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All sourcesNASA NTRSDOE OSTI
DOE OSTI2025

Targeted genetic manipulation and yeast-like evolutionary genomics in the green alga Auxenochlorella

Auxenochlorella spp. are diploid oleaginous green algae whose streamlined genomes can be readily manipulated by homologous recombination, making them highly amenable to discovery research and bioengineering. Vegetatively diploid organisms experience specific evolutionary phenomena, including allodiploid hybridization, mitotic recombination, loss-of-heterozygosity, and aneuploidy; however, studies of these forces have largely focused on yeasts. Here, we present a telomere-to-telomere phased diploid genome assembly of Auxenochlorella UTEX 250-A (haploid length 22 Mb) and introduce a genetic toolkit for site-specific manipulation of the nuclear genome in multiple strains, featuring several selectable markers, inducible promoters, and fluorescent reporters for protein localization. UTEX 250-A is an allodiploid hybrid of Auxenochlorella protothecoides and Auxenochlorella symbiontica, two species differentiated by extensive chromosomal rearrangements. UTEX 250-A haplotypes are a mosaic of each parental species following mitotic recombination, and two chromosomes are trisomic. Loss-of-heterozygosity events are pervasive across Auxenochlorella and can evolve rapidly in the laboratory. High-quality structural annotation yielded ∼7,500 genes per haplotype. Auxenochlorella have experienced gene family loss and reduction, including core photosynthesis genes, and exhibit periodic adenine and cytosine methylation at promoters and gene bodies, respectively. Approximately 10% of genes, especially those involved in DNA repair and sex, overlap antisense long noncoding RNAs, which may participate in a regulatory mechanism. We demonstrate the utility of Auxenochlorella for fundamental research by knockout of a chlorophyll biosynthesis enzyme, and confirm one trisomy by allele-specific transformation. These results demonstrate the generality of several evolutionary forces associated with vegetative diploidy and provide a foundation for the use of Auxenochlorella as a reference organism.

CHL27↗
DOE OSTI2024

Genetically manipulated chloroplast stromal phosphate levels alter photosynthetic efficiency

Abstract The concentration of inorganic phosphate (Pi) in the chloroplast stroma must be maintained within narrow limits to sustain photosynthesis and to direct the partitioning of fixed carbon. However, it is unknown if these limits or the underlying contributions of different chloroplastic Pi transporters vary throughout the photoperiod or between chloroplasts in different leaf tissues. To address these questions, we applied live Pi imaging to Arabidopsis (Arabidopsis thaliana) wild-type plants and 2 loss-of-function transporter mutants: triose phosphate/phosphate translocator (tpt), phosphate transporter 2;1 (pht2;1), and tpt pht2;1. Our analyses revealed that stromal Pi varies spatially and temporally, and that TPT and PHT2;1 contribute to Pi import with overlapping tissue specificities. Further, the series of progressively diminished steady-state stromal Pi levels in these mutants provided the means to examine the effects of Pi on photosynthetic efficiency without imposing nutritional deprivation. ΦPSII and nonphotochemical quenching (NPQ) correlated with stromal Pi levels. However, the proton efflux activity of the ATP synthase (gH+) and the thylakoid proton motive force (pmf) were unaltered under growth conditions, but were suppressed transiently after a dark to light transition with return to wild-type levels within 2 min. These results argue against a simple substrate-level limitation of ATP synthase by depletion of stromal Pi, favoring more integrated regulatory models, which include rapid acclimation of thylakoid ATP synthase activity to reduced Pi levels.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2025

PII interactions with the acetyl-CoA carboxylase subunits BADC and BCCP co-regulate lipid and nitrogen metabolism in Arabidopsis

In plants, the initiation of fatty acid synthesis is catalyzed by acetyl-CoA carboxylase (ACCase), which produces malonyl-CoA. The heteromeric form of ACCase (htACCase) is a holoenzyme consisting of biotin carboxylase and carboxyltransferase sub-complexes, both of which are subject to extensive regulation. Biotin carboxylase activity is controlled in part by the presence of the catalytic biotin carboxyl carrier proteins (BCCP1/2) and/or the non-catalytic, non-biotinylated, biotin/lipoyl attachment domain-containing proteins (BADC1/2/3) that associate with backbone biotin carboxylase (BC) protein. However, the mechanisms regulating BADC and BCCP interactions with BC and, consequently, ACCase activity in planta , remain unclear. Here, we demonstrate that the Arabidopsis ( Arabidopsis thaliana ) regulatory protein PII modulates htACCase activity through independent interactions with BADC and BCCP proteins in a selective manner. Analysis of badc1 badc2 and badc1 badc3 mutant lines and the respective pii triple mutants revealed that changes in seed oil and protein accumulation of badc double mutants are PII/nitrogen dependent. Absolute quantification of htACCase subunits and PII in developing seeds suggests that Arabidopsis exerts tight regulation over individual protein stoichiometry to balance oil and protein accumulation. The effects on vegetative and seed development indicate that PII and BADC proteins have distinct yet overlapping roles in regulating plant metabolism.

Garneau, Matthew G. [Washington State Univ., Pullm↗
DOE OSTI2024

Deep Learning and Likelihood Approaches for Viral Phylogeography Converge on the Same Answers Whether the Inference Model Is Right or Wrong

Abstract Analysis of phylogenetic trees has become an essential tool in epidemiology. Likelihood-based methods fit models to phylogenies to draw inferences about the phylodynamics and history of viral transmission. However, these methods are often computationally expensive, which limits the complexity and realism of phylodynamic models and makes them ill-suited for informing policy decisions in real-time during rapidly developing outbreaks. Likelihood-free methods using deep learning are pushing the boundaries of inference beyond these constraints. In this paper, we extend, compare, and contrast a recently developed deep learning method for likelihood-free inference from trees. We trained multiple deep neural networks using phylogenies from simulated outbreaks that spread among 5 locations and found they achieve close to the same levels of accuracy as Bayesian inference under the true simulation model. We compared robustness to model misspecification of a trained neural network to that of a Bayesian method. We found that both models had comparable performance, converging on similar biases. We also implemented a method of uncertainty quantification called conformalized quantile regression that we demonstrate has similar patterns of sensitivity to model misspecification as Bayesian highest posterior density (HPD) and greatly overlap with HPDs, but have lower precision (more conservative). Finally, we trained and tested a neural network against phylogeographic data from a recent study of the SARS-Cov-2 pandemic in Europe and obtained similar estimates of region-specific epidemiological parameters and the location of the common ancestor in Europe. Along with being as accurate and robust as likelihood-based methods, our trained neural networks are on average over 3 orders of magnitude faster after training. Our results support the notion that neural networks can be trained with simulated data to accurately mimic the good and bad statistical properties of the likelihood functions of generative phylogenetic models.

Evolutionary Biology↗
DOE OSTI2025

Variation in Flooding Tolerance in Populus deltoides ‘D-124’ and P. trichocarpa x P. deltoides Hybrid ‘52–225’

Flooding poses a substantial challenge to plant survival and productivity, particularly in riparian genus like Populus. This study examines the physiological, morphological, metabolic, and molecular responses of Populus deltoides ‘D-124’ and P. trichocarpa x P. deltoides hybrid clone ‘52–225’ under control and inundated conditions to identify differences in flooding tolerance. Under flooding conditions, physiological and cellular stress was more pronounced in P. deltoides ‘D-124’ than in the hybrid clone ‘52–225,’ as evidenced by lower transpiration (E), photosynthesis (A), and chlorophyll content. In contrast, ‘52–225’ showed reduced ROS accumulation suggesting better cellular function under stress. Morphologically, ‘52–225’ produced more shoot-born roots, which likely enhance oxygen transport and metabolic activity during flooding. Metabolite profiling revealed both overlapping and distinct patterns of sugar and amino acid accumulation between genotypes. Gene expression analysis revealed that flooding-responsive genes, including ALCOHOL DEHYDROGENASE 1 and HYPOXIA RESPONSIVE ERF 2, were activated in both genotypes, with a more pronounced response noted in ‘52–225.’ These findings extend our understanding of flooding tolerance mechanisms in Populus by connecting physiological traits, stress responses, and genetic regulation. This research contributes to the development of more flooding-resilient poplar varieties, with potential applications in breeding and restoration programs for flooding-prone environments.

Flooding stress↗
DOE OSTI2022

Reekeekee- and roodoodooviruses, two different Microviridae clades constituted by the smallest DNA phages

Small circular single-stranded DNA viruses of the Microviridae family are both prevalent and diverse in all ecosystems. They usually harbor a genome between 4.3 and 6.3 kb, with a microvirus recently isolated from a marine Alphaproteobacteria being the smallest known genome of a DNA phage (4.248 kb). A subfamily, Amoyvirinae, has been proposed to classify this virus and other related small Alphaproteobacteria-infecting phages. Here, we report the discovery, in meta-omics data sets from various aquatic ecosystems, of sixteen complete microvirus genomes significantly smaller (2.991–3.692 kb) than known ones. Phylogenetic analysis reveals that these sixteen genomes represent two related, yet distinct and diverse, novel groups of microviruses—amoyviruses being their closest known relatives. We propose that these small microviruses are members of two tentatively named subfamilies Reekeekeevirinae and Roodoodoovirinae. As known microvirus genomes encode many overlapping and overprinted genes that are not identified by gene prediction software, we developed a new methodology to identify all genes based on protein conservation, amino acid composition, and selection pressure estimations. Surprisingly, only four to five genes could be identified per genome, with the number of overprinted genes lower than that in phiX174. These small genomes thus tend to have both a lower number of genes and a shorter length for each gene, leaving no place for variable gene regions that could harbor overprinted genes. Even more surprisingly, these two Microviridae groups had specific and different gene content, and major differences in their conserved protein sequences, highlighting that these two related groups of small genome microviruses use very different strategies to fulfill their lifecycle with such a small number of genes. The discovery of these genomes and the detailed prediction and annotation of their genome content expand our understanding of ssDNA phages in nature and are further evidence that these viruses have explored a wide range of possibilities during their long evolution.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2022

Spatial scales of competition and a growth–motility trade-off interact to determine bacterial coexistence

The coexistence of competing species is a long-lasting puzzle in evolutionary ecology research. Despite abundant experimental evidence showing that the opportunity for coexistence decreases as niche overlap increases between species, bacterial species and strains competing for the same resources are commonly found across diverse spatially heterogeneous habitats. We thus hypothesized that the spatial scale of competition may play a key role in determining bacterial coexistence, and interact with other mechanisms that promote coexistence, including a growth–motility trade-off. To test this hypothesis, we let two Pseudomonas putida strains compete at local and regional scales by inoculating them either in a mixed droplet or in separate droplets in the same Petri dish, respectively. We also created conditions that allow the bacterial strains to disperse across abiotic or fungal hyphae networks. We found that competition at the local scale led to competitive exclusion while regional competition promoted coexistence. When competing in the presence of dispersal networks, the growth–motility trade-off promoted coexistence only when the strains were inoculated in separate droplets. Our results provide a mechanism by which existing laboratory data suggesting competitive exclusion at a local scale is reconciled with the widespread coexistence of competing bacterial strains in complex natural environments with dispersal.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2020

A gene desert required for regulatory control of pleiotropic Shox2 expression and embryonic survival

ABSTRACT The Shox2 homeodomain transcriptional regulator is known for its critical functions during mouse embryogenesis, enabling accurate development of limbs, craniofacial structures, neural populations and the cardiac conduction system. At the genomic level, the Shox2 gene is flanked by an extensive gene desert, a continuous non-coding genomic region spanning over 500 kilobases that contains a multitude of evolutionarily conserved elements with predicted cis -regulatory activities. However, the transcriptional enhancer potential of the vast majority of these elements in combination with the biological necessity of the gene desert have not yet been explored. Using transgenic reporter assays in mouse embryos to validate an extensive set of stringent epigenomic enhancer predictions, we identify several novel gene desert enhancers with distinct tissue-specific activities in Shox2 expressing tissues. 4C-seq chromatin conformation capture further uncovers a repertoire of gene desert enhancers with overlapping activities in the proximal limb, in a compartment essential for Shox2 -mediated stylopod formation. Leveraging CRISPR/Cas9 to delete the gene desert region contained in the Shox2 topologically associated domain (TAD), we demonstrate that this complex cis -regulatory platform is essential for embryonic survival and required for control of region-specific Shox2 expression in multiple developing tissues. While transcription of Shox2 in the embryonic limb is only moderately affected by gene desert loss, Shox2 expression in craniofacial and cardiac domains is nearly abolished. In particular, Shox2 transcripts in the sinus venosus (SV) encompassing the sinoatrial node (SAN) were depleted in embryos lacking the gene desert, likely accounting for the embryonic lethality due to Shox2 -dependency of the SAN pacemaker. Finally, we discover a 1.5kb SV enhancer within the deleted gene desert region, which may act as a genomic module controlling the development of the cardiac conduction system. In summary, our results identify a gene desert indispensable for pleiotropic patterning and highlight the importance of these extensive regulatory landscapes for embryonic development and viability.

Abassah-Oppong, Samuel↗
DOE OSTI2025

Measurement of beam-recoil observables 𝐶 𝑥 and 𝐶 𝑧 for 𝐾 + ⁢Λ photoproduction

Exclusive photoproduction of 𝐾 + ⁢Λ final states off a proton target has been an important component in the search for missing nucleon resonances and our understanding of the production of final states containing strange quarks. Polarization observables have been instrumental in this effort. The current work is an extension of previously published CLAS results on the beam-recoil transferred polarization observables 𝐶 𝑥 and 𝐶 𝑧 . Here, we extend the kinematic range up to invariant mass 𝑊 = 3.33 GeV from the previous limit of 𝑊 = 2.5 GeV with significantly improved statistical precision in the region of overlap. These data will provide for tighter constraints on the reaction models used to unravel the spectrum of nucleon resonances and their properties by not only improving the statistical precision of the data within the resonance region, but also constraining 𝑡-channel processes that dominate at higher 𝑊 but extend into the resonance region.

Electrons↗
DOE OSTI2026

Observation of Long-Range Collective Flow in O + O and Ne + Ne Collisions and Implications for Nuclear Structure Studies

The long-range collective flow of particles produced in oxygen-oxygen ( O + O ) and neon-neon ( Ne + Ne ) collisions is measured with the CMS detector at the CERN LHC. The data samples were collected at a center-of-mass energy per nucleon pair of 5.36 TeV, with integrated luminosities of 7 nb - 1 and 0.8 nb - 1 for O + O and Ne + Ne collisions, respectively. Two- and four-particle azimuthal correlations are measured over nearly five units of pseudorapidity. Significant elliptic ( v 2 ) and triangular ( v 3 ) flow harmonics are observed in both systems. The ratios of v n coefficients between Ne + Ne and O + O collisions suggest sensitivity to the intrinsic nuclear structure of the respective Ne and O ions. Hydrodynamic models with ab initio nuclear structure inputs qualitatively reproduce the collision-overlap dependence of both the v n values and the Ne + Ne to O + O ratios. These measurements provide new constraints when modeling the interplay of nuclear structure and collective dynamics in collisions of O 16 and Ne 20 ions, respectively.

Hayrapetyan, Aram [Yerevan Phys. Inst.]↗
DOE OSTI2026

Higher-Form Anomalies on Lattices

We show that generic gapped quantum many-body states which respect an anomalous finite higher-form symmetry have an exponentially small overlap with any short-range entangled (SRE) state. Hence, anomalies of higher-form symmetries enforce $intrinsic$ long-range entanglement, which is in contrast with anomalies of ordinary (0-form) symmetries which are compatible with symmetric SRE states (specifically, symmetric cat states). As an application, we show that the anomalies of strong higher-form symmetries provide a diagnostic for mixed-state topological order in $d \geq 2$ spatial dimensions. We also identify a new (3+1)D intrinsic mixed-state topological order that does not obey remote-detectability by local decoherence of the (3+1)D Toric Code with fermionic loop excitations. This breakdown of remote detectability, as encoded in anomalies of strong higher-form symmetries, provides a partial characterization of intrinsically mixed-state topological order.

Feng, Yitao [Peking University, Beijing (China)] (↗
DOE OSTI2025

SPT-3G D1: Constraints on inflationary gravitational waves with two years of SPT-3G data

Here, we present a measurement of the 𝐵-mode polarization power spectrum of the cosmic microwave background anisotropies at 32 ≤ ℓ < 502 for three bands centered at 95, 150, and 220 GHz using data from the SPT-3G receiver on the South Pole Telescope. This work uses SPT-3G observations from the 2019 and 2020 winter observing seasons of a ∼1500 deg 2 patch of sky that directly overlaps with fields observed with the BICEP/Keck family of telescopes and covers part of the proposed Simons Observatory and CMB-S4 deep fields. Employing new techniques for mitigating polarized atmospheric noise, the SPT-3G data demonstrates a white noise level of 9.3 (6.7) μ⁢K−arcmin at ℓ ∼500 for the 95 GHz (150 GHz) data, with a 1/ℓ noise knee at ℓ = 128 (182). We fit the observed six auto- and cross-frequency 𝐵-mode power spectra to a model including lensed Λ⁢CDM 𝐵-modes and a combination of Galactic and extragalactic foregrounds. This work characterizes foregrounds in the vicinity of the BICEP/Keck survey area, finding foreground power consistent with that reported by the BICEP/Keck collaboration within the same region and a factor of ∼3 higher power over the full SPT-3G survey area. Using SPT-3G data over the BICEP/Keck survey area, we place a 95% upper limit on the tensor-to-scalar ratio of 𝑟 <0.25 and find the statistical uncertainty on 𝑟 to be 𝜎⁡(𝑟) = 0.067.

Zebrowski, J. A. [University of Chicago; Universit↗
DOE OSTI2025

Measurements and models of enhanced recombination following inner-shell vacancies in liquid xenon

Electron-capture decays of 125 Xe and 127 Xe , and double-electron-capture decays of 124 Xe , are backgrounds in searches for weakly interacting massive particles (WIMPs) conducted by dual-phase xenon time projection chambers such as LUX-ZEPLIN (LZ). These decays produce signals with more light and less charge than equivalent-energy 𝛽 decays and correspondingly overlap more with WIMP signals. We measure three electron-capture charge yields in LZ: the 1.1 keV M-shell, 5.2 keV L-shell, and 33.2 keV K-shell at drift fields of 193 and 96.5 V/cm. The LL double-electron-capture decay of 124 Xe exhibits even more pronounced shifts in charge and light. We provide a first model of double-electron-capture charge yields using the link between ionization density and electron-ion recombination, and identify a need for more accurate calculations. Finally, we discuss the implications of the reduced charge yield of these decays and other interactions creating inner-shell vacancies for future dark matter searches.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗
DOE OSTI2025

Optical properties of vacancies in aluminum oxide (𝛼−Al 2 ⁢O 3 ) from first principles

We employ first-principles calculations based on hybrid density functional theory to investigate the structural and optical properties of the oxygen vacancy (𝑉 O ) and aluminum vacancy (𝑉 Al ) in 𝛼−Al 2 ⁢O 3 , the most stable (corundum) phase of alumina. Our calculations facilitate the identification of experimental excitation and luminescence spectra with specific electronic transitions at the vacancy sites. The absorption line shape for excitation of an electron at 𝑉$^0_O$ to the conduction-band minimum (CBM) is in excellent agreement with the 6.1 eV band detected by optical absorption spectroscopy, and we find that the 5.9 eV absorption band is generated by an internal electron transition at 𝑉$^0_O$. We confirm that the slowly decaying 3.0 eV emission band of the 𝐹 center is due to a triplet-singlet transition at 𝑉$^0_O$. Our calculations also reveal that the 4.8 eV/5.4 eV absorption and 3.8 eV emission bands assigned to the 𝐹 + center are generated by internal transitions at 𝑉$^{+1}_O$. The line shape for the excitation of an electron from 𝑉$^{+1}_O$ to the CBM agrees well with an absorption band at 6.4 eV, while the recombination of an electron with 𝑉$^{+2}_O$ also produces luminescence around 3.8 eV, but with a considerably broader line shape. For Al vacancies, we confirm that the most prevalent configuration in 𝛼−Al 2 ⁢O 3 is a split-vacancy configuration 𝑉 Al,s , and we calculate migration barriers for different directions in the corundum crystal. We predict absorption and emission spectra for the excitation and recombination of an electron localized at 𝑉$^{−3}_{Al}$ and 𝑉$^{−3}_{Al,s}$ sites with the CBM. The line shapes of the two 𝑉 Al configurations overlap and are considerably broader than the spectra corresponding to 𝑉 O .

36 MATERIALS SCIENCE↗
DOE OSTI2025

Kinematically enhanced interpolating operators for boosted hadrons

We propose to use interpolating operators for lattice quantum chromodynamics calculations of highly boosted pions and nucleons with kinematically enhanced ground-state overlap factors at large momentum. Because this kinematic enhancement applies to the signal but not the variance of the correlation function, these interpolating operators can achieve better signal-to-noise ratios at large momentum. We perform proof-of-principle calculations with boosted pions and nucleons using close-to-physical and larger quark masses to explore the utility of our proposal. Results for effective energies and matrix elements, as well as Lanczos ground-state energy estimators, are consistent with theoretical expectations for signal-to-noise improvement at large momenta.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗
DOE OSTI2025

Rosenbluth-like separation of the $J/ψ$ near-threshold photoproduction: An access to the gluon gravitational form factors at high t

Here, we perform analysis of the near-threshold $J/\psi $ photoproduction data off the proton based on two theoretical approaches, GPD \cite{Guo3} and holographic \cite{Zahed2}, that represent the differential cross sections as powers of the skewness parameter with coefficients that depend only on the momentum transfer $t$. This allows to separate kinematically the corresponding coefficient functions, in much the same way as this is done for the electric and magnetic form factors using the Rosenbluth separation. We examine the independence of the extracted functions with the photon beam energy. These functions, under additional assumptions, are related to the proton's gluon Gravitational Form Factors (gGFFs). We compare the extracted functions with lattice calculations of the gGFFs in the region of $0.5<|t|<2$~GeV$^{2}$, where they overlap. Such analysis demonstrates the possibility of extracting some combinations of the gGFFs from the data at high $t$, complementary to the lattice calculations available in the low $t$ region. However, higher statistics are needed to more accurately check the predicted scaling behavior of the data and compare with the lattice results, thus testing and comparing the theoretical assumptions used in the GPD and holographic models.

Pentchev, Lubomir [Thomas Jefferson National Accel↗
DOE OSTI2026

Probing cosmic velocities with the pairwise kinematic Sunyaev-Zel’dovich signal in DESI Bright Galaxy Sample DR1 and ACT DR6

We present a measurement of the pairwise kinematic Sunyaev-Zel’dovich (kSZ) signal using the Dark Energy Spectroscopic Instrument (DESI) Bright Galaxy Sample (BGS) Data Release 1 (DR1) galaxy sample overlapping with the Atacama Cosmology Telescope (ACT) CMB temperature map. Our analysis makes use of 1.6 million galaxies with stellar masses log⁡ 𝑀 ⋆ /𝑀 ⊙ >10, and we explore measurements across a range of aperture sizes (2.1′ <𝜃 ap <3.5′) and stellar mass selections. This statistic directly probes the velocity field of the large-scale structure, a unique observable of cosmic dynamics and modified gravity. In particular, at low redshifts, this quantity is especially interesting, as deviations from General Relativity are expected to be largest. Notably, our result represents the highest-significance low-redshift (𝑧 ∼ 0.3) detection of the kSZ pairwise effect yet. In our most optimal configuration (𝜃 ap =3.3′, log⁡ 𝑀 ⋆ >11), we achieve a 5⁢𝜎 detection. Assuming that an estimate of the optical depth and galaxy bias of the sample exists via e.g., external observables, this measurement constrains the fundamental cosmological combination 𝐻 0 ⁡𝑓⁡𝜎$^2_8$. A key challenge is the degeneracy with the galaxy optical depth. We address this by combining CMB lensing, which allows us to infer the halo mass and galaxy population properties, with hydrodynamical simulation estimates of the mean optical depth, $\bar{𝜏}$ . We stress that this is a proof-of-concept analysis; with BGS DR2 data we expect to improve the statistical precision by roughly a factor of two, paving the way toward robust tests of modified gravity with kSZ-informed velocity-field measurements at low redshift.

Hadzhiyska, Boryana [Institute of Astronomy; Kavli↗
DOE OSTI2025

Shearing approach to gauge-invariant Trotterization

Universal quantum simulations of gauge field theories are exposed to the risk of gauge symmetry violations when it is not known how to compile the desired operations exactly using the available gate set. In this article, we show how time evolution can be compiled in an Abelian gauge theory—if only approximately—without compromising gauge invariance, by graphically motivating a block-diagonalization procedure. When gauge-invariant interactions are associated with a “spatial network” in the space of discrete quantum numbers, it is seen that cyclically shearing the spatial network converts simultaneous updates to many quantum numbers into conditional updates of a single quantum number; ultimately, this eliminates any need to pass through (and acquire overlap onto) unphysical intermediate configurations. Shearing is explicitly applied to gauge-matter and magnetic interactions of lattice quantum electrodynamics. The features that make shearing successful at preserving Abelian gauge symmetry may also be found in non-Abelian theories, bringing one closer to gauge-invariant simulations of quantum chromodynamics.

Gauge theories↗