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ENCODE Project’s third phase offers new insights into the organization and regulation of our genes and genome.

The Encyclopedia of DNA Elements (ENCODE) Project is a worldwide effort to understand how the human genome functions. With the completion of its latest phase, the ENCODE Project has added millions of candidate DNA “switches” from the human and mouse genomes that appear to regulate when and where genes are turned on, and a new registry that assigns a portion of these DNA switches to useful biological categories. The project also offers new visualization tools to assist in the use of ENCODE’s large datasets.

The project’s latest results were published in Nature, accompanied by 13 additional in-depth studies published in other major journals. ENCODE is funded by the National Human Genome Research Institute, part of the National Institutes of Health.

The team controlling NASA’s Mars 2020 Perseverance rover has received telemetry (detailed spacecraft data) down from the spacecraft and has also been able to send commands up to the spacecraft, according to Matt Wallace, the mission’s deputy project manager. The team, based at NASA’s Jet Propulsion Laboratory in Southern California, has confirmed that the spacecraft is healthy and on its way to Mars.

Wallace provided a more detailed update on two issues during launch operations:

First, the proximity of the spacecraft to Earth immediately after launch was saturating the ground station receivers of NASA’s Deep Space Network. This is a known issue that we have encountered on other planetary missions, including during the launch of NASA’s Curiosity rover in 2011. The Perseverance team worked through prepared mitigation strategies that included detuning the receivers and pointing the antennas slightly off-target from the spacecraft to bring the signal within an acceptable range. We are now in lock on telemetry after taking these actions.

Robot that 3D prints and cooks plant-based meat alternatives for foodservice — can replace manufacturing practices.

Israeli start-up SavorEat has developed an automated, closed system that 3D prints and cooks plant-based meat alternatives for foodservice. “This robot can replace manufacturing practices,” CEO Racheli Vizman tells FoodNavigator.

Circa 2017 face_with_colon_three

Electronics company Panasonic is venturing into indoor farming with a Singapore warehouse farm that grows over 80 tons of vegetables per year under LED lights.

It’s Alive!

It’s technically possible that younger, more modern bacteria could have seeped down into the clay, Ars Technica reports, but the scientists think it was too densely packed to allow that.

Continue reading “Scientists Revive 100-Million-Year-Old Lifeforms” »

More from 2020 “The Movie”

Chinese government-linked hackers targeted biotech company Moderna Inc, a leading U.S.-based coronavirus vaccine research developer, earlier this year in a bid to steal valuable data, according to a U.S. security official tracking Chinese hacking activity.

WASHINGTON (Reuters) — Chinese government-linked hackers targeted biotech company Moderna Inc, a leading U.S.-based coronavirus vaccine research developer, earlier this year in a bid to steal valuable data, according to a U.S. security official tracking Chinese hacking activity.

(Reuters) — AstraZeneca has been granted protection from future product liability claims related to its COVID-19 vaccine hopeful by most of the countries with which it has struck supply agreements, a senior executive told Reuters.

CRISPR-Cas9 base editors comprise RNA-guided Cas proteins fused to an enzyme that can deaminate a DNA nucleoside. No natural enzyme deaminates adenine in DNA, and so a breakthrough came when a natural transfer RNA deaminase was fused to Cas9 and evolved to give an adenine base editor (ABE) that works on DNA. Further evolution provided the enzyme ABE8e, which catalyzes deamination more than 1000 times faster than early ABEs. Lapinaite et al. now present a 3.2-angstrom resolution structure of ABE8e bound to DNA in which the target adenine is replaced with an analog designed to trap the catalytic conformation. The structure, together with kinetic data comparing ABE8e to earlier ABEs, explains how ABE8e edits DNA bases and could inform future base-editor design.

Science, this issue p. 566

CRISPR-Cas–guided base editors convert A•T to G•C, or C•G to T•A, in cellular DNA for precision genome editing. To understand the molecular basis for DNA adenosine deamination by adenine base editors (ABEs), we determined a 3.2-angstrom resolution cryo–electron microscopy structure of ABE8e in a substrate-bound state in which the deaminase domain engages DNA exposed within the CRISPR-Cas9 R-loop complex. Kinetic and structural data suggest that ABE8e catalyzes DNA deamination up to ~1100-fold faster than earlier ABEs because of mutations that stabilize DNA substrates in a constrained, transfer RNA–like conformation. Furthermore, ABE8e’s accelerated DNA deamination suggests a previously unobserved transient DNA melting that may occur during double-stranded DNA surveillance by CRISPR-Cas9. These results explain ABE8e-mediated base-editing outcomes and inform the future design of base editors.

Steve Granick, Director of the IBS Center for Soft and Living Matter and Dr. Huan Wang, Senior Research Fellow, report together with 5 interdisciplinary colleagues in the July 31 issue of the journal Science that common chemical reactions accelerate Brownian diffusion by sending long-range ripples into the surrounding solvent.

The findings violate a central dogma of chemistry, that molecular diffusion and chemical reaction are unrelated. To observe that molecules are energized by chemical reaction is “new and unknown,” said Granick. “When one substance transforms to another by breaking and forming bonds, this actually makes the molecules move more rapidly. It’s as if the chemical reactions stir themselves naturally.”

“Currently, nature does an excellent job of producing molecular machines but in the natural world scientists have not understood well enough how to design this property,” said Wang. “Beyond curiosity to understand the world, we hope that practically this can become useful in guiding thinking about transducing chemical energy for molecular motion in liquids, for nanorobotics, precision medicine and greener material synthesis.”