >>

<< Let's say you are quickly flipping a light switch on and off, but you want more brightness out of your bulb. You could either get a brighter bulb that produced more photons per unit time, or you could leave the switch 'on' more than 'off,' (..) What we found is that organisms control the amount of gene expression by regulating how often the gene is permitted to switch on, rather than making more mRNAs when it is on. >> Madhav Mani. 

<< From these studies, we are learning rules for how genes can be made more or less noisy, (..) Sometimes cells want to harness the genetic noise—the level of variation in gene expression—to make randomized decisions. Other times cells want to suppress the noise because it makes cells too variable for the good of the organism. Intrinsic features of a gene can imbue them with more or less noise. >> Richard Carthew. 

Alex Gerage. Toward principles of gene regulation in multicellular systems. Northwestern University. Jul 1, 2020.


Rachael Bakker, Madhav Mani, Richard W Carthew. The Wg and Dpp morphogens regulate gene expression by modulating the frequency of transcriptional bursts. eLife. doi: 10.7554/eLife.56076. Jun 22, 2020. 



venerdì 3 luglio 2020

# gst: contactless manipulation of droplets levitating in an acoustic wave

<< A unique, versatile, and material-independent approach to manipulate contactlessly and merge two chemically distinct droplets suspended in an acoustic levitator is reported. Large-amplitude axial oscillations are induced in the top droplet by low-frequency amplitude modulation of the ultrasonic carrier wave, which causes the top sample to merge with the sample in the pressure minimum below. The levitator is enclosed within a pressure-compatible process chamber to enable control of the environmental conditions. The merging technique permits precise control of the substances affecting the chemical reactions, the sample temperature, the volumes of the liquid reactants down to the picoliter range, and the mixing locations in space and time. >>

Stephen J. Brotton, Ralf I. Kaiser. 
Controlled Chemistry via Contactless Manipulation and Merging of Droplets in an Acoustic Levitator. Anal. Chem. 2020, 92, 12, 8371–8377. doi: 10.1021/ acs.analchem.0c00929. Jun 1, 2020. 


Levitating droplets allow scientists to perform 'touchless' chemical reactions.  American Chemical Society. Jun 24, 2020.



mercoledì 1 luglio 2020

# life: apropos of transitional blennies

<< Research on blennies, a family of fish that have repeatedly left the sea for land, suggests that being a 'jack of all trades' allows species to make the dramatic transition onto land but adapting into a 'master of one' allows them to stay there. >>

<< a flexible diet and behavior were likely to be instrumental in the transition to land. However, once out of the water, restrictions on the type of food available triggered major evolutionary changes, particularly to their teeth, as land dwelling blennies have become specialists in scraping algae and detritus from rocks. >>

<< having a broad diet or being behaviorally flexible can help you move into a new habitat. But once there, this flexibility becomes eroded by natural selection. This presumably means those highly specialized species are less likely to be able to make further transitions, or cope with abrupt environment changes in their existing habitat. >> Terry Ord.

How fish got onto land, and stayed there. British Ecological Society. Jun 17, 2020.  


Terry J. Ord, Peter J. Hundt. Crossing extreme habitat boundaries: Jack‐of‐all‐trades facilitates invasion but is eroded by adaptation to a master‐of‐one. Funct Ecol. doi: 10.1111/ 1365-2435.13600. Jun 16, 2020.


Also

The multifactorial relationship system evolved in Blenny. FonT. Jun 2, 2017.



martedì 30 giugno 2020

# gst: elastic instabilities, a morphing model to quickly trap anything (in 100msec), the Venus flytrap (Dionaea muscipula)

<< The Venus flytrap (Dionaea muscipula) takes only 100 milliseconds to trap its prey. Once their leaves, which have been transformed into snap traps, have closed, insects can no longer escape. >>

<< the trap of the carnivorous plant is under mechanical prestress. In addition, its three tissue layers of each lobe have to deform according to a special pattern. >>

<< In order to close correctly, the traps also had to consist of three layers of tissue: an inner which constricts, an outer which expands, and a neutral middle layer. >>

Albert Ludwigs. Biomechanical analyses and computer simulations reveal the Venus flytrap snapping mechanisms. University of Freiburg. Jun 23, 2020.


Renate Sachse, Anna Westermeier, et al. Snapping mechanics of the Venus flytrap (Dionaea muscipula). PNAS. doi: 10.1073/ pnas.2002707117. Jun 22, 2020. 


Also

Dionaea muscipula, with precision. FonT. Feb 2, 2016. 




lunedì 29 giugno 2020

# gst: self-assembly in complex patterns during the evaporation of a sessile droplet

<< When a sessile droplet containing a solute in a volatile solvent evaporates, flow in the droplet can transport and assemble solute particles into complex patterns. >>

Bryan A. Nerger, P.-T. Brun, Celeste M. Nelson. Marangoni flows drive the alignment of fibrillar cell-laden hydrogels. Science Advances. Vol. 6, no. 24, eaaz7748. doi: 10.1126/ sciadv.aaz7748. Jun 12, 2020.


Thamarasee Jeewandara. Marangoni flows drive the alignment of fibrillar cell-laden hydrogels. Phys.org. Jun 25, 2020


Also

keyword 'Marangoni effect'