Spontaneous HIV expression during suppressive ART is associated with the magnitude and function of HIV-specific CD4+ and CD8+ T cells.

Spontaneous transcription and translation of HIV can persist during suppressive antiretroviral therapy (ART). The quantity, phenotype, and biological relevance of this spontaneously "active" reservoir remain unclear. Using multiplexed single-cell RNAflow-fluorescence in situ hybridization (FISH), we detect active HIV transcription in 14/18 people with HIV on suppressive ART, with a median of 28/million CD4 <sup>+</sup> T cells. While these cells predominantly exhibit abortive transcription, p24-expressing cells are evident in 39% of participants. Phenotypically diverse, active reservoirs are enriched in central memory T cells and CCR6- and activation-marker-expressing cells. The magnitude of the active reservoir positively correlates with total HIV-specific CD4 <sup>+</sup> and CD8 <sup>+</sup> T cell responses and with multiple HIV-specific T cell clusters identified by unsupervised analysis. These associations are particularly strong with p24-expressing active reservoir cells. Single-cell vDNA sequencing shows that active reservoirs are largely dominated by defective proviruses. Our data suggest that these reservoirs maintain HIV-specific CD4 <sup>+</sup> and CD8 <sup>+</sup> T responses during suppressive ART

Intra-Host Evolution Analyses in an Immunosuppressed Patient Supports SARS-CoV-2 Viral Reservoir Hypothesis.

Throughout the SARS-CoV-2 pandemic, several variants of concern (VOCs) have been identified, many of which share recurrent mutations in the spike glycoprotein's receptor-binding domain (RBD). This region coincides with known epitopes and can therefore have an impact on immune escape. Protracted infections in immunosuppressed patients have been hypothesized to lead to an enrichment of such mutations and therefore drive evolution towards VOCs. Here, we present the case of an immunosuppressed patient that developed distinct populations with immune escape mutations throughout the course of their infection. Notably, by investigating the co-occurrence of substitutions on individual sequencing reads in the RBD, we found quasispecies harboring mutations that confer resistance to known monoclonal antibodies (mAbs) such as S:E484K and S:E484A. These mutations were acquired without the patient being treated with mAbs nor convalescent sera and without them developing a detectable immune response to the virus. We also provide additional evidence for a viral reservoir based on intra-host phylogenetics, which led to a viral substrain that evolved elsewhere in the patient's body, colonizing their upper respiratory tract (URT). The presence of SARS-CoV-2 viral reservoirs can shed light on protracted infections interspersed with periods where the virus is undetectable, and potential explanations for long-COVID cases

Measurement of the cross-section and charge asymmetry of WW bosons produced in proton-proton collisions at s=8\sqrt{s}=8 TeV with the ATLAS detector

This paper presents measurements of the $W^+ \rightarrow \mu^+\nu$ and $W^- \rightarrow \mu^-\nu$ cross-sections and the associated charge asymmetry as a function of the absolute pseudorapidity of the decay muon. The data were collected in proton--proton collisions at a centre-of-mass energy of 8 TeV with the ATLAS experiment at the LHC and correspond to a total integrated luminosity of 20.2~\mbox{fb^{-1}}. The precision of the cross-section measurements varies between 0.8% to 1.5% as a function of the pseudorapidity, excluding the 1.9% uncertainty on the integrated luminosity. The charge asymmetry is measured with an uncertainty between 0.002 and 0.003. The results are compared with predictions based on next-to-next-to-leading-order calculations with various parton distribution functions and have the sensitivity to discriminate between them.Comment: 38 pages in total, author list starting page 22, 5 figures, 4 tables, submitted to EPJC. All figures including auxiliary figures are available at https://atlas.web.cern.ch/Atlas/GROUPS/PHYSICS/PAPERS/STDM-2017-13

Search for chargino-neutralino production with mass splittings near the electroweak scale in three-lepton final states in √s=13 TeV pp collisions with the ATLAS detector

A search for supersymmetry through the pair production of electroweakinos with mass splittings near the electroweak scale and decaying via on-shell W and Z bosons is presented for a three-lepton final state. The analyzed proton-proton collision data taken at a center-of-mass energy of √s=13  TeV were collected between 2015 and 2018 by the ATLAS experiment at the Large Hadron Collider, corresponding to an integrated luminosity of 139  fb−1. A search, emulating the recursive jigsaw reconstruction technique with easily reproducible laboratory-frame variables, is performed. The two excesses observed in the 2015–2016 data recursive jigsaw analysis in the low-mass three-lepton phase space are reproduced. Results with the full data set are in agreement with the Standard Model expectations. They are interpreted to set exclusion limits at the 95% confidence level on simplified models of chargino-neutralino pair production for masses up to 345 GeV

Measurement of the nuclear modification factor of b-jets in 5.02 TeV Pb+Pb collisions with the ATLAS detector

This paper presents a measurement of b-jet production in Pb+Pb and pp collisions at sqrt(s_NN)=5.02 TeV with the ATLAS detector at the LHC. The measurement uses 260 pb^{−1} of pp collisions collected in 2017 and 1.4 nb^{−1} of Pb+Pb collisions collected in 2018. In both collision systems, jets are reconstructed via the anti-kt algorithm. The b-jets are identified from a sample of jets containing muons from the semileptonic decay of b-quarks using template fits of the muon momentum relative to the jet axis. In pp collisions, b-jets are reconstructed for radius parameters R=0.2 and R=0.4, and only R=0.2 jets are used in Pb+Pb collisions. For comparison, inclusive R=0.2 jets are also measured using 1.7 nb^{−1} of Pb+Pb collisions collected in 2018 and the same pp collision data as the b-jet measurement. The nuclear modification factor, R_{AA}, is calculated for both b-jets and inclusive jets with R=0.2 over the transverse momentum range of 80-290 GeV. The nuclear modification factor for b-jets decreases from peripheral to central collisions. The ratio of the b-jet R_{AA} to inclusive jet R_{AA} is also presented and suggests that the R_{AA} for b-jets is larger than that for inclusive jets in central Pb+Pb collisions. The measurements are compared with theoretical calculations and suggest a role for mass and colour-charge effects in partonic energy loss in heavy-ion collisions

Measurement of muon pairs produced via γγ scattering in nonultraperipheral Pb+Pb collisions at sqrt(s_NN)=5.02 TeV with the ATLAS detector

Results of a measurement of dimuon photoproduction in nonultraperipheral Pb+Pb collisions at sqrt(s_NN)=5.02 TeV are presented. The measurement uses ATLAS data from the 2015 and 2018 Pb+Pb data-taking periods at the LHC with an integrated luminosity of 1.94 nb^{−1}. The γγ→μ+μ− pairs are identified via selections on pair momentum asymmetry and acoplanarity. Differential cross sections for dimuon production are measured in different centrality, average muon momentum, and pair rapidity intervals as functions of acoplanarity and k⊥, the transverse momentum kick of one muon relative to the other. Measurements are also made as a function of the rapidity separation of the muons and the angle of the muon pair relative to the second-order event plane to test whether magnetic fields generated in the quark-gluon plasma affect the measured muons. A prior observation of a centrality-dependent broadening of the acoplanarity distribution is confirmed. Furthermore, the improved precision of the measurement reveals a depletion in the number of pairs having small acoplanarity or k⊥ values in more central collisions. The acoplanarity distributions in a given centrality interval are observed to vary with the mean pT of the muons in the pair, but the k⊥ distributions do not. Comparisons with recent theoretical predictions are made. The predicted trends associated with effects of magnetic fields on the dimuons are not observed

Correlations between flow and transverse momentum in Xe+Xe and Pb+Pb collisions at the LHC with the ATLAS detector: A probe of the heavy-ion initial state and nuclear deformation

The correlations between flow harmonics v_n for n=2, 3, and 4 and mean transverse momentum [pT] in 129Xe+129Xe and 208Pb+208Pb collisions at sqrt(s)=5.44 and 5.02 TeV, respectively, are measured using charged particles with the ATLAS detector. The correlations are potentially sensitive to the shape and size of the initial geometry, nuclear deformation, and initial momentum anisotropy. The effects from nonflow and centrality fluctuations are minimized, respectively, via a subevent cumulant method and an event-activity selection based on particle production at very forward rapidity. The v_n−[pT] correlations show strong dependencies on centrality, harmonic number n, pT, and pseudorapidity range. Current models qualitatively describe the overall centrality- and system-dependent trends but fail to quantitatively reproduce all features of the data. In central collisions, where models generally show good agreement, the v_2−[pT] correlations are sensitive to the triaxiality of the quadruple deformation. Comparison of the model with the Pb+Pb and Xe+Xe data confirms that the 129Xe nucleus is a highly deformed triaxial ellipsoid that has neither a prolate nor oblate shape. This provides strong evidence for a triaxial deformation of the 129Xe nucleus from high-energy heavy-ion collisions

Production of Υ(nS) mesons in Pb+Pb and pp collisions at 5.02 TeV

A measurement of the production of vector bottomonium states, Υ(1S), Y(2S), and Υ(3S), in Pb+Pb and pp collisions at a center-of-mass energy per nucleon pair of 5.02 TeV is presented. The data correspond to integrated luminosities of 1.38 nb^{−1} of Pb+Pb data collected in 2018, 0.44 nb^{−1} of Pb+Pb data collected in 2015, and 0.26 fb^{−1} of pp data collected in 2017 by the ATLAS detector at the Large Hadron Collider. The measurements are performed in the dimuon decay channel for transverse momentum p^{μμ}_T<30 GeV, absolute rapidity |y^{μμ}|<1.5, and Pb+Pb event centrality 0–80%. The production rates of the three bottomonium states in Pb+Pb collisions are compared with those in pp collisions to extract the nuclear modification factors as functions of event centrality, p^{μμ}_T, and |y^{μμ}|. In addition, the suppression of the excited states relative to the ground state is studied. The results are compared with theoretical model calculations

Measurements of the suppression and correlations of dijets in Pb+Pb collisions at sqrt(s_NN)=5.02 TeV

Studies of the correlations of the two highest transverse momentum (leading) jets in individual Pb+Pb collision events can provide information about the mechanism of jet quenching by the hot and dense matter created in such collisions. In Pb+Pb and pp collisions at sqrt(s_NN)=5.02 TeV, measurements of the leading dijet transverse momentum (pT) correlations are presented. Additionally, measurements in Pb+Pb collisions of the dijet pair nuclear modification factors projected along leading and subleading jet pT are made. The measurements are performed using the ATLAS detector at the LHC with 260 pb^{−1} of pp data collected in 2017 and 2.2 nb^{−1} of Pb+Pb data collected in 2015 and 2018. An unfolding procedure is applied to the two-dimensional leading and subleading jet pT distributions to account for experimental effects in the measurement of both jets. Results are provided for dijets with leading jet pT greater than 100 GeV. Measurements of the dijet-yield-normalized xJ distributions in Pb+Pb collisions show an increased fraction of imbalanced jets compared to pp collisions; these measurements are in agreement with previous measurements of the same quantity at 2.76 TeV in the overlapping kinematic range. Measurements of the absolutely normalized dijet rate in Pb+Pb and pp collisions are also presented, and show that balanced dijets are significantly more suppressed than imbalanced dijets in Pb+Pb collisions. It is observed in the measurements of the pair nuclear modification factors that the subleading jets are significantly suppressed relative to leading jets with pT between 100 and 316 GeV for all centralities in Pb+Pb collisions

Measurement of the total cross section and ρ-parameter from elastic scattering in pp collisions at sqrt(s)=13 TeV with the ATLAS detector

In a special run of the LHC with β⋆=2.5 km, proton–proton elastic-scattering events were recorded at sqrt(s)=13 TeV with an integrated luminosity of 340 μb^{−1} using the ALFA subdetector of ATLAS in 2016. The elastic cross section was measured differentially in the Mandelstam t variable in the range from −t=2.5⋅10^{−4} GeV^2 to −t=0.46 GeV^2 using 6.9 million elastic-scattering candidates. This paper presents measurements of the total cross section σ_{tot}, parameters of the nuclear slope, and the ρ-parameter defined as the ratio of the real part to the imaginary part of the elastic-scattering amplitude in the limit t→0. These parameters are determined from a fit to the differential elastic cross section using the optical theorem and different parameterizations of the t-dependence. The results for σ_{tot} and ρ are σ_{tot}(pp→X)=104.7±1.1 mb ρ=0.098±0.011. The uncertainty in σ_{tot} is dominated by the luminosity measurement, and in ρ by imperfect knowledge of the detector alignment and by modelling of the nuclear amplitude