134 research outputs found
Index Theory of One Dimensional Quantum Walks and Cellular Automata
If a one-dimensional quantum lattice system is subject to one step of a reversible discrete-time dynamics, it is intuitive that as much "quantum information” as moves into any given block of cells from the left, has to exit that block to the right. For two types of such systems — namely quantum walks and cellular automata — we make this intuition precise by defining an index, a quantity that measures the "net flow of quantum information” through the system. The index supplies a complete characterization of two properties of the discrete dynamics. First, two systems S 1, S 2 can be "pieced together”, in the sense that there is a system S which acts like S 1 in one region and like S 2 in some other region, if and only if S 1 and S 2 have the same index. Second, the index labels connected components of such systems: equality of the index is necessary and sufficient for the existence of a continuous deformation of S 1 into S 2. In the case of quantum walks, the index is integer-valued, whereas for cellular automata, it takes values in the group of positive rationals. In both cases, the map is a group homomorphism if composition of the discrete dynamics is taken as the group law of the quantum systems. Systems with trivial index are precisely those which can be realized by partitioned unitaries, and the prototypes of systems with non-trivial index are shift
Ancestral genome estimation reveals the history of ecological diversification in Agrobacterium
Horizontal gene transfer (HGT) is considered as a major source of innovation in bacteria, and as such is expected to drive adaptation to new ecological niches. However, among the many genes acquired through HGT along the diversification history of genomes, only a fraction may have actively contributed to sustained ecological adaptation. We used a phylogenetic approach accounting for the transfer of genes (or groups of genes) to estimate the history of genomes in Agrobacterium biovar 1, a diverse group of soil and plant-dwelling bacterial species. We identified clade-specific blocks of cotransferred genes encoding coherent biochemical pathways that may have contributed to the evolutionary success of key Agrobacterium clades. This pattern of gene coevolution rejects a neutral model of transfer, in which neighboring genes would be transferred independently of their function and rather suggests purifying selection on collectively coded acquired pathways. The acquisition of these synapomorphic blocks of cofunctioning genes probably drove the ecological diversification of Agrobacterium and defined features of ancestral ecological niches, which consistently hint at a strong selective role of host plant rhizospheres
Efficient and feasible state tomography of quantum many-body systems
We present a novel method to perform quantum state tomography for
many-particle systems which are particularly suitable for estimating states in
lattice systems such as of ultra-cold atoms in optical lattices. We show that
the need for measuring a tomographically complete set of observables can be
overcome by letting the state evolve under some suitably chosen random circuits
followed by the measurement of a single observable. We generalize known results
about the approximation of unitary 2-designs, i.e., certain classes of random
unitary matrices, by random quantum circuits and connect our findings to the
theory of quantum compressed sensing. We show that for ultra-cold atoms in
optical lattices established techniques like optical super-lattices, laser
speckles, and time-of-flight measurements are sufficient to perform fully
certified, assumption-free tomography. Combining our approach with tensor
network methods - in particular the theory of matrix-product states - we
identify situations where the effort of reconstruction is even constant in the
number of lattice sites, allowing in principle to perform tomography on
large-scale systems readily available in present experiments.Comment: 10 pages, 3 figures, minor corrections, discussion added, emphasizing
that no single-site addressing is needed at any stage of the scheme when
implemented in optical lattice system
Index theory of one dimensional quantum walks and cellular automata
If a one-dimensional quantum lattice system is subject to one step of a
reversible discrete-time dynamics, it is intuitive that as much "quantum
information" as moves into any given block of cells from the left, has to exit
that block to the right. For two types of such systems - namely quantum walks
and cellular automata - we make this intuition precise by defining an index, a
quantity that measures the "net flow of quantum information" through the
system. The index supplies a complete characterization of two properties of the
discrete dynamics. First, two systems S_1, S_2 can be pieced together, in the
sense that there is a system S which locally acts like S_1 in one region and
like S_2 in some other region, if and only if S_1 and S_2 have the same index.
Second, the index labels connected components of such systems: equality of the
index is necessary and sufficient for the existence of a continuous deformation
of S_1 into S_2. In the case of quantum walks, the index is integer-valued,
whereas for cellular automata, it takes values in the group of positive
rationals. In both cases, the map S -> ind S is a group homomorphism if
composition of the discrete dynamics is taken as the group law of the quantum
systems. Systems with trivial index are precisely those which can be realized
by partitioned unitaries, and the prototypes of systems with non-trivial index
are shifts.Comment: 38 pages. v2: added examples, terminology clarifie
Fate of CMY-2-encoding plasmids introduced into the human fecal microbiota by exogenous Escherichia coli
The gut is a hot spot for transfer of antibiotic resistance genes from ingested exogenous bacteria to the indigenous microbiota. The objective of this study was to determine the fate of two nearly identical blaCMY-2-harboring plasmids introduced into the human fecal microbiota by two Escherichia coli strains isolated from human and poultry meat, respectively. The chromosome and the CMY-2-encoding plasmid of both strains were labeled with distinct fluorescent markers (mCherry and GFP), allowing Fluorescence Activated Cell Sorting (FACS)-based tracking of the strain and the resident bacteria that have acquired its plasmid. Each strain was introduced into an established in vitro gut model (CoMiniGut) inoculated with individual feces from ten healthy volunteers. Fecal samples collected 2, 6 and 24 h after strain inoculation were analyzed by FACS and plate counts. Although the human strain survived better than the poultry meat strain, both strains transferred their plasmids to the fecal microbiota at concentrations as low as 102 CFU/mL. Strain survival and plasmid transfer varied significantly depending on inoculum concentration and individual fecal microbiota. Identification of transconjugants by 16S rRNA gene sequencing and MALDI-TOF mass spectrometry revealed that the plasmids were predominantly acquired by Enterobacteriaceae such as E. coli and Hafnia alvei. Our experimental data demonstrate that exogenous E. coli of human or animal origin can readily transfer CMY-2-encoding IncI1 plasmids to the human fecal microbiota. Low amounts of exogenous strain are sufficient to ensure plasmid transfer if the strain is able to survive the gastric environment
Importance of microbial communities at the root-soil interface for extracellular polymeric substances and soil aggregation in semiarid grasslands
Prokaryotic community composition and extracellular polymeric substances affect soil microaggregation in carbonate containing semiarid grasslands
Simple discovery of bacterial biocatalysts from environmental samples through functional metaproteomics
Surface flux evolution constraints for flux transport dynamos
The surface flux transport (SFT) model of solar magnetic fields involves
empirically well-constrained velocity and magnetic fields. The basic evolution
of the Sun's large-scale surface magnetic field is well described by this
model. The azimuthally averaged evolution of the SFT model can be compared to
the surface evolution of the flux transport dynamo (FTD), and the evolution of
the SFT model can be used to constrain several near-surface properties of the
FTD model.
We compared the results of the FTD model with different upper boundary
conditions and diffusivity profiles against the results of the SFT model. Among
the ingredients of the FTD model, downward pumping of magnetic flux, related to
a positive diffusivity gradient, has a significant effect in slowing down the
diffusive radial transport of magnetic flux through the solar surface. Provided
the pumping was strong enough to give rise to a downflow of a magnetic Reynolds
number of 5 in the near-surface boundary layer, the FTD using a vertical
boundary condition matches the SFT model based on the average velocities above
the boundary layer. The FTD model with a potential field were unable to match
the SFT results.Comment: Accepted for A&
Small-scale solar magnetic fields
As we resolve ever smaller structures in the solar atmosphere, it has become
clear that magnetism is an important component of those small structures.
Small-scale magnetism holds the key to many poorly understood facets of solar
magnetism on all scales, such as the existence of a local dynamo, chromospheric
heating, and flux emergence, to name a few. Here, we review our knowledge of
small-scale photospheric fields, with particular emphasis on quiet-sun field,
and discuss the implications of several results obtained recently using new
instruments, as well as future prospects in this field of research.Comment: 43 pages, 18 figure
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