221 research outputs found
Microstencils to generate defined, multi-species patterns of bacteria
Citation: Timm, C. M., Hansen, R. R., Doktycz, M. J., Retterer, S. T., & Pelletier, D. A. (2015). Microstencils to generate defined, multi-species patterns of bacteria. Biomicrofluidics, 9(6). doi:10.1063/1.4935938Microbial communities are complex heterogeneous systems that are influenced by physical and chemical interactions with their environment, host, and community members. Techniques that facilitate the quantitative evaluation of how microscale organization influences the morphogenesis of multispecies communities could provide valuable insights into the dynamic behavior and organization of natural communities, the design of synthetic environments for multispecies culture, and the engineering of artificial consortia. In this work, we demonstrate a method for patterning microbes into simple arrangements that allow the quantitative measurement of growth dynamics as a function of their proximity to one another. The method combines parylene-based liftoff techniques with microfluidic delivery to simultaneously pattern multiple bacterial species with high viability using low-cost, customizable methods. Quantitative measurements of bacterial growth for two competing isolates demonstrate that spatial coordination can play a critical role in multispecies growth and structure. © 2015 AIP Publishing LLC
Modes of Multiple Star Formation
This paper argues that star forming environments should be classified into
finer divisions than the traditional isolated and clustered modes. Using the
observed set of galactic open clusters and theoretical considerations regarding
cluster formation, we estimate the fraction of star formation that takes place
within clusters. We find that less than 10% of the stellar population
originates from star forming regions destined to become open clusters,
confirming earlier estimates. The smallest clusters included in the
observational surveys (having at least N=100 members) roughly coincide with the
smallest stellar systems that are expected to evolve as clusters in a dynamical
sense. We show that stellar systems with too few members N < N_\star have
dynamical relaxation times that are shorter than their formation times (1-2
Myr), where the critical number of stars N_\star \approx 100. Our results
suggest that star formation can be characterized by (at least) three principal
modes: I. isolated singles and binaries, II. groups (N<N_\star), and III.
clusters (N>N_\star). Many -- if not most -- stars form through the
intermediate mode in stellar groups with 10<N<100. Such groups evolve and
disperse much more rapidly than open clusters; groups also have a low
probability of containing massive stars and are unaffected by supernovae and
intense ultraviolet radiation fields. Because of their short lifetimes and
small stellar membership, groups have relatively little effect on the star
formation process (on average) compared to larger open clusters.Comment: accepted to The Astrophysical Journa
Multi-Species Test of Ion Cyclotron Resonance Heating at High Altitudes
Observations of ion distributions and plasma waves obtained by the Dynamics Explorer 1 satellite in the high-altitude, nightside auroral zone are used to study ion energization for three ion species. A number of theoretical models have been proposed to account for the transverse heating of these ion populations. One of these, the ion cyclotron resonance heating (ICRH) mechanism, explains ion conic formation through ion cyclotron resonance with broadband electromagnetic wave turbulence in the vicinity of the characteristic ion cyclotron frequency. The cyclotron resonant heating of the ions by low-frequency electromagnetic waves is an important energy source for the transport of ions from the ionosphere to the magnetosphere. In this paper we test the applicability of the ICRH mechanism to three simultaneously heated and accelerated ion species by modelling the ion conic formation in terms of a resonant wave-particle interaction in which the ions extract energy from the portion of the broadband electromagnetic wave spectrum which includes the ion cyclotron frequency. Using a Monte Carlo technique we evaluate the ion heating produced by the electromagnetic turbulence at low frequencies and find that the wave amplitudes near the ion cyclotron frequencies are sufficient to explain the observed ion energies
Multi-Species Test of Ion Cyclotron Resonance Heating at High Altitudes
Observations of ion distributions and plasma waves obtained by the Dynamics Explorer 1 satellite in the high-altitude, nightside auroral zone are used to study ion energization for three ion species. A number of theoretical models have been proposed to account for the transverse heating of these ion populations. One of these, the ion cyclotron resonance heating (ICRH) mechanism, explains ion conic formation through ion cyclotron resonance with broadband electromagnetic wave turbulence in the vicinity of the characteristic ion cyclotron frequency. The cyclotron resonant heating of the ions by low- frequency electromagnetic waves is an important energy source for the transport of ions from the ionosphere to the magnetosphere. In this paper we test the applicability of the ICRH mechanism to three simultaneously heated and accelerated ion species by modelling the ion conic formation in terms of a resonant wave-particle interaction in which the ions extract energy from the portion of the broadband electromagnetic wave spectrum which includes the ion cyclotron frequency. Using a Monte Carlo technique we evaluate the ion heating produced by the electromagnetic turbulence at low frequencies and find that the wave amplitudes near the ion cyclotron frequencies are sufficient to explain the observed ion energies
Stochastic Assembly of Bacteria in Microwell Arrays Reveals the Importance of Confinement in Community Development
Citation: Hansen, R. H., Timm, A. C., Timm, C. M., Bible, A. N., Morrell-Falvey, J. L., Pelletier, D. A., . . . Retterer, S. T. (2016). Stochastic Assembly of Bacteria in Microwell Arrays Reveals the Importance of Confinement in Community Development. Plos One, 11(5), 18. doi:10.1371/journal.pone.0155080The structure and function of microbial communities is deeply influenced by the physical and chemical architecture of the local microenvironment and the abundance of its community members. The complexity of this natural parameter space has made characterization of the key drivers of community development difficult. In order to facilitate these characterizations, we have developed a microwell platform designed to screen microbial growth and interactions across a wide variety of physical and initial conditions. Assembly of microbial communities into microwells was achieved using a novel biofabrication method that exploits well feature sizes for control of innoculum levels. Wells with incrementally smaller size features created populations with increasingly larger variations in inoculum levels. This allowed for reproducible growth measurement in large (20 mu m diameter) wells, and screening for favorable growth conditions in small (5, 10 mu m diameter) wells. We demonstrate the utility of this approach for screening and discovery using 5 mu m wells to assemble P. aeruginosa colonies across a broad distribution of innoculum levels, and identify those conditions that promote the highest probability of survivial and growth under spatial confinement. Multi-member community assembly was also characterized to demonstrate the broad potential of this platform for studying the role of member abundance on microbial competition, mutualism and community succession
Observations and Simulations of Formation of Broad Plasma Depletions Through Merging Process
Broad plasma depletions in the equatorial ionosphere near dawn are region in which the plasma density is reduced by 1-3 orders of magnitude over thousands of kilometers in longitude. This phenomenon is observed repeatedly by the Communication/Navigation Outage Forecasting System (C/NOFS) satellite during deep solar minimum. The plasma flow inside the depletion region can be strongly upward. The possible causal mechanism for the formation of broad plasma depletions is that the broad depletions result from merging of multiple equatorial plasma bubbles. The purpose of this study is to demonstrate the feasibility of the merging mechanism with new observations and simulations. We present C/NOFS observations for two cases. A series of plasma bubbles is first detected by C/NOFS over a longitudinal range of 3300-3800 km around midnight. Each of the individual bubbles has a typical width of approx 100 km in longitude, and the upward ion drift velocity inside the bubbles is 200-400 m/s. The plasma bubbles rotate with the Earth to the dawn sector and become broad plasma depletions. The observations clearly show the evolution from multiple plasma bubbles to broad depletions. Large upward plasma flow occurs inside the depletion region over 3800 km in longitude and exists for approx 5 h. We also present the numerical simulations of bubble merging with the physics-based low-latitude ionospheric model. It is found that two separate plasma bubbles join together and form a single, wider bubble. The simulations show that the merging process of plasma bubbles can indeed occur in incompressible ionospheric plasma. The simulation results support the merging mechanism for the formation of broad plasma depletions
Development of transparent microwell arrays for optical monitoring and dissection of microbial communities
Citation: Halsted, M., Wilmoth, J. L., Briggs, P. A., Hansen, R. R., Briggs, D. P., Timm, A. C., & Retterer, S. T. (2016). Development of transparent microwell arrays for optical monitoring and dissection of microbial communities. Journal of Vacuum Science & Technology B, 34(6), 5. doi:10.1116/1.4962739Microbial communities are incredibly complex systems that dramatically and ubiquitously influence our lives. They help to shape our climate and environment, impact agriculture, drive business, and have a tremendous bearing on healthcare and physical security. Spatial confinement, as well as local variations in physical and chemical properties, affects development and interactions within microbial communities that occupy critical niches in the environment. Recent work has demonstrated the use of silicon based microwell arrays, combined with parylene lift-off techniques, to perform both deterministic and stochastic assembly of microbial communities en masse, enabling the high-throughput screening of microbial communities for their response to growth in confined environments under different conditions. The implementation of a transparent microwell array platform can expand and improve the imaging modalities that can be used to characterize these assembled communities. Here, the fabrication and characterization of a next generation transparent microwell array is described. The transparent arrays, comprised of SU-8 patterned on a glass coverslip, retain the ability to use parylene lift-off by integrating a low temperature atomic layer deposition of silicon dioxide into the fabrication process. This silicon dioxide layer prevents adhesion of the parylene material to the patterned SU-8, facilitating dry lift-off, and maintaining the ability to easily assemble microbial communities within the microwells. These transparent microwell arrays can screen numerous community compositions using continuous, high resolution, imaging. The utility of the design was successfully demonstrated through the stochastic seeding and imaging of green fluorescent protein expressing Escherichia coli using both fluorescence and brightfield microscopies. (C) 2016 American Vacuum Society
The diagnosis of metachromatic leucodystrophy during life: metachromatic lipids in saliva and cerebrospinal fluid sediments and in the parotid glands
The formation of very wide binaries during the star cluster dissolution phase
Over the past few decades, numerous wide (>1000 au) binaries in the Galactic
field and halo have been discovered. Their existence cannot be explained by the
process of star formation or by dynamical interactions in the field, and their
origin has long been a mystery. We explain the origin of these wide binaries by
formation during the dissolution phase of young star clusters: an initially
unbound pair of stars may form a binary when their distance in phase-space is
small. Using N-body simulations, we find that the resulting wide binary
fraction in the semi-major axis range 1000 au - 0.1 pc for individual clusters
is 1-30%, depending on the initial conditions. The existence of numerous wide
binaries in the field is consistent with observational evidence that most
clusters start out with a large degree of substructure. The wide binary
fraction decreases strongly with increasing cluster mass, and the semi-major
axis of the newly formed binaries is determined by the initial cluster size.
The resulting eccentricity distribution is thermal, and the mass ratio
distribution is consistent with gravitationally-focused random pairing. As a
large fraction of the stars form in primordial binaries, we predict that a
large number of the observed 'wide binaries' are in fact triple or quadruple
systems. By integrating over the initial cluster mass distribution, we predict
a binary fraction of a few per cent in the semi-major axis range 1000 au - 0.1
pc in the Galactic field, which is smaller than the observed wide binary
fraction. However, this discrepancy may be solved when we consider a broad
range of cluster morphologies.Comment: 14 pages, 12 figures, accepted by MNRA
Orbit Determination of Close Binary Systems using Lucky Imaging
We present relative positions of visual binaries observed during 2009 with
the FastCam "lucky-imaging" camera at the 1.5-m Carlos Sanchez Telescope (TCS)
at the Observatorio del Teide. We obtained 424 CCD observations (averaged in
198 mean relative positions) of 157 binaries with angular separations in the
range 0.14-15.40", with a median separation of 0.51". For a given system, each
CCD image represents the sum of the best 10-25% images from 1000-5000
short-exposure frames. Derived internal errors were 7 mas in r and 1.2^{\circ}
(9 mas) in q. When comparing to systems with very well-known orbits, we find
that the rms deviation in r residuals is 23 mas, while the rms deviation in q
residuals is 0.73 deg/r. We confirmed 18 Hipparcos binaries and we report new
companions to BVD 36 A and J 621 B. For binaries with preliminary orbital
parameters, the relative radial velocity was estimated as well. We also present
four new revised orbits computed for LDS 873, BU 627 A-BC, BU 628 and HO 197
AB. This work is the first results on visual binaries using the FastCam
lucky-imaging camera.Comment: 23 pages, 10 figures, 14 tables, accepted August 18th, 2011, to be
published in MNRA
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