99 research outputs found
Brain microRNAs among social and solitary bees
Evolutionary transitions to a social lifestyle in insects are associated with lineage-specific changes in gene expression, but the key nodes that drive these regulatory changes are unknown. We examined the relationship between social organization and lineage-specific microRNAs (miRNAs). Genome scans across 12 bee species showed that miRNA copy-number is mostly conserved and not associated with sociality. However, deep sequencing of small RNAs in six bee species revealed a substantial proportion (20â35%) of detected miRNAs had lineage-specific expression in the brain, 24â72% of which did not have homologues in other species. Lineage-specific miRNAs disproportionately target lineage-specific genes, and have lower expression levels than shared miRNAs. The predicted targets of lineage-specific miRNAs are not enriched for genes with caste-biased expression or genes under positive selection in social species. Together, these results suggest that novel miRNAs may coevolve with novel genes, and thus contribute to lineage-specific patterns of evolution in bees, but do not appear to have significant influence on social evolution. Our analyses also support the hypothesis that many new miRNAs are purged by selection due to deleterious effects on mRNA targets, and suggest genome structure is not as influential in regulating bee miRNA evolution as has been shown for mammalian miRNAs
Towards Real-World Applications of ServiceX, an Analysis Data Transformation System
One of the biggest challenges in the High-Luminosity LHC (HL- LHC) era will
be the significantly increased data size to be recorded and analyzed from the
collisions at the ATLAS and CMS experiments. ServiceX is a software R&D project
in the area of Data Organization, Management and Access of the IRIS- HEP to
investigate new computational models for the HL- LHC era. ServiceX is an
experiment-agnostic service to enable on-demand data delivery specifically
tailored for nearly-interactive vectorized analyses. It is capable of
retrieving data from grid sites, on-the-fly data transformation, and delivering
user-selected data in a variety of different formats. New features will be
presented that make the service ready for public use. An ongoing effort to
integrate ServiceX with a popular statistical analysis framework in ATLAS will
be described with an emphasis of a practical implementation of ServiceX into
the physics analysis pipeline.Comment: 8 pages, 3 figures, 2 listings, 1 table, submitted to the 25th
International Conference on Computing in High Energy & Nuclear Physic
Unambiguous observation of F-atom core-hole localization in CF4 through body-frame photoelectron angular distributions
Citation: McCurdy, C. W., Rescigno, T. N., Trevisan, C. S., Lucchese, R. R., Gaire, B., Menssen, A., . . . Weber, T. (2017). Unambiguous observation of F-atom core-hole localization in CF4 through body-frame photoelectron angular distributions. Physical Review A, 95(1). doi:10.1103/PhysRevA.95.011401A dramatic symmetry breaking in K-shell photoionization of the CF4 molecule in which a core-hole vacancy is created in one of four equivalent fluorine atoms is displayed in the molecular frame angular distribution of the photoelectrons. Observing the photoejected electron in coincidence with an F+ atomic ion after Auger decay is shown to select the dissociation path where the core hole was localized almost exclusively on that atom. A combination of measurements and ab initio calculations of the photoelectron angular distribution in the frame of the recoiling CF3+ and F+ atoms elucidates the underlying physics that derives from the Ne-like valence structure of the F(1s-1) core-excited atom. © 2017 American Physical Society
Enantiosensitive Structure Determination by Photoelectron Scattering on Single Molecules
X-ray as well as electron diffraction are powerful tools for structure
determination of molecules. Electron diffraction methods yield
\r{A}ngstrom-resolution even when applied to large systems or systems involving
weak scatterers such as hydrogen atoms. For cases in which molecular crystals
cannot be obtained or the interaction-free molecular structure is to be
addressed, corresponding electron scattering approaches on gas-phase molecules
exist. Such studies on randomly oriented molecules, however, can only provide
information on interatomic distances, which is challenging to analyse in case
of overlapping distance parameters and they do not reveal the handedness of
chiral systems8. Here, we present a novel scheme to obtain information on the
structure, handedness and even detailed geometrical features of single
molecules in the gas phase. Using a loop-like analysis scheme employing input
from ab initio computations on the photoionization process, we are able to
deduce the three dimensional molecular structure with sensitivity to the
position individual atoms, as e.g. protons. To achieve this, we measure the
molecular frame diffraction pattern of core-shell photoelectrons in combination
with only two ionic fragments from a molecular Coulomb explosion. Our approach
is expected to be suitable for larger molecules, as well, since typical size
limitations regarding the structure determination by pure Coulomb explosion
imaging are overcome by measuring in addition the photoelectron in coincidence
with the ions. As the photoelectron interference pattern captures the molecular
structure at the instant of ionization, we anticipate our approach to allow for
tracking changes in the molecular structure on a femtosecond time scale by
applying a pump-probe scheme in the future
The Projection Method for Reaching Consensus and the Regularized Power Limit of a Stochastic Matrix
In the coordination/consensus problem for multi-agent systems, a well-known
condition of achieving consensus is the presence of a spanning arborescence in
the communication digraph. The paper deals with the discrete consensus problem
in the case where this condition is not satisfied. A characterization of the
subspace of initial opinions (where is the influence matrix) that
\emph{ensure} consensus in the DeGroot model is given. We propose a method of
coordination that consists of: (1) the transformation of the vector of initial
opinions into a vector belonging to by orthogonal projection and (2)
subsequent iterations of the transformation The properties of this method
are studied. It is shown that for any non-periodic stochastic matrix the
resulting matrix of the orthogonal projection method can be treated as a
regularized power limit of Comment: 19 pages, 2 figure
The genomes of two key bumblebee species with primitive eusocial organization
Background: The shift from solitary to social behavior is one of the major evolutionary transitions. Primitively eusocial bumblebees are uniquely placed to illuminate the evolution of highly eusocial insect societies. Bumblebees are also invaluable natural and agricultural pollinators, and there is widespread concern over recent population declines in some species. High-quality genomic data will inform key aspects of bumblebee biology, including susceptibility to implicated population viability threats. Results: We report the high quality draft genome sequences of Bombus terrestris and Bombus impatiens, two ecologically dominant bumblebees and widely utilized study species. Comparing these new genomes to those of the highly eusocial honeybee Apis mellifera and other Hymenoptera, we identify deeply conserved similarities, as well as novelties key to the biology of these organisms. Some honeybee genome features thought to underpin advanced eusociality are also present in bumblebees, indicating an earlier evolution in the bee lineage. Xenobiotic detoxification and immune genes are similarly depauperate in bumblebees and honeybees, and multiple categories of genes linked to social organization, including development and behavior, show high conservation. Key differences identified include a bias in bumblebee chemoreception towards gustation from olfaction, and striking differences in microRNAs, potentially responsible for gene regulation underlying social and other traits. Conclusions: These two bumblebee genomes provide a foundation for post-genomic research on these key pollinators and insect societies. Overall, gene repertoires suggest that the route to advanced eusociality in bees was mediated by many small changes in many genes and processes, and not by notable expansion or depauperation
Relativistic Brownian Motion
Stimulated by experimental progress in high energy physics and astrophysics,
the unification of relativistic and stochastic concepts has re-attracted
considerable interest during the past decade. Focusing on the framework of
special relativity, we review, here, recent progress in the phenomenological
description of relativistic diffusion processes. After a brief historical
overview, we will summarize basic concepts from the Langevin theory of
nonrelativistic Brownian motions and discuss relevant aspects of relativistic
equilibrium thermostatistics. The introductory parts are followed by a detailed
discussion of relativistic Langevin equations in phase space. We address the
choice of time parameters, discretization rules, relativistic
fluctuation-dissipation theorems, and Lorentz transformations of stochastic
differential equations. The general theory is illustrated through analytical
and numerical results for the diffusion of free relativistic Brownian
particles. Subsequently, we discuss how Langevin-type equations can be obtained
as approximations to microscopic models. The final part of the article is
dedicated to relativistic diffusion processes in Minkowski spacetime. Due to
the finiteness of velocities in relativity, nontrivial relativistic Markov
processes in spacetime do not exist; i.e., relativistic generalizations of the
nonrelativistic diffusion equation and its Gaussian solutions must necessarily
be non-Markovian. We compare different proposals that were made in the
literature and discuss their respective benefits and drawbacks. The review
concludes with a summary of open questions, which may serve as a starting point
for future investigations and extensions of the theory.Comment: review article, 159 pages, references updated, misprints corrected,
App. A.4. correcte
- âŠ