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Creators/Authors contains: "Wang, Michael"

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  1. Abstract The ability of unevolved amino acid sequences to become biological catalysts was key to the emergence of life on Earth. However, billions of years of evolution separate complex modern enzymes from their simpler early ancestors. To probe how unevolved sequences can develop new functions, we use ultrahigh-throughput droplet microfluidics to screen for phosphoesterase activity amidst a library of more than one million sequences based on a de novo designed 4-helix bundle. Characterization of hits revealed that acquisition of function involved a large jump in sequence space enriching for truncations that removed >40% of the protein chain. Biophysical characterization of a catalytically active truncated protein revealed that it dimerizes into an α-helical structure, with the gain of function accompanied by increased structural dynamics. The identified phosphodiesterase is a manganese-dependent metalloenzyme that hydrolyses a range of phosphodiesters. It is most active towards cyclic AMP, with a rate acceleration of ~109and a catalytic proficiency of >1014 M−1, comparable to larger enzymes shaped by billions of years of evolution. 
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  2. Abstract We study the performance of a cloud-based GPU-accelerated inference server to speed up event reconstruction in neutrino data batch jobs. Using detector data from the ProtoDUNE experiment and employing the standard DUNE grid job submission tools, we attempt to reprocess the data by running several thousand concurrent grid jobs, a rate we expect to be typical of current and future neutrino physics experiments. We process most of the dataset with the GPU version of our processing algorithm and the remainder with the CPU version for timing comparisons. We find that a 100-GPU cloud-based server is able to easily meet the processing demand, and that using the GPU version of the event processing algorithm is two times faster than processing these data with the CPU version when comparing to the newest CPUs in our sample. The amount of data transferred to the inference server during the GPU runs can overwhelm even the highest-bandwidth network switches, however, unless care is taken to observe network facility limits or otherwise distribute the jobs to multiple sites. We discuss the lessons learned from this processing campaign and several avenues for future improvements. 
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  3. Michael Kaiser (Ed.)
    By influencing soil organic carbon (SOC), cover crops play a key role in shaping soil health and hence the system's long‐term sustainability. However, the magnitude by which cover crops impacts SOC depends on multiple factors, including soil type, climate, crop rotation, tillage type, cover crop growth, and years under management. To elucidate how these multiple factors influence the relative impact of cover crops on SOC, we conducted a meta‐analysis on the impacts of cover crops within rotations that included corn (Zea maysL.) on SOC accumulation. Information on climatic conditions, soil characteristics, management, and cover crop performance was extracted, resulting in 198 paired comparisons from 61 peer‐reviewed studies. Over the course of each study, cover crops on average increased SOC by 7.3% (95% CI, 4.9%–9.6%). Furthermore, the impact of cover crop–induced increases in percent change SOC was evaluated across soil textures, cover crop types, crop rotations, biomass amounts, cover crop durations, tillage practices, and climatic zones. Our results suggest that current cover crop–based corn production systems are sequestering 5.5 million Mg of SOC per year in the United States and have the potential to sequester 175 million Mg SOC per year globally. These findings can be used to improve carbon footprint calculations and develop science‐based policy recommendations. Taken altogether, cover cropping is a promising strategy to sequester atmospheric C and hence make corn production systems more resilient to changing climates. 
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  4. Walters, Keisha (Ed.)
    Abstract Goldbeating is the ancient craft of thinning bulk gold (Au) into gossamer leaves. Pioneered by ancient Egyptian craftsmen, modern mechanized iterations of this technique can fabricate sheets as thin as ∼100 nm. We take inspiration from this millennia-old craft and adapt it to the nanoscale regime, using colloidally synthesized 0D/1D Au nanoparticles (AuNPs) as highly ductile and malleable nanoscopic Au ingots and subjecting them to solid-state, uniaxial compression. The applied stress induces anisotropic morphological transformation of AuNPs into 2D leaf form and elucidates insights into metal nanocrystal deformation at the extreme length scales. The induced 2D morphology is found to be dependent on the precursor 0D/1D NP morphology, size (0D nanosphere diameter and 1D nanorod diameter and length), and their on-substrate arrangement (e.g., interparticle separation and packing order) prior to compression. Overall, this versatile and generalizable solid-state compression technique enables new pathways to synthesize and investigate the anisotropic morphological transformation of arbitrary NPs and their resultant emergent phenomena. 
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