70 research outputs found
The mitochondrial gene order and CYTB gene evolution in insects
Over millions of years of evolution, the genomes of modern insects have accumulated a significant number of mutations, which often can lead up a blind alley when carrying out phylogenetic research. Genomic differences between some representatives belonging to the same family or group are often so great that they demand using nonconventional methods of the phylogenetic analysis. It is known that molecular evolution goes by the way of not only single nucleotide substitutions, but also by larger genomic reorganizations, such as insertion or deletion of large genome fragments, and even changing the order of genes. Mitochondrial DNA genes (mtDNA) are quite often used as markers for phylogenetic research into many organisms including arthropods, because mtDNA is multicopied, is inherited maternally, does not undergo recombination and accumulates mutations quickly enough (relative to the nuclear genome). To date, a large number of full nucleotide sequences of mitogenomes (thousands of organisms) has been deposited in public databases; however, their phylogenetic analysis has obstacles, especially for representatives of the insects (Insecta), whose evolution takes a considerable part of geological time. In this work we describe the application and a comparison of two ways of the phylogenetic analysis for different groups of insects. The first method uses the variability of the nucleotide sequence of mtDNA, and the second one analyses the order of genes in full mitochondrial genomes of insects that can be used as an additional marker in phylogenetic research into representatives of the order Hymenoptera
СИНТЕЗ КОНЪЮГАТОВ ОЛИГОНУКЛЕОТИДОВ С ПРОИЗВОДНЫМИ 11,11-D2-ЛИНОЛЕВОЙ КИСЛОТЫ ПО РЕАКЦИИ АЗИД-АЛКИНОВОГО ЦИКЛОПРИСОЕДИНЕНИЯ
A new approach to the synthesis of oligonucleotide-fatty acid conjugates is reported. It is based on Cu-catalyzed reaction between azide oligonucleotides and fatty acid derivatives with terminal triple bond (CuAAC). To demonstrate this approach, five derivatives of 11,11-D2-linoleic acid containing terminal alkyne group at different parts of the molecule were synthesized. A method of conjugation of alkyne 11,11-D2-linoleic acid with azide oligonucleotide T20 is developed, and the conditions (time, concentration of Cu catalyst, excess of alkyne reagent, composition of the solvent, etc.) are optimized. These conjugates are stable in biological media, have increased permeability through the cell membranes and can be used in gene therapy. Предложен новый подход к синтезу конъюгатов олигонуклеотидов и жирных кислот, основанный на медь-катализируемой реакции циклоприсоединения азидсодержащих олигонуклеотидов к производным жирных кислот с терминальной тройной связью (CuAAC). Для демонстрации этого подхода осуществлен синтез пяти производных 11,11-D2-линолевой кислоты, содержащих концевую тройную связь в различных частях молекулы. Разработана методика их конъюгации с азидсодержащим модельным олигонуклеотидом Т20, проверено влияние различных условий (времени, концентрации катализатора, избытка алкинсодержащего реагента, состава растворителя и др.) на выход продукта. Такие конъюгаты устойчивы в биологических средах, обладают повышенной способностью проникать в клетки и могут найти применение в качестве средств генной терапии.
Methamphetamine withdrawal induces activation of CRF neurons in the brain stress system in parallel with an increased activity of cardiac sympathetic pathways.
Methamphetamine (METH) addiction is a major public health problem in some countries. There is evidence to suggest that METH use is associated with increased risk of developing cardiovascular problems. Here, we investigated the effects of chronic METH administration and withdrawal on the activation of the brain stress system and cardiac sympathetic pathways. Mice were treated with METH (2 mg/kg, i.p.) for 10 days and left to spontaneous withdraw for 7 days. The number of corticotrophin-releasing factor (CRF), c-Fos, and CRF/c-Fos neurons was measured by immunohistochemistry in the paraventricular nucleus of the hypothalamus (PVN) and the oval region of the bed nucleus of stria terminalis (ovBNST), two regions associated with cardiac sympathetic control. In parallel, levels of catechol-o-methyl-transferase (COMT), tyrosine hydroxylase (TH), and heat shock protein 27 (Hsp27) were measured in the heart. In the brain, chronic-METH treatment enhanced the number of c-Fos neurons and the CRF neurons with c-Fos signal (CRF+/c-Fos+) in PVN and ovBNST. METH withdrawal increased the number of CRF+neurons. In the heart, METH administration induced an increase in soluble (S)-COMT and membrane-bound (MB)-COMT without changes in phospho (p)-TH, Hsp27, or pHsp27. Similarly, METH withdrawal increased the expression of S- and MB-COMT. In contrast to chronic treatment, METH withdrawal enhanced levels of (p)TH and (p)Hsp27 in the heart. Overall, our results demonstrate that chronic METH administration and withdrawal activate the brain CRF systems associated with the heart sympathetic control and point towards a METH withdrawal induced activation of sympathetic pathways in the heart. Our findings provide further insight in the mechanism underlining the cardiovascular risk associated with METH use and proposes targets for its treatment
Collins and Sivers transverse-spin asymmetries in inclusive muoproduction of mesons
The production of vector mesons in deep inelastic scattering is an
interesting yet scarsely explored channel to study the transverse spin
structure of the nucleon and the related phenomena. The COMPASS collaboration
has performed the first measurement of the Collins and Sivers asymmetries for
inclusively produced mesons. The analysis is based on the data set
collected in deep inelastic scattering in using a
beam impinging on a transversely polarized target. The
mesons are selected from oppositely charged hadron pairs, and the
asymmetries are extracted as a function of the Bjorken- variable, the
transverse momentum of the pair and the fraction of the energy carried by
the pair. Indications for positive Collins and Sivers asymmetries are observed
High-statistics measurement of Collins and Sivers asymmetries for transversely polarised deuterons
New results are presented on a high-statistics measurement of Collins and
Sivers asymmetries of charged hadrons produced in deep inelastic scattering of
muons on a transversely polarised LiD target. The data were taken in 2022
with the COMPASS spectrometer using the 160 \gevv\ muon beam at CERN, balancing
the existing data on transversely polarised proton targets. The first results
from about two-thirds of the new data have total uncertainties smaller by up to
a factor of three compared to the previous deuteron measurements. Using all the
COMPASS proton and deuteron results, both the transversity and the Sivers
distribution functions of the and quark, as well as the tensor charge
in the measured -range are extracted. In particular, the accuracy of the
quark results is significantly improved
Spin Density Matrix Elements in Exclusive Meson Muoproduction
We report on a measurement of Spin Density Matrix Elements (SDMEs) in hard
exclusive meson muoproduction at COMPASS using 160~GeV/ polarised
and beams impinging on a liquid hydrogen target. The
measurement covers the kinematic range 5.0~GeV/ 17.0~GeV/,
1.0 (GeV/) 10.0 (GeV/) and 0.01 (GeV/) 0.5 (GeV/). Here, denotes the mass of the final
hadronic system, the virtuality of the exchanged photon, and
the transverse momentum of the meson with respect to the
virtual-photon direction. The measured non-zero SDMEs for the transitions of
transversely polarised virtual photons to longitudinally polarised vector
mesons () indicate a violation of -channel helicity
conservation. Additionally, we observe a dominant contribution of
natural-parity-exchange transitions and a very small contribution of
unnatural-parity-exchange transitions, which is compatible with zero within
experimental uncertainties. The results provide important input for modelling
Generalised Parton Distributions (GPDs). In particular, they may allow one to
evaluate in a model-dependent way the role of parton helicity-flip GPDs in
exclusive production
Double production in pion-nucleon scattering at COMPASS
We present the study of the production of double mesons using
COMPASS data collected with a 190 GeV/ beam scattering off NH,
Al and W targets. Kinematic distributions of the collected double
events are analysed, and the double production cross section is
estimated for each of the COMPASS targets. The results are compared to
predictions from single- and double-parton scattering models as well as the
pion intrinsic charm and the tetraquark exotic resonance hypotheses. It is
demonstrated that the single parton scattering production mechanism gives the
dominant contribution that is sufficient to describe the data. An upper limit
on the double intrinsic charm content of pion is evaluated. No significant
signatures that could be associated with exotic tetraquarks are found in the
double mass spectrum.Comment: 12 pages, 4 figure
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Search for long-lived heavy neutral leptons with lepton flavour conserving or violating decays to a jet and a charged lepton
A preprint version of the article is available at arXiv:2312.07484v3 [hep-ex], https://arxiv.org/abs/2312.07484 . Comments: Replaced with the published version. Added the journal reference and the DOI. All the figures and tables can be found at https://cms-results.web.cern.ch/cms-results/public-results/publications/EXO-21-013 (CMS Public Pages)A search for long-lived heavy neutral leptons (HNLs) is presented, which considers the hadronic final state and coupling scenarios involving all three lepton generations in the 2-20 GeV HNL mass range for the first time. Events comprising two leptons (electrons or muons) and jets are analyzed in a data sample of proton-proton collisions, recorded with the CMS experiment at the CERN LHC at a centre-of-mass energy of 13 TeV, corresponding to an integrated luminosity of 138 fb−1. A novel jet tagger, based on a deep neural network, has been developed to identify jets from an HNL decay using various features of the jet and its constituent particles. The network output can be used as a powerful discriminating tool to probe a broad range of HNL lifetimes and masses. Contributions from background processes are determined from data. No excess of events in data over the expected background is observed. Upper limits on the HNL production cross section are derived as functions of the HNL mass and the three coupling strengths VℓN to each lepton generation ℓ and presented as exclusion limits in the coupling-mass plane, as lower limits on the HNL lifetime, and on the HNL mass. In this search, the most stringent limit on the coupling strength is obtained for pure muon coupling scenarios; values of |VμN|2 > 5 (4) × 10−7 are excluded for Dirac (Majorana) HNLs with a mass of 10 GeV at a confidence level of 95% that correspond to proper decay lengths of 17 (10) mm.SCOAP3
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Measurement of energy correlators inside jets and determination of the strong coupling αS(mZ)
A preprint version of this article is available at arXiv:2402.13864v2 [hep-ex], https://arxiv.org/abs/2402.13864 . Comments: Replaced with the published version. Added the journal reference and the DOI. All the figures and tables can be found at https://cms-results.web.cern.ch/cms-results/public-results/publications/SMP-22-015 (CMS Public Pages). Report number: CMS-SMP-22-015, CERN-EP-2024-010 .Energy correlators that describe energy-weighted distances between two or three particles in a hadronic jet are measured using an event sample of √ = 13 TeV proton-proton collisions collected by the CMS experiment and corresponding to an integrated luminosity of 36.3 fb^−1. The measured distributions are consistent with the trends in the simulation that reveal two key features of the strong interaction: confinement and asymptotic freedom. By comparing the ratio of the measured three- and two-particle energy correlator distributions with theoretical calculations that resum collinear emissions at approximate next-to-next-to-leading-logarithmic accuracy matched to a next-to-leading-order calculation, the strong coupling is determined at the boson mass: () = 0.1229+0.0040 −0.0050, the most precise () value obtained using jet substructure observables.SCOAP3
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Portable Acceleration of CMS Computing Workflows with Coprocessors as a Service
A preprint version of the article is available at: arXiv:2402.15366v2 [physics.ins-det], https://arxiv.org/abs/2402.15366 . Comments: Replaced with the published version. Added the journal reference and the DOI. All the figures and tables can be found at https://cms-results.web.cern.ch/cms-results/public-results/publications/MLG-23-001 (CMS Public Pages). Report numbers: CMS-MLG-23-001, CERN-EP-2023-303.Data Availability: No datasets were generated or analyzed during the current study.Computing demands for large scientific experiments, such as the CMS experiment at the CERN LHC, will increase dramatically in the next decades. To complement the future performance increases of software running on central processing units (CPUs), explorations of coprocessor usage in data processing hold great potential and interest. Coprocessors are a class of computer processors that supplement CPUs, often improving the execution of certain functions due to architectural design choices. We explore the approach of Services for Optimized Network Inference on Coprocessors (SONIC) and study the deployment of this as-a-service approach in large-scale data processing. In the studies, we take a data processing workflow of the CMS experiment and run the main workflow on CPUs, while offloading several machine learning (ML) inference tasks onto either remote or local coprocessors, specifically graphics processing units (GPUs). With experiments performed at Google Cloud, the Purdue Tier-2 computing center, and combinations of the two, we demonstrate the acceleration of these ML algorithms individually on coprocessors and the corresponding throughput improvement for the entire workflow. This approach can be easily generalized to different types of coprocessors and deployed on local CPUs without decreasing the throughput performance. We emphasize that the SONIC approach enables high coprocessor usage and enables the portability to run workflows on different types of coprocessors.SCOAP3. Open access funding provided by CERN (European Organization for Nuclear Research
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