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Correction: A universal method for sensitive and cell-free detection of CRISPR-associated nucleases

In the original article, incorrect grant information from the Department of Energy was provided. The corrected Acknowledgementssection is provided below, with the correct grant number:This work was supported by the Burroughs Wellcome Fund (Career Award at the Scientific Interface to A. C.), DARPA (BrdiN66001-17-2-4055 to A. C.), NIH (1R21AI126239-01 to A. C.), Army Research Office award W911NF1610586 (to A. C.), and by theDepartment of Energy through grant DE-SC0010595 to E. F., which supported the salary of H. K. K. S. This work is dedicated toProfessor Ronald T. Raines on the occasion of his 60th birthday.The Royal Society of Chemistry apologises for these errors and any consequent inconvenience to authors and readers.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Preface for the Sherwood Fusion Theory 2021–2022 special collection

The Sherwood Fusion Theory conference has a 60-year history and has been held nearly annually for at least five decades. With theoretical and computational research directed toward fusion energy as an organizing principle, the typical Sherwood program encompasses a wide range of plasma physics topics pertaining to a variety of confinement concepts along with advancements in algorithms and numerical methods for fusion plasma simulations. Additionally, the typical annual meeting comprises roughly a dozen invited talks plus a small number of plenary speakers and several poster sessions. The program committee presents several awards each year to graduate (or undergraduate) students with outstanding poster presentations. Beginning in 2021, both invited speakers and student poster award winners were asked to submit manuscripts for this special collection, which combines contributions from the 2021 and 2022 Sherwood meetings.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

Safety-Related Instrumentation and Control Pilot Upgrade: Initial Scoping Phase Implementation and Lessons Learned

In May 2016, the U.S. Nuclear Regulatory Commission (NRC) staff provided a digital instrumentation and control (I&C) regulatory infrastructure integrated action plan to the NRC for approval. One of the objectives of that plan was to establish a clear regulatory structure with reduced regulatory uncertainty to enable the expanded safe use of digital I&C in commercial nuclear reactors while continuing to ensure safety and security. To achieve this end, the NRC, with collaboration from industry, developed a streamlined License Amendment Request Alternate Review (AR) process for safety-related (SR) digital I&C upgrades. In spite of this effort, the industry has remained reluctant to perform such I&C upgrades because of perceived regulatory and financial risks associated with being the first or an early adopter of the AR process for SR I&C upgrades. The U.S. Department of Energy Light Water Reactor Sustainability Program at the Idaho National Laboratory performed Initial Scoping Phase research to help break this impasse by supporting a SR I&C Pilot Upgrade, working with MPR Associates, ScottMadden Inc., and Exelon Generation. Exelon’s Limerick Generating Station (LGS) was selected as the target for this research. This paper summarizes the Initial Scoping Phase engineering and operations, licensing, and project management activities necessary to bound the scope, schedule, and estimated cost of the project sufficiently to enable utility management authorization of Conceptual Design Phase activities. These efforts and associated products are intended to provide a template to support larger industry efforts to perform similar upgrades as a foundation stone for a digital transformation that will improve plant safety, reliability, and operational performance while lowering plant total cost of ownership. As a result of the combined effort of Exelon Generation and research participants, Conceptual Design Phase activities for the subject upgrade at LGS were approved by Exelon. Further, the U.S. Department of Energy also awarded a $50 million cost share award to Exelon in order to pave the way for SR I&C modernization and associated control room upgrades across the U.S. nuclear fleet. Additional research reports are planned for the Conceptual Design Phase, Detailed Design Phase, and the Implementation Phase of the LGS project to document the process followed and promulgate lessons learned to industry.

22 GENERAL STUDIES OF NUCLEAR REACTORS↗

Flexible Ramping Product Procurement in Day-Ahead Markets

Flexible ramping products (FRPs) emerge as a promising instrument for addressing steep and uncertain ramping needs through market mechanisms. Initial implementations of FRPs in North American electricity markets, however, revealed several shortcomings in existing FRP designs. Here, in many instances, FRP prices failed to signal the true value of ramping capacity, most notably evident in zero FRP prices observed in a myriad of periods during which the system was in acute need for rampable capacity. These periods were marked by scheduled but undeliverable FRPs, often calling for operator out-of-market actions. On top of that, the methods used for procuring FRPs have been primarily rule-based, lacking explicit economic underpinnings. In this paper, we put forth an alternative framework for FRP procurement, which seeks to set FRP requirements and schedule FRP awards such that the expected system operation cost is minimized. Using real-world data from U.S. ISOs, we showcase the relative merits of the framework in (i) reducing the total system operation cost, (ii) improving price formation, (iii) enhancing the the deliverability of FRP awards, and (iv) reducing the need for out-of-market actions.

29 ENERGY PLANNING, POLICY, AND ECONOMY↗

Atomic Armor for Optoelectronics and Accelerator Technologies

Researchers at Los Alamos National Lab have developed Atomic Armor that is the first and only “invisible” shielding for technological devices. This one-atom-thick coating allows transmission of electrons and photons while blocking undesired gas molecules, thus extending a device’s lifetime while maximizing its functionality. It is the thinnest, most durable, most flexible, and customizable shielding ever made. The technology has been recognized with a R&D 100 Award and a Gold Special Recognition Award for Market Disruptor - Products.

36 MATERIALS SCIENCE↗

Programmable Dynamic Self-Assembly of DNA Nanostructures (Final Technical Report)

This technical report summarizes our research toward the synthesis of active biomolecular materials that take advantage of the biological properties of DNA and RNA, but can operate in non-biological contexts. Our approach takes inspiration from the dynamic assembly and disassembly of cytoskeletal filaments inside cells, and focuses on the generation of artificial filaments with comparable adaptation and responsiveness. We report the construction of DNA nanotube systems that assemble and disassemble reversibly in response to a variety of molecular stimuli including other nucleic acids (DNA and RNA), enzymes, and pH, as well as our progress on developing a reaction network framework to regulate self-assembly. Our DNA polymers are active in that they rely on the programmable energetics of hybridization and on the kinetics of enzymatic reactions to perform assembly and disassembly. Results include experiments and computational models. The research described here was performed between June 15, 2016 and June 15, 2019 at the University of California at Riverside with the support of the collaborative award DE-SC0010595 to PI Elisa Franco at UC Riverside and PI Rebecca Schulman at Johns Hopkins. The report focuses on the research performed by the team of PI Franco. The report also details work performed during a no-cost extension (June 15, 2019 - December 15, 2019) awarded to PI Guillermo Aguilar and PI Franco.

36 MATERIALS SCIENCE↗

A Scintillating Xenon Bubble Chamber for Dark Matter Detection. Final Report

This report describes the progress in the search for particle dark matter achieved under DOE award DE-SC0012161, as well as the invention of a new dark matter and neutrino detection technique. Work supported by this award follows in three distinct thrusts: (1) the successful completion of the Generation-1 Direct Detection experiment PICO-60, which set the world-leading limit on the spin-dependent coupling of dark matter to protons and achieved a precise understanding of the response of bubble chambers to nuclear-recoil signals and electron-recoil backgrounds; (2) the construction of the Generation-2 Direct Detection experiment LZ, which will soon be the world's most sensitive dark matter detector; and (3) the demonstration of the first scintillating bubble chamber. The development of a scintillating liquid noble bubble chamber was the primary goal of the proposed work, with the aim of combining the excellent background rejection of a PICO-style bubble chamber with the event-by-event energy resolution of a liquid-noble detector such as LZ. This work produced the first ever observation of coincident scintillation and bubble nucleation by a nuclear recoil in a superheated fluid and also revealed an unexpected benefit to the use of noble liquids in a bubble chamber, namely the ability to increase the degree of superheat by an order of magnitude beyond that achievable in PICO-style detectors while maintaining PICO's world-leading background rejection. This discovery has led to new projects in the US and Canada, developing noble liquid bubble chambers both as detectors for low-mass dark matter and as detectors of coherent elastic neutrino-nucleus scattering (CEvNS) by neutrinos produced at nuclear reactors.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Proposed guidance for preparing and reviewing a molten salt non-power production or utilization facility application

Development of non-power molten salt reactors (MSRs) are under consideration to further establish an MSR experience base, support the requirements of Title 10 of the Code of Federal Regulations (10 CFR) Section 50.43(e), and provide any additional analyses needed for development of a full-scale MSR. Guidance provided in this report is based on MSRs operating with liquid fuel (i.e., fuel dissolved within a molten salt). These reactors, unless owned by the DOE or DOD, will require licensing by the US Nuclear Regulatory Commission (NRC) staff. Standard review plan (SRP) guidance for large light water reactors (LWRs) is available in NUREG-0800, Standard Review Plan for the Review of Safety Analysis Reports for Nuclear Power Plants; Light Water Reactor (LWR) Edition. However, NRC staff observed that NUREG-0800 is very cumbersome to apply to non-power reactors “because of the great differences in complexity and hazards between non-power reactors and nuclear power plants.” Therefore, a program to develop performance-based guidance applicable to non-power reactors was initiated. In 1996, NUREG-1537, Parts 1 and 2, Guidelines for Preparing and Reviewing Applications for the Licensing of Non-Power Reactors, was published. Part 1, the format and content guide, suggests a uniform format for presenting information in non-power reactor applications that is acceptable to the NRC staff, but conformance with the format and content is not required. Part 2, the SRP, ensures the quality and uniformity of the staff review of an application. Unfortunately, the application guidelines and SRP do not provide adequate guidance for all advanced non-LWR technologies and applications. This discrepancy eventually led to the 2012 development of interim staff guidance (ISG) for NUREG-1537, which includes criteria for describing and reviewing aqueous homogeneous reactors (AHRs). Specifically, NUREG-1537 ISG, 2012 expanded the original document to address three areas: 1. updated criteria for heterogeneous non-power reactors, 2. criteria for licensing AHRs, and 3. criteria for licensing a Part 50-licensed isotope production facility. In 2015, the US Department of Energy (DOE) opted to build on the AHR NUREG-1537 ISG experience by performing a gap analysis of the guidance that would be used to license a non-power MSR. MSRs represent one of the advanced non-LWR technologies selected by DOE for development through a multiyear cost share award with Southern Company Services. Under this Advanced Reactor Concepts 2015 (DOE Advanced Reactor Concepts [ARC] 15) award program, the DOE tasked Oak Ridge National Laboratory (ORNL) to evaluate the guidance changes that the NRC may need to consider when licensing an MSR non-power reactor. ORNL staff, with support from Boston Government Services, LLC, focused on five system-related chapters in NUREG-1537 that were considered most relevant to inform the effort that would be required for a non-power MSR applicant. ORNL documented this review in a technical report, ORNL/TM-2018/834, Proposed Guidance for Preparing and Reviewing Molten Salt Non-Power Reactor License Applications (NUREG-1537). The report was subsequently shared with industry and the NRC. The 2018 review was limited in scope, focusing on key system chapters based on the expected significance of each chapter relative to expected differences in addressing advanced non-LWR technologies, specifically non-power MSRs, compared with heterogeneously fueled non-power reactors. In the ORNL report, proposed generic adaptations were suggested for the following NUREG-1537 chapters: Chapter 4, “Reactor Description”; Chapter 5, “Reactor Coolant Systems”; Chapter 6, “Engineered Safety Features”; Chapter 9, “Auxiliary Systems”; Chapter 11, “Radiation Protection Program and Waste Management” The inclusion of Chapter 11 in the previous review effort was intended to provide guidance for categorizing the waste-handling process for an MSR operating with homogenous fuel. The introductions from Parts 1 and 2 of the 2012 NUREG-1537 ISG provide guidance for the application and review of production facilities. After a period of operation, non-power MSRs with homogenous fuel will include gaseous and soluble fission products. The gaseous fission products will be collected and held for decay in an off-gas system. There might also be an initiative to polish or filter the soluble fission products in the fuel salt by some mechanical or chemical means. The treatment and handling of fission products in the non-power MSR fuel salt and the description of this process in the safety analysis report (SAR) must be very precise to avoid the waste treatment facility being construed as a co-located special nuclear material (SNM) fuel cycle facility (see Section 2.3 of this report). Subsequent to the release of ORNL/TM-2018/834, NRC staff expressed a desire to continue the regulatory gap analysis that was begun in that report. This would provide additional clarity and information addressed in certain sections of the original report, while also providing new guidance on certain topics not addressed in the original report. This revision would benefit the NRC staff reviewing applications involving non-power MSR designs and would help developers understand how the NRC staff might approach the review of such applications. The focus of this report is to provide infrastructure support to the NRC staff for the regulatory review of non-power MSRs.

22 GENERAL STUDIES OF NUCLEAR REACTORS↗

Ex-Situ Surface Characterization Studies and Boundary Plasma Diagnostic Development for DIII-D (Final Report)

This report details the accomplishments for award DE-SC0016318, which sponsored collaborative research activities between the University of Tennessee-Knoxville and the DIII-D experiment at General Atomics, led by the PI (Donovan), which officially began on August 1, 2016 and ended July 31, 2020. Though the official start date for the award was August 1, 2016, the PI had already initiated collaborative activities with DIII-D during 2015 supported by internal UTK start-up funds utilized by the PI. This prior work enabled UTK to have a substantial role in the June 2016 Metal Rings Campaign (MRC). The DOE funds then provided the opportunity to expand the UTK team with funding for students and a postdoc to perform ex-situ analysis on the wide array of samples exposed during the MRC and develop more sophisticated analysis tools and interpretive modeling techniques.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

Collaborative Research: Understanding Nanoparticle-Plasma Interactions in Dusty Non-Thermal Plasmas by Nanoparticle Probes and Online Aerosol Characterization (Final Technical Report)

This report describes results from the University of Minnesota’s contribution to studies performed under the award DE-SC0018202 (principal Investigator: Christopher J. Hogan Jr.. This award is a collaborative research grant with support equally provided to Case Western Reserve University and to the University of Illinois (with principal investigator R. Mohan Sankaran). To date ten peer-reviewed published papers have resulted from the studies performed with University of Minnesota personnel contributing; this report describes the results of these studies as well as several unpublished studies, grouped into seven separate study types. The overarching goal of the carried out studies was to understand nanoparticle behavior and dynamics in non-thermal plasma synthesis reactors, specifically adapting aerosol measurement technology to provide online measurements of particle size, charge, and structure in plasma reactor systems.

42 ENGINEERING↗

IC reports (2021)

We requested HPC support to continue research on the seismic waves generated by impacts. We used the following codes: (1) the Hybrid Optimization Software Suite (HOSS), developed at LANL. HOSS is based on a combined Finite and Discrete Element Method (FDEM). New material models are developed for the sedimentary rocks. HOSS has been recently benchmarked to iSale and FLAG codes. SPECFEM3D is an open-source code developed since the last 90s. It won the Gordon Bell award for best performance in 2003, was finalist again in 2008 for a run at 0.16 petaflops on 149,784 cores on the ‘Jaguar’ Cray system at Oak Ridge National Laboratory. It also won the BULL Joseph Fourier supercomputing award in 2010.; SW4 is a 4th-order finite difference code developed at LLNL which is currently actively developed to handle complex 3D models and to be ported on future exascale platforms. We assessed our need to a total of 3.9M CPU-hrs for year 1 and and 3.1 M for year 2.

79 ASTRONOMY AND ASTROPHYSICS↗

Radiation Detection Data Competition Report

In FY2018 through FY2020, NA-22, the Defense Nuclear Nonproliferation Research and Development Program, funded a Data Science project to develop and implement statistical methodology to effectively host data competitions with the goal of leveraging the opportunity provided by crowdsourcing. By accessing and engaging expertise from a broader research community, there is an opportunity to attract innovative solutions from a variety of different research disciplines to advance the ability to solve important non-proliferation problems. This report summarizes the key results of this project after hosting two data competitions focused on urban radiation detection. The first competition was focused on attracting participants from the U.S. national laboratories, while the second, hosted by TopCoder, was open to the broader international community and awarded prize money to the top 10 competitors. At the start of the project, there was strong interest from NA-22 to explore and develop the capability to host data competitions as a means of leveraging the broader community to solve important nuclear nonproliferation problems. Having a standard data set on which to compare different approaches based on clearly defined criteria was desirable to be able to evaluate the state of solutions for important problems. Initially, it was not clear that it would even be possible logistically and bureaucratically to host a competition with an international field of competitors and to award the prize money needed to attract solutions from top competitors. Happily, a path to host the competitions was ultimately found that allowed this powerful accelerator of improvements to be leveraged.

61 RADIATION PROTECTION AND DOSIMETRY↗

Alternative 3V0 Development for Ground Fault Overvoltage Protection with DERs/Renewables Interconnection (Final Report)

The ground fault overvoltage (GFOV) and the required traditional 3V0 installation has become a concerned issue for renewable/DER integration. Based on the alternative 3V0 methodology proposed by the PI and the feasibility study awarded by DOE SBIR/STIR project (Award No. DE-SC0018888), APS and RPI investigated development of a low-cost alternative 3V0 product based on the surge arrester current monitoring. The alternative 3V0 feasibility study completed by APS and RPI has verified that the alternative 3V0 is an effective solution (possibly the only one) under various circuit conditions and is competitive to traditional 3V0 methods.

24 POWER TRANSMISSION AND DISTRIBUTION↗

Graduate Fellowships [Slides]

All fellowship awards and their corresponding internships must be approved by LANL management. Awards and corresponding internship assignments are not guaranteed, even if student has management support.

99 GENERAL AND MISCELLANEOUS↗

Integrated End-to-end Performance Prediction and Diagnosis for Extreme Scientific Workflows (IPPD) (Final Report)

This report details the accomplishments from the ASCR funded project “Integrated End-to-end Performance Prediction and Diagnosis for Extreme Scientific Workflows” under the award numbers FWP-66406 and DE-SC0012630, with a focus on the UC San Diego (Award No. DE-SC0012630) part of the accomplishments. We refer to the project as IPPD. The main activities of IPPD were centered on the development and integration of provenance information to capture empirically workflow information and identify the sources of bottlenecks as well as variability, and modeling and simulation to provide insights and predictively explore multiple scenarios for development of advanced techniques for optimization of resources and workflow execution. After a Phase I of the project, a Phase II effort focused on three major aspects: a) observe how data is generated, distributed, and used; b) analyze how data is (repeatedly) consumed with a focus both on repeated patterns and anomalies; and c) explore how to optimize data motion. The project leveraged and extended our existing tools with new research and demonstrated our work on the Belle II workflow suite as well as on workflows from NSLS-II.

97 MATHEMATICS AND COMPUTING↗

International ACM Symposium on High Performance Parallel and Distributed Computing Conference for 2017, 2018, 2019, and 2020

The 28th ACM HPDC Conference was held in Phoenix, Arizona, June 24 and 28, 2019 (hpdc.org/2019), that was colocated with ACM FCRC 2019 (fcrc.acm.org). During the conference, Prof. Geoffrey Fox, Indiana University, was given the HPDC Achievement Award for 2019. Prof gave a keynote speech entitled “Perspectives on High-Performance Computing in a Big Data World. In addition, to the keynote speakers from HPDC and FCRC conferences, the conference organized successfully five workshops and one Ph.D. forum. The ACM FCRC had a total of 2700 attendees, and HPDC had a total of 120 attendees that included 32 students. We have used the DOE sponsorship to support the conference proceedings that acknowledge the DoE support and partially supported the travel to the HPDC PC meeting, Keynote speaker accommodation, best papers, presentation and poster award.

42 ENGINEERING↗

Regimes of Kinetic Magnetic Reconnection in the Laboratory (Final Technical Report)

The DOE award No. DE-SC0019153, supported in part one graduate student (J. Olson) and material expenses, enabling the student to prepare a basic plasma physics experiment on magnetic reconnection (which we now call the Terrestrial Reconnection Experiment, TREX) within at the Wisconsin Plasma Physics Laboratory (WiPPL). The study of the collisionless magnetic reconnection constituted the primary research carried out under this grant and lead to new observations of unexpected shock formation below the TREX reconnection layer. The shock formation was found fundamental to regulating the normalized rate of reconnection, and the results were part of our experimental observations detailed in a paper first authored by Dr. J. Olson and now published in the Journal of Plasma Physics. In this Report we review the general motivation of this work and provide an overview of our experimental results enabled by the support through the award.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

Fast Particle-Wave Interactions and Alfvén Eigenmodes in JET Tokamak Plasmas

This document serves as the closeout report of DOE Grant Award No. DE-FG02-99ER54563 with project period 1 April 2015 through 31 March 2020. The project comprised the international collaboration between MIT and EU scientists on the JET facility to improve our understanding of the physics of energetic particle-wave interactions by measuring the damping rates of stable Alfvén Eigenmodes (AEs) and unstable energetic particle driven modes. More specifically, this project involved the continued participation of MIT, the Culham Centre for Fusion Energy, the Swiss Plasma Center, and theorists from various European laboratories and from UC Irvine. Past contributions from the University of São Paulo are gratefully acknowledged. The Alfvén Eigenmode Active Diagnostic (AEAD) on JET discharges was successfully upgraded in this period and has extracted physically useful information, in primarily deuterium plasma discharges. It is expected that such experiments would be continued during the DT campaign in CY 2021 to assess the damping rates of similar modes in the presence of alpha particles, a product of fusing burning plasma. Only JET would carry out such experiments in the near term in the world. It is important to note that this collaboration was continued under DOE Grant Award No. DE-SC0014264 from 1 April 2020 through the present. In this grant period, the AEAD was upgraded with a set of individual amplifiers for each of a set of six antennas in two toroidally opposite locations. These new amplifiers allowed targeted selection of the antennas’ toroidal spectrum for AEs of interest with toroidal mode number | n | ≤ 20. The resonant detection and measurement of the damping rates of AEs was obtained from magnetic probes that could be compared with theory and simulations. This is a key topic of investigation for ITER and all other next-step fusion experiments, where such modes will interact with energetic particles produced by fusion reactions (alpha particles), Neutral Beam Injection (NBI) and Ion Cyclotron Resonance Heating (ICRH). The majority of the observations during this period were of Toroidal Alfvén Eigenmodes (TAEs) as these are most commonly observed on JET; a number of measurements were made during dedicated TAE experiments. However, a new set of lower frequency band filters were procured with the goal of studying Geodesic Acoustic Modes (GAMs), Beta (Acoustic) AEs (BAE/BAAEs), and Reverse Shear AEs (RSAEs), also predicted by theory. Commissioning and optimizations were successfully completed in this period, and the diagnostic has been in operation during the more recent JET campaigns. Initial results have been obtained in dedicated TAE experiments and successfully compared to drift-kinetic theory. A wide range of theoretical studies have been undertaken in support of the upcoming JET campaigns experiments. To supplement the ongoing use of ideal MHD codes, such as MISHKA during the studies of TAEs, gyrokinetic simulations of low frequency AEs were performed in collaboration with UC Irvine. The Gyrokinetic Toroidal Code (GTC) was used to determine the structure, frequencies and stability of AEs in JET plasmas. Thus, a solid scientific foundation has been laid for future DT campaigns in JET in the 2021 operation period when the damping rates of relevant modes in the presence of alpha particles could be assessed.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗