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DOE OSTI2024

Ultra-Long Distance BOTDA Sensor System Employing Hybrid Amplification and Advanced Noise Reduction Techniques

Brillouin Optical Time Domain Analysis (BOTDA) sensor system play a pivotal role in distributed sensing, which enables precise measurements of strain and temperature across extensive fiber lengths. Nonetheless, challenges emerge as distances grow due to signal attenuation and noise interference resulting in measurement errors. This research offers a comprehensive strategy to extend the sensing range of BOTDA systems beyond 10’s of kilometers while maintaining high spatial resolutions. Such enhanced sensing is realized through the integration of distributed Raman amplification, inline amplification using erbium-doped fiber amplifiers (EDFA), and advanced noise reduction techniques. Leveraging inherent redundancy in measured data as a function of frequency and fiber distance, the non-local means (NLM) filter removes noise while preserving essential physical information. This approach proves particularly advantageous in BOTDA systems, where accurate measurement of Brillouin scattering signals is paramount for long-range sensing, while concurrently safeguarding high spatial resolutions. In summary, this research has shown a holistic exploration of extending BOTDA's distance sensing capabilities up to 150 km with spatial resolutions of 8 meters.

Bhatta, Hari↗

DOE OSTI2022

Selective Whole-Genome Amplification as a Tool to Enrich Specimens with Low Treponema pallidum Genomic DNA Copies for Whole-Genome Sequencing

Downstream next-generation sequencing (NGS) of the syphilis spirochete Treponema pallidum subspecies pallidum (T. pallidum) is hindered by low bacterial loads and the overwhelming presence of background metagenomic DNA in clinical specimens. In this study, we investigated selective whole-genome amplification (SWGA) utilizing multiple displacement amplification (MDA) in conjunction with custom oligonucleotides with an increased specificity for the T. pallidum genome and the capture and removal of 5'-C-phosphate-G-3' (CpG) methylated host DNA using the NEBNext Microbiome DNA enrichment kit followed by MDA with the REPLI-g single cell kit as enrichment methods to improve the yields of T. pallidum DNA in isolates and lesion specimens from syphilis patients. Sequencing was performed using the Illumina MiSeq v2 500 cycle or NovaSeq 6000 SP platform. These two enrichment methods led to 93 to 98% genome coverage at 5 reads/site in 5 clinical specimens from the United States and rabbit-propagated isolates, containing >14 T. pallidum genomic copies/μL of sample for SWGA and >129 genomic copies/μL for CpG methylation capture with MDA. Variant analysis using sequencing data derived from SWGA-enriched specimens showed that all 5 clinical strains had the A2058G mutation associated with azithromycin resistance. SWGA is a robust method that allows direct whole-genome sequencing (WGS) of specimens containing very low numbers of T. pallidum, which has been challenging until now.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2019

On the Amplification of Terahertz Radiation by High-Q Resonant Plasmons in a Periodic Graphene Bilayer under Plasmon-Mode Anticrossing

The spectrum of amplification of terahertz radiation in a structured active graphene bilayer consisting of two identical periodic graphene microribbon arrays separated by a thin dielectric barrier layer is theoretically investigated. The system supports optical and acoustic plasmon modes. The resonant frequencies of the optical and acoustic modes change oppositely with the dielectric-layer thickness, which allows plasmon-mode anticrossing. It is shown that the investigated graphene structure is characterized by a strong plasmon response and giant terahertz-radiation amplification at plasma resonance frequencies in the vicinity of the anticrossing between the optical and acoustic plasmon modes at room temperature.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗

DOE OSTI2018

Sensitivity of Surface Temperature to Oceanic Forcing via q -Flux Green’s Function Experiments. Part II: Feedback Decomposition and Polar Amplification

A large set of Green’s function-type experiments is performed with q-flux forcings mimicking the effects of the ocean heat uptake (OHU) to examine the global surface air temperature (SAT) sensitivities to the location of the forcing. The result of the experiments confirms the earlier notion derived from experiments with different model complexities that the global mean SAT is far more sensitive to the oceanic forcing from high latitudes than the tropics. Remarkably, no matter in which latitude the q-flux forcings are placed, the SAT response is always characterized by a feature of polar amplification, implicating that it is intrinsic to our climate system. Considerable zonal asymmetry is also present in the efficacy of the tropical OHU, with the tropical eastern Pacific being much more efficient than the Indian Ocean and tropical Atlantic in driving global SAT warming by exciting the leading neutral mode of the SAT that projects strongly onto global mean warming. Using a radiative kernel, feedback analysis is also conducted to unravel the underlying processes responsible for the spatial heterogeneity in the global OHU efficacy, the polar amplification structures, and the tropical altruism of sharing the warmth with remote latitudes. Warming “altruism” for a q flux at a given latitude is also investigated in terms of the ratio of the induced remote latitudes versus the directly forced local warming. It is found that the tropics are much more altruistic than higher latitudes because of the high-energy transport efficiency of the Hadley circulation.

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2019

Variable genome evolution in fungi after transposon-mediated amplification of a housekeeping gene

Transposable elements (TEs) can be key drivers of evolution, but the mechanisms and scope of how they impact gene and genome function are largely unknown. Previous analyses revealed that TE-mediated gene amplifications can have variable effects on fungal genomes, from inactivation of function to production of multiple active copies. For example, a DNA methyltransferase gene in the wheat pathogen Zymoseptoria tritici (synonym Mycosphaerella graminicola) was amplified to tens of copies, all of which were inactivated by Repeat-Induced Point mutation (RIP) including the original, resulting in loss of cytosine methylation. In another wheat pathogen, Pyrenophora tritici-repentis, a histone H3 gene was amplified to tens of copies with little evidence of RIP, leading to many potentially active copies. To further test the effects of transposon-aided gene amplifications on genome evolution and architecture, the repetitive fraction of the significantly expanded genome of the banana pathogen, Pseudocercospora fijiensis, was analyzed in greater detail. These analyses identified a housekeeping gene, histone H3, which was captured and amplified to hundreds of copies by a hAT DNA transposon, all of which were inactivated by RIP, except for the original. In P. fijiensis the original H3 gene probably was not protected from RIP, but most likely was maintained intact due to strong purifying selection. Comparative analyses revealed that a similar event occurred in five additional genomes representing the fungal genera Cercospora, Pseudocercospora and Sphaerulina. These results indicate that the interplay of TEs and RIP can result in different and unpredictable fates of amplified genes, with variable effects on gene and genome evolution.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2022

Impact of the optical parametric amplification phase on laser pulse compression

Optical parametric chirped-pulse amplification (OPCPA) is an effective way to generate ultrashort pulses that has been used extensively for a variety of applications requiring high peak intensities. Precise control and measurement of a system’s spectral and spatial phases are required for Fourier transform–limited pulse compression and diffraction-limited focusing. Phase accumulated during optical parametric amplification (OPA) can degrade the compressibility and focusability of the pulse, reducing peak intensity. We used analytic and numerical analysis of OPA to study the influence of crystal parameters, wavefront of the pump and signal, and their relative optical alignment on the accumulated phase. Here, we show that the accumulated signal phase is largely independent of amplifier saturation and, with significant local wavefront gradients in the signal or pump beam, the quality of the compressed pulses can be degraded. We use first-order expressions for the pump- and signal-angle sensitivity to evaluate an OPCPA system consisting of a highly deuterated potassium dihydrogen phosphate (DKDP) amplifier designed to support bandwidth for 15 fs pulses centered at 920 nm.

47 OTHER INSTRUMENTATION↗

DOE OSTI2025

Parametric amplification of angularly multiplexed waves for application to beam smoothing

The parametric amplification of angularly multiplexed waves is studied via modeling and experiments. The phase-matching properties of the amplification process with a single pump, including parasitic interactions of pairs of signal/idler, are investigated. An experimental demonstration with up to six signal waves is presented, with a quantification of the output properties, including stability relative to the input pump and seeds. A proof-of-concept study of beam smoothing induced by combining up to 12 speckle fields generated from six signal waves and six idler waves is shown.

Dorrer, C. [University of Rochester, NY (United St↗

DOE OSTI2024

Interplay between gain and loss in arrays of nonlinear plasmonic nanoparticles: toward parametric downconversion and amplification

With the help of a theoretical model and finite-difference time-domain (FDTD) simulations based on the hydrodynamic–Maxwell model, we examine the effect of difference-frequency generation (DFG) in an array of L-shaped metal nanoparticles (MNPs) characterized by intrinsic plasmonic nonlinearity. The outcomes of the calculations reveal the spectral interplay between gain and loss in the vicinity of the fundamental frequency of the localized surface plasmon resonances. Subsequently, we identify different array thicknesses and pumping regimes facilitating parametric amplification and spontaneous parametric downconversion. Our results suggest that the parametric amplification regime becomes feasible on a scale of hundreds of nanometers and spontaneous parametric downconversion on the scale of tens of nanometers, opening up new exciting opportunities for developing building blocks of photonic metasurfaces.

Shah, Syed A.↗

DOE OSTI2024

Unidirectional amplification in the frozen mode regime enabled by a nonlinear defect

A stationary inflection point (SIP) is a spectral singularity of the Bloch dispersion relation ω(k) of a periodic structure where the first and the second derivatives of ω with respect to k vanish. An SIP is associated with a third-order exceptional point degeneracy in the spectrum of the unit-cell transfer matrix, where there is a collapse of one propagating and two evanescent Bloch modes. At the SIP frequency, the incident wave can be efficiently converted into the frozen mode with greatly enhanced amplitude and vanishing group velocity. This can be very attractive for applications, including light amplification. Due to its non-resonant nature, the frozen mode regime (FMR) has fundamental advantages over common cavity resonances. Furthermore, we propose, a novel, to the best of our knowledge, scheme for FMR-based unidirectional amplifiers by leveraging a tailored amplification/attenuation mechanism and a single nonlinear defect. The defect breaks the directional symmetry of the periodic structure and enables nonlinearity-related unidirectional amplification/attenuation in the vicinity of the SIP frequency. We demonstrate the robustness of the amplification mechanism to local impurities and parasitic nonlinearity.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

DOE OSTI2024

Near-complete extraction of maximum stored energy from large-core fibers using coherent pulse stacking amplification of femtosecond pulses

High field science relies on ultrashort pulse lasers with multi-joule pulse energies for studying light–matter interactions under extreme conditions and for driving particle accelerators and secondary radiation sources of x rays, gamma rays, neutrons, positrons, muons, and protons. Next-generation laser drivers will require a 10 3 -10 4 times increase in pulse repetition rates, producing multi-joule energies at multi-kilowatt average powers to enable practical applications in nuclear engineering, advanced materials, medicine, biology, homeland security, and high-energy physics. Spatially coherently combined femtosecond fiber lasers are recognized as a pathway to these next-generation drivers, with significant practical advantages including high efficiency and the possibility of compact integration. However, chirped pulse amplification in fibers is capable of extracting only a small fraction (usually ~1%) of the maximum stored energy. Here we demonstrate near-complete maximum stored energy extraction with low accumulated nonlinearity from a large-core fiber amplifier using coherent pulse stacking amplification. We have amplified a 81-pulse stacking burst in a 85 µm core chirally coupled core Yb-doped fiber, extracting up to 9.5 mJ (~90% of stored energy) with < 4.5 radians of accumulated nonlinear phase, temporally combined this burst into a single pulse, and achieved 4.2 mJ pulses of 313 fs bandwidth-limited duration after compression. This represents, to our knowledge, the highest energy extracted and compressed into a femtosecond pulse from a single fiber amplifier, enabling approximately two orders of magnitude size reduction of future high-energy coherently spatially combined fiber laser arrays.

47 OTHER INSTRUMENTATION↗

DOE OSTI2020

Demonstration of a 2 ps, 5 TW peak power, long-wave infrared laser based on chirped-pulse amplification with mixed-isotope CO 2 amplifiers 2 amplifiers

We report generation of 5 TW peak power in a 2 ps pulse at 9.2 µm via chirped-pulse amplification (CPA) in mixed-isotope high-pressure CO 2 laser amplifiers. This represents the highest peak power in a single picosecond pulse format and the shortest pulse at terawatt peak power ever achieved in the long-wave infrared (LWIR) spectral range. Maximum demonstrated energy of the compressed pulse is 14 J and minimum period between shots is 20 s. The successful implementation of the chirped pulse amplification technique in a short-pulse gas laser opens a route to development of LWIR laser facilities with tens of terawatts of peak power, thus approaching the number of photons per optical cycle of current near-infrared laser systems based on solid-state active media.

43 PARTICLE ACCELERATORS↗

DOE OSTI2018

Planned Detection and Amplification of Infared Synchrotron Radiation for Electron-Beam Diagnostics and Manipulations

Amplification of beam-induced radiation (e.g. synchrotron or undulator radiation) is a necessary component of optical stochastic cooling of hadrons or heavy ions. We discuss a proposal to measure and amplify synchrotron radiation from a bending magnet of the Advanced Photon Source. The measurements will be in the short-wavelength infrared region (SWIR) and amplification will be accomplished using a pumped Chromium:Zinc Selenide (Cr:ZnSe) crystal with maximum gain at λ≅ 2.2~μm.

43 PARTICLE ACCELERATORS↗

DOE OSTI2019

Towards Quantum-Limited Cryogenic Amplification for Multi-Qubit Platforms

Here we present the development of the building blocks of a Josephson parametric amplifier (JPA), namely the superconducting quantum interference device (SQUID) and the inductive pick-up coil that permits current coupling from a quantum dot into the SQUID. We also discuss our efforts in making depletion mode quantum dots using delta doped GaAs quantum wells. Because quantum dot based spin qubits utilize very low-level (~10 - 100pA), short duration (1ms - 1μs) current signals for state preparation and readout, these systems require close proximity cryogenic amplification to prevent signal corruption. Common amplification methods in these semiconductor quantum dots rely on heterojunction bipolar transistors (HBTs) and high electron mobility transistors (HEMTs) to amplify the readout signal from a single qubit. The state of the art for HBTs and HEMTs produce approximately 10µW of power when operating at high bandwidths. For few-qubit systems this level of heat dissipation is acceptable. However, for scaling up the number of qubits to several hundred or a thousand, the heat load produced in a 1 to 1 amplifier to qubit arrangement would overload the cooling capacity of a common dilution refrigerator, which typically has a cooling power of ~100µW at its base temperature. Josephson parametric amplifiers have been shown to dissipate ~1pW of power with current sensitivies on par with HBTs and HEMTs and with bandwidths 30 times that of HBTs and HEMTs, making them attractive for multi-qubit platforms. In this report we describe in detail the fabrication process flow for developing inductive pick-up coils and the fabrication and measurement of NbTiN and A1/A1Ox/A1 SQUIDs.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗

DOE OSTI2019

Modeling of Charge Amplification in LArTPCs

Single-phase liquid argon time projection chambers (LArTPCs) are an important part of Fermilab's neutrino experimental program. Current LArTPCs are able to detect interactions producing energy deposits above the MeV scale, and focus on neutrinos at GeV energies. The Liquid Argon Charge Amplification Device, or LArCADe, program aims to employ modified anode geometries in order to obtain electron avalanches that would help reduce detection thresholds, opening the door to new physics opportunities at the keV scale (e.g. CEvNS and dark-matter WIMP searches). To model and quantify this phenomenon, a simulation of electron transport in LAr was built, able to simulate excitations and ionizations in non-uniform fields. Using COMSOL simulations of the anode structures, the built simulation produced quantitative and realistic estimates of LAr charge amplification near different tip geometries. These results will inform the next generation of tips produced for LArCADe.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

DOE OSTI2026

LArCADe | Liquid Argon Charge Amplification Devices

The Liquid Argon Charge Amplification Devices (LArCADe) project is an R$\&$D effort aimed at developing instrumentation capable of lowering detection thresholds for ionization signatures in liquid and gaseous argon detectors and achieving O(100 $\mu$m) position resolution. The core concept is the use of sharp “tip arrays” that generate strong local electric-field enhancement, enabling charge amplification and collection with improved spatial resolution. A key physics motivation for this work is to enhance the experimental sensitivity of Coherent Elastic Neutrino-Nucleus Scattering (CEvNS) measurements to low-energy nuclear recoils by enabling spatially resolved charge reconstruction at reduced ionization thresholds, with the goal of achieving event-by-event energy reconstruction for interactions originating from localized accelerator or astrophysical neutrino sources. This poster will present the current status of the instrumentation R$\&$D, which leverages Fermilab’s Noble Liquid Test Facility and UC Santa Barbara’s Nanofabrication Facility, and will discuss the potential physics impact of this technology.

Antonakis, Alexander [UC, Santa Barbara]↗

DOE OSTI2024

Rapid detection of mexX in Pseudomonas aeruginosa based on CRISPR-Cas13a coupled with recombinase polymerase amplification

The principal pathogen responsible for chronic urinary tract infections, immunocompromised hosts, and cystic fibrosis patients is Pseudomonas aeruginosa , which is difficult to eradicate. Due to the extensive use of antibiotics, multidrug-resistant P. aeruginosa has evolved, complicating clinical therapy. Therefore, a rapid and efficient approach for detecting P. aeruginosa strains and their resistance genes is necessary for early clinical diagnosis and appropriate treatment. This study combines recombinase polymerase amplification (RPA) and clustered regularly interspaced short palindromic repeats-association protein 13a (CRISPR-Cas13a) to establish a one-tube and two-step reaction systems for detecting the mexX gene in P. aeruginosa . The test times for one-tube and two-step RPA-Cas13a methods were 5 and 40 min (including a 30 min RPA amplification reaction), respectively. Both methods outperform Quantitative Real-time Polymerase Chain Reactions (qRT-PCR) and traditional PCR. The limit of detection (LoD) of P. aeruginosa genome in one-tube and two-step RPA-Cas13a is 10 aM and 1 aM, respectively. Meanwhile, the designed primers have a high specificity for P. aeruginosa mexX gene. These two methods were also verified with actual samples isolated from industrial settings and demonstrated great accuracy. Furthermore, the results of the two-step RPA-Cas13a assay could also be visualized using a commercial lateral flow dipstick with a LoD of 10 fM, which is a useful adjunt to the gold-standard qRT-PCR assay in field detection. Taken together, the procedure developed in this study using RPA and CRISPR-Cas13a provides a simple and fast way for detecting resistance genes.

Zhu, Xiao-Xuan↗

DOE OSTI2022

Magnetic Field Amplification by a Plasma Cavitation Instability in Relativistic Shock Precursors

Abstract Plasma streaming instabilities play an important role in magnetic field amplification and particle acceleration in relativistic shocks and their environments. However, in the far shock precursor region where accelerated particles constitute a highly relativistic and dilute beam, streaming instabilities typically become inefficient and operate at very small scales when compared to the gyroradii of the beam particles. We report on a plasma cavitation instability that is driven by dilute relativistic beams and can increase both the magnetic field strength and coherence scale by orders of magnitude to reach near-equipartition values with the beam energy density. This instability grows after the development of the Weibel instability and is associated with the asymmetric response of background leptons and ions to the beam current. The resulting net inductive electric field drives a strong energy asymmetry between positively and negatively charged beam species. Large-scale particle-in-cell simulations are used to verify analytical predictions for the growth and saturation level of the instability and indicate that it is robust over a wide range of conditions, including those associated with pair-loaded plasmas. These results can have important implications for the magnetization and structure of shocks in gamma-ray bursts, and more generally for magnetic field amplification and asymmetric scattering of relativistic charged particles in plasma astrophysical environments.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

DOE OSTI2018

Current Status of Chirped-Pulse Amplification Technology and Its Applications

We survey current status of chirped-pulse amplification development and its applications. We start with the review of optical compressor and stretcher as well as the amplification techniques. The methods to control spatial and temporal profile of the laser pulse as well as the state-of-the-arts spatiotemporal control techniques and designs of high repetition-rate amplifiers are discussed. Examples of applications in medical and particle acceleration are introduced.

43 PARTICLE ACCELERATORS↗