Ion Kinetics and Neutron Generation Associated with Electromagnetic Turbulence in Laboratory-Scale Counterstreaming Plasmas

Electromagnetic turbulence and ion kinetics in counterstreaming plasmas hold great significance in laboratory astrophysics, such as turbulence field amplification and particle energization. Here, we quantitatively demonstrate for the first time how electromagnetic turbulence affects ion kinetics under achievable laboratory conditions (millimeter-scale interpenetrating plasmas with initial velocity of 2000  km/s, density of 4×10^{19}  cm^{-3}, and temperature of 100 eV) utilizing a recently developed high-order implicit particle-in-cell code without scaling transformation. It is found that the electromagnetic turbulence is driven by ion two-stream and filamentation instabilities. For the magnetized scenarios where an applied magnetic field of tens of Tesla is perpendicular to plasma flows, the growth rates of instabilities increase with the strengthening of applied magnetic field, which therefore leads to a significant enhancement of turbulence fields. Under the competition between the stochastic acceleration due to electromagnetic turbulence and collisional thermalization, ion distribution function shows a distinct super-Gaussian shape, and the ion kinetics are manifested in neutron yields and spectra. Our results have well explained the recent unmagnetized experimental observations, and the findings of magnetized scenario can be verified by current astrophysical experiments.

Two complete 1918 influenza A/H1N1 pandemic virus genomes characterized by next-generation sequencing using RNA isolated from formalin-fixed, paraffin-embedded autopsy lung tissue samples along with evidence of secondary bacterial co-infection

The 1918 influenza pandemic was the most devastating respiratory pandemic in modern human history, with 50-100 million deaths worldwide. Here, we characterized the complete genomes of influenza A virus (IAV) from two fatal cases during the fall wave of 1918 influenza A (H1N1) pandemic in the United States, one from Walter Reed Army Hospital in Washington, DC, and the other from Camp Jackson, SC. The two complete IAV genomes were obtained by combining Illumina deep sequencing data from both total RNA and influenza viral genome-enriched libraries along with Sanger sequencing data from PCR across the sequencing gaps. This study confirms the previously reported 1918 IAV genomes and increases the total number of available complete or near-complete influenza viral genomes of the 1918 pandemic from four to six. Sequence comparisons among them confirm that the genomes of the 1918 pandemic virus were highly conserved during the main wave of the pandemic with geographic separation in North America and Europe. Metagenomic analyses revealed bacterial co-infections in both cases. Interestingly, in the Washington, DC, case, evidence is presented of the first reported Rhodococcus-influenza virus co-infection.

IMPORTANCE

This study applied modern molecular biotechnology and high-throughput sequencing to formalin-fixed, paraffin-embedded autopsy lung samples from two fatal cases during the fall wave of the 1918 influenza A (H1N1) pandemic in the United States. Complete influenza genomes were obtained from both cases, which increases the total number of available complete or near-complete influenza genomes of the 1918 pandemic virus from four to six. Sequence analysis confirms that the 1918 pandemic virus was highly conserved during the main wave of the pandemic with geographic separation in North America and Europe. Metagenomic analyses revealed bacterial co-infections in both cases, including the first reported evidence of Rhodococcus-influenza co-infection. Overall, this study offers a detailed view at the molecular level of the very limited samples from the most devastating influenza pandemic in modern human history.

Spectral modulation of high-order harmonics in relativistic laser-solid interaction

Spectral modulation of high-order harmonics generated in relativistic laser-solid interaction is investigated. Numerical simulations show that the modulation depends on surface plasma density profile, resulting in spectral envelope modulation and regular and irregular harmonic splitting. The mathematical and physical connections between the spectral modulation of high-order harmonics and the temporal modification of attosecond pulse train are explained. Based on these understandings, we propose a possible method to produce isolated attosecond pulses by tailoring surface the plasma profile.

Experimental Demonstration of Efficient Harmonic Generation via Surface Plasma Compression with Lasers

The efficiency of high-order harmonic generation from a relativistic laser interacting with solid targets depends greatly on surface plasma distribution. The usual method of enhancing efficiency involves tuning the plasma scale length carefully by improving the laser contrast. Here, we experimentally demonstrate that efficient harmonics can be achieved directly by compressing large-scale surface plasma via the radiation pressure of a circularly polarized normally incident prepulse. The harmonic generation efficiency obtained by this method is comparable to that obtained with optimized plasma scale length by high-contrast lasers. Our scheme does not rely on high-contrast lasers and is robust and easy to implement. Thus, it may pave a way for the development of intense extreme ultraviolet sources and future applications with high repetition rates.

Lung epithelial and endothelial damage, loss of tissue repair, inhibition of fibrinolysis, and cellular senescence in fatal COVID-19

Coronavirus disease 2019 (COVID-19), caused by the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), is characterized by respiratory distress, multiorgan dysfunction, and, in some cases, death. The pathological mechanisms underlying COVID-19 respiratory distress and the interplay with aggravating risk factors have not been fully defined. Lung autopsy samples from 18 patients with fatal COVID-19, with symptom onset-to-death times ranging from 3 to 47 days, and antemortem plasma samples from 6 of these cases were evaluated using deep sequencing of SARS-CoV-2 RNA, multiplex plasma protein measurements, and pulmonary gene expression and imaging analyses. Prominent histopathological features in this case series included progressive diffuse alveolar damage with excessive thrombosis and late-onset pulmonary tissue and vascular remodeling. Acute damage at the alveolar-capillary barrier was characterized by the loss of surfactant protein expression with injury to alveolar epithelial cells, endothelial cells, respiratory epithelial basal cells, and defective tissue repair processes. Other key findings included impaired clot fibrinolysis with increased concentrations of plasma and lung plasminogen activator inhibitor-1 and modulation of cellular senescence markers, including p21 and sirtuin-1, in both lung epithelial and endothelial cells. Together, these findings further define the molecular pathological features underlying the pulmonary response to SARS-CoV-2 infection and provide important insights into signaling pathways that may be amenable to therapeutic intervention.

Polarized proton acceleration in ultraintense laser interaction with near-critical-density plasmas

The production of polarized proton beams with multi-GeV energies in ultraintense laser interaction with targets is studied with three-dimensional particle-in-cell simulations. A near-critical density plasma target with prepolarized proton and tritium ions is considered for the proton acceleration. The prepolarized protons are initially accelerated by laser radiation pressure before injection and further acceleration in a bubblelike wakefield. The temporal dynamics of proton polarization is tracked via the Thomas-Bargmann-Michel-Telegdi equation and it is found that the proton polarization state can be altered by both the laser field and the magnetic component of the wakefield. The dependence of the proton acceleration and polarization on the ratio of the ion species is determined and it is found that the protons can be efficiently accelerated as long as their relative fraction is less than 20%, in which case the bubble size is large enough for the protons to obtain sufficient energy to overcome the bubble injection threshold.

Insights into pathogenesis of fatal COVID-19 pneumonia from histopathology with immunohistochemical and viral RNA studies

Introduction

We describe post‐mortem pulmonary histopathologic findings of COVID‐19 pneumonia in patients with a spectrum of disease course, from rapid demise to prolonged hospitalisation.

Methods and results

Histopathologic findings in post‐mortem lung tissue from eight patients who died from COVID‐19 pneumonia were reviewed. Immunohistochemistry (IHC) and next‐generation sequencing (NGS) were performed to detect virus. Diffuse alveolar damage (DAD) was seen in all cases with a spectrum of acute phase and/or organising phase. IHC with monoclonal antibodies against SARS‐CoV‐2 viral nucleoprotein and spike protein detected virus in areas of acute but not organising DAD, with intracellular viral antigen and RNA expression seen predominantly in patients with duration of illness less than 10 days. Major vascular findings included thrombi in medium‐ and large‐calibre vessels, platelet microthrombi detected by CD61 IHC and fibrin microthrombi.

Conclusions

Presence of SARS‐CoV‐2 viral RNA by NGS early in the disease course and expression of viral antigen by IHC exclusively in the acute, but not in the organising phase of DAD, suggests that the virus may play a major role in initiating the acute lung injury of DAD, but when DAD progresses to the organising phase the virus may have been cleared from the lung by the patient's immune response. These findings suggest the possibility of a major change during the disease course of COVID‐19 pneumonia that may have therapeutic implications. Frequent thrombi and microthrombi may also present potential targets for therapeutic intervention.

Uniform warm dense matter formed by direct laser heating in the presence of external magnetic fields

With the recent realization of kilotesla quasistatic magnetic fields, the interaction of a laser with magnetized solids enters an unexplored new regime. In particular, a circularly polarized (CP) laser pulse may propagate in a highly magnetized plasma of any high density without encountering cutoff reflection in the whistler mode. With this, we propose a scheme for producing uniform warm dense matter (WDM) by direct laser heating with a CP laser irradiating onto the target along the magnetic field. It is shown by particle-in-cell simulations, which include advanced ionization dynamics and collision dynamics, moderately intense right-hand CP laser light at 10^{15}W/cm^{2} can propagate in solid aluminum and heat it efficiently to the 100 eV level within picoseconds. By using two laser pulses irradiating from two sides of a thin solid target, uniform heating to WDM can be achieved. This provides a controllable way to create WDM at different temperatures.

High-quality high-order harmonic generation through preplasma truncation

By introducing preplasma truncation to cases with an initial preplasma scale length larger than 0.2λ, the efficiency of high-order harmonics generated from relativistic laser-solid interactions can be enhanced by more than one order of magnitude and the angular spread can be confined into near-diffraction-limited divergence. Numerical simulations show that density truncation results in more compact oscillation of the surface electron sheet and the curvature of the reflection surface for the driving laser is greatly reduced. This leads to an overall improvement in the harmonic beam quality. More importantly, density truncation makes the harmonic generation weakly dependent on the preplasma scale length, which provides a way to relax the extremely high requirement on the temporal contrast of the driving laser pulse. A feasible scheme to realize the required preplasma truncation is also proposed and demonstrated by numerical simulations.

Design and validation of a universal influenza virus enrichment probe set and its utility in deep sequence analysis of primary cloacal swab surveillance samples of wild birds

Influenza virus infections in humans and animals are major public health concerns. In the current study, a set of universal influenza enrichment probes was developed to increase the sensitivity of sequence-based virus detection and characterization for all influenza viruses. This universal influenza enrichment probe set contains 46,953 120nt RNA biotin-labeled probes designed based on all available influenza viral sequences and it can be used to enrich for influenza sequences without prior knowledge of type or subtype. Marked enrichment was demonstrated in influenza A/H1N1, influenza B, and H1-to-H16 hemagglutinin plasmids spiked into human DNA and in cultured influenza A/H2N1 virus. Furthermore, enrichment effects and mixed influenza A virus infections were revealed in wild bird cloacal swab samples. Therefore, this universal influenza virus enrichment probe system can capture and enrich influenza viral sequences selectively and effectively in different samples, especially ones with degraded RNA or containing low amount of influenza RNA.

Multistage Coupling of Laser-Wakefield Accelerators with Curved Plasma Channels

Multistage coupling of laser-wakefield accelerators is essential to overcome laser energy depletion for high-energy applications such as TeV-level electron-positron colliders. Current staging schemes feed subsequent laser pulses into stages using plasma mirrors while controlling electron beam focusing with plasma lenses. Here a more compact and efficient scheme is proposed to realize the simultaneous coupling of the electron beam and the laser pulse into a second stage. A partly curved channel, integrating a straight acceleration stage with a curved transition segment, is used to guide a fresh laser pulse into a subsequent straight channel, while the electrons continue straight. This scheme benefits from a shorter coupling distance and continuous guiding of the electrons in plasma while suppressing transverse beam dispersion. Particle-in-cell simulations demonstrate that the electron beam from a previous stage can be efficiently injected into a subsequent stage for further acceleration while maintaining high capture efficiency, stability, and beam quality.

Towards Attosecond High-Energy Electron Bunches: Controlling Self-Injection in Laser-Wakefield Accelerators Through Plasma-Density Modulation

Self-injection in a laser-plasma wakefield accelerator is usually achieved by increasing the laser intensity until the threshold for injection is exceeded. Alternatively, the velocity of the bubble accelerating structure can be controlled using plasma density ramps, reducing the electron velocity required for injection. We present a model describing self-injection in the short-bunch regime for arbitrary changes in the plasma density. We derive the threshold condition for injection due to a plasma density gradient, which is confirmed using particle-in-cell simulations that demonstrate injection of subfemtosecond bunches. It is shown that the bunch charge, bunch length, and separation of bunches in a bunch train can be controlled by tailoring the plasma density profile.

Three electron beams from a laser-plasma wakefield accelerator and the energy apportioning question

Laser-wakefield accelerators are compact devices capable of delivering ultra-short electron bunches with pC-level charge and MeV-GeV energy by exploiting the ultra-high electric fields arising from the interaction of intense laser pulses with plasma. We show experimentally and through numerical simulations that a high-energy electron beam is produced simultaneously with two stable lower-energy beams that are ejected in oblique and counter-propagating directions, typically carrying off 5–10% of the initial laser energy. A MeV, 10s nC oblique beam is ejected in a 30°–60° hollow cone, which is filled with more energetic electrons determined by the injection dynamics. A nC-level, 100s keV backward-directed beam is mainly produced at the leading edge of the plasma column. We discuss the apportioning of absorbed laser energy amongst the three beams. Knowledge of the distribution of laser energy and electron beam charge, which determine the overall efficiency, is important for various applications of laser-wakefield accelerators, including the development of staged high-energy accelerators.

Terahertz generation from laser-driven ultrafast current propagation along a wire target

Generation of intense coherent THz radiation by obliquely incidenting an intense laser pulse on a wire target is studied using particle-in-cell simulation. The laser-accelerated fast electrons are confined and guided along the surface of the wire, which then acts like a current-carrying line antenna and under appropriate conditions can emit electromagnetic radiation in the THz regime. For a driving laser intensity ∼3×10^{18}W/cm^{2} and pulse duration ∼10 fs, a transient current above 10 KA is produced on the wire surface. The emission-cone angle of the resulting ∼0.15 mJ (∼58 GV/m peak electric field) THz radiation is ∼30^{∘}. The conversion efficiency of laser-to-THz energy is ∼0.75%. A simple analytical model that well reproduces the simulated result is presented.

Aligned copper nanorod arrays for highly efficient generation of intense ultra-broadband THz pulses

We demonstrate an intense broadband terahertz (THz) source based on the interaction of relativistic-intensity femtosecond lasers with aligned copper nanorod array targets. For copper nanorod targets with a length of 5 μm, a maximum 13.8 times enhancement in the THz pulse energy (in ≤20 THz spectral range) is measured as compared to that with a thick plane copper target under the same laser conditions. A further increase in the nanorod length leads to a decrease in the THz pulse energy at medium frequencies (≤20 THz) and increase of the electromagnetic pulse energy in the high-frequency range (from 20–200 THz). For the latter, we measure a maximum energy enhancement of 28 times for the nanorod targets with a length of 60 μm. Particle-in-cell simulations reveal that THz pulses are mostly generated by coherent transition radiation of laser produced hot electrons, which are efficiently enhanced with the use of nanorod targets. Good agreement is found between the simulation and experimental results.

Publisher's Note: Laser propagation in dense magnetized plasma [Phys. Rev. E 94, 053207 (2016)]

This corrects the article DOI: 10.1103/PhysRevE.94.053207.

Laser propagation in dense magnetized plasma

A right-hand circularly polarized electromagnetic wave can propagate in a sufficiently magnetized plasma of any density without encountering cutoff in the whistler mode. With the recent realization of tens-kilotesla magnetic fields, laser propagation in highly magnetized high-density plasmas has become of practical interest, especially for heating plasmas to high energy density and igniting fusion targets. In this paper, the whistler regime of laser-plasma interaction is discussed. It is shown by one- and two-dimensional particle-in-cell simulations that moderately intense right-hand circularly polarized laser light can enter and propagate in high-density plasma and heat it efficiently because of the significantly reduced wave length and speed.

Highly efficient terahertz radiation from a thin foil irradiated by a high-contrast laser pulse

Radially polarized intense terahertz (THz) radiation behind a thin foil irradiated by ultrahigh-contrast ultrashort relativistic laser pulse is recorded by a single-shot THz time-domain spectroscopy system. As the thickness of the target is reduced from 30 to 2 µm, the duration of the THz emission increases from 5 to over 20 ps and the radiation energy increases dramatically, reaching ∼10.5mJ per pulse, corresponding to a laser-to-THz radiation energy conversion efficiency of 1.7%. The efficient THz emission can be attributed to reflection (deceleration and acceleration) of the laser-driven hot electrons by the target-rear sheath electric field. The experimental results are consistent with that of a simple model as well as particle-in-cell simulation.

Sub GV/cm terahertz radiation from relativistic laser-solid interactions via coherent transition radiation

Broadband terahertz (THz) radiation with extremely high peak power, generated by the interaction of a femtosecond laser with a thin solid target, has been investigated via particle-in-cell simulations. The spatial (angular) and temporal profiles of the THz radiation reveal that it is caused by the coherent transition radiation emitted when laser-produced hot electrons pass through the front or rear surface of the target. Dependence of the THz radiation on laser and target parameters is studied; it is shown to have a strong correlation with hot electron production. The THz radiation conversion efficiency can be as high as a few times 10^{-3}. This radiation is not only a potentially high power THz source, but may also be used as a unique diagnostic of hot electron generation and transport in relativistic laser-solid interactions.

Resonantly Enhanced Betatron Hard X-rays from Ionization Injected Electrons in a Laser Plasma Accelerator

Ultrafast betatron x-ray emission from electron oscillations in laser wakefield acceleration (LWFA) has been widely investigated as a promising source. Betatron x-rays are usually produced via self-injected electron beams, which are not controllable and are not optimized for x-ray yields. Here, we present a new method for bright hard x-ray emission via ionization injection from the K-shell electrons of nitrogen into the accelerating bucket. A total photon yield of 8 × 10(8)/shot and 10(8 )photons with energy greater than 110 keV is obtained. The yield is 10 times higher than that achieved with self-injection mode in helium under similar laser parameters. The simulation suggests that ionization-injected electrons are quickly accelerated to the driving laser region and are subsequently driven into betatron resonance. The present scheme enables the single-stage betatron radiation from LWFA to be extended to bright γ-ray radiation, which is beyond the capability of 3(rd) generation synchrotrons.

Publisher's Note: Sub GV/cm terahertz radiation from relativistic laser-solid interactions via coherent transition radiation [Phys. Rev. E 93, 063204 (2016)]

This corrects the article DOI: 10.1103/PhysRevE.93.063204.

1918 pandemic influenza virus and Streptococcus pneumoniae co-infection results in activation of coagulation and widespread pulmonary thrombosis in mice and humans

To study bacterial co-infection following 1918 H1N1 influenza virus infection, mice were inoculated with the 1918 influenza virus, followed by Streptococcus pneumoniae (SP) 72 h later. Co-infected mice exhibited markedly more severe disease, shortened survival time and more severe lung pathology, including widespread thrombi. Transcriptional profiling revealed activation of coagulation only in co-infected mice, consistent with the extensive thrombogenesis observed. Immunohistochemistry showed extensive expression of tissue factor (F3) and prominent deposition of neutrophil elastase on endothelial and epithelial cells in co-infected mice. Lung sections of SP-positive 1918 autopsy cases showed extensive thrombi and prominent staining for F3 in alveolar macrophages, monocytes, neutrophils, endothelial and epithelial cells, in contrast to co-infection-positive 2009 pandemic H1N1 autopsy cases. This study reveals that a distinctive feature of 1918 influenza virus and SP co-infection in mice and humans is extensive expression of tissue factor and activation of the extrinsic coagulation pathway leading to widespread pulmonary thrombosis.

Preferential enhancement of laser-driven carbon ion acceleration from optimized nanostructured surfaces

High-intensity ultrashort laser pulses focused on metal targets readily generate hot dense plasmas which accelerate ions efficiently and can pave way to compact table-top accelerators. Laser-driven ion acceleration studies predominantly focus on protons, which experience the maximum acceleration owing to their highest charge-to-mass ratio. The possibility of tailoring such schemes for the preferential acceleration of a particular ion species is very much desired but has hardly been explored. Here, we present an experimental demonstration of how the nanostructuring of a copper target can be optimized for enhanced carbon ion acceleration over protons or Cu-ions. Specifically, a thin (≈0.25 μm) layer of 25–30 nm diameter Cu nanoparticles, sputter-deposited on a polished Cu-substrate, enhances the carbon ion energy by about 10-fold at a laser intensity of 1.2×10¹⁸  W/cm². However, particles smaller than 20 nm have an adverse effect on the ion acceleration. Particle-in-cell simulations provide definite pointers regarding the size of nanoparticles necessary for maximizing the ion acceleration. The inherent contrast of the laser pulse is found to play an important role in the species selective ion acceleration.

Isolating Viral and Host RNA Sequences from Archival Material and Production of cDNA Libraries for High-Throughput DNA Sequencing

The vast majority of surgical biopsy and post-mortem tissue samples are formalin-fixed and paraffin-embedded (FFPE), but this process leads to RNA degradation that limits gene expression analysis. As an example, the viral RNA genome of the 1918 pandemic influenza A virus was previously determined in a 9-year effort by overlapping RT-PCR from post-mortem samples. Using the protocols described here, the full genome of the 1918 virus was determined at high coverage in one high-throughput sequencing run of a cDNA library derived from total RNA of a 1918 FFPE sample after duplex-specific nuclease treatments. This basic methodological approach should assist in the analysis of FFPE tissue samples isolated over the past century from a variety of infectious diseases.

Multichromatic narrow-energy-spread electron bunches from laser-wakefield acceleration with dual-color lasers

A method based on laser wakefield acceleration with controlled ionization injection triggered by another frequency-tripled laser is proposed, which can produce electron bunches with low energy spread. As two color pulses copropagate in the background plasma, the peak amplitude of the combined laser field is modulated in time and space during the laser propagation due to the plasma dispersion. Ionization injection occurs when the peak amplitude exceeds a certain threshold. The threshold is exceeded for limited duration periodically at different propagation distances, leading to multiple ionization injections and separated electron bunches. The method is demonstrated through multidimensional particle-in-cell simulations. Such electron bunches may be used to generate multichromatic x-ray sources for a variety of applications.

Radially polarized, half-cycle, attosecond pulses from laser wakefields through coherent synchrotronlike radiation

Attosecond bursts of coherent synchrotronlike radiation are found when driving ultrathin relativistic electron disks in a quasi-one-dimensional regime of wakefield acceleration, in which the laser waist is larger than the wake wavelength. The disks of overcritical density shrink radially due to focusing wakefields, thus providing the transverse currents for the emission of an intense, radially polarized, half-cycle pulse of about 100 attoseconds in duration. The electromagnetic pulse first focuses to a peak intensity (7×10(20)W/cm(2)) 10 times larger than the driving pulse and then emerges as a conical beam. Basic dynamics of the radiative process are derived analytically and in agreement with particle-in-cell simulations. By making use of gas targets instead of solids to form the ultrathin disks, this method allows for high repetition rates required for applications.

Generation of quasi-monoenergetic electron beams with small normalized divergences angle from a 2 TW laser facility

We report the generation of a 6 pC, 23 MeV electron bunch with the energy spread ± 3.5% by using 2 TW, 80 fs high contrast laser pulses interacting with helium gas targets. Within the optimized experimental condition, we obtained quasi-monoenergetic electron beam with an ultra-small normalized divergence angle of 92 mrad, which is at least 5 times smaller than the previous LPA-produced bunches. We suggest the significant decrease of the normalized divergence angles is due to smooth transfer from SM-LWFA to LWFA. Since the beam size in LPA is typically small, this observation may explore a simple way to generate ultralow normalized emittance electron bunches by using small-power but high-repetition-rate laser facilities.

Three-dimensional fast magnetic reconnection driven by relativistic ultraintense femtosecond lasers

Three-dimensional fast magnetic reconnection driven by two ultraintense femtosecond laser pulses is investigated by relativistic particle-in-cell simulation, where the two paralleled incident laser beams are shot into a near-critical plasma layer to form a magnetic reconnection configuration in self-generated magnetic fields. A reconnection X point and out-of-plane quadrupole field structures associated with magnetic reconnection are formed. The reconnection rate is found to be faster than that found in previous two-dimensional Hall magnetohydrodynamic simulations and electrostatic turbulence contribution to the reconnection electric field plays an essential role. Both in-plane and out-of-plane electron and ion accelerations up to a few MeV due to the magnetic reconnection process are also obtained.

Laser-driven three-stage heavy-ion acceleration from relativistic laser-plasma interaction

A three-stage heavy ion acceleration scheme for generation of high-energy quasimonoenergetic heavy ion beams is investigated using two-dimensional particle-in-cell simulation and analytical modeling. The scheme is based on the interaction of an intense linearly polarized laser pulse with a compound two-layer target (a front heavy ion layer + a second light ion layer). We identify that, under appropriate conditions, the heavy ions preaccelerated by a two-stage acceleration process in the front layer can be injected into the light ion shock wave in the second layer for a further third-stage acceleration. These injected heavy ions are not influenced by the screening effect from the light ions, and an isolated high-energy heavy ion beam with relatively low-energy spread is thus formed. Two-dimensional particle-in-cell simulations show that ∼100MeV/u quasimonoenergetic Fe24+ beams can be obtained by linearly polarized laser pulses at intensities of 1.1×1021W/cm2.

High-throughput RNA sequencing of a formalin-fixed, paraffin-embedded autopsy lung tissue sample from the 1918 influenza pandemic

Most biopsy and autopsy tissues are formalin-fixed and paraffin-embedded (FFPE), but this process leads to RNA degradation that limits gene expression analysis. The RNA genome of the 1918 pandemic influenza virus was previously determined in a 9-year effort by overlapping RT-PCR from post-mortem samples. Here, the full genome of the 1918 virus at 3000× coverage was determined in one high-throughput sequencing run of a library derived from total RNA of a 1918 FFPE sample after duplex-specific nuclease treatments. Bacterial sequences associated with secondary bacterial pneumonias were also detected. Host transcripts were well represented in the library. Compared to a 2009 pandemic influenza virus FFPE post-mortem library, the 1918 sample showed significant enrichment for host defence and cell death response genes, concordant with prior animal studies. This methodological approach should assist in the analysis of FFPE tissue samples isolated over the past century from a variety of diseases.

Dense attosecond electron sheets from laser wakefields using an up-ramp density transition

Controlled electron injection into a laser-driven wakefield at a well defined space and time is reported based on particle-in-cell simulations. Key novel ingredients are an underdense plasma target with an up-ramp density profile followed by a plateau and a fairly large laser focus diameter that leads to an essentially one-dimensional (1D) regime of laser wakefield, which is different from the bubble (complete blowout) regime occurring for tightly focused drive beams. The up-ramp profile causes 1D wave breaking to occur sharply at the up-ramp-plateau transition. As a result, it generates an ultrathin (few nanometer, corresponding to attosecond duration), strongly overdense relativistic electron sheet that is injected and accelerated in the wakefield. A peaked electron energy spectrum and high charge (∼nC) distinguish the final sheet.

Magnetic control of the pair creation in spatially localized supercritical fields

We examine the impact of a perpendicular magnetic field on the creation mechanism of electron-positron pairs in a supercritical static electric field, where both fields are localized along the direction of the electric field. In the case where the spatial extent of the magnetic field exceeds that of the electric field, quantum field theoretical simulations based on the Dirac equation predict a suppression of pair creation even if the electric field is supercritical. Furthermore, an arbitrarily small magnetic field outside the interaction zone can bring the creation process even to a complete halt, if it is sufficiently extended. The mechanism for this magnetically induced complete shutoff can be associated with a reopening of the mass gap and the emergence of electrically dressed Landau levels.

Electron bow-wave injection of electrons in laser-driven bubble acceleration

An electron injection regime in laser wake-field acceleration, namely electron bow-wave injection, is investigated by two- and three-dimensional particle-in-cell simulation as well as analytical model. In this regime electrons in the intense electron bow wave behind the first bubble catch up with the bubble tail and are trapped by the bubble finally, resulting in considerable enhancement of the total trapped electron number. For example, with the increase of the laser intensity from 2 × 10(19) to 1 × 10(20) W/cm(2), the electron trapping changes from normal self-injection to bow-wave injection and the trapped electron number is enhanced by two orders of magnitude. An analytical model is proposed to explain the numerical observation.

Spectrally peaked electron beams produced via surface guiding and acceleration in femtosecond laser-solid interactions

Highly collimated MeV electron beam guiding has been observed along the target surface following the interaction of bulk target irradiation by femtosecond laser pulses at relativistic intensities. The beam quality is shown to depend critically on the laser contrast: With a ns prepulse, the generated electron beam is well concentrated and intense, while a high laser contrast produces divergent electron beams. In the case of large preplasma scale lengths, tunable guiding and acceleration of the target surface electrons is achieved by changing the laser incident angle. By expanding the preplasma scale length to several hundred micrometers, we obtained MeV spectrum-peaked electron beams with a 100 pC per laser pulse and divergence angles of only 3°. This technique suggests a stable method of injection of elections into a variety of accelerator designs.

Laser shaping of a relativistic intense, short Gaussian pulse by a plasma lens

By 3D particle-in-cell simulation and analysis, we propose a plasma lens to make high intensity, high contrast laser pulses with a steep front. When an intense, short Gaussian laser pulse of circular polarization propagates in near-critical plasma, it drives strong currents of relativistic electrons which magnetize the plasma. Three pulse shaping effects are synchronously observed when the laser passes through the plasma lens. The laser intensity is increased by more than 1 order of magnitude while the initial Gaussian profile undergoes self-modulation longitudinally and develops a steep front. Meanwhile, a nonrelativistic prepulse can be absorbed by the overcritical plasma lens, which can improve the laser contrast without affecting laser shaping of the main pulse. If the plasma skin length is properly chosen and kept fixed, the plasma lens can be used for varied laser intensity above 10(19) W/cm(2).

Tunable radiation source by coupling laser-plasma-generated electrons to a periodic structure

Near-infrared radiation around 1000 nm generated from the interaction of a high-density MeV electron beam, obtained by impinging an intense ultrashort laser pulse on a solid target, with a metal grating is observed experimentally. Theoretical modeling and particle-in-cell simulation suggest that the radiation is caused by the Smith-Purcell mechanism. The results here indicate that tunable terahertz radiation with tens GV/m field strength can be achieved by using appropriate grating parameters.

Asselineau, Léon Auguste

Tumour specimens from 23 patients with thyroid carcinoma, 22 patients with thyroid adenoma, 3 with Graves' disease, and tissues from 8 normal thyroid glands were analyzed by Southern blot hybridization for the physical state of c-myc and c-fos proto-oncogenes. In 4 patients, both the primary tumour and lymph node metastases were analyzed. No amplification or rearrangement of the two proto-oncogenes was detected. Total RNAs were also analyzed. Elevated levels of the 2.4 kb c-myc RNA and of the 2.2 kb c-fos RNA were found in 13/23 (57%) and 14/23 (61%) of the cancer patients, respectively. High levels of c-myc transcripts were more frequently found in thyroid carcinomas with unfavourable prognosis. Concomitant elevated levels of both c-myc and c-fos RNAs were found in 8 cancers. High levels of c-myc RNA were also found in 1 out of 22 specimens of adenoma, in 1 specimen of Graves' disease and in 2 normal thyroid glands. High levels of c-fos RNA were found in 20 of the 22 adenoma samples and in 2 out of 8 normal thyroid tissues. These data indicate that the overexpression of c-myc and c-fos genes is independent of an alteration of the loci. The high levels of c-fos found in adenoma may be associated with the differentiation state of these tumours.

Phylogenetic analysis of low pathogenicity H5N1 and H7N3 influenza A virus isolates recovered from sentinel, free flying, wild mallards at one study site during 2006

From August 2 to October 11, 2006, clusters of low pathogenicity (LP) North American lineage H5N1 and H7N3 avian influenza A viruses (AIV), and other subtypes, were recovered from free-flying, resident, wild mallards used as sentinels at one site. The antigenic subtypes, pathogenicity potential, and Sanger sequencing of the isolates determined the H5N1 and H7N3 isolates were only recovered from samples collected on 8/2/2006 and 9/8/2006, respectively. However, subsequent efforts using next-generation sequencing (NGS) and additional Sanger sequencing found partial H7 segments in other HA-NA virus combinations on 8/2/2006, 9/8/2006 and 10/11/2006. It is well established that over larger geographic areas and years AIVs form transient genomic constellations; this sequential sampling data revealed that over a short period of time the dynamics of AIVs can be active and newer sequencing platforms increase recognition of mixed infections. Both findings provide further insight into the natural history of AIVs in natural reservoirs.

Ultrashort electron pulses as a four-dimensional diagnosis of plasma dynamics

We report an ultrafast electron imaging system for real-time examination of ultrafast plasma dynamics in four dimensions. It consists of a femtosecond pulsed electron gun and a two-dimensional single electron detector. The device has an unprecedented capability of acquiring a high-quality shadowgraph image with a single ultrashort electron pulse, thus permitting the measurement of irreversible processes using a single-shot scheme. In a prototype experiment of laser-induced plasma of a metal target under moderate pump intensity, we demonstrated its unique capability of acquiring high-quality shadowgraph images on a micron scale with a-few-picosecond time resolution.

Quasimonoenergetic proton bunch generation by dual-peaked electrostatic-field acceleration in foils irradiated by an intense linearly polarized laser

It is found that stable proton acceleration from a thin foil irradiated by a linearly polarized ultraintense laser can be realized for appropriate foil thickness and laser intensity. A dual-peaked electrostatic field, originating from the oscillating and nonoscillating components of the laser ponderomotive force, is formed around the foil surfaces. This field combines radiation-pressure acceleration and target normal sheath acceleration to produce a single quasimonoenergetic ion bunch. A criterion for this mechanism to be operative is obtained and verified by two-dimensional particle-in-cell simulation. At a laser intensity of ∼5.5×10(22)  W/cm(2), quasimonoenergetic GeV proton bunches are obtained with ∼100  MeV energy spread, less than 4° spatial divergence, and ∼50% energy conversion efficiency from the laser.

Intense high-contrast femtosecond K-shell x-ray source from laser-driven Ar clusters

Bright Ar quasimonochromatic K-shell x ray with very little background has been generated using an Ar clustering gas jet target irradiated with a 30 fs ultrahigh-contrast laser, with a measured flux of 2.2×10(11)   photons/J into 4π. This intense x-ray source critically depends on the laser contrast and intensity. The optimization of source output with interaction length is addressed. Simulations point to a nonlinear resonant mechanism of electron heating during the early stage of laser interaction, resulting in enhanced x-ray emission. The x-ray pulse duration is expected to be only 10 fs, opening the possibility for single-shot ultrafast keV x-ray imaging applications.

Rapid selection of a transmissible multidrug-resistant influenza A/H3N2 virus in an immunocompromised host

BACKGROUND

The overall impact of influenza virus infection in immunocompromised patients is largely unknown. Antigenic drift and genetic variations during prolonged influenza infection have been demonstrated. In this report we describe a multidrug-resistant H3N2 influenza virus isolated from an immunocompromised patient after 5 days of therapy.

METHODS

Multiple nasal wash samples were collected from an infected patient, and viral isolates were characterized. Sensitivity to antiviral agents was evaluated. Fitness and transmissibility were assessed in ferrets and tissue culture.

RESULTS

An in-frame 4-amino acid deletion emerged in the neuraminidase (NA) gene of an H3N2 virus after 5 days of oseltamivir therapy. No other changes in the NA or hemagglutinin genes were noted. Drug sensitivity assays revealed resistance to oseltamivir (>10-fold increase in 50% inhibitory concentration [IC(50)]) and reduction in sensitivity to zanamivir (3-7-fold increase in IC(50) or 50% effective concentration). No change in fitness or transmissibility was observed.

CONCLUSIONS

An in-frame NA gene deletion was rapidly selected for in an immunocompromised patient, resulting in decreased sensitivity of the isolate to available NA inhibitors without a change in fitness or transmissibility. This finding has implications for our understanding of the emergence of antiviral resistance and treatment of patients with influenza A infection, especially those who are immunocompromised.

Pulmonary pathologic findings of fatal 2009 pandemic influenza A/H1N1 viral infections

CONTEXT

In March 2009, a novel swine-origin influenza A/H1N1 virus was identified. After global spread, the World Health Organization in June declared the first influenza pandemic in 41 years.

OBJECTIVE

To describe the clinicopathologic characteristics of 34 people who died following confirmed A/H1N1 infection with emphasis on the pulmonary pathology findings.

DESIGN

We reviewed medical records, autopsy reports, microbiologic studies, and microscopic slides of 34 people who died between May 15 and July 9, 2009, and were investigated either by the New York City Office of Chief Medical Examiner (32 deaths) or through the consultation service of a coauthor (2 deaths).

RESULTS

Most of the 34 decedents (62%) were between 25 and 49 years old (median, 41.5 years). Tracheitis, bronchiolitis, and diffuse alveolar damage were noted in most cases. Influenza viral antigen was observed most commonly in the epithelium of the tracheobronchial tree but also in alveolar epithelial cells and macrophages. Most cases were reverse transcription-polymerase chain reaction positive for influenza. Histologic and microbiologic autopsy evidence of bacterial pneumonia was detected in 55% of cases. Underlying medical conditions including cardiorespiratory diseases and immunosuppression were present in 91% of cases. Obesity (body mass index, >30) was noted in 72% of adult and adolescent cases.

CONCLUSIONS

The pulmonary pathologic findings in fatal disease caused by the novel pandemic influenza virus are similar to findings identified in past pandemics. Superimposed bacterial infections of the respiratory tract were common. Preexisting obesity, cardiorespiratory diseases, and other comorbidities also were prominent findings among the decedents.

Pulmonary pathologic findings of fatal 2009 pandemic influenza A/H1N1 viral infections

CONTEXT

In March 2009, a novel swine-origin influenza A/H1N1 virus was identified. After global spread, the World Health Organization in June declared the first influenza pandemic in 41 years.

OBJECTIVE

To describe the clinicopathologic characteristics of 34 people who died following confirmed A/H1N1 infection with emphasis on the pulmonary pathology findings.

DESIGN

We reviewed medical records, autopsy reports, microbiologic studies, and microscopic slides of 34 people who died between May 15 and July 9, 2009, and were investigated either by the New York City Office of Chief Medical Examiner (32 deaths) or through the consultation service of a coauthor (2 deaths).

RESULTS

Most of the 34 decedents (62%) were between 25 and 49 years old (median, 41.5 years). Tracheitis, bronchiolitis, and diffuse alveolar damage were noted in most cases. Influenza viral antigen was observed most commonly in the epithelium of the tracheobronchial tree but also in alveolar epithelial cells and macrophages. Most cases were reverse transcription-polymerase chain reaction positive for influenza. Histologic and microbiologic autopsy evidence of bacterial pneumonia was detected in 55% of cases. Underlying medical conditions including cardiorespiratory diseases and immunosuppression were present in 91% of cases. Obesity (body mass index, >30) was noted in 72% of adult and adolescent cases.

CONCLUSIONS

The pulmonary pathologic findings in fatal disease caused by the novel pandemic influenza virus are similar to findings identified in past pandemics. Superimposed bacterial infections of the respiratory tract were common. Preexisting obesity, cardiorespiratory diseases, and other comorbidities also were prominent findings among the decedents.

Self-organizing GeV, nanocoulomb, collimated proton beam from laser foil interaction at 7 x 10;{21} W/cm;{2}

We report on a self-organizing, quasistable regime of laser proton acceleration, producing 1 GeV nanocoulomb proton bunches from laser foil interaction at an intensity of 7 x 10;{21} W/cm;{2}. The results are obtained from 2D particle-in-cell simulations, using a circular polarized laser pulse with Gaussian transverse profile, normally incident on a planar, 500 nm thick hydrogen foil. While foil plasma driven in the wings of the driving pulse is dispersed, a stable central clump with 1-2lambda diameter is forming on the axis. The stabilization is related to laser light having passed the transparent parts of the foil in the wing region and enfolding the central clump that is still opaque. Varying laser parameters, it is shown that the results are stable within certain margins and can be obtained both for protons and heavier ions such as He;{2+}.

An early 'classical' swine H1N1 influenza virus shows similar pathogenicity to the 1918 pandemic virus in ferrets and mice

The 1918 pandemic influenza virus has demonstrated significant pathogenicity in animal models and is the progenitor of 'classical' swine and modern seasonal human H1N1 lineages. Here we characterize the pathogenicity of an early 'classical' swine H1N1 influenza A virus isolated in 1931 compared to the pathogenicity of the 1918 pandemic virus and a seasonal H1N1 virus in mice and ferrets. A/Swine/Iowa/31 (Sw31) and the 1918 influenza viruses were uniformly lethal in mice at low doses and produced severe lung pathology. In ferrets, Sw31 and 1918 influenza viruses caused severe clinical disease and lung pathology with necrotizing bronchiolitis and alveolitis. The modern H1N1 virus caused little disease in either animal model. These findings revealed that in these models the virulence factors of the 1918 influenza virus are likely preserved in the Sw31 virus and suggest that early swine viruses may be a good surrogate model to study 1918 virulence and pathogenesis.

Enhanced collimated GeV monoenergetic ion acceleration from a shaped foil target irradiated by a circularly polarized laser pulse

Using multidimensional particle-in-cell simulations we study ion acceleration from a foil irradiated by a circularly polarized laser pulse at 10;{22} W/cm;{2} intensity. When the foil is shaped initially in the transverse direction to match the laser intensity profile, three different regions (acceleration, transparency, and deformation region) are observed. In the acceleration region, the foil can be uniformly accelerated for a longer time compared to a usual flat target. Undesirable plasma heating is effectively suppressed. The final energy spectrum of the accelerated ion beam in the acceleration region is improved dramatically. Collimated GeV quasi-monoenergetic ion beams carrying as much as 19% of the laser energy are observed in multidimensional simulations.

Single-cycle strong terahertz pulse generation from a vacuum-plasma interface driven by intense laser pulses

Single-cycle strong terahertz pulses can be generated by irradiating ultrashort intense laser pulses onto a tenuous plasma slab. At the plasma surface, laser ponderomotive force accelerates electrons and induces net currents, which radiate terahertz pulses. Our theoretical model suggests that if tau_{L}>2pi/omega_{p}, with tau_{L} as the laser-pulse duration and omega_{p} as the plasma frequency, the emission frequency is around tau_{L};{-1}. On the other hand, the emission frequency is around omega_{p}/2pi if tau_{L}<2pi/omega_{p}. Our numerical simulations support the theoretical model, showing that such a terahertz source is capable of providing megawatt power, field strengths of MV/cm, and broad frequency tunability.