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At least 163 records · Page 9

Genome evolution and transcriptome plasticity is associated with adaptation to monocot and dicot plants in Colletotrichum fungi

Colletotrichum fungi infect a wide diversity of monocot and dicot hosts, causing diseases on almost all economically important plants worldwide. Colletotrichum is also a suitable model for studying gene family evolution on a fine scale to uncover events in the genome associated with biological changes. Here we present the genome sequences of 30 Colletotrichum species covering the diversity within the genus. Evolutionary analyses revealed that the Colletotrichum ancestor diverged in the late Cretaceous in parallel with the diversification of flowering plants. We provide evidence of independent host jumps from dicots to monocots during the evolution of Colletotrichum, coinciding with a progressive shrinking of the plant cell wall degradative arsenal and expansions in lineage-specific gene families. Comparative transcriptomics of 4 species adapted to different hosts revealed similarity in gene content but high diversity in the modulation of their transcription profiles on different plant substrates. Combining genomics and transcriptomics, we identified a set of core genes such as specific transcription factors, putatively involved in plant cell wall degradation. These results indicate that the ancestral Colletotrichum were associated with dicot plants and certain branches progressively adapted to different monocot hosts, reshaping the gene content and its regulation.

59 BASIC BIOLOGICAL SCIENCES↗

Adaptive responses of Trichlorobacter lovleyi to nitrite detoxification reveal overlooked contributions of Geobacterales to nitrate ammonification

Abstract Poorly understood microorganisms “short-circuit” the nitrogen cycle via the dissimilatory nitrate reduction to ammonium to retain the element in agricultural lands and stimulate crop productivity. The prevalence of Geobacterales closely related to Trichlorobacter lovleyi in nitrate ammonification hotspots motivated us to investigate adaptive responses contributing to ammonification rates in the laboratory type strain T. lovleyi SZ. Here, we describe the identification of tightly regulated pathways for efficient nitrate foraging and respiration with acetate, an important intermediate of organic matter degradation that Geobacterales efficiently assimilate and oxidize. Challenging the established dogma that high carbon/nitrate ratios stimulate the reduction of nitrate to ammonium, T. lovleyi doubled rapidly across a wide range of ratios provided nitrate concentrations were low enough to prevent the accumulation of the toxic nitrite intermediate. Yet, excess electrons during hydrogenotrophic growth alleviated nitrite toxicity and stimulated the reduction of nitrate to ammonium even under conditions of severe acetate limitation. These findings underscore the importance of nitrite toxicity in the ammonification of nitrate by Geobacterales and provide much needed mechanistic understanding of microbial adaptations contributing to soil nitrogen conservation. This information is critical to enhance the predictive value of genomic-based traits in environmental surveys and to guide strategies for sustainable management of nitrogen fertilization as well as mitigation of green-house emissions and agrochemical leaching from agricultural lands.

Environmental Sciences & Ecology↗

Surrogate-constructed scalable-circuits adaptive variational quantum eigensolver in the Schwinger model

Inspired by recent advancements in simulating periodic systems on quantum computers, we develop an approach to further advance the simulation of these systems, named (SC) 2 -ADAPT-VQE. Our approach extends the scalable-circuits ADAPT-VQE framework, which builds an ansatz from a pool of coordinate-invariant operators defined for arbitrarily large, though not arbitrarily small, volumes. Our method uses a classically tractable “surrogate constructed” method to remove irrelevant operators from the pool, reducing the minimum size for which the scalable circuits are defined. Bringing together the scalable circuits and the surrogate constructed approaches forms the core of the (SC) 2 methodology. Our approach allows for a wider set of classical computations on small volumes, which can be used for a more robust extrapolation protocol. While developed in the context of lattice models, the surrogate construction portion is applicable to a wide variety of problems where information about the relative importance of operators in the pool is available. As an example, we use it to compute the properties of the Schwinger model—quantum electrodynamics for a single, massive fermion in 1 +1 dimensions—and show that our method can be used to accurately extrapolate to the continuum limit.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

Adaptive time stepping for the two-time integro-differential Kadanoff-Baym equations

The nonequilibrium Green's function gives access to one-body observables for quantum systems. Of particular interest are quantities such as density, currents, and absorption spectra which are important for interpreting experimental results in quantum transport and spectroscopy. We present an integration scheme for the Green's function's equations of motion, the Kadanoff-Baym equations (KBE), which is both adaptive in the time integrator step size and method order as well as the history integration order. We analyze the importance of solving the KBE self-consistently and show that adapting the order of history integral evaluation is important for obtaining accurate results. To examine the efficiency of our method, we compare runtimes to a state-of-the-art fixed time step integrator for several test systems and show an order of magnitude speedup at similar levels of accuracy. Published by the American Physical Society 2024

97 MATHEMATICS AND COMPUTING↗

Adaptive X-ray imaging with reinforcement learning

X-ray imaging is a powerful technique to scan samples in a variety of contexts including biological, environmental and materials science, but commonly requires a synchrotron light source to produce X-rays at sufficient intensity. As these facilities are expensive to operate, the available beam time is limited and always in high demand. Particularly if the illuminated samples are sparse, standard raster scanning methods can be time-consuming, with a majority of that time being spent on areas of the image that carry little information. To increase the efficiency and maximize the information gain for a given time budget, we split the scanning process into a series of steps where previous measurements are used to inform the decision making and adapt the exposure distribution at later stages of the sequence. We formulate this task as a reinforcement learning problem where the goal is to produce a sequence of exposure maps that maximize a predefined scalar metric. We demonstrate the potential of this approach in simulations where the adaptive illumination can accelerate the measurement process by up to an order of magnitude compared with standard raster scanning. Finally, we present the first results from deploying the trained agents on an X-ray fluorescence beamline at the Stanford Synchrotron Radiation Lightsource.

Reinforcement Learning↗

Adaptive Linear State Estimation for Unbalanced Distribution System

The inclusion of PMU functionality in distribution relays enables the implementation of a linear state estimator (LSE) in Distribution Systems (DS). However, the unbalanced topology and phase coupling in distribution lines necessitate modifications to the LSE formulation. Additionally, the higher fault frequency in distribution systems requires a state estimation approach that is resilient to contingencies. This work proposes an adaptive linear state estimation algorithm tailored for unbalanced distribution systems with single-phase and two-phase laterals. Furthermore, a modified Optimal PMU Placement (OPP) strategy is introduced to ensure full observability in distribution systems with single-phase and two-phase buses. To maintain adaptability to topology changes, the state estimator incorporates circuit breaker status data provided by PMUs, ensuring robust performance during topology changes triggered by faults. The performance of the algorithm is verified on the IEEE 13-bus, 34-bus, and 123-bus systems.

PMUs↗

Adaptive Online Model Update Algorithm for Predictive Control in Networked Systems

In this article, we introduce an adaptive on-line model update algorithm designed for predictive control applications in networked systems, particularly focusing on power distribution systems. Unlike traditional methods that depend on historical data for offline model identification, our approach utilizes real-time data for continuous model updates. This method integrates seamlessly with existing online control and optimization algorithms and provides timely updates in response to real-time changes. This methodology offers significant advantages, including a reduction in the communication network bandwidth requirements by minimizing the data exchanged at each iteration and enabling the model to adapt after disturbances. Furthermore, our algorithm is tailored for non-linear convex models, enhancing its applicability to practical scenarios. The efficacy of the proposed method is validated through a numerical study, demonstrating improved control performance using a synthetic IEEE test case.

data-driven model predictive control↗

Reducing Communication Overhead in Federated Learning for Network Anomaly Detection with Adaptive Client Selection

Communication overhead in federated learning (FL) poses a significant challenge for network anomaly detection systems, where the myriad of client configurations and network conditions can severely impact system efficiency and detection accuracy. While existing approaches attempt to address this through individual optimization techniques, they often fail to maintain the delicate balance between reduced overhead and detection performance. This paper presents an adaptive FL framework that dynamically combines batch size optimization, client selection, and asynchronous updates to achieve efficient anomaly detection. Through extensive profiling and experimental analysis on two distinct datasets-UNSW-NBIS for general network traffic and ROAD for automotive networks-our framework reduces communication overhead by 97.6%; (from 700.0s to 16.8s) compared to synchronous baseline approaches while maintaining comparable detection accuracy (95.10%; vs. 95.12%;). Statistical validation using Mann-Whitney U test confirms significant improvements (p < 0.05) over existing FL approaches across both datasets, demonstrating the framework's adaptability to different network security contexts. Detailed profiling analysis reveals the efficiency gains through dramatic reductions in GPU operations and memory transfers while maintaining robust detection performance under varying client conditions.

Marfo, William [University of Texas at El Paso]↗

Adaptive Reinforcement Learning Control for Power Distribution in Multi-Output Resonant Converters

This paper presents an adaptive reinforcement learning (ARL)-based control framework for efficient power distribution in a multi-output resonant converter for UAV applications. The proposed system is based on a high-frequency isolated resonant architecture, where a single energy source supplies multiple propulsion loads through independently controlled output rectifiers, addressing the need for coordinated multi-motor power management. The ARL framework dynamically allocates output power by learning optimal phase-shift control actions under varying load demands and operating conditions. The agent autonomously determines control parameters that maximize conversion efficiency while ensuring accurate power sharing among multiple outputs. In addition, the proposed approach enables adaptive operation without requiring detailed system modeling or manual tuning. Experimental results demonstrate stable and efficient performance over a wide range of operating conditions, confirming the effectiveness and robustness of the learning-based control strategy for multi-output resonant converter system.

Asa, Erdem [ORNL] (ORCID:0000000190884812)↗

Surf-Deformer: Mitigating Dynamic Defects on Surface Code via Adaptive Deformation

In this paper, we introduce Surf-Deformer, a code deformation framework that seamlessly integrates adaptive defect mitigation functionality into the current surface code workflow. It crafts several basic deformation instructions based on fundamental gauge transformations, which can be combined to explore a larger design space than previous methods. This enables more optimized deformation processes tailored to specific defect situations, restoring the QEC capability of deformed codes more efficiently with minimal qubit resources. Additionally, we design an adaptive code layout that accommodates our defect mitigation strategy while ensuring efficient execution of logical operations. Our evaluation shows that Surf-Deformer outperforms previous methods by significantly reducing the end-to-end failure rate of various quantum programs by 35× to 70×, while requiring only about 50% of the qubit resources compared to the previous method to achieve the same level of failure rate. Ablation studies show that Surf-Deformer surpasses previous defect removal methods in preserving QEC capability and facilitates surface code communication by achieving nearly optimal throughput.

Yin, Keyi↗

A Measurement-Based Adaptive Voltage Regulation Method Considering Topology Changes

This paper proposes an online adaptive data-driven distributed energy resource (DER) dispatch optimization method for voltage control considering topology changes. By using a local sensitivity factor (LSF)-enabled voltage control, traditional DER control can be reformulated into a linear programming (LP) problem, leading to faster computation speeds. Power injection alteration and topology changes are two common operational changes in the distribution network that can affect the LSF and voltage control performance. To address this issue, a robust estimation method is developed to adjust the sensitivity matrix at each time step for the time-varying power injection changes. When topology changes occur, only the allocated predominant LSF submatrices are updated based on measurement data, allowing for a fast adaptation to the system reconfiguration. Results obtained from a real distribution feeder in Southern California demonstrate its robustness as compared to traditional volt-var control and constant LSF matrix dispatch control methods.

DERs↗

Balancing Trade-offs: Adaptive Differential Privacy in Interpretable Machine Learning Models

In the advancing field of machine learning, balancing accuracy, interpretability, and privacy represents a significant challenge. The problem is exacerbated by the widespread deployment of pre-trained models locally in diverse applications, which could lead to various amounts of privacy leakage. Conventional Differential Privacy strategies, in which uniform noises are applied to model gradients, guarantee data privacy at the expense of accuracy and interpretability. This paper introduces a Feature-Sensitive Adaptive Differential Privacy (FADP) framework with a unique noise-adding strategy. Noises are adaptively added based on feature importance clustering, where important features are considered for interpretability. By employing a unique masking technique, FADP selectively preserves crucial features with minimal noise interference, maintaining accuracy while enhancing interpretability. The FADP framework addresses the limitations of traditional DP methods by preserving critical channels and improving interpretability — a vital requirement in machine learning applications that demand transparency in model decisions. Through comprehensive testing, FADP is shown to balance the trade-offs among accuracy, privacy, and interpretability, marking a substantial advancement in the field of privacy-preserving machine learning.

Farhad Riya, Farhin [University of Tennessee, Knox↗

Microbial Evolution Drives Adaptation of Substrate Degradation on Decadal to Centennial Time Scales Relevant to Global Change

ABSTRACT Understanding microbial adaptation is crucial for predicting how soil carbon dynamics and global biogeochemical cycles will respond to climate change. This study employs the DEMENT model of microbial decomposition, along with empirical mutation and dispersal rates, to explore the roles of mutation and dispersal in the adaptation of soil microbial populations to shifts in litter chemistry, changes that are anticipated with climate‐driven vegetation dynamics. Following a change in litter chemistry, mutation generally allows for a higher rate of litter decomposition than dispersal, especially when dispersal predominantly introduces genotypes already present in the population. These findings challenge the common idea that mutation rates are too low to affect ecosystem processes on ecological timescales. These results demonstrate that evolutionary processes, such as mutation, can help maintain ecosystem functioning as the climate changes.

Abs, Elsa↗

Machine learning-driven design and self-sensing capabilities of automotive bumper lattices for adaptive impact response

We present a novel approach to design an automotive bumper energy absorber using carbon fiber reinforced polymer composites, optimized to meet conflicting performance requirements for two distinct impact scenarios. The design must satisfy both a low-speed (2.5 mph) pendulum intrusion test, simulating vehicle-to-vehicle collisions, and a high-speed (25 mph) leg flexion test, replicating pedestrian impacts. These tests demand opposing deformation characteristics: high flexibility (deformation < 85 mm) for the former and high stiffness (deformation < 22 mm) for the latter. To address these contradictory requirements, we developed a machine learning (ML) framework for inverse optimization of lattice designs and material selection. Unlike traditional iterative design processes, our ML model directly outputs optimal design parameters and material choices based on target performance inputs. The energy absorber was fabricated using advanced additive manufacturing techniques, including extrusion deposition and digital light processing. The integration of carbon fibers provides multifunctionality to the bumper structure, enabling self-sensing capabilities through changes in electrical resistivity under compression. This electrical response demonstrates high repeatability under multiple cycles at 2% compression and exhibits distinct signatures during crack formation under high deformation. This research offers adaptive performance through innovative design methodologies and smart material integration. The approach has potential applications in various fields requiring adaptive energy absorption and real-time structural health monitoring.

Chawla, Komal [ORNL] (ORCID:0000000190327565)↗

Leveraging data mining, active learning, and domain adaptation for efficient discovery of advanced oxygen evolution electrocatalysts

Developing advanced catalysts for acidic oxygen evolution reaction (OER) is crucial for sustainable hydrogen production. This study presents a multistage machine learning (ML) approach to streamline the discovery and optimization of complex multimetallic catalysts. Our method integrates data mining, active learning, and domain adaptation throughout the materials discovery process. Unlike traditional trial-and-error methods, this approach systematically narrows the exploration space using domain knowledge with minimized reliance on subjective intuition. Then, the active learning module efficiently refines element composition and synthesis conditions through iterative experimental feedback. The process culminated in the discovery of a promising Ru-Mn-Ca-Pr oxide catalyst. Our workflow also enhances theoretical simulations with domain adaptation strategy, providing deeper mechanistic insights aligned with experimental findings. By leveraging diverse data sources and multiple ML strategies, we demonstrate an efficient pathway for electrocatalyst discovery and optimization. This comprehensive, data-driven approach represents a paradigm shift and potentially benchmark in electrocatalysts research.

Science & Technology - Other Topics↗

JANUS: Resilient and Adaptive Data Transmission for Enabling Timely and Efficient Cross-Facility Scientific Workflows

In modern science, the growing complexity of large-scale scientific projects has led to an increasing reliance on cross-facility scientific workflows, where resources and expertise from multiple institutions and geographic locations are leveraged to accelerate scientific discovery. These workflows often require transmitting huge amounts of scientific data through wide-area networks. Although high-speed networks like ESnet and transfer services such as Globus have improved data mobility, several challenges remain. The sheer volume of data can overwhelm network bandwidth, widely used transport protocols such as TCP suffer from inefficiencies due to retransmissions triggered by packet loss, and existing fault-tolerance mechanisms like erasure coding introduce substantial overhead. In this paper, we propose Janus, a resilient and adaptable data transmission approach designed for cross-facility scientific workflows. Unlike traditional TCP-based methods, Janus leverages UDP, integrates erasure coding for fault tolerance, and combines it with error-bounded lossy compression to reduce overhead. This novel design allows users to balance data transmission time and accuracy, optimizing transfer performance based on specific scientific requirements. Additionally, Janus dynamically adjusts erasure coding parameters in response to real-time network conditions, ensuring efficient data transfers even in fluctuating environments. We develop optimization models for determining ideal configurations and implement adaptive data transfer protocols to enhance reliability. Through extensive simulations and real-network experiments, we demonstrate that Janus significantly improves transfer efficiency while maintaining data fidelity.

Esaulov, Vladislav [Georgia State University, Atla↗

Adapting CLUTCH methodology to multigroup TSUNAMI-3D for eigenvalue sensitivity calculations

The sensitivity of the eigenvalue to uncertainties in nuclear data and its evaluation are important for nuclear criticality safety. TSUNAMI-3D sequences within the SCALE code system offer several options to the user community for calculating eigenvalue sensitivity coefficients with multigroup (MG) and continuous energy (CE) 3D transport capabilities. TSUNAMI-3D sequences implement the adjoint-based perturbation theory with MG KENO code, the Contributon Linked eigenvalue sensitivity/Uncertainty estimation via Track length importance CHaracterization (CLUTCH) method with CE KENO code, and the Iterated Fission Probability (IFP) method with CE KENO and Shift codes. Each method has benefits and limitations depending on the problem that is run. The work presented here aims to adapt the CLUTCH method, which enables the Contributon method's mesh-free, memory-efficient approach for calculating adjoint-weighted tallies for sensitivity calculations, to the MG TSUNAMI-3D sequence. This application would eliminate the explicit adjoint KENO calculation, as well as the memory-consuming mesh flux moment tallies required by the conventional MG TSUNAMI-3D. Smaller memory footprints in the CLUTCH methodology and relatively shorter runtimes in MG KENO transport can make MG TSUNAMI-3D a viable method for some complex problems. Moreover, this adaptation allows MG sensitivity calculations with Shift, ORNL's next-generation high-performance Monte Carlo transport code, which currently does not offer any sensitivity capabilities with MG particle transport simulations. Initial implementation of the new MG TSUNAMI-3D sequence and its preliminary results with a selected critical benchmark experiment in the Verified, Archived Library of Inputs and Data (VALID) are presented in this study.

KENO↗

Adaptive Computing (AC) [SWR-24-106]

The Adaptive Computing (AC) software stack supports goal-based computing, for which a simulation workload is created on the fly adapting to the results of calculations. Application-specific code defines an objective, which may be to solve an optimization problem or to train a surrogate model with minimal uncertainty. Then, the AC driver decides where in the design parameter space to run simulations to best achieve that objective. This process is iterative and online; as new data is returned from simulations, the AC driver chooses new simulations to run. The AC driver can strategically run simulations on distributed hardware resources (including high performance computing machines, cloud resources, and edge devices) to maximize throughput and obey resource constraints.

Griffin, Kevin [National Renewable Energy Laborato↗