Landfill leachate treatment using a rotating biological contactor and an upward-flow anaerobic sludge bed reactor

DOE Office of Scientific and Technical Information (OSTI.GOV)

Castillo, E.; Vergara, M.; Moreno, Y.

2007-07-01

This paper describes the feasibility of an aerobic system (rotating biological contactor, RBC) and a biological anaerobic system (upward-flow anaerobic sludge bed reactor) at small scale for the treatment of a landfill leachate. In the first phase of the aerobic system study, a cyclic-batch RBC system was used to select perforated acetate discs among three different acetate disc configurations. These discs were chosen on the basis of high COD removal (65%) and biological stability. In the second phase, the RBC system (using four stages) was operated continuously at different hydraulic retention times (HRT), at different rotational speeds, and with varyingmore » organic concentrations of the influent leachate (2500-9000 mg L{sup -1}). Forty percent of the total surface area of each perforated disc was submerged in the leachate. A COD removal of about 52% was obtained at an HRT of 24 h and a rotational speed of 6 rpm. For the anaerobic system, the reactor was evaluated with a volumetric organic load of 3273 g-COD m{sup -3} day{sup -1} at an HRT of 54, 44, 39, 24 and 17 h. At these conditions, the system reached COD removal efficiencies of 62%, 61%, 59%, 44% and 24%, respectively.« less

High-resolution LES of the rotating stall in a reduced scale model pump-turbine

NASA Astrophysics Data System (ADS)

Pacot, Olivier; Kato, Chisachi; Avellan, François

2014-03-01

Extending the operating range of modern pump-turbines becomes increasingly important in the course of the integration of renewable energy sources in the existing power grid. However, at partial load condition in pumping mode, the occurrence of rotating stall is critical to the operational safety of the machine and on the grid stability. The understanding of the mechanisms behind this flow phenomenon yet remains vague and incomplete. Past numerical simulations using a RANS approach often led to inconclusive results concerning the physical background. For the first time, the rotating stall is investigated by performing a large scale LES calculation on the HYDRODYNA pump-turbine scale model featuring approximately 100 million elements. The computations were performed on the PRIMEHPC FX10 of the University of Tokyo using the overset Finite Element open source code FrontFlow/blue with the dynamic Smagorinsky turbulence model and the no-slip wall condition. The internal flow computed is the one when operating the pump-turbine at 76% of the best efficiency point in pumping mode, as previous experimental research showed the presence of four rotating cells. The rotating stall phenomenon is accurately reproduced for a reduced Reynolds number using the LES approach with acceptable computing resources. The results show an excellent agreement with available experimental data from the reduced scale model testing at the EPFL Laboratory for Hydraulic Machines. The number of stall cells as well as the propagation speed corroborates the experiment.

pGLO Mutagenesis: A Laboratory Procedure in Molecular Biology for Biology Students

ERIC Educational Resources Information Center

Bassiri, Eby A.

2011-01-01

A five-session laboratory project was designed to familiarize or increase the laboratory proficiency of biology students and others with techniques and instruments commonly used in molecular biology research laboratories and industries. In this project, the EZ-Tn5 transposon is used to generate and screen a large number of cells transformed with…

Dimensionless size scaling of intrinsic rotation in DIII-D

DOE PAGES

deGrassie, John S.; Solomon, Wayne M.; Rice, J. E.; ...

2016-08-01

A dimensionless empirical scaling for intrinsic toroidal rotation is given; M A ~β Nρ*, where M A is the toroidal velocity divided by the Alfvén velocity, β N the usual normalized β value, and ρ* is the ion gyroradius divided by the minor radius. This scaling describes well experimental data from DIII-D, and also some published data from C-Mod and JET. The velocity used in this scaling is in an outer location in minor radius, outside of the interior core and inside of the large gradient edge region in H-mode conditions. Furthermore, this scaling establishes the basic magnitude of themore » intrinsic toroidal rotation and its relation to the rich variety of rotation profiles that can be realized for intrinsic conditions is discussed.« less

The Dissipation Rate Transport Equation and Subgrid-Scale Models in Rotating Turbulence

NASA Technical Reports Server (NTRS)

Rubinstein, Robert; Ye, Zhou

1997-01-01

The dissipation rate transport equation remains the most uncertain part of turbulence modeling. The difficulties arc increased when external agencies like rotation prevent straightforward dimensional analysis from determining the correct form of the modelled equation. In this work, the dissipation rate transport equation and subgrid scale models for rotating turbulence are derived from an analytical statistical theory of rotating turbulence. In the strong rotation limit, the theory predicts a turbulent steady state in which the inertial range energy spectrum scales as k(sup -2) and the turbulent time scale is the inverse rotation rate. This scaling has been derived previously by heuristic arguments.

Precision grip responses to unexpected rotational perturbations scale with axis of rotation.

PubMed

De Gregorio, Michael; Santos, Veronica J

2013-04-05

It has been established that rapid, pulse-like increases in precision grip forces ("catch-up responses") are elicited by unexpected translational perturbations and that response latency and strength scale according to the direction of linear slip relative to the hand as well as gravity. To determine if catch-up responses are elicited by unexpected rotational perturbations and are strength-, axis-, and/or direction-dependent, we imposed step torque loads about each of two axes which were defined relative to the subject's hand: the distal-proximal axis away from and towards the subject's palm, and the grip axis which connects the two fingertips. Precision grip responses were dominated initially by passive mechanics and then by active, unimodal catch-up responses. First dorsal interosseous activity, marking the start of the catch-up response, began 71-89 ms after the onset of perturbation. The onset latency, shape, and duration (217-231 ms) of the catch-up response were not affected by the axis, direction, or magnitude of the rotational perturbation, while strength was scaled by axis of rotation and slip conditions. Rotations about the grip axis that tilted the object away from the palm and induced rotational slip elicited stronger catch-up responses than rotations about the distal-proximal axis that twisted the object between the digits. To our knowledge, this study is the first to investigate grip responses to unexpected torque loads and to show characteristic, yet axis-dependent, catch-up responses for conditions other than pure linear slip. Copyright © 2013 Elsevier Ltd. All rights reserved.

Large-scale anisotropy in stably stratified rotating flows

DOE PAGES

Marino, R.; Mininni, P. D.; Rosenberg, D. L.; ...

2014-08-28

We present results from direct numerical simulations of the Boussinesq equations in the presence of rotation and/or stratification, both in the vertical direction. The runs are forced isotropically and randomly at small scales and have spatial resolutions of up tomore » $1024^3$ grid points and Reynolds numbers of $$\\approx 1000$$. We first show that solutions with negative energy flux and inverse cascades develop in rotating turbulence, whether or not stratification is present. However, the purely stratified case is characterized instead by an early-time, highly anisotropic transfer to large scales with almost zero net isotropic energy flux. This is consistent with previous studies that observed the development of vertically sheared horizontal winds, although only at substantially later times. However, and unlike previous works, when sufficient scale separation is allowed between the forcing scale and the domain size, the total energy displays a perpendicular (horizontal) spectrum with power law behavior compatible with $$\\sim k_\\perp^{-5/3}$$, including in the absence of rotation. In this latter purely stratified case, such a spectrum is the result of a direct cascade of the energy contained in the large-scale horizontal wind, as is evidenced by a strong positive flux of energy in the parallel direction at all scales including the largest resolved scales.« less

A Study of the Relative Effectiveness of Content and Process Centered Biology Laboratories for College Freshmen.

ERIC Educational Resources Information Center

Murphy, Glenn Wayne

The relative effectiveness of "content-centered" and "process-centered" biology laboratory courses in a freshman general biology course was investigated by administering the Nelson Biology Test, Science Attitude Scale, EPS II (a problem solving test), and an Interest Inventory at the beginning and end of the one quarter course. Course examination…

Stellar differential rotation and coronal time-scales

NASA Astrophysics Data System (ADS)

Gibb, G. P. S.; Jardine, M. M.; Mackay, D. H.

2014-10-01

We investigate the time-scales of evolution of stellar coronae in response to surface differential rotation and diffusion. To quantify this, we study both the formation time and lifetime of a magnetic flux rope in a decaying bipolar active region. We apply a magnetic flux transport model to prescribe the evolution of the stellar photospheric field, and use this to drive the evolution of the coronal magnetic field via a magnetofrictional technique. Increasing the differential rotation (i.e. decreasing the equator-pole lap time) decreases the flux rope formation time. We find that the formation time is dependent upon the lap time and the surface diffusion time-scale through the relation τ_Form ∝ √{τ_Lapτ_Diff}. In contrast, the lifetimes of flux ropes are proportional to the lap time (τLife∝τLap). With this, flux ropes on stars with a differential rotation of more than eight times the solar value have a lifetime of less than 2 d. As a consequence, we propose that features such as solar-like quiescent prominences may not be easily observable on such stars, as the lifetimes of the flux ropes which host the cool plasma are very short. We conclude that such high differential rotation stars may have very dynamical coronae.

Laboratory Rotational Spectroscopy of Astrophysical Interesting Diatomic Hydrides

NASA Astrophysics Data System (ADS)

Halfen, DeWayne; Ziurys, L.

2008-05-01

Diatomic hydride are among the most common molecular species in the interstellar medium (ISM). The low molecular mass and thus moments of inertia cause their rotational spectra to lie entirely in the submillimeter and far-infrared regions. Hence, the future airborne and space-borne platforms, such as SOFIA and Herschel, are primed to explore these prevalent molecules. However, in order to detect these species in the ISM, their rotational spectra must first be measured in the laboratory. Using submillimeter direct absorption methods in the Ziurys laboratory, we have recorded the spectra of several diatomic hydrides of astrophysical interest. We have measured the pure rotational spectrum of MnH (X7Σ+: N = 0 - 1) and MnD (N = 2 - 3), as well as the deuterium and carbon-13 isotopologues of CH, CD (X2Πr: N = 1 - 1 and 1 - 2) and 13CH (N = 1 - 1). Manganese hydride and deuteride were created in a DC discharge of H2 or D2 and manganese vapor, generated in a Broida-type oven. CD and 13CH were produced in an AC discharge of argon and CD4 or 13CH4. For MnH, the five strongest manganese hyperfine transitions were recorded in its N = 0 - 1 transition, each of which are additionally split by hydrogen hyperfine interactions. CD and 13CH also have multiple hyperfine components due to the D, 13C, and/or H atoms. The direct measurement of these fundamental transitions will allow for unambiguous astronomical detections. The results of these studies will be presented.

Laboratory Rotational Spectra of Silyl Isocyanide

NASA Astrophysics Data System (ADS)

Lee, K. L. K.; Gottlieb, C. A.; McCarthy, M. C.

2018-06-01

The rotational spectrum of silyl isocyanide (SiH3NC), an isomer of the well-studied silyl cyanide (SiH3CN), has been detected in the laboratory in a supersonic molecular beam, and the identification was confirmed by observations of the corresponding rotational transitions in the rare isotopic species {SiH}}3}15{NC} and SiH3N13C. Spectroscopic constants derived from 19 transitions between 11 and 35 GHz in the three lowest harmonically related rotational transitions in the K = 0 and 1 ladders of the normal isotopic species including the nitrogen nuclear quadrupole hyperfine constant allow the principal astronomical transitions of SiH3NC to be calculated to an uncertainty of about 4 km s‑1 in equivalent radial velocity, or within the FWHM of narrow spectral features in the inner region of IRC+10216 near 200 GHz. The concentration of SiH3NC in our molecular beam is three times less than SiH3CN, or about the same as the corresponding ratio of the isomeric pair SiNC and SiCN produced under similar conditions. Silyl isocyanide is an excellent candidate for astronomical detection, because the spectroscopic and chemical properties are very similar to SiH3CN, which was recently identified in the circumstellar envelope of IRC+10216 by Cernicharo et al. and of SiNC and SiCN in the same source.

Soil Physicochemical and Biological Properties of Paddy-Upland Rotation: A Review

PubMed Central

Lv, Teng-Fei; Chen, Yong; Westby, Anthony P.; Ren, Wan-Jun

2014-01-01

Paddy-upland rotation is an unavoidable cropping system for Asia to meet the increasing demand for food. The reduction in grain yields has increased the research interest on the soil properties of rice-based cropping systems. Paddy-upland rotation fields are unique from other wetland or upland soils, because they are associated with frequent cycling between wetting and drying under anaerobic and aerobic conditions; such rotations affect the soil C and N cycles, make the chemical speciation and biological effectiveness of soil nutrient elements varied with seasons, increase the diversity of soil organisms, and make the soil physical properties more difficult to analyze. Consequently, maintaining or improving soil quality at a desirable level has become a complicated issue. Therefore, fully understanding the soil characteristics of paddy-upland rotation is necessary for the sustainable development of the system. In this paper, we offer helpful insight into the effect of rice-upland combinations on the soil chemical, physical, and biological properties, which could provide guidance for reasonable cultivation management measures and contribute to the improvement of soil quality and crop yield. PMID:24995366

Tensions in the Biology Laboratory: What Are They?

ERIC Educational Resources Information Center

Tan, Aik-Ling

2008-01-01

The purpose of this paper is to identify tensions in teacher-student interaction in a high school biology laboratory. Using micro-analytic analysis of classroom talk, the interaction between the students and a teacher working in the biology laboratory session on "Reproduction in Plants" is studied. The two tensions highlighted here are…

Scaling of rotational inertia of primate mandibles.

PubMed

Ross, Callum F; Iriarte-Diaz, Jose; Platts, Ellen; Walsh, Treva; Heins, Liam; Gerstner, Geoffrey E; Taylor, Andrea B

2017-05-01

The relative importance of pendulum mechanics and muscle mechanics in chewing dynamics has implications for understanding the optimality criteria driving the evolution of primate feeding systems. The Spring Model (Ross et al., 2009b), which modeled the primate chewing system as a forced mass-spring system, predicted that chew cycle time would increase faster than was actually observed. We hypothesized that if mandibular momentum plays an important role in chewing dynamics, more accurate estimates of the rotational inertia of the mandible would improve the accuracy with which the Spring Model predicts the scaling of primate chew cycle period. However, if mass-related momentum effects are of negligible importance in the scaling of primate chew cycle period, this hypothesis would be falsified. We also predicted that greater "robusticity" of anthropoid mandibles compared with prosimians would be associated with higher moments of inertia. From computed tomography scans, we estimated the scaling of the moment of inertia (I j ) of the mandibles of thirty-one species of primates, including 22 anthropoid and nine prosimian species, separating I j into the moment about a transverse axis through the center of mass (I xx ) and the moment of the center of mass about plausible axes of rotation. We found that across primates I j increases with positive allometry relative to jaw length, primarily due to positive allometry of jaw mass and I xx , and that anthropoid mandibles have greater rotational inertia compared with prosimian mandibles of similar length. Positive allometry of I j of primate mandibles actually lowers the predictive ability of the Spring Model, suggesting that scaling of primate chew cycle period, and chewing dynamics in general, are more strongly influenced by factors other than scaling of inertial properties of the mandible, such as the dynamic properties of the jaw muscles and neural control. Differences in cycle period scaling between chewing and locomotion

Subgrid-scale models for large-eddy simulation of rotating turbulent channel flows

NASA Astrophysics Data System (ADS)

Silvis, Maurits H.; Bae, Hyunji Jane; Trias, F. Xavier; Abkar, Mahdi; Moin, Parviz; Verstappen, Roel

2017-11-01

We aim to design subgrid-scale models for large-eddy simulation of rotating turbulent flows. Rotating turbulent flows form a challenging test case for large-eddy simulation due to the presence of the Coriolis force. The Coriolis force conserves the total kinetic energy while transporting it from small to large scales of motion, leading to the formation of large-scale anisotropic flow structures. The Coriolis force may also cause partial flow laminarization and the occurrence of turbulent bursts. Many subgrid-scale models for large-eddy simulation are, however, primarily designed to parametrize the dissipative nature of turbulent flows, ignoring the specific characteristics of transport processes. We, therefore, propose a new subgrid-scale model that, in addition to the usual dissipative eddy viscosity term, contains a nondissipative nonlinear model term designed to capture transport processes, such as those due to rotation. We show that the addition of this nonlinear model term leads to improved predictions of the energy spectra of rotating homogeneous isotropic turbulence as well as of the Reynolds stress anisotropy in spanwise-rotating plane-channel flows. This work is financed by the Netherlands Organisation for Scientific Research (NWO) under Project Number 613.001.212.

The Role of Platelet Rich Plasma (PRP) and Other Biologics for Rotator Cuff Repair.

PubMed

Greenspoon, Joshua A; Moulton, Samuel G; Millett, Peter J; Petri, Maximilian

2016-01-01

Surgical treatment of rotator cuff tears has consistently demonstrated good clinical and functional outcomes. However, in some cases, the rotator cuff fails to heal. While improvements in rotator cuff constructs and biomechanics have been made, the role of biologics to aid healing is currently being investigated. A selective literature search was performed and personal surgical experiences are reported. Biologic augmentation of rotator cuff repairs can for example be performed wtableith platelet-rich plasma (PRP) and mesenchymal stem cells (MSCs). Clinical results on PRP application have been controversial. Application of MSCs has shown promise in animal studies, but clinical data on its effectiveness is presently lacking. The role of Matrix Metalloproteinase (MMP) inhibitors is another interesting field for potential targeted drug therapy after rotator cuff repair. Large randomized clinical studies need to confirm the benefit of these approaches, in order to eventually lower retear rates and improve clinical outcomes after rotator cuff repair.

INNOVATIONS IN EQUIPMENT AND TECHNIQUES FOR THE BIOLOGY TEACHING LABORATORY.

ERIC Educational Resources Information Center

BARTHELEMY, RICHARD E.; AND OTHERS

LABORATORY TECHNIQUES AND EQUIPMENT APPROPRIATE FOR TEACHING BIOLOGICAL SCIENCE CURRICULUM STUDY BIOLOGY ARE EMPHASIZED. MAJOR CATEGORIES INCLUDE (1) LABORATORY FACILITIES, (2) EQUIPMENT AND TECHNIQUES FOR CULTURE OF MICRO-ORGANISMS, (3) LABORATORY ANIMALS AND THEIR HOUSING, (4) TECHNIQUES FOR STUDYING PLANT GROWTH, (5) TECHNIQUES FOR STUDYING…

Nursing Job Rotation Stress Scale development and psychometric evaluation.

PubMed

Huang, Shan; Lin, Yu-Hua; Kao, Chia-Chan; Yang, Hsing-Yu; Anne, Ya-Li; Wang, Cheng-Hua

2016-01-01

The aim of this study was to develop and assess the reliability and validity of the Nurse Job Rotation Stress Scale (NJRS). A convenience sampling method was utilized to recruit two groups of nurses (n = 150 and 253) from a 2751 bed medical center in southern Taiwan. The NJRS scale was developed and used to evaluate the NJRS. Explorative factor analysis revealed that three factors accounted for 74.11% of the explained variance. Confirmatory factor analysis validity testing supported the three factor structure and the construct validity. Cronbach's alpha for the 10 item model was 0.87 and had high linearity. The NJRS can be considered a reliable and valid scale for the measurement of nurse job rotation stress for nursing management and research purposes. © 2015 Japan Academy of Nursing Science.

Position, scale, and rotation invariant holographic associative memory

NASA Astrophysics Data System (ADS)

Fielding, Kenneth H.; Rogers, Steven K.; Kabrisky, Matthew; Mills, James P.

1989-08-01

This paper describes the development and characterization of a holographic associative memory (HAM) system that is able to recall stored objects whose inputs were changed in position, scale, and rotation. The HAM is based on the single iteration model described by Owechko et al. (1987); however, the system described uses a self-pumped BaTiO3 phase conjugate mirror, rather than a degenerate four-wave mixing proposed by Owechko and his coworkers. The HAM system can store objects in a position, scale, and rotation invariant feature space. The angularly multiplexed diffuse Fourier transform holograms of the HAM feature space are characterized as the memory unit; distorted input objects are correlated with the hologram, and the nonlinear phase conjugate mirror reduces cross-correlation noise and provides object discrimination. Applications of the HAM system are presented.

Rotation And Scale Invariant Object Recognition Using A Distributed Associative Memory

NASA Astrophysics Data System (ADS)

Wechsler, Harry; Zimmerman, George Lee

1988-04-01

This paper describes an approach to 2-dimensional object recognition. Complex-log conformal mapping is combined with a distributed associative memory to create a system which recognizes objects regardless of changes in rotation or scale. Recalled information from the memorized database is used to classify an object, reconstruct the memorized version of the object, and estimate the magnitude of changes in scale or rotation. The system response is resistant to moderate amounts of noise and occlusion. Several experiments, using real, gray scale images, are presented to show the feasibility of our approach.

Concurrent Spectral and Separation-space Views of Small-scale Anisotropy in Rotating Turbulence

NASA Astrophysics Data System (ADS)

Vallefuoco, D.; Godeferd, F. S.; Naso, A.

2017-12-01

Rotating turbulence is central in astrophysical, geophysical and industrial flows. A background rotation about a fixed axis introduces significant anisotropy in the turbulent dynamics through both linear and nonlinear mechanisms. The flow regime can be characterized by two independent non-dimensional parameters, e.g. the Reynolds and Rossby numbers or, equivalently, the ratio of the integral scale to the Kolmogorov scale L/η, and the ratio rZ/L, where rZ=√(ɛ/Ω3) is the Zeman scale, ɛ is the mean dissipation and Ω is the rotation rate. rZ is the scale at which the inertial timescale equals the rotation timescale. According to classical dimensional arguments (Zeman 1994), if the Reynolds number is large, scales much larger than rZ are mainly affected by rotation while scales much smaller than rZare dominated by the nonlinear dynamics and are expected to recover isotropy. In this work, we characterize incompressible rotating turbulence scale- and direction-dependent anisotropy through high Reynolds number pseudo-spectral forced DNS. We first focus on energy direction-dependent spectra in Fourier space: we show that a high anisotropy small wavenumber range and a low anisotropy large wavenumber range arise. Importantly, anisotropy arises even at scales much smaller than rZ and no small-scale isotropy is observed in our DNS, in contrast with previous numerical results (Delache et al. 2014, Mininni et al. 2012) but in agreement with experiments (Lamriben et al. 2011). Then, we estimate the value of the threshold wavenumber kT between these two anisotropic ranges for a large number of runs, and show that it corresponds to the scale at which dissipative effects are of the same order as those of rotation. Therefore, in the asymptotic inviscid limit, kT tends to infinity and only the low-wavenumber anisotropic range should persist. In this range anisotropy decreases with wavenumber, which is consistent with the classical Zeman argument. In addition, anisotropy at

Optical micromanipulation methods for controlled rotation, transportation, and microinjection of biological objects.

PubMed

Mohanty, S K; Gupta, P K

2007-01-01

The use of laser microtools for rotation and controlled transport of microscopic biological objects and for microinjection of exogenous material in cells is discussed. We first provide a brief overview of the laser tweezers-based methods for rotation or orientation of microscopic objects. Particular emphasis is placed on the methods that are more suitable for the manipulation of biological objects, and the use of these for two-dimensional (2D) and 3D rotations/orientations of intracellular objects is discussed. We also discuss how a change in the shape of a red blood cell (RBC) suspended in hypertonic buffer leads to its rotation when it is optically tweezed. The potential use of this approach for the diagnosis of malaria is also illustrated. The use of a line tweezers having an asymmetric intensity distribution about the center of its major axis for simultaneous transport of microscopic objects, and the successful use of this approach for induction, enhancement, and guidance of neuronal growth cones is presented next. Finally, we describe laser microbeam-assisted microinjection of impermeable drugs into cells and also briefly discuss possible adverse effects of the laser trap or microbeams on cells.

Rotation invariant fast features for large-scale recognition

NASA Astrophysics Data System (ADS)

Takacs, Gabriel; Chandrasekhar, Vijay; Tsai, Sam; Chen, David; Grzeszczuk, Radek; Girod, Bernd

2012-10-01

We present an end-to-end feature description pipeline which uses a novel interest point detector and Rotation- Invariant Fast Feature (RIFF) descriptors. The proposed RIFF algorithm is 15× faster than SURF1 while producing large-scale retrieval results that are comparable to SIFT.2 Such high-speed features benefit a range of applications from Mobile Augmented Reality (MAR) to web-scale image retrieval and analysis.

Nestedness across biological scales

PubMed Central

Marquitti, Flavia M. D.; Raimundo, Rafael L. G.; Sebastián-González, Esther; Coltri, Patricia P.; Perez, S. Ivan; Brandt, Débora Y. C.; Nunes, Kelly; Daura-Jorge, Fábio G.; Floeter, Sergio R.; Guimarães, Paulo R.

2017-01-01

Biological networks pervade nature. They describe systems throughout all levels of biological organization, from molecules regulating metabolism to species interactions that shape ecosystem dynamics. The network thinking revealed recurrent organizational patterns in complex biological systems, such as the formation of semi-independent groups of connected elements (modularity) and non-random distributions of interactions among elements. Other structural patterns, such as nestedness, have been primarily assessed in ecological networks formed by two non-overlapping sets of elements; information on its occurrence on other levels of organization is lacking. Nestedness occurs when interactions of less connected elements form proper subsets of the interactions of more connected elements. Only recently these properties began to be appreciated in one-mode networks (where all elements can interact) which describe a much wider variety of biological phenomena. Here, we compute nestedness in a diverse collection of one-mode networked systems from six different levels of biological organization depicting gene and protein interactions, complex phenotypes, animal societies, metapopulations, food webs and vertebrate metacommunities. Our findings suggest that nestedness emerge independently of interaction type or biological scale and reveal that disparate systems can share nested organization features characterized by inclusive subsets of interacting elements with decreasing connectedness. We primarily explore the implications of a nested structure for each of these studied systems, then theorize on how nested networks are assembled. We hypothesize that nestedness emerges across scales due to processes that, although system-dependent, may share a general compromise between two features: specificity (the number of interactions the elements of the system can have) and affinity (how these elements can be connected to each other). Our findings suggesting occurrence of nestedness

Generation of large-scale vorticity in rotating stratified turbulence with inhomogeneous helicity: mean-field theory

NASA Astrophysics Data System (ADS)

Kleeorin, N.

2018-06-01

We discuss a mean-field theory of the generation of large-scale vorticity in a rotating density stratified developed turbulence with inhomogeneous kinetic helicity. We show that the large-scale non-uniform flow is produced due to either a combined action of a density stratified rotating turbulence and uniform kinetic helicity or a combined effect of a rotating incompressible turbulence and inhomogeneous kinetic helicity. These effects result in the formation of a large-scale shear, and in turn its interaction with the small-scale turbulence causes an excitation of the large-scale instability (known as a vorticity dynamo) due to a combined effect of the large-scale shear and Reynolds stress-induced generation of the mean vorticity. The latter is due to the effect of large-scale shear on the Reynolds stress. A fast rotation suppresses this large-scale instability.

Characterization of an Autotrophic Nitrogen-Removing Biofilm from a Highly Loaded Lab-Scale Rotating Biological Contactor

PubMed Central

Pynaert, Kris; Smets, Barth F.; Wyffels, Stijn; Beheydt, Daan; Siciliano, Steven D.; Verstraete, Willy

2003-01-01

In this study, a lab-scale rotating biological contactor (RBC) treating a synthetic NH4+ wastewater devoid of organic carbon and showing high N losses was examined for several important physiological and microbial characteristics. The RBC biofilm removed 89% ± 5% of the influent N at the highest surface load of approximately 8.3 g of N m−2 day−1, with N2 as the main end product. In batch tests, the RBC biomass showed good aerobic and anoxic ammonium oxidation (147.8 ± 7.6 and 76.5 ± 6.4 mg of NH4+-N g of volatile suspended solids [VSS]−1 day−1, respectively) and almost no nitrite oxidation (< 1 mg of N g of VSS−1 day−1). The diversity of aerobic ammonia-oxidizing bacteria (AAOB) and planctomycetes in the biofilm was characterized by cloning and sequencing of PCR-amplified partial 16S rRNA genes. Phylogenetic analysis of the clones revealed that the AAOB community was fairly homogeneous and was dominated by Nitrosomonas-like species. Close relatives of the known anaerobic ammonia-oxidizing bacterium (AnAOB) Kuenenia stuttgartiensis dominated the planctomycete community and were most probably responsible for anoxic ammonium oxidation in the RBC. Use of a less specific planctomycete primer set, not amplifying the AnAOB, showed a high diversity among other planctomycetes, with representatives of all known groups present in the biofilm. The spatial organization of the biofilm was characterized using fluorescence in situ hybridization (FISH) with confocal scanning laser microscopy (CSLM). The latter showed that AAOB occurred side by side with putative AnAOB (cells hybridizing with probe PLA46 and AMX820/KST1275) throughout the biofilm, while other planctomycetes hybridizing with probe PLA886 (not detecting the known AnAOB) were present as very conspicuous spherical structures. This study reveals that long-term operation of a lab-scale RBC on a synthetic NH4+ wastewater devoid of organic carbon yields a stable biofilm in which two bacterial groups, thought

Distribution of Facial Exposure to Non-melanoma Biologically Effective UV Irradiance Changes by Rotation Angles.

PubMed

Wang, Fang; Yu, Jia Ming; Yang, De Qi; Gao, Qian; Hua, Hui; Liu, Yang

2017-02-01

To show the distribution of facial exposure to non-melanoma biologically effective UV irradiance changes by rotation angles. This study selected the cheek, nose, and forehead as representative facial sites for UV irradiance measurements, which were performed using a rotating manikin and a spectroradiometer. The measured UV irradiance was weighted using action spectra to calculate the biologically effective UV irradiances that cause non-melanoma (UVBEnon-mel) skin cancer. The biologically effective UV radiant exposure (HBEnon-mel) was calculated by summing the UVBEnon-mel data collected over the exposure period. This study revealed the following: (1) the maximum cheek, nose and forehead exposure UVA and UVB irradiance times and solar elevation angles (SEA) differed from those of the ambient UV irradiance and were influenced by the rotation angles; (2) the UV irradiance exposure increased in the following order: cheek < nose < forehead; (3) the distribution of UVBEnon-mel irradiance differed from that of unweighted UV radiation (UVR) and was influenced by the rotation angles and exposure times; and (4) the maximum percentage decreases in the UVBEnon-mel radiant exposure for the cheek, nose and forehead from 0°to 180°were 48.41%, 69.48% and 71.71%, respectively. Rotation angles relative to the sun influence the face's exposure to non-melanoma biologically effective UV. Copyright © 2017 The Editorial Board of Biomedical and Environmental Sciences. Published by China CDC. All rights reserved.

Laboratory Experiments on Rotation of Micron Size Cosmic Dust Grains with Radiation

NASA Technical Reports Server (NTRS)

Abbas, M. M.; Craven, P. D.; Spann, J. F.; Tankosic, D.; LeClair, A.; Gallagher, D. L.; West, E.; Weingartner, J.; Witherow, W. K.

2004-01-01

The processes and mechanisms involved in the rotation and alignment of interstellar dust grains have been of great interest in astrophysics ever since the surprising discovery of the polarization of starlight more than half a century ago. Numerous theories, detailed mathematical models and numerical studies of grain rotation and alignment along the Galactic magnetic field have been presented in the literature. In particular, the subject of grain rotation and alignment by radiative torques has been shown to be of particular interest in recent years. However, despite many investigations, a satisfactory theoretical understanding of the processes involved in grain rotation and alignment has not been achieved. As there appears to be no experimental data available on this subject, we have carried out some unique experiments to illuminate the processes involved in rotation of dust grains in the interstellar medium. In this paper we present the results of some preliminary laboratory experiments on the rotation of individual micron/submicron size nonspherical dust grains levitated in an electrodynamic balance evacuated to pressures of approx. 10(exp -3) to 10(exp -5) torr. The particles are illuminated by laser light at 5320 A, and the grain rotation rates are obtained by analyzing the low frequency (approx. 0-100 kHz) signal of the scattered light detected by a photodiode detector. The rotation rates are compared with simple theoretical models to retrieve some basic rotational parameters. The results are examined in the light of the current theories of alignment.

The Rotator Cuff Organ: Integrating Developmental Biology, Tissue Engineering, and Surgical Considerations to Treat Chronic Massive Rotator Cuff Tears.

PubMed

Rothrauff, Benjamin B; Pauyo, Thierry; Debski, Richard E; Rodosky, Mark W; Tuan, Rocky S; Musahl, Volker

2017-08-01

The torn rotator cuff remains a persistent orthopedic challenge, with poor outcomes disproportionately associated with chronic, massive tears. Degenerative changes in the tissues that comprise the rotator cuff organ, including muscle, tendon, and bone, contribute to the poor healing capacity of chronic tears, resulting in poor function and an increased risk for repair failure. Tissue engineering strategies to augment rotator cuff repair have been developed in an effort to improve rotator cuff healing and have focused on three principal aims: (1) immediate mechanical augmentation of the surgical repair, (2) restoration of muscle quality and contractility, and (3) regeneration of native enthesis structure. Work in these areas will be reviewed in sequence, highlighting the relevant pathophysiology, developmental biology, and biomechanics, which must be considered when designing therapeutic applications. While the independent use of these strategies has shown promise, synergistic benefits may emerge from their combined application given the interdependence of the tissues that constitute the rotator cuff organ. Furthermore, controlled mobilization of augmented rotator cuff repairs during postoperative rehabilitation may provide mechanotransductive cues capable of guiding tissue regeneration and restoration of rotator cuff function. Present challenges and future possibilities will be identified, which if realized, may provide solutions to the vexing condition of chronic massive rotator cuff tears.

Assessment of soil biological quality index (QBS-ar) in different crop rotation systems in paddy soils

NASA Astrophysics Data System (ADS)

Nadimi-Goki, Mandana; Bini, Claudio; haefele, Stephan

2013-04-01

New methods, based on soil microarthropods for soil quality evaluation have been proposed by some Authors. Soil microarthropods demonstrated to respond sensitively to land management practices and to be correlated with beneficial soil functions. QBS Index (QBS-ar) is calculated on the basis of microarthropod groups present in a soil sample. Each biological form found in the sample receives a score from 1 to 20 (eco-morphological index, EMI), according to its adaptation to soil environment. The objective of this study was to evaluate the effect of various rotation systems and sampling periods on soil biological quality index, in paddy soils. For the purpose of this study surface soil samples (0-15 cm depth) were collected from different rotation systems (rice-rice-rice, soya-rice-rice, fallow-rice and pea-soya-rice) with three replications, and four sampling times in April (after field preparation), June (after seedling), August (after tillering stage) and October (after rice harvesting). The study area is located in paddy soils of Verona area, Northern Italy. Soil microarthropods from a total of 48 samples were extracted and classified according to the Biological Quality of Soil Index (QBS-ar) method. In addition soil moisture, Cumulative Soil Respiration and pH were measured in each site. More diversity of microarthropod groups was found in June and August sampling times. T-test results between different rotations did not show significant differences while the mean difference between rotation and different sampling times is statistically different. The highest QBS-ar value was found in the fallow-rice rotation in the forth soil sampling time. Similar value was found in soya-rice-rice rotation. Result of linear regression analysis indicated that there is significant correlation between QBS-ar values and Cumulative Soil Respiration. Keywords: soil biological quality index (QBS-ar), Crop Rotation System, paddy soils, Italy

Allometric Scaling in Biology

NASA Astrophysics Data System (ADS)

Banavar, Jayanth

2009-03-01

The unity of life is expressed not only in the universal basis of inheritance and energetics at the molecular level, but also in the pervasive scaling of traits with body size at the whole-organism level. More than 75 years ago, Kleiber and Brody and Proctor independently showed that the metabolic rates, B, of mammals and birds scale as the three-quarter power of their mass, M. Subsequent studies showed that most biological rates and times scale as M-1/4 and M^1/4 respectively, and that these so called quarter-power scaling relations hold for a variety of organisms, from unicellular prokaryotes and eukaryotes to trees and mammals. The wide applicability of Kleiber's law, across the 22 orders of magnitude of body mass from minute bacteria to giant whales and sequoias, raises the hope that there is some simple general explanation that underlies the incredible diversity of form and function. We will present a general theoretical framework for understanding the relationship between metabolic rate, B, and body mass, M. We show how the pervasive quarter-power biological scaling relations arise naturally from optimal directed resource supply systems. This framework robustly predicts that: 1) whole organism power and resource supply rate, B, scale as M^3/4; 2) most other rates, such as heart rate and maximal population growth rate scale as M-1/4; 3) most biological times, such as blood circulation time and lifespan, scale as M^1/4; and 4) the average velocity of flow through the network, v, such as the speed of blood and oxygen delivery, scales as M^1/12. Our framework is valid even when there is no underlying network. Our theory is applicable to unicellular organisms as well as to large animals and plants. This work was carried out in collaboration with Amos Maritan along with Jim Brown, John Damuth, Melanie Moses, Andrea Rinaldo, and Geoff West.

Cell migration analysis: A low-cost laboratory experiment for cell and developmental biology courses using keratocytes from fish scales.

PubMed

Prieto, Daniel; Aparicio, Gonzalo; Sotelo-Silveira, Jose R

2017-11-01

Cell and developmental processes are complex, and profoundly dependent on spatial relationships that change over time. Innovative educational or teaching strategies are always needed to foster deep comprehension of these processes and their dynamic features. However, laboratory exercises in cell and developmental biology at the undergraduate level do not often take into account the time dimension. In this article, we provide a laboratory exercise focused in cell migration, aiming to stimulate thinking in time and space dimensions through a simplification of more complex processes occurring in cell or developmental biology. The use of open-source tools for the analysis, as well as the whole package of raw results (available at http://github.com/danielprieto/keratocyte) make it suitable for its implementation in courses with very diverse budgets. Aiming to facilitate the student's transition from science-students to science-practitioners we propose an exercise of scientific thinking, and an evaluation method. This in turn is communicated here to facilitate the finding of common caveats and weaknesses in the process of producing simple scientific communications describing the results achieved. © 2017 by The International Union of Biochemistry and Molecular Biology, 45(6):475-482, 2017. © 2017 The International Union of Biochemistry and Molecular Biology.

Effects of C/N ratio on nitrous oxide production from nitrification in a laboratory-scale biological aerated filter reactor.

PubMed

He, Qiang; Zhu, Yinying; Fan, Leilei; Ai, Hainan; Huangfu, Xiaoliu; Chen, Mei

2017-03-01

Emission of nitrous oxide (N 2 O) during biological wastewater treatment is of growing concern. This paper reports findings of the effects of carbon/nitrogen (C/N) ratio on N 2 O production rates in a laboratory-scale biological aerated filter (BAF) reactor, focusing on the biofilm during nitrification. Polymerase chain reaction-denaturing gradient gel electrophoresis (PCR-DGGE) and microelectrode technology were utilized to evaluate the mechanisms associated with N 2 O production during wastewater treatment using BAF. Results indicated that the ability of N 2 O emission in biofilm at C/N ratio of 2 was much stronger than at C/N ratios of 5 and 8. PCR-DGGE analysis showed that the microbial community structures differed completely after the acclimatization at tested C/N ratios (i.e., 2, 5, and 8). Measurements of critical parameters including dissolved oxygen, oxidation reduction potential, NH 4 + -N, NO 3 - -N, and NO 2 - -N also demonstrated that the internal micro-environment of the biofilm benefit N 2 O production. DNA analysis showed that Proteobacteria comprised the majority of the bacteria, which might mainly result in N 2 O emission. Based on these results, C/N ratio is one of the parameters that play an important role in the N 2 O emission from the BAF reactors during nitrification.

An Experimental Study of a BSCS-Style Laboratory Approach for University General Biology.

ERIC Educational Resources Information Center

Leonard, William H.

1983-01-01

A Biological Sciences Curriculum Study (BSCS) inquiry approach for university general biology laboratory was tested against a well-established commercial program judged to be highly directive. The BSCS was found to be more effective in learning biology laboratory concepts than the commercial program as measured by a laboratory concepts test.…

A new scaling for the rotational diffusion of molecular probes in polymer solutions.

PubMed

Qing, Jing; Chen, Anpu; Zhao, Nanrong

2017-12-13

In the present work, we propose a new scaling form for the rotational diffusion coefficient of molecular probes in semi-dilute polymer solutions, based on a theoretical study. The mean-field theory for depletion effect and semi-empirical scaling equation for the macroscopic viscosity of polymer solutions are properly incorporated to specify the space-dependent concentration and viscosity profiles in the vicinity of the probe surface. Following the scheme of classical fluid mechanics, we numerically evaluate the shear torque exerted on the probes, which then allows us to further calculate the rotational diffusion coefficient D r . Particular attention is given to the scaling behavior of the retardation factor R rot ≡ D/D r with D being the diffusion coefficient in pure solvent. We find that R rot has little relevance to the macroscopic viscosity of the polymer solution, while it can be well featured by the characteristic length scale r h /δ, i.e. the ratio between the hydrodynamic radius of the probe r h and the depletion thickness δ. Correspondingly, we obtain a novel scaling form for the rotational retardation factor, following R rot = exp[a(r h /δ) b ] with rather robust parameters of a ≃ 0.51 and b ≃ 0.56. We apply the theory to an extensive calculation for various probes in specific polymer solutions of poly(ethylene glycol) (PEG) and dextran. Our theoretical results show good agreements with the experimental data, and clearly demonstrate the validity of the new scaling form. In addition, the difference of the scaling behavior between translational and rotational diffusions is clarified, from which we conclude that the depletion effect plays a more significant role on the local rotational diffusion rather than the long-range translation diffusion.

Laboratory Observation of the Rotational Spectrum of a Potential Interstellar Sugar, Erythrose

NASA Astrophysics Data System (ADS)

Pena, I.; Cabezas, C.; Daly, A. M.; Mata, S.; Alonso, J. L.

2013-06-01

The rotational spectrum of erythrose has been recorded in the frequency region 6 -- 12 GHz using a chirped-pulse Fourier transform microwave spectrometer (CP-FTMW) combined with a laser ablation (LA) source. The investigation of rotational spectra of erythrose is of astrophysical and biological relevance. However, no gas-phase data were available on erythrose. It is syrup at room temperature and vaporization using conventional methods leads to decomposition. A non convetional laser ablation method has been successfully used to vaporize erythrose and two cyclic forms have been observed using rotational spectroscopy. α-erythrose has been found to have rotational constants are A = 2586.8998 (21) MHz, B = 2353.0837 (41) MHz and C = 1773.2378 (18) MHz and β-erythrose is characterized with rotational constants A = 3109.2005 (46) MHz, B = 1856.1298 (15) MHz, C = 1616.5557 (18) MHz. G. G. Brown, B. C. Dian, K. O. Douglass, S. M. Geyer, S. T. Shipman, B. H. Pate, Rev. Sci. Instrum. 2008, 79, 053103. S. Mata, I. Peña, C. Cabezas, J. C. López, J. L. Alonso, J. Mol. Spectrosc. 2012, 280, 91.

Laboratory detection of the rotational-tunnelling spectrum of the hydroxymethyl radical, CH2OH

NASA Astrophysics Data System (ADS)

Bermudez, C.; Bailleux, S.; Cernicharo, J.

2017-02-01

Context. Of the two structural isomers of CH3O, methoxy is the only radical whose astronomical detection has been reported through the observation of several rotational lines at 2 and 3 mm wavelengths. Although the hydroxymethyl radical, CH2OH, is known to be thermodynamically the most stable (by 3300 cm-1), it has so far eluded rotational spectroscopy presumably because of its high chemical reactivity. Aims: Recent high-resolution ( 10 MHz) sub-Doppler rovibrationally resolved infrared spectra of CH2OH (symmetric CH stretching a-type band) provided accurate ground vibrational state rotational constants, thus reviving the quest for its millimeter-wave spectrum in laboratory and subsequently in space. Methods: The search and assignment of the rotational spectrum of this fundamental species were guided by our quantum chemical calculations and by using rotational constants derived from high-resolution IR data. The hydroxymethyl radical was produced by hydrogen abstraction from methanol by atomic chlorine. Results: Ninety-six b-type rotational transitions between the v = 0 and v = 1 tunnelling sublevels involving 25 fine-structure components of Q branches (with Ka = 1 ← 0) and 4 fine-structure components of R branches (assigned to Ka = 0 ← 1) were measured below 402 GHz. Hyperfine structure alternations due to the two identical methylenic hydrogens were observed and analysed based on the symmetry and parity of the rotational levels. A global fit including infrared and millimeter-wave lines has been conducted using Pickett's reduced axis system Hamiltonian. The recorded transitions (odd ΔKa) did not allow us to evaluate the Coriolis tunnelling interaction term. The comparison of the experimentally determined constants for both tunnelling levels with their computed values secures the long-awaited first detection of the rotational-tunnelling spectrum of this radical. In particular, a tunnelling rate of 139.73 ± 0.10 MHz (4.6609(32) × 10-3 cm-1) was obtained along

Biotechniques Laboratory: An Enabling Course in the Biological Sciences

ERIC Educational Resources Information Center

Di Trapani, Giovanna; Clarke, Frank

2012-01-01

Practical skills and competencies are critical to student engagement and effective learning in laboratory courses. This article describes the design of a yearlong, stand-alone laboratory course--the Biotechniques Laboratory--a common core course in the second year of all our degree programs in the biological sciences. It is an enabling,…

Participation in introductory biology laboratories: An integrated assessment based on surveys, behavioral observations, and qualitative interviews

NASA Astrophysics Data System (ADS)

Russell, Connie Adelle

Scope and method of study. The purpose of this study was to evaluate the effect of gender, major, and prior knowledge of and attitude toward biology on participation in introductory biology laboratories. Subjects for this study were 3,527 students enrolled in college-level introductory biology courses. During the study, three introductory courses were replaced with one mixed-majors course. The new course adopted a different pedagological approach from the previous courses in that an inquiry-based approach was used in lectures and laboratories. All subjects completed a survey that measured content knowledge using the NABT/NSTA High School Biology Examination Version 1990 and attitude using Russell and Hollander's Biology Attitude Scale. I used and discuss the merits of using ethological methods and data collection software, EthoScribeTM (Tima Scientific) to collect behavioral data from 145 students. I also evaluated participation using qualitative interviews of 30 students. I analyzed content knowledge and attitude data using ANOVA and Pearson correlation, and behavioral data using Contingency Table Analysis. I analyzed interviews following methods outlined by Rubin and Rubin. Findings. Course style and gender were the most useful variables in distinguishing differences among groups of students with regard to attitude, content knowledge, and participation in laboratories. Attitude toward biology and achievement measured by the surveys were found to be positively correlated; however, gender, major, class standing, course style and interactions between these variables also had effects on these variables. I found a positive association among attitude, achievement and participation in hands-on activities in laboratories. Differences in participation also were associated group type. In a traditional introductory biology course, females in single-gender groups, gender-equal, or groups in which females were the majority spent more time performing hands-on science

A Required Rotation in Clinical Laboratory Management for Pathology Residents: Five-Year Experience at Hofstra Northwell School of Medicine.

PubMed

Rishi, Arvind; Hoda, Syed T; Crawford, James M

2016-01-01

Leadership and management training during pathology residency have been identified repeatedly by employers as insufficient. A 1-month rotation in clinical laboratory management (CLM) was created for third-year pathology residents. We report on our experience and assess the value of this rotation. The rotation was one-half observational and one-half active. The observational component involved being a member of department and laboratory service line leadership, both at the departmental and institutional level. Observational participation enabled learning of both the content and principles of leadership and management activities. The active half of the rotation was performance of a project intended to advance the strategic trajectory of the department and laboratory service line. In our program that matriculates 4 residents per year, 20 residents participated from April 2010 through December 2015. Their projects either activated a new priority area or helped propel an existing strategic priority forward. Of the 16 resident graduates who had obtained their first employment or a fellowship position, 9 responded to an assessment survey. The majority of respondents (5/9) felt that the rotation significantly contributed to their ability to compete for a fellowship or their first employment position. The top reported benefits of the rotation included people management; communication with staff, departmental, and institutional leadership; and involvement in department and institutional meetings and task groups. Our 5-year experience demonstrates both the successful principles by which the CLM rotation can be established and the high value of this rotation to residency graduates.

Rotation, scale, and translation invariant pattern recognition using feature extraction

NASA Astrophysics Data System (ADS)

Prevost, Donald; Doucet, Michel; Bergeron, Alain; Veilleux, Luc; Chevrette, Paul C.; Gingras, Denis J.

1997-03-01

A rotation, scale and translation invariant pattern recognition technique is proposed.It is based on Fourier- Mellin Descriptors (FMD). Each FMD is taken as an independent feature of the object, and a set of those features forms a signature. FMDs are naturally rotation invariant. Translation invariance is achieved through pre- processing. A proper normalization of the FMDs gives the scale invariance property. This approach offers the double advantage of providing invariant signatures of the objects, and a dramatic reduction of the amount of data to process. The compressed invariant feature signature is next presented to a multi-layered perceptron neural network. This final step provides some robustness to the classification of the signatures, enabling good recognition behavior under anamorphically scaled distortion. We also present an original feature extraction technique, adapted to optical calculation of the FMDs. A prototype optical set-up was built, and experimental results are presented.

Advanced Rotating Biological Surface Operation. Training Module 2.122.4.77.

ERIC Educational Resources Information Center

Paulson, W. L.

This document is an instructional module package prepared in objective form for use by an instructor familiar with operation and maintenance of a rotating biological surface (RBS) wastewater treatment system. Included are objectives, instructor guides, student handouts, and transparency masters. This is the third level of a three module series and…

Hydrodynamic Scalings: from Astrophysics to Laboratory

NASA Astrophysics Data System (ADS)

Ryutov, D. D.; Remington, B. A.

2000-05-01

A surprisingly general hydrodynamic similarity has been recently described in Refs. [1,2]. One can call it the Euler similarity because it works for the Euler equations (with MHD effects included). Although the dissipation processes are assumed to be negligible, the presence of shocks is allowed. For the polytropic medium (i.e., the medium where the energy density is proportional to the pressure), an evolution of an arbitrarily chosen 3D initial state can be scaled to another system, if a single dimensionless parameter (the Euler number) is the same for both initial states. The Euler similarity allows one to properly design laboratory experiments modeling astrophysical phenomena. We discuss several examples of such experiments related to the physics of supernovae [3]. For the problems with a single spatial scale, the condition of the smallness of dissipative processes can be adequately described in terms of the Reynolds, Peclet, and magnetic Reynolds numbers related to this scale (all three numbers must be large). However, if the system develops small-scale turbulence, dissipation may become important at these smaller scales, thereby affecting the gross behavior of the system. We analyze the corresponding constraints. We discuss also constraints imposed by the presence of interfaces between the substances with different polytropic index. Another set of similarities governs evolution of photoevaporation fronts in astrophysics. Convenient scaling laws exist in situations where the density of the ablated material is very low compared to the bulk density. We conclude that a number of hydrodynamical problems related to such objects as the Eagle Nebula can be adequately simulated in the laboratory. We discuss also possible scalings for radiative astrophysical jets (see Ref. [3] and references therein). This work was performed under the auspices of the U.S. Department of Energy by University of California Lawrence Livermore National Laboratory under contract W-7405-Eng-48

Critical components required to improve deployable laboratory biological hazards identification

NASA Astrophysics Data System (ADS)

Niemeyer, Debra M.

2004-08-01

An ever-expanding global military mission necessitates quick and accurate identification of biological hazards, whether naturally occurring or man-made. Coupled with an ever-present threat of biological attack, an expanded U.S. presence in worn-torn locations like Southwest Asia presents unique public health challenges. We must heed modern day "lessons learned" from Operation Desert Shield and the Soviet Afghanistan Campaign and guard against rapid incapacitation of troop strength from endemic disease and biological attack. To minimize readiness impacts, field hygiene is enforced, and research on better medical countermeasures such as antibiotics and vaccines continues. However, there are no preventions or remedies for all military-relevant infectious diseases or biological agents. A deployable, streamlined, self-contained diagnostic and public health surveillance laboratory capability with a reach-back communication is critical to meeting global readiness challenges. Current deployable laboratory packages comprise primarily diagnostic or environmental sample testing capabilities. Discussion will focus on critical components needed to improve existing laboratory assets, and to facilitate deployment of small, specialized packages far forward. The ideal laboratory model described will become an essential tool for the Combatant or Incident Commander to maintain force projection in the expeditionary environment.

Genetics and molecular biology in laboratory medicine, 1963-2013.

PubMed

Whitfield, John B

2013-01-01

The past 50 years have seen many changes in laboratory medicine, either as causes or consequences of increases in productivity and expansion of the range of information which can be provided. The drivers and facilitators of change in relation to clinical applications of molecular biology included the need for diagnostic tools for genetic diseases and technical advances such as PCR and sequencing. However, molecular biology techniques have proved to have far wider applications, from detection of infectious agents to molecular characterization of tumors. Journals such as Clinical Chemistry and Laboratory Medicine play an important role in communication of these advances to the laboratory medicine community and in publishing evaluations of their practical value.

Removal design report for the 108-F Biological Laboratory

DOE Office of Scientific and Technical Information (OSTI.GOV)

NONE

1997-09-01

Most of the 100-F facilities were deactivated with the reactor and have since been demolished. Of the dozen or so reactor-related structures, only the 105-F Reactor Building and the 108-F Biology Laboratory remain standing today. The 108-F Biology Laboratory was intended to be used as a facility for the mixing and addition of chemicals used in the treatment of the reactor cooling water. Shortly after F Reactor began operation, it was determined that the facility was not needed for this purpose. In 1949, the building was converted for use as a biological laboratory. In 1962, the lab was expanded bymore » adding a three-story annex to the original four-story structure. The resulting lab had a floor area of approximately 2,883 m{sup 2} (main building and annex) that operated until 1973. The building contained 47 laboratories, a number of small offices, a conference room, administrative section, lunch and locker rooms, and a heavily shielded, high-energy exposure cell. The purpose of this removal design report is to establish the methods of decontamination and decommissioning and the supporting functions associated with facility removal and disposal.« less

Establishing a national biological laboratory safety and security monitoring program.

PubMed

Blaine, James W

2012-12-01

The growing concern over the potential use of biological agents as weapons and the continuing work of the Biological Weapons Convention has promoted an interest in establishing national biological laboratory biosafety and biosecurity monitoring programs. The challenges and issues that should be considered by governments, or organizations, embarking on the creation of a biological laboratory biosafety and biosecurity monitoring program are discussed in this article. The discussion focuses on the following questions: Is there critical infrastructure support available? What should be the program focus? Who should be monitored? Who should do the monitoring? How extensive should the monitoring be? What standards and requirements should be used? What are the consequences if a laboratory does not meet the requirements or is not willing to comply? Would the program achieve the results intended? What are the program costs? The success of a monitoring program can depend on how the government, or organization, responds to these questions.

The Protein Information Management System (PiMS): a generic tool for any structural biology research laboratory

PubMed Central

Morris, Chris; Pajon, Anne; Griffiths, Susanne L.; Daniel, Ed; Savitsky, Marc; Lin, Bill; Diprose, Jonathan M.; Wilter da Silva, Alan; Pilicheva, Katya; Troshin, Peter; van Niekerk, Johannes; Isaacs, Neil; Naismith, James; Nave, Colin; Blake, Richard; Wilson, Keith S.; Stuart, David I.; Henrick, Kim; Esnouf, Robert M.

2011-01-01

The techniques used in protein production and structural biology have been developing rapidly, but techniques for recording the laboratory information produced have not kept pace. One approach is the development of laboratory information-management systems (LIMS), which typically use a relational database schema to model and store results from a laboratory workflow. The underlying philosophy and implementation of the Protein Information Management System (PiMS), a LIMS development specifically targeted at the flexible and unpredictable workflows of protein-production research laboratories of all scales, is described. PiMS is a web-based Java application that uses either Postgres or Oracle as the underlying relational database-management system. PiMS is available under a free licence to all academic laboratories either for local installation or for use as a managed service. PMID:21460443

The Protein Information Management System (PiMS): a generic tool for any structural biology research laboratory.

PubMed

Morris, Chris; Pajon, Anne; Griffiths, Susanne L; Daniel, Ed; Savitsky, Marc; Lin, Bill; Diprose, Jonathan M; da Silva, Alan Wilter; Pilicheva, Katya; Troshin, Peter; van Niekerk, Johannes; Isaacs, Neil; Naismith, James; Nave, Colin; Blake, Richard; Wilson, Keith S; Stuart, David I; Henrick, Kim; Esnouf, Robert M

2011-04-01

The techniques used in protein production and structural biology have been developing rapidly, but techniques for recording the laboratory information produced have not kept pace. One approach is the development of laboratory information-management systems (LIMS), which typically use a relational database schema to model and store results from a laboratory workflow. The underlying philosophy and implementation of the Protein Information Management System (PiMS), a LIMS development specifically targeted at the flexible and unpredictable workflows of protein-production research laboratories of all scales, is described. PiMS is a web-based Java application that uses either Postgres or Oracle as the underlying relational database-management system. PiMS is available under a free licence to all academic laboratories either for local installation or for use as a managed service.

Genome-scale biological models for industrial microbial systems.

PubMed

Xu, Nan; Ye, Chao; Liu, Liming

2018-04-01

The primary aims and challenges associated with microbial fermentation include achieving faster cell growth, higher productivity, and more robust production processes. Genome-scale biological models, predicting the formation of an interaction among genetic materials, enzymes, and metabolites, constitute a systematic and comprehensive platform to analyze and optimize the microbial growth and production of biological products. Genome-scale biological models can help optimize microbial growth-associated traits by simulating biomass formation, predicting growth rates, and identifying the requirements for cell growth. With regard to microbial product biosynthesis, genome-scale biological models can be used to design product biosynthetic pathways, accelerate production efficiency, and reduce metabolic side effects, leading to improved production performance. The present review discusses the development of microbial genome-scale biological models since their emergence and emphasizes their pertinent application in improving industrial microbial fermentation of biological products.

Large-scale dynamos in rapidly rotating plane layer convection

NASA Astrophysics Data System (ADS)

Bushby, P. J.; Käpylä, P. J.; Masada, Y.; Brandenburg, A.; Favier, B.; Guervilly, C.; Käpylä, M. J.

2018-05-01

Context. Convectively driven flows play a crucial role in the dynamo processes that are responsible for producing magnetic activity in stars and planets. It is still not fully understood why many astrophysical magnetic fields have a significant large-scale component. Aims: Our aim is to investigate the dynamo properties of compressible convection in a rapidly rotating Cartesian domain, focusing upon a parameter regime in which the underlying hydrodynamic flow is known to be unstable to a large-scale vortex instability. Methods: The governing equations of three-dimensional non-linear magnetohydrodynamics (MHD) are solved numerically. Different numerical schemes are compared and we propose a possible benchmark case for other similar codes. Results: In keeping with previous related studies, we find that convection in this parameter regime can drive a large-scale dynamo. The components of the mean horizontal magnetic field oscillate, leading to a continuous overall rotation of the mean field. Whilst the large-scale vortex instability dominates the early evolution of the system, the large-scale vortex is suppressed by the magnetic field and makes a negligible contribution to the mean electromotive force that is responsible for driving the large-scale dynamo. The cycle period of the dynamo is comparable to the ohmic decay time, with longer cycles for dynamos in convective systems that are closer to onset. In these particular simulations, large-scale dynamo action is found only when vertical magnetic field boundary conditions are adopted at the upper and lower boundaries. Strongly modulated large-scale dynamos are found at higher Rayleigh numbers, with periods of reduced activity (grand minima-like events) occurring during transient phases in which the large-scale vortex temporarily re-establishes itself, before being suppressed again by the magnetic field.

Effect of weak rotation on large-scale circulation cessations in turbulent convection.

PubMed

Assaf, Michael; Angheluta, Luiza; Goldenfeld, Nigel

2012-08-17

We investigate the effect of weak rotation on the large-scale circulation (LSC) of turbulent Rayleigh-Bénard convection, using the theory for cessations in a low-dimensional stochastic model of the flow previously studied. We determine the cessation frequency of the LSC as a function of rotation, and calculate the statistics of the amplitude and azimuthal velocity fluctuations of the LSC as a function of the rotation rate for different Rayleigh numbers. Furthermore, we show that the tails of the reorientation PDF remain unchanged for rotating systems, while the distribution of the LSC amplitude and correspondingly the cessation frequency are strongly affected by rotation. Our results are in close agreement with experimental observations.

Anisotropic Rotational Diffusion Studied by Nuclear Spin Relaxation and Molecular Dynamics Simulation: An Undergraduate Physical Chemistry Laboratory

ERIC Educational Resources Information Center

Fuson, Michael M.

2017-01-01

Laboratories studying the anisotropic rotational diffusion of bromobenzene using nuclear spin relaxation and molecular dynamics simulations are described. For many undergraduates, visualizing molecular motion is challenging. Undergraduates rarely encounter laboratories that directly assess molecular motion, and so the concept remains an…

Cell Migration Analysis: A Low-Cost Laboratory Experiment for Cell and Developmental Biology Courses Using Keratocytes from Fish Scales

ERIC Educational Resources Information Center

Prieto, Daniel; Aparicio, Gonzalo; Sotelo-Silveira, Jose R.

2017-01-01

Cell and developmental processes are complex, and profoundly dependent on spatial relationships that change over time. Innovative educational or teaching strategies are always needed to foster deep comprehension of these processes and their dynamic features. However, laboratory exercises in cell and developmental biology at the undergraduate level…

A BSCS-Style Laboratory Approach for University General Biology.

ERIC Educational Resources Information Center

Leonard, William H.

1982-01-01

Compared effectiveness of a Biological Sciences Curriculum Study (BSCS)-style laboratory program in a university general biology course against a popular traditionally oriented program. Although learning gains for both groups were significant, students using the BSCS-style investigations scored significantly higher on a posttest of laboratory…

Scaling for Dynamical Systems in Biology.

PubMed

Ledder, Glenn

2017-11-01

Asymptotic methods can greatly simplify the analysis of all but the simplest mathematical models and should therefore be commonplace in such biological areas as ecology and epidemiology. One essential difficulty that limits their use is that they can only be applied to a suitably scaled dimensionless version of the original dimensional model. Many books discuss nondimensionalization, but with little attention given to the problem of choosing the right scales and dimensionless parameters. In this paper, we illustrate the value of using asymptotics on a properly scaled dimensionless model, develop a set of guidelines that can be used to make good scaling choices, and offer advice for teaching these topics in differential equations or mathematical biology courses.

Biological and Physical Space Research Laboratory 2002 Science Review

NASA Technical Reports Server (NTRS)

Curreri, P. A. (Editor); Robinson, M. B. (Editor); Murphy, K. L. (Editor)

2003-01-01

With the International Space Station Program approaching core complete, our NASA Headquarters sponsor, the new Code U Enterprise, Biological and Physical Research, is shifting its research emphasis from purely fundamental microgravity and biological sciences to strategic research aimed at enabling human missions beyond Earth orbit. Although we anticipate supporting microgravity research on the ISS for some time to come, our laboratory has been vigorously engaged in developing these new strategic research areas.This Technical Memorandum documents the internal science research at our laboratory as presented in a review to Dr. Ann Whitaker, MSFC Science Director, in July 2002. These presentations have been revised and updated as appropriate for this report. It provides a snapshot of the internal science capability of our laboratory as an aid to other NASA organizations and the external scientific community.

Benchmarking in a differentially heated rotating annulus experiment: Multiple equilibria in the light of laboratory experiments and simulations

NASA Astrophysics Data System (ADS)

Vincze, Miklos; Harlander, Uwe; Borchert, Sebastian; Achatz, Ulrich; Baumann, Martin; Egbers, Christoph; Fröhlich, Jochen; Hertel, Claudia; Heuveline, Vincent; Hickel, Stefan; von Larcher, Thomas; Remmler, Sebastian

2014-05-01

In the framework of the German Science Foundation's (DFG) priority program 'MetStröm' various laboratory experiments have been carried out in a differentially heated rotating annulus configuration in order to test, validate and tune numerical methods to be used for modeling large-scale atmospheric processes. This classic experimental set-up is well known since the late 1940s and is a widely studied minimal model of the general mid-latitude atmospheric circulation. The two most relevant factors of cyclogenesis, namely rotation and meridional temperature gradient are quite well captured in this simple arrangement. The tabletop-size rotating tank is divided into three sections by coaxial cylindrical sidewalls. The innermost section is cooled whereas the outermost annular cavity is heated, therefore the working fluid (de-ionized water) in the middle annular section experiences differential heat flow, which imposes thermal (density) stratification on the fluid. At high enough rotation rates the isothermal surfaces tilt, leading to baroclinic instability. The extra potential energy stored in this unstable configuration is then converted into kinetic energy, exciting drifting wave patterns of temperature and momentum anomalies. The signatures of these baroclinic waves at the free water surface have been analysed via infrared thermography in a wide range of rotation rates (keeping the radial temperature difference constant) and under different initial conditions (namely, initial spin-up and "spin-down"). Paralelly to the laboratory simulations of BTU Cottbus-Senftenberg, five other groups from the MetStröm collaboration have conducted simulations in the same parameter regime using different numerical approaches and solvers, and applying different initial conditions and perturbations for stability analysis. The obtained baroclinic wave patterns have been evaluated via determining and comparing their Empirical Orthogonal Functions (EOFs), drift rates and dominant wave

A qualitative characterization of an introductory college nonmajors biology laboratory

NASA Astrophysics Data System (ADS)

Lee, Cherin Ann

The nature of an undergraduate, nonmajors biology laboratory was investigated in this study. Student participants were enrolled in a general education biology laboratory course at the University of Northern Iowa. The researcher's purpose was to gain a characterization of the instructional format and laboratory activities experienced by students. Interpretation of student and instructor responses enabled an insider's view of the biology laboratory. The laboratory period was consistently described by both students and instructors as having three parts, Beginning, Middle, and End, with the End being of special importance for conceptual development. The instructional format of the three instructors differed within the three portions of the laboratory period, ranging from an inquiry-oriented, partial learning cycle to a fairly expository model labeled inform/verify/practice. There was striking similarity in intrasectional student and teacher descriptions of instructional format. Additionally, students experiencing the alternate instructor provided the same characterizations of instructional format as those provided by the instructor's usual students. There were no discernible patterns of instructional format based on sex or reasoning level. In addition to the central role of instructional format, three areas of importance emerged: the social aspects of learning, the collaborative and cooperative nature of laboratory work and learning, and the role of self-efficacy. Theory developed from and grounded in the data showed six factors important in the introductory college biology laboratory: collaborative and cooperative learning, student-student and teacher-student interactions, attitude and self-efficacy, learning process and learning style, effective instructional format, and science content. These factors were found to be similar to factors identified in the literature as important in K-12 science education. These factors were set in the context of schooling and learning

Web Camera Use in Developing Biology, Molecular Biology and Biochemistry Laboratories

ERIC Educational Resources Information Center

Ogren, Paul J.; Deibel, Michael; Kelly, Ian; Mulnix, Amy B.; Peck, Charlie

2004-01-01

The use of a network-ready color camera is described which is primarily marketed as a security device and is used for experiments in developmental biology, genetics and biochemistry laboratories and in special student research projects. Acquiring and analyzing project and archiving images is very important in microscopy, electrophoresis and…

Time-scales of stellar rotational variability and starspot diagnostics

NASA Astrophysics Data System (ADS)

Arkhypov, Oleksiy V.; Khodachenko, Maxim L.; Lammer, Helmut; Güdel, Manuel; Lüftinger, Teresa; Johnstone, Colin P.

2018-01-01

The difference in stability of starspot distribution on the global and hemispherical scales is studied in the rotational spot variability of 1998 main-sequence stars observed by Kepler mission. It is found that the largest patterns are much more stable than smaller ones for cool, slow rotators, whereas the difference is less pronounced for hotter stars and/or faster rotators. This distinction is interpreted in terms of two mechanisms: (1) the diffusive decay of long-living spots in activity complexes of stars with saturated magnetic dynamos, and (2) the spot emergence, which is modulated by gigantic turbulent flows in convection zones of stars with a weaker magnetism. This opens a way for investigation of stellar deep convection, which is yet inaccessible for asteroseismology. Moreover, a subdiffusion in stellar photospheres was revealed from observations for the first time. A diagnostic diagram was proposed that allows differentiation and selection of stars for more detailed studies of these phenomena.

Tertiary Treatment of Wastewater Using a Rotating Biological Contactor System.

DTIC Science & Technology

1980-02-01

in deter- gal/sq ft/day (0.04 m3 /m 2 /day) could remove BOD mining nitrification efficiency (temperature steady at from winery wastes at an efficiency...and J. E. Tehan, "Treatment of 210. Hao and G. F. Hendricks. "Rotating Biological Reactors Winery Wastes by Aerated Lagoon. Activated Sludge, and...Pollution Control Federa- tion, January 1978). LaBella. S. A.. I. H. Thaker, and J. E. Tehan. "Treatment of Winery Wastes by Aerated Lagoon. Domestic

Integrating Introductory Biology and General Chemistry Laboratories.

ERIC Educational Resources Information Center

Godrick, Elizabeth; Hartman, Standish

2000-01-01

Introduces a science laboratory integrating biology and chemistry courses that includes four modules: (1) the fundamental process of reactions; (2) a semester-long project on the chemical assay of ascorbic acid; (3) human metabolism of Vitamin C; and (4) an open-ended project on the manipulation of macromolecules. (YDS)

Rotation and scale change invariant point pattern relaxation matching by the Hopfield neural network

NASA Astrophysics Data System (ADS)

Sang, Nong; Zhang, Tianxu

1997-12-01

Relaxation matching is one of the most relevant methods for image matching. The original relaxation matching technique using point patterns is sensitive to rotations and scale changes. We improve the original point pattern relaxation matching technique to be invariant to rotations and scale changes. A method that makes the Hopfield neural network perform this matching process is discussed. An advantage of this is that the relaxation matching process can be performed in real time with the neural network's massively parallel capability to process information. Experimental results with large simulated images demonstrate the effectiveness and feasibility of the method to perform point patten relaxation matching invariant to rotations and scale changes and the method to perform this matching by the Hopfield neural network. In addition, we show that the method presented can be tolerant to small random error.

[Biosafety in laboratories concerning exposure to biological agents].

PubMed

Vonesch, N; Tomao, P; Di Renzi, S; Vita, S; Signorini, S

2006-01-01

Laboratory workers are exposed to a variety of potential occupational health hazards including those deriving from infectious materials and cultures, radiations, toxic and flammable chemicals, as well as mechanical and electrical hazard. Although all of them are significant, this paper will focus on biological hazards present in clinical and research laboratories. In fact, in spite of numerous publications, guidelines and regulations, laboratory workers are still subject to infections acquired in the course of their researches. This paper describes some aspects that include good microbiological practices (GMPs), appropriate containment equipment, practices and operational procedures to minimize workers' risk of injury or illness.

Biology meets physics: Reductionism and multi-scale modeling of morphogenesis.

PubMed

Green, Sara; Batterman, Robert

2017-02-01

A common reductionist assumption is that macro-scale behaviors can be described "bottom-up" if only sufficient details about lower-scale processes are available. The view that an "ideal" or "fundamental" physics would be sufficient to explain all macro-scale phenomena has been met with criticism from philosophers of biology. Specifically, scholars have pointed to the impossibility of deducing biological explanations from physical ones, and to the irreducible nature of distinctively biological processes such as gene regulation and evolution. This paper takes a step back in asking whether bottom-up modeling is feasible even when modeling simple physical systems across scales. By comparing examples of multi-scale modeling in physics and biology, we argue that the "tyranny of scales" problem presents a challenge to reductive explanations in both physics and biology. The problem refers to the scale-dependency of physical and biological behaviors that forces researchers to combine different models relying on different scale-specific mathematical strategies and boundary conditions. Analyzing the ways in which different models are combined in multi-scale modeling also has implications for the relation between physics and biology. Contrary to the assumption that physical science approaches provide reductive explanations in biology, we exemplify how inputs from physics often reveal the importance of macro-scale models and explanations. We illustrate this through an examination of the role of biomechanical modeling in developmental biology. In such contexts, the relation between models at different scales and from different disciplines is neither reductive nor completely autonomous, but interdependent. Copyright © 2016 Elsevier Ltd. All rights reserved.

Encyrtid parasitoids of soft scale insects: biology, behavior, and their use in biological control.

PubMed

Kapranas, Apostolos; Tena, Alejandro

2015-01-07

Parasitoids of the hymenopterous family Encyrtidae are one of the most important groups of natural enemies of soft scale insects and have been used extensively in biological control. We summarize existing knowledge of the biology, ecology, and behavior of these parasitoids and how it relates to biological control. Soft scale stage/size and phenology are important determinants of host range and host utilization, which are key aspects in understanding how control by these parasitoids is exerted. Furthermore, the nutritional ecology of encyrtids and their physiological interactions with their hosts affect soft scale insect population dynamics. Lastly, the interactions among encyrtids, heteronomous parasitoids, and ants shape parasitoid species complexes and consequently have a direct impact on the biological control of soft scale insects.

Laboratory Rotational Spectroscopy of the Interstellar Diatomic Hydride Ion SH+ (X 3Σ-)

NASA Astrophysics Data System (ADS)

Halfen, DeWayne; Ziurys, Lucy M.

2016-06-01

Diatomic hydride are among the most common molecular species in the interstellar medium (ISM). The low molecular mass and thus moments of inertia cause their rotational spectra to lie principally in the submillimeter and far-infrared regions. Diatomic hydrides, both neutral (MH) and ionic (MH+) forms, are also basic building blocks of interstellar chemistry. In ionic form, they may be the “hidden” carriers of refractory elements in dense gas. They are therefore extremely good targets for space-borne and airborne platforms such as Herschel, SOFIA, and SAFIR. However, in order to detect these species in the ISM, their rotational spectra must first be measured in the laboratory. To date, there is very little high resolution data available for many hydride species, in particular the ionic form. Using submillimeter/THz direct absorption methods in the Ziurys laboratory, spectra of the interstellar diatomic hydride SH+ (X 3Σ-) have been recorded. Recent work has concerned measurement of all three fine structure components of the fundamental rotational transition N = 1 ← 0 in the range 345 - 683 GHz. SH+ was generated from H2S and argon in an AC discharge. The data have been analyzed, and spectroscopic constants for this species have been refined. SH+ is found in Photon Dominated Regions (PDRs) and X-ray Dominated Regions (XDRs) and is thought to trace energetic processes in the ISM. These current measurements confirm recent observations of this species at submillimeter/THz wavelengths with ALMA and other ground-based telescopes.

A Guided-Inquiry pH Laboratory Exercise for Introductory Biological Science Laboratories

ERIC Educational Resources Information Center

Snodgrass, Meagan A.; Lux, Nicholas; Metz, Anneke M.

2011-01-01

There is a continuing need for engaging inquiry-based laboratory experiences for advanced high school and undergraduate biology courses. The authors describe a guided-inquiry exercise investigating the pH-dependence of lactase enzyme that uses an inexpensive, wide-range buffering system, lactase dietary supplement, over-the-counter glucose test…

A multi-machine scaling of halo current rotation

NASA Astrophysics Data System (ADS)

Myers, C. E.; Eidietis, N. W.; Gerasimov, S. N.; Gerhardt, S. P.; Granetz, R. S.; Hender, T. C.; Pautasso, G.; Contributors, JET

2018-01-01

Halo currents generated during unmitigated tokamak disruptions are known to develop rotating asymmetric features that are of great concern to ITER because they can dynamically amplify the mechanical stresses on the machine. This paper presents a multi-machine analysis of these phenomena. More specifically, data from C-Mod, NSTX, ASDEX Upgrade, DIII-D, and JET are used to develop empirical scalings of three key quantities: (1) the machine-specific minimum current quench time, \

A multi-machine scaling of halo current rotation

DOE Office of Scientific and Technical Information (OSTI.GOV)

Myers, C. E.; Eidietis, N. W.; Gerasimov, S. N.

Halo currents generated during unmitigated tokamak disruptions are known to develop rotating asymmetric features that are of great concern to ITER because they can dynamically amplify the mechanical stresses on the machine. This paper presents a multi-machine analysis of these phenomena. More specifically, data from C-Mod, NSTX, ASDEX Upgrade, DIII-D, and JET are used to develop empirical scalings of three key quantities: the machine-specific minimum current quench time,more » $$ \

A multi-machine scaling of halo current rotation

DOE PAGES

Myers, C. E.; Eidietis, N. W.; Gerasimov, S. N.; ...

2017-12-12

Halo currents generated during unmitigated tokamak disruptions are known to develop rotating asymmetric features that are of great concern to ITER because they can dynamically amplify the mechanical stresses on the machine. This paper presents a multi-machine analysis of these phenomena. More specifically, data from C-Mod, NSTX, ASDEX Upgrade, DIII-D, and JET are used to develop empirical scalings of three key quantities: the machine-specific minimum current quench time,more » $$ \

Detecting Nano-Scale Vibrations in Rotating Devices by Using Advanced Computational Methods

PubMed Central

del Toro, Raúl M.; Haber, Rodolfo E.; Schmittdiel, Michael C.

2010-01-01

This paper presents a computational method for detecting vibrations related to eccentricity in ultra precision rotation devices used for nano-scale manufacturing. The vibration is indirectly measured via a frequency domain analysis of the signal from a piezoelectric sensor attached to the stationary component of the rotating device. The algorithm searches for particular harmonic sequences associated with the eccentricity of the device rotation axis. The detected sequence is quantified and serves as input to a regression model that estimates the eccentricity. A case study presents the application of the computational algorithm during precision manufacturing processes. PMID:22399918

EPOS-WP16: A Platform for European Multi-scale Laboratories

NASA Astrophysics Data System (ADS)

Spiers, Chris; Drury, Martyn; Kan-Parker, Mirjam; Lange, Otto; Willingshofer, Ernst; Funiciello, Francesca; Rosenau, Matthias; Scarlato, Piergiorgio; Sagnotti, Leonardo; W16 Participants

2016-04-01

The participant countries in EPOS embody a wide range of world-class laboratory infrastructures ranging from high temperature and pressure experimental facilities, to electron microscopy, micro-beam analysis, analogue modeling and paleomagnetic laboratories. Most data produced by the various laboratory centres and networks are presently available only in limited "final form" in publications. As such many data remain inaccessible and/or poorly preserved. However, the data produced at the participating laboratories are crucial to serving society's need for geo-resources exploration and for protection against geo-hazards. Indeed, to model resource formation and system behaviour during exploitation, we need an understanding from the molecular to the continental scale, based on experimental data. This contribution will describe the work plans that the laboratories community in Europe is making, in the context of EPOS. The main objectives are: - To collect and harmonize available and emerging laboratory data on the properties and processes controlling rock system behaviour at multiple scales, in order to generate products accessible and interoperable through services for supporting research activities. - To co-ordinate the development, integration and trans-national usage of the major solid Earth Science laboratory centres and specialist networks. The length scales encompassed by the infrastructures included range from the nano- and micrometer levels (electron microscopy and micro-beam analysis) to the scale of experiments on centimetre sized samples, and to analogue model experiments simulating the reservoir scale, the basin scale and the plate scale. - To provide products and services supporting research into Geo-resources and Geo-storage, Geo-hazards and Earth System Evolution.

Small-scale anisotropy induced by spectral forcing and by rotation in non-helical and helical turbulence

NASA Astrophysics Data System (ADS)

Vallefuoco, Donato; Naso, Aurore; Godeferd, Fabien S.

2018-02-01

We study the effect of large-scale spectral forcing on the scale-dependent anisotropy of the velocity field in direct numerical simulations of homogeneous turbulence. ABC-type forcing and helical or non-helical Euler-type forcing are considered. We propose a scale-dependent characterisation of anisotropy based on a modal decomposition of the two-point velocity tensor spectrum. This produces direction-dependent spectra of energy, helicity and polarisation. We examine the conditions that allow anisotropy to develop in the small scales due to forcing and we show that the theoretically expected isotropy is not exactly obtained, even in the smallest scales, for ABC and helical Euler forcings. When adding rotation, the anisotropy level in ABC-forced simulations is similar to that of lower Rossby number Euler-forced runs. Moreover, even at low rotation rate, the natural anisotropy induced by the Coriolis force is visible at all scales, and two distinct wavenumber ranges appear from our fine-grained characterisation, not separated by the Zeman scale but by a scale where rotation and dissipation are balanced.

Laboratory study of biological retention for urban stormwater management.

PubMed

Davis, A P; Shokouhian, M; Sharma, H; Minami, C

2001-01-01

Urban stormwater runoff contains a broad range of pollutants that are transported to natural water systems. A practice known as biological retention (bioretention) has been suggested to manage stormwater runoff from small, developed areas. Bioretention facilities consist of porous soil, a topping layer of hardwood mulch, and a variety of different plant species. A detailed study of the characteristics and performance of bioretention systems for the removal of several heavy metals (copper, lead, and zinc) and nutrients (phosphorus, total Kjeldahl nitrogen [TKN], ammonium, and nitrate) from a synthetic urban stormwater runoff was completed using batch and column adsorption studies along with pilot-scale laboratory systems. The roles of the soil, mulch, and plants in the removal of heavy metals and nutrients were evaluated to estimate the treatment capacity of laboratory bioretention systems. Reductions in concentrations of all metals were excellent (> 90%) with specific metal removals of 15 to 145 mg/m2 per event. Moderate reductions of TKN, ammonium, and phosphorus levels were found (60 to 80%). Little nitrate was removed, and nitrate production was noted in several cases. The importance of the mulch layer in metal removal was identified. Overall results support the use of bioretention as a stormwater best management practice and indicate the need for further research and development.

Biological Nanomotors with a Revolution, Linear, or Rotation Motion Mechanism

PubMed Central

Noji, Hiroyuki; Yengo, Christopher M.; Zhao, Zhengyi; Grainge, Ian

2016-01-01

SUMMARY The ubiquitous biological nanomotors were classified into two categories in the past: linear and rotation motors. In 2013, a third type of biomotor, revolution without rotation (http://rnanano.osu.edu/movie.html), was discovered and found to be widespread among bacteria, eukaryotic viruses, and double-stranded DNA (dsDNA) bacteriophages. This review focuses on recent findings about various aspects of motors, including chirality, stoichiometry, channel size, entropy, conformational change, and energy usage rate, in a variety of well-studied motors, including FoF1 ATPase, helicases, viral dsDNA-packaging motors, bacterial chromosome translocases, myosin, kinesin, and dynein. In particular, dsDNA translocases are used to illustrate how these features relate to the motion mechanism and how nature elegantly evolved a revolution mechanism to avoid coiling and tangling during lengthy dsDNA genome transportation in cell division. Motor chirality and channel size are two factors that distinguish rotation motors from revolution motors. Rotation motors use right-handed channels to drive the right-handed dsDNA, similar to the way a nut drives the bolt with threads in same orientation; revolution motors use left-handed motor channels to revolve the right-handed dsDNA. Rotation motors use small channels (<2 nm in diameter) for the close contact of the channel wall with single-stranded DNA (ssDNA) or the 2-nm dsDNA bolt; revolution motors use larger channels (>3 nm) with room for the bolt to revolve. Binding and hydrolysis of ATP are linked to different conformational entropy changes in the motor that lead to altered affinity for the substrate and allow work to be done, for example, helicase unwinding of DNA or translocase directional movement of DNA. PMID:26819321

Evaluation of performance with small and scale-up rotating and flat reactors; photocatalytic degradation of bisphenol A, 17β-estradiol, and 17α-ethynyl estradiol under solar irradiation.

PubMed

Kim, Saewon; Cho, Hyekyung; Joo, Hyunku; Her, Namguk; Han, Jonghun; Yi, Kwangbok; Kim, Jong-Oh; Yoon, Jaekyung

2017-08-15

In this study, the performances of photocatalytic reactors of the small and scale-up rotating and flat types were evaluated to investigate the treatment of new emerging contaminants such as bisphenol A (BPA), 17α-ethynyl estradiol (EE2), and 17β-estradiol (E2) that are known as endocrine disrupting compounds (EDCs). In the laboratory tests with the small-scale rotating and flat reactors, the degradation efficiencies of the mixed EDCs were significantly influenced by the change of the hydraulic retention time (HRT). In particular, considering the effective two-dimensional reaction area with light and nanotubular TiO 2 (NTT) on a Ti substrate, the rotating reactors showed the more effective performance than the flat reactor because the degradation efficiencies are similar in the small effective area. In addition, the major parameters affecting the photocatalytic activities of the NTT were evaluated for the rotating reactors according to the effects of single and mixed EDCs, the initial concentrations of the EDCs, the UV intensity, and dissolved oxygen. In the extended outdoor tests with the scale-up photocatalytic reactors and NTT, it was confirmed from the four representative demonstrations that an excellent rotating-reactor performance is consistently shown in terms of the degradation of the target pollutants under solar irradiation. Copyright © 2017 Elsevier B.V. All rights reserved.

30 CFR 14.21 - Laboratory-scale flame test apparatus.

Code of Federal Regulations, 2010 CFR

2010-07-01

... 30 Mineral Resources 1 2010-07-01 2010-07-01 false Laboratory-scale flame test apparatus. 14.21 Section 14.21 Mineral Resources MINE SAFETY AND HEALTH ADMINISTRATION, DEPARTMENT OF LABOR TESTING... Technical Requirements § 14.21 Laboratory-scale flame test apparatus. The principal parts of the apparatus...

30 CFR 14.21 - Laboratory-scale flame test apparatus.

Code of Federal Regulations, 2011 CFR

2011-07-01

... 30 Mineral Resources 1 2011-07-01 2011-07-01 false Laboratory-scale flame test apparatus. 14.21 Section 14.21 Mineral Resources MINE SAFETY AND HEALTH ADMINISTRATION, DEPARTMENT OF LABOR TESTING... Technical Requirements § 14.21 Laboratory-scale flame test apparatus. The principal parts of the apparatus...

Laboratory Experiments on Rotation and Alignment of the Analogs of Interstellar Dust Grains by Radiation

NASA Technical Reports Server (NTRS)

Abbas, M. M.; Craven, P. D.; Spann, J. F.; Tankosic, D.; LeClair, A.; Gallagher, D. L.; West, E. A.; Weingartner, J. C.; Witherow, W. K.; Tielens, A. G. G. M.

2004-01-01

The processes and mechanisms involved in the rotation and alignment of interstellar dust grains have been of great interest in astrophysics ever since the surprising discovery of the polarization of starlight more than half a century ago. Numerous theories, detailed mathematical models, and numerical studies of grain rotation and alignment with respect to the Galactic magnetic field have been presented in the literature. In particular, the subject of grain rotation and alignment by radiative torques has been shown to be of particular interest in recent years. However, despite many investigations, a satisfactory theoretical understanding of the processes involved in subject, we have carried out some unique experiments to illuminate the processes involved in the rotation of dust grains in the interstellar medium. In this paper we present the results of some preliminary laboratory experiments on the rotation of individual micron/submicron-sized, nonspherical dust grains levitated in an electrodynamic balance evacuated to pressures of approximately 10(exp -3) to 10(exp -5) torr. The particles are illuminated by laser light at 5320 A, and the grain rotation rates are obtained by analyzing the low-frequency (approximately 0 - 100 kHz) signal of the scattered light detected by a photodiode detector. The rotation rates are compared with simple theoretical models to retrieve some basic rotational parameters. The results are examined in light of the current theories of alignment.

SOLAR ROTATION: A Laboratory Exercise from Project CLEA and the GONG Project

NASA Astrophysics Data System (ADS)

Marschall, L. A.; Sudol, J. J.; Snyder, G. A.

2002-12-01

Digital images from the GONG Project provide a nearly continuous record of sunspots that are ideal for determining the rate of rotation of the Sun. A new laboratory exercise from Project CLEA provides students with the capability to access an archive of 368 images of the Sun obtained at GONG solar telescopes between January 1, 2002 and April 30, 2002, during a period near solar maximum when large numbers of spots were daily visible on the sun. The resolution of each image is about 2.5 arcsec per pixel (or about 0.25 degree in longitude and latitude at the center of the solar disk). Because these images have such exquisite spatial and temporal resolution, they are the best images to date from which students can determine the solar rotation rate. CLEA software for this exercise allows students to select images by date and time, to overlay a coordinate grid on the image, and to record the latitudes and longitudes of sunspots. This data can be tabulated and analyzed with the software to determine solar rotation rates. The expected precision in the solar rotation rates is +/- 3 hours. Students will also have the ability to combine their chosen images into a digital movie showing the solar rotation. The exercise includes a student workbook and a technical manual, as well as a CD-rom of the data and the software. This exercise was produced with funding from the National Science Foundation and Gettysburg College and with the support of the GONG Project at the National Solar Observatory.

PREFACE: Scales of understanding in biological development Scales of understanding in biological development

NASA Astrophysics Data System (ADS)

Newman, Timothy

2011-08-01

The development of an adult organism from a fertilized egg remains one of the deep mysteries of biology. Great strides have been made in the past three decades, primarily through ever more sophisticated genetic analyses and the advent of live-cell imaging, yet the underlying principles governing development are elusive. Recently, a new generation of biological physicists has entered the field, attracted by the hallmarks of development— coordinated dynamics and pattern formation arising from cell-cell interactions—which reflect tantalizing analogs with many-body systems in condensed matter physics and related fields. There have been corresponding influxes of researchers from other quantitative disciplines. With new workers come new questions and foci at different scales in space, time and complexity. The reductionist philosophy of developmental genetics has become increasingly complemented by a search for effective mechanisms at higher scales, a strategy which has a proven track record of success in the study of complex systems in physics. Are there new and universal mechanisms of development, supra-genetic in nature, waiting to be discovered by focusing on higher scales, or is development fundamentally the intricately scripted unfolding of complex genetic instructions? In this special focus issue of Physical Biology, we present cutting-edge research into embryo development from a broad spectrum of groups representing cell and developmental biology, biological physics, bioengineering and biomathematics. We are provided with a sense of how this multidisciplinary community views the fundamental issue of scale in development and are given some excellent examples of how we can bridge these scales through interdisciplinary collaboration, in order to create new levels of understanding. We start with two reviews which will provide newcomers with a guide to some of the outstanding questions in the field. Winklbauer and Müller use the phenomenon of mesoderm spreading as

Laboratory Experiments on Rotation and Alignment of the Analogs of Interstellar Dust Grains by Radiation

NASA Technical Reports Server (NTRS)

Abbas, M. M.; Craven, P. D.; Spann, J. F.; Tankosic, D.; LeClair, A.; Gallagher, D. L.; West, E. A.; Weingartner, J. C.; Witherow, W. K.; Tielens, A. G. G. M.

2004-01-01

The processes and mechanisms involved in the rotation and alignment of interstellar dust grains have been of great interest in astrophysics ever since the surprising discovery of the polarization of starlight more than half a century ago. Numerous theories, detailed mathematical models and numerical studies of grain rotation and alignment with respect to the Galactic magnetic field have been presented in the literature. In particular, the subject of grain rotation and alignment by radiative torques has been shown to be of particular interest in recent years. However, despite many investigations, a satisfactory theoretical understanding of the processes involved in grain rotation and alignment has not been achieved. As there appears to be no experimental data available on this subject, we have carried out some unique experiments to illuminate the processes involved in rotation of dust grains in the interstellar medium. In this paper we present the results of some preliminary laboratory experiments on the rotation of individual micron/submicron size nonspherical dust grains levitated in an electrodynamic balance evacuated to pressures of approximately 10(exp -3) to 10(exp -5) torr. The particles are illuminated by laser light at 5320 Angstroms, and the grain rotation rates are obtained by analyzing the low frequency (approximately 0-100 kHz) signal of the scattered light detected by a photodiode detector. The rotation rates are compared with simple theoretical models to retrieve some basic rotational parameters. The results are examined in the light of the current theories of alignment.

Evaluation of Rotating Biological Contactor Technology for Civil Works Recreational Areas.

DTIC Science & Technology

1982-04-01

Engineers, Midland District Centre, United Kingdom , November 1972). This study investigated the diurnal variations in flow and their effect on RBC... Industrial Waste Conference (1975), p 675. With a six-stage bench-top RBC unit and a synthetic apple waste contain- ing approximately 900 mg/L of BOD, the...AO-AI16 759 CONSTRUCTION ENGINEERING RESEARCH LAB (ARMY) CHAMPAIGN IL F/G 13/2 EVALUATION OF ROTATING BIOLOGICAL CONTACTOR TECHNOLOGY FOR CIVI-ETC(U

Introducing Mammalian Cell Culture and Cell Viability Techniques in the Undergraduate Biology Laboratory.

PubMed

Bowey-Dellinger, Kristen; Dixon, Luke; Ackerman, Kristin; Vigueira, Cynthia; Suh, Yewseok K; Lyda, Todd; Sapp, Kelli; Grider, Michael; Crater, Dinene; Russell, Travis; Elias, Michael; Coffield, V McNeil; Segarra, Verónica A

2017-01-01

Undergraduate students learn about mammalian cell culture applications in introductory biology courses. However, laboratory modules are rarely designed to provide hands-on experience with mammalian cells or teach cell culture techniques, such as trypsinization and cell counting. Students are more likely to learn about cell culture using bacteria or yeast, as they are typically easier to grow, culture, and manipulate given the equipment, tools, and environment of most undergraduate biology laboratories. In contrast, the utilization of mammalian cells requires a dedicated biological safety cabinet and rigorous antiseptic techniques. For this reason, we have devised a laboratory module and method herein that familiarizes students with common cell culture procedures, without the use of a sterile hood or large cell culture facility. Students design and perform a time-efficient inquiry-based cell viability experiment using HeLa cells and tools that are readily available in an undergraduate biology laboratory. Students will become familiar with common techniques such as trypsinizing cells, cell counting with a hemocytometer, performing serial dilutions, and determining cell viability using trypan blue dye. Additionally, students will work with graphing software to analyze their data and think critically about the mechanism of death on a cellular level. Two different adaptations of this inquiry-based lab are presented-one for non-biology majors and one for biology majors. Overall, these laboratories aim to expose students to mammalian cell culture and basic techniques and help them to conceptualize their application in scientific research.

Conductivity independent scaling laws for convection and magnetism in fast rotating planets

NASA Astrophysics Data System (ADS)

Starchenko, S.

2012-09-01

In the limit of negligible molecular diffusivity, viscosity and magnetic diffusivity effects, I derive scaling laws for convection and magnetism from the first principles for fast rotating planets. In the Earth, Jupiter, Saturn and ancient dynamo active Mars it is reasonable to suppose domination of magnetic energy over kinetic one that results in the typical magnetic field B proportional to the third root of the buoyancy flux F [3] driving the convection, while B is independent on conductivity σ and angular rotation rate Ω. The same scaling law was previously obtained via compilation of many numerical planetary dynamo simulations [1-3]. Besides, I obtained scaling laws for typical hydrodynamic scale h, velocity V, Archimedean acceleration A, electromagnetic scale d and sinus of the angle between magnetic and velocity vector s. In Uranus, Neptune and Ganymede a local magnetic Reynolds number rm=μσVd~1 with magnetic permeability in vacuum μ. Correspondent magnetic energy could be of order kinetic energy resulting in relatively lower magnetic field strength B=(μρ)1/2V with density ρ. That may explain magnetic field values and nondipolar structures in Uranus, Neptune and Ganymede.

Double Resonances and Spectral Scaling in the Weak Turbulence Theory of Rotating and Stratified Turbulence

NASA Technical Reports Server (NTRS)

Rubinstein, Robert

1999-01-01

In rotating turbulence, stably stratified turbulence, and in rotating stratified turbulence, heuristic arguments concerning the turbulent time scale suggest that the inertial range energy spectrum scales as k(exp -2). From the viewpoint of weak turbulence theory, there are three possibilities which might invalidate these arguments: four-wave interactions could dominate three-wave interactions leading to a modified inertial range energy balance, double resonances could alter the time scale, and the energy flux integral might not converge. It is shown that although double resonances exist in all of these problems, they do not influence overall energy transfer. However, the resonance conditions cause the flux integral for rotating turbulence to diverge logarithmically when evaluated for a k(exp -2) energy spectrum; therefore, this spectrum requires logarithmic corrections. Finally, the role of four-wave interactions is briefly discussed.

From Cookbook to Collaborative: Transforming a University Biology Laboratory Course

ERIC Educational Resources Information Center

Herron, Sherry S.

2009-01-01

As described in "How People Learn," "Developing Biological Literacy," and by the Commission on Undergraduate Education in the Biological Sciences during the 1960s and early 1970s, laboratories should promote guided-inquiries or investigations, and not simply consist of cookbook or verification activities. However, the only word that could describe…

Scale-dependent cyclone-anticyclone asymmetry in a forced rotating turbulence experiment

NASA Astrophysics Data System (ADS)

Gallet, B.; Campagne, A.; Cortet, P.-P.; Moisy, F.

2014-03-01

We characterize the statistical and geometrical properties of the cyclone-anticyclone asymmetry in a statistically steady forced rotating turbulence experiment. Turbulence is generated by a set of vertical flaps which continuously inject velocity fluctuations towards the center of a tank mounted on a rotating platform. We first characterize the cyclone-anticyclone asymmetry from conventional single-point vorticity statistics. We propose a phenomenological model to explain the emergence of the asymmetry in the experiment, from which we predict scaling laws for the root-mean-square velocity in good agreement with the experimental data. We further quantify the cyclone-anticyclone asymmetry using a set of third-order two-point velocity correlations. We focus on the correlations which are nonzero only if the cyclone-anticyclone symmetry is broken. They offer two advantages over single-point vorticity statistics: first, they are defined from velocity measurements only, so an accurate resolution of the Kolmogorov scale is not required; second, they provide information on the scale-dependence of the cyclone-anticyclone asymmetry. We compute these correlation functions analytically for a random distribution of independent identical vortices. These model correlations describe well the experimental ones, indicating that the cyclone-anticyclone asymmetry is dominated by the large-scale long-lived cyclones.

Laboratory and field testing of commercial rotational seismometers

USGS Publications Warehouse

Nigbor, R.L.; Evans, J.R.; Hutt, C.R.

2009-01-01

There are a small number of commercially available sensors to measure rotational motion in the frequency and amplitude ranges appropriate for earthquake motions on the ground and in structures. However, the performance of these rotational seismometers has not been rigorously and independently tested and characterized for earthquake monitoring purposes as is done for translational strong- and weak-motion seismometers. Quantities such as sensitivity, frequency response, resolution, and linearity are needed for the understanding of recorded rotational data. To address this need, we, with assistance from colleagues in the United States and Taiwan, have been developing performance test methodologies and equipment for rotational seismometers. In this article the performance testing methodologies are applied to samples of a commonly used commercial rotational seismometer, the eentec model R-1. Several examples were obtained for various test sequences in 2006, 2007, and 2008. Performance testing of these sensors consisted of measuring: (1) sensitivity and frequency response; (2) clip level; (3) self noise and resolution; and (4) cross-axis sensitivity, both rotational and translational. These sensor-specific results will assist in understanding the performance envelope of the R-1 rotational seismometer, and the test methodologies can be applied to other rotational seismometers.

Professor Created On-line Biology Laboratory Course

NASA Technical Reports Server (NTRS)

Bowman, Arthur W.

2010-01-01

This paper will share the creation, implementation, and modification of an online college level general biology laboratory course offered for non-science majors as a part of a General Education Curriculum. The ability of professors to develop quality online laboratories will address a growing need in Higher Education as more institutions combine course sections and look for suitable alternative course delivery formats due to declining departmental budgets requiring reductions in staffing, equipment, and supplies. Also, there is an equal or greater need for more professors to develop the ability to create online laboratory experiences because many of the currently available online laboratory course packages from publishers do not always adequately parallel on-campus laboratory courses, or are not as aligned with the companion lecture sections. From a variety of scientific simulation and animation web sites, professors can easily identify material that closely fit the specific needs of their courses, instructional environment, and students that they serve. All too often, on-campus laboratory courses in the sciences provide what are termed confirmation experiences that do NOT allow students to experience science as would be carried out by scientists. Creatively developed online laboratory experiences can often provide the type of authentic investigative experiences that are not possible on-campus due to the time constraints of a typical two-hour, once-per-week-meeting laboratory course. In addition, online laboratory courses can address issues related to the need for students to more easily complete missing laboratory assignments, and to have opportunities to extend introductory exercises into more advanced undertakings where a greater sense of scientific discovery can be experienced. Professors are strongly encourages to begin creating online laboratory exercises for their courses, and to consider issues regarding assessment, copyrights, and Intellectual Property

LABORATORY SCALE STEAM INJECTION TREATABILITY STUDIES

EPA Science Inventory

Laboratory scale steam injection treatability studies were first developed at The University of California-Berkeley. A comparable testing facility has been developed at USEPA's Robert S. Kerr Environmental Research Center. Experience has already shown that many volatile organic...

[Cooperations between biology laboratories of the establishments of healthcare].

PubMed

Burnat, Pascal; Payen, Catherine; Mérens, Audrey; Ceppa, Franck; Renard, Christophe

2013-01-01

In France, the cooperations between biological laboratories of the healthcare establishments increased after those realized in the private laboratories. The biologists are confronted with various hypotheses of organization. They are often complex because they may preserve the quality of the care and their continuity while realizing financial economies. These economies are mostly based on the global reduction in the staff and in the equipments by mutualising the biological tests with varying degrees. We describe the various elements to be taken into account (staff, activities, budget, quality, transport, materials) and propose many scenarios of cooperations, from a unique central shape to the transfer of very specialized tests, with their advantages and their inconveniences. The management of human aspects in these cooperations is determining to facilitate their success as well as a reliable preliminary inventory of fixtures.

A large-scale dynamo and magnetoturbulence in rapidly rotating core-collapse supernovae.

PubMed

Mösta, Philipp; Ott, Christian D; Radice, David; Roberts, Luke F; Schnetter, Erik; Haas, Roland

2015-12-17

Magnetohydrodynamic turbulence is important in many high-energy astrophysical systems, where instabilities can amplify the local magnetic field over very short timescales. Specifically, the magnetorotational instability and dynamo action have been suggested as a mechanism for the growth of magnetar-strength magnetic fields (of 10(15) gauss and above) and for powering the explosion of a rotating massive star. Such stars are candidate progenitors of type Ic-bl hypernovae, which make up all supernovae that are connected to long γ-ray bursts. The magnetorotational instability has been studied with local high-resolution shearing-box simulations in three dimensions, and with global two-dimensional simulations, but it is not known whether turbulence driven by this instability can result in the creation of a large-scale, ordered and dynamically relevant field. Here we report results from global, three-dimensional, general-relativistic magnetohydrodynamic turbulence simulations. We show that hydromagnetic turbulence in rapidly rotating protoneutron stars produces an inverse cascade of energy. We find a large-scale, ordered toroidal field that is consistent with the formation of bipolar magnetorotationally driven outflows. Our results demonstrate that rapidly rotating massive stars are plausible progenitors for both type Ic-bl supernovae and long γ-ray bursts, and provide a viable mechanism for the formation of magnetars. Moreover, our findings suggest that rapidly rotating massive stars might lie behind potentially magnetar-powered superluminous supernovae.

Understanding and Predicting Profile Structure and Parametric Scaling of Intrinsic Rotation

NASA Astrophysics Data System (ADS)

Wang, Weixing

2016-10-01

to studying the ρ * -scaling and predicting rotations in ITER regime. Work supported by U.S. DOE Contract DE-AC02-09-CH11466.

A comparison of a biological sciences curriculum study (BSCS) laboratory and a traditional laboratory on student achievement at two private liberal arts colleges

NASA Astrophysics Data System (ADS)

Hall, Donald A.; McCurdy, Donald W.

The purpose of this experiment was to compare an inquiry-oriented Biological Sciences Curriculum Study (BSCS) style laboratory approach with a more directive traditional approach on student outcomes in the cognitive and affective domains of learning at two private, midwestern liberal-arts colleges. The BSCS approach emphasized basic and integrated science processes, concept development through extensive questioning, and increased student discretion, while the traditional approach contained highly structured, more prescriptive, teacher-oriented activities. Intact laboratory sections of students enrolled in introductory general biology at two private liberal-arts colleges were randomly selected into two treatment groups. Pretest and posttest measures were taken on three dependent variables: (1) biological content achievement, measured with a researcher-generated Test on Biology Laboratory Concepts, (2) reasoning ability, measured with the Group Assessment of Logical Thinking, and (3) attitude toward biology, measured with the Biology Student Behavior Inventory. Analysis of covariance indicated the experimental group (n = 60) using the BSCS-style laboratory approach scored significantly higher than the comparison group (n = 59) in levels of performance on biology content achievement, F(1, 114) = 4.07, p < 0.05. There were no significant differences between the two groups in performance levels on attitude toward biology or on reasoning ability. However, both groups experienced a 15-percent increase in the number of formal thinkers as indicated by pretest-posttest gain scores on the reasoning ability test. These results lend support to the hypothesis that a BSCS-style laboratory approach fosters desired learner outcomes at the postsecondary level. In addition, these findings support the notion that the science laboratory may be used as a primary vehicle to promote formal reasoning skills.

Simulation of two-dimensional turbulent flows in a rotating annulus

NASA Astrophysics Data System (ADS)

Storey, Brian D.

2004-05-01

Rotating water tank experiments have been used to study fundamental processes of atmospheric and geophysical turbulence in a controlled laboratory setting. When these tanks are undergoing strong rotation the forced turbulent flow becomes highly two dimensional along the axis of rotation. An efficient numerical method has been developed for simulating the forced quasi-geostrophic equations in an annular geometry to model current laboratory experiments. The algorithm employs a spectral method with Fourier series and Chebyshev polynomials as basis functions. The algorithm has been implemented on a parallel architecture to allow modelling of a wide range of spatial scales over long integration times. This paper describes the derivation of the model equations, numerical method, testing and performance of the algorithm. Results provide reasonable agreement with the experimental data, indicating that such computations can be used as a predictive tool to design future experiments.

Reorganization of finger coordination patterns during adaptation to rotation and scaling of a newly learned sensorimotor transformation.

PubMed

Liu, Xiaolin; Mosier, Kristine M; Mussa-Ivaldi, Ferdinando A; Casadio, Maura; Scheidt, Robert A

2011-01-01

We examined how people organize redundant kinematic control variables (finger joint configurations) while learning to make goal-directed movements of a virtual object (a cursor) within a low-dimensional task space (a computer screen). Subjects participated in three experiments performed on separate days. Learning progressed rapidly on day 1, resulting in reduced target capture error and increased cursor trajectory linearity. On days 2 and 3, one group of subjects adapted to a rotation of the nominal map, imposed either stepwise or randomly over trials. Another group experienced a scaling distortion. We report two findings. First, adaptation rates and memory-dependent motor command updating depended on distortion type. Stepwise application and removal of the rotation induced a marked increase in finger motion variability but scaling did not, suggesting that the rotation initiated a more exhaustive search through the space of viable finger motions to resolve the target capture task than did scaling. Indeed, subjects formed new coordination patterns in compensating the rotation but relied on patterns established during baseline practice to compensate the scaling. These findings support the idea that the brain compensates direction and extent errors separately and in computationally distinct ways, but are inconsistent with the idea that once a task is learned, command updating is limited to those degrees of freedom contributing to performance (thereby minimizing energetic or similar costs of control). Second, we report that subjects who learned a scaling while moving to just one target generalized more narrowly across directions than those who learned a rotation. This contrasts with results from whole-arm reaching studies, where a learned scaling generalizes more broadly across direction than rotation. Based on inverse- and forward-dynamics analyses of reaching with the arm, we propose the difference in results derives from extensive exposure in reaching with familiar

Laboratory biological safety cabinet (BSC) explosion

DOE Office of Scientific and Technical Information (OSTI.GOV)

Al-Dahhan, Wedad H.; Al-Zuhairi, Ali Jasim; Hussein, Falah H.

Scientists at universities across Iraq are actively working to report actual incidents and accidents occurring in their laboratories in order to raise awareness and encourage openness, leading to widespread adoption of robust Chemical Safety and Security (CSS) practices. This manuscript is the first in a series of five case studies describing laboratory incidents and accidents in Iraqi university laboratories in order to share lessons learned and minimize the possibility of similar incidents in the future. In this study, we describe a serious event that resulted in a postgraduate student sustaining serious injuries when the biological safety cabinet (BSC) she wasmore » using exploded. Of particular note, the paper highlights how a combination of failures and deficiencies at many levels within an organization and its technical community (rather than a single piece of faulty equipment or the careless behavior of one person) can lead to a dangerous, potentially life-threatening incident. By openly sharing what happened along with the lessons learned from the accident, we hope to minimize the possibility of another researcher being injured in a similar incident in the future.« less

Multi-pose system for geometric measurement of large-scale assembled rotational parts

NASA Astrophysics Data System (ADS)

Deng, Bowen; Wang, Zhaoba; Jin, Yong; Chen, Youxing

2017-05-01

To achieve virtual assembly of large-scale assembled rotational parts based on in-field geometric data, we develop a multi-pose rotative arm measurement system with a gantry and 2D laser sensor (RAMSGL) to measure and provide the geometry of these parts. We mount a 2D laser sensor onto the end of a six-jointed rotative arm to guarantee the accuracy and efficiency, combine the rotative arm with a gantry to measure pairs of assembled rotational parts. By establishing and using the D-H model of the system, the 2D laser data is turned into point clouds and finally geometry is calculated. In addition, we design three experiments to evaluate the performance of the system. Experimental results show that the system’s max length measuring deviation using gauge blocks is 35 µm, max length measuring deviation using ball plates is 50 µm, max single-point repeatability error is 25 µm, and measurement scope is from a radius of 0 mm to 500 mm.

Streamlining workflow and automation to accelerate laboratory scale protein production.

PubMed

Konczal, Jennifer; Gray, Christopher H

2017-05-01

Protein production facilities are often required to produce diverse arrays of proteins for demanding methodologies including crystallography, NMR, ITC and other reagent intensive techniques. It is common for these teams to find themselves a bottleneck in the pipeline of ambitious projects. This pressure to deliver has resulted in the evolution of many novel methods to increase capacity and throughput at all stages in the pipeline for generation of recombinant proteins. This review aims to describe current and emerging options to accelerate the success of protein production in Escherichia coli. We emphasize technologies that have been evaluated and implemented in our laboratory, including innovative molecular biology and expression vectors, small-scale expression screening strategies and the automation of parallel and multidimensional chromatography. Copyright © 2017 The Authors. Published by Elsevier Inc. All rights reserved.

ScaleNet: a literature-based model of scale insect biology and systematics

PubMed Central

García Morales, Mayrolin; Denno, Barbara D.; Miller, Douglass R.; Miller, Gary L.; Ben-Dov, Yair; Hardy, Nate B.

2016-01-01

Scale insects (Hemiptera: Coccoidea) are small herbivorous insects found on all continents except Antarctica. They are extremely invasive, and many species are serious agricultural pests. They are also emerging models for studies of the evolution of genetic systems, endosymbiosis and plant-insect interactions. ScaleNet was launched in 1995 to provide insect identifiers, pest managers, insect systematists, evolutionary biologists and ecologists efficient access to information about scale insect biological diversity. It provides comprehensive information on scale insects taken directly from the primary literature. Currently, it draws from 23 477 articles and describes the systematics and biology of 8194 valid species. For 20 years, ScaleNet ran on the same software platform. That platform is no longer viable. Here, we present a new, open-source implementation of ScaleNet. We have normalized the data model, begun the process of correcting invalid data, upgraded the user interface, and added online administrative tools. These improvements make ScaleNet easier to use and maintain and make the ScaleNet data more accurate and extendable. Database URL: http://scalenet.info PMID:26861659

Some Experiments with Biological Applications for the Elementary Laboratory

ERIC Educational Resources Information Center

Kammer, D. W.; Williams, J. A.

1975-01-01

Summarizes physics laboratory experiments with applications in the biological sciences. Includes the following topics: mechanics of the human arm, fluid flow in tubes, physics of learning, the electrocardiograph, nerve impulse conduction, and corrective lenses for eye defects. (Author/MLH)

Introducing Mammalian Cell Culture and Cell Viability Techniques in the Undergraduate Biology Laboratory †

PubMed Central

Bowey-Dellinger, Kristen; Dixon, Luke; Ackerman, Kristin; Vigueira, Cynthia; Suh, Yewseok K.; Lyda, Todd; Sapp, Kelli; Grider, Michael; Crater, Dinene; Russell, Travis; Elias, Michael; Coffield, V. McNeil; Segarra, Verónica A.

2017-01-01

Undergraduate students learn about mammalian cell culture applications in introductory biology courses. However, laboratory modules are rarely designed to provide hands-on experience with mammalian cells or teach cell culture techniques, such as trypsinization and cell counting. Students are more likely to learn about cell culture using bacteria or yeast, as they are typically easier to grow, culture, and manipulate given the equipment, tools, and environment of most undergraduate biology laboratories. In contrast, the utilization of mammalian cells requires a dedicated biological safety cabinet and rigorous antiseptic techniques. For this reason, we have devised a laboratory module and method herein that familiarizes students with common cell culture procedures, without the use of a sterile hood or large cell culture facility. Students design and perform a time-efficient inquiry-based cell viability experiment using HeLa cells and tools that are readily available in an undergraduate biology laboratory. Students will become familiar with common techniques such as trypsinizing cells, cell counting with a hemocytometer, performing serial dilutions, and determining cell viability using trypan blue dye. Additionally, students will work with graphing software to analyze their data and think critically about the mechanism of death on a cellular level. Two different adaptations of this inquiry-based lab are presented—one for non-biology majors and one for biology majors. Overall, these laboratories aim to expose students to mammalian cell culture and basic techniques and help them to conceptualize their application in scientific research. PMID:28861134

Laboratory tests of catastrophic disruption of rotating bodies

NASA Astrophysics Data System (ADS)

Morris, A. J. W.; Burchell, M. J.

2017-11-01

The results of catastrophic disruption experiments on static and rotating targets are reported. The experiments used cement spheres of diameter 10 cm as the targets. Impacts were by mm sized stainless steel spheres at speeds of between 1 and 7.75 km s-1. Energy densities (Q) in the targets ranged from 7 to 2613 J kg-1. The experiments covered both the cratering and catastrophic disruption regimes. For static, i.e. non-rotating targets the critical energy density for disruption (Q*, the value of Q when the largest surviving target fragment has a mass equal to one half of the pre-impact target mass) was Q* = 1447 ± 90 J kg-1. For rotating targets (median rotation frequency of 3.44 Hz) we found Q* = 987 ± 349 J kg-1, a reduction of 32% in the mean value. This lower value of Q* for rotating targets was also accompanied by a larger scatter on the data, hence the greater uncertainty. We suggest that in some cases the rotating targets behaved as static targets, i.e. broke up with the same catastrophic disruption threshold, but in other cases the rotation helped the break up causing a lower catastrophic disruption threshold, hence both the lower value of Q* and the larger scatter on the data. The fragment mass distributions after impact were similar in both the static and rotating target experiments with similar slopes.

Helicity, geostrophic balance and mixing in rotating stratified turbulence: a multi-scale problem

NASA Astrophysics Data System (ADS)

Pouquet, A.; Marino, R.; Mininni, P.; Rorai, C.; Rosenberg, D. L.

2012-12-01

Helicity, geostrophic balance and mixing in rotating stratified turbulence: a multi-scale problem A. Pouquet, R. Marino, P. D. Mininni, C. Rorai & D. Rosenberg, NCAR Interactions between winds and waves have important roles in planetary and oceanic boundary layers, affecting momentum, heat and CO2 transport. Within the Abyssal Southern Ocean at Mid latitude, this may result in a mixed layer which is too shallow in climate models thereby affecting the overall evolution because of poor handling of wave breaking as in Kelvin-Helmoltz instabilities: gravity waves couple nonlinearly on slow time scales and undergo steepening through resonant interactions, or due to the presence of shear. In the oceans, sub-mesoscale frontogenesis and significant departure from quasi-geostrophy can be seen as turbulence intensifies. The ensuing anomalous vertical dispersion may not be simply modeled by a random walk, due to intermittent structures, wave propagation and to their interactions. Conversely, the energy and seeds required for such intermittent events to occur, say in the stable planetary boundary layer, may come from the wave field that is perturbed, or from winds and the effect of topography. Under the assumption of stationarity, weak nonlinearities, dissipation and forcing, one obtains large-scale geostrophic balance linking pressure gradient, gravity and Coriolis force. The role of helicity (velocity-vorticity correlations) has not received as much attention, outside the realm of astrophysics when considering the growth of large-scale magnetic fields. However, it is measured routinely in the atmosphere in order to gauge the likelihood of supercell convective storms to strengthen, and it may be a factor to consider in the formation of hurricanes. In this context, we examine the transition from a wave-dominated regime to an isotropic small-scale turbulent one in rotating flows with helical forcing. Using a direct numerical simulation (DNS) on a 3072^3 grid with Rossby and

Exposure to hazardous substances in a standard molecular biology laboratory environment: evaluation of exposures in IARC laboratories.

PubMed

Chapot, Brigitte; Secretan, Béatrice; Robert, Annie; Hainaut, Pierre

2009-07-01

Working in a molecular biology laboratory environment implies regular exposure to a wide range of hazardous substances. Several recent studies have shown that laboratory workers may have an elevated risk of certain cancers. Data on the nature and frequency of exposures in such settings are scanty. The frequency of use of 163 agents by staff working in molecular biology laboratories was evaluated over a period of 4 years by self-administered questionnaire. Of the agents listed, ethanol was used by the largest proportion of staff (70%), followed by ethidium bromide (55%). Individual patterns of use showed three patterns, namely (i) frequent use of a narrow range of products, (ii) occasional use of a wide range of products, and (iii) frequent and occasional use of an intermediate range of products. Among known or suspected carcinogens (International Agency for Research on Cancer Group 1 and 2A, respectively), those most frequently used included formaldehyde (17%), oncogenic viruses (4%), and acrylamide (32%). The type of exposure encountered in research laboratories is extremely diverse. Few carcinogenic agents are used frequently but many laboratory workers may be exposed occasionally to known human carcinogens. In addition, many of the chemicals handled by staff represent a health hazard. The results enabled the staff physician to develop an individual approach to medical surveillance and to draw a personal history of occupational exposures for laboratory staff.

The Contribution of a Virtual Biology Laboratory to College Students' Learning

ERIC Educational Resources Information Center

Swan, Aubrie E.; O'Donnell, Angela M.

2009-01-01

The virtual laboratories developed by a life sciences department at a public university in the US were designed for use by college students enrolled in an introductory biology course. The results analyses conducted to examine their effectiveness indicated that self-selected users of the virtual laboratories outperformed non-users on laboratory…

Review of the Usefulness of Various Rotational Seismometers with Laboratory Results of Fibre-Optic Ones Tested for Engineering Applications

PubMed Central

Jaroszewicz, Leszek R.; Kurzych, Anna; Krajewski, Zbigniew; Marć, Paweł; Kowalski, Jerzy K.; Bobra, Piotr; Zembaty, Zbigniew; Sakowicz, Bartosz; Jankowski, Robert

2016-01-01

Starting with descriptions of rotational seismology, areas of interest and historical field measurements, the fundamental requirements for rotational seismometers for seismological and engineering application are formulated. On the above basis, a review of all existing rotational seismometers is presented with a description of the principles of their operation as well as possibilities to fulfill formulated requirements. This review includes mechanical, acoustical, electrochemical and optical devices and shows that the last of these types are the most promising. It is shown that optical rotational seismometer based on the ring-laser gyroscope concept is the best for seismological applications, whereas systems based on fiber-optic gyroscopes demonstrate parameters which are also required for engineering applications. Laboratory results of the Fibre-Optic System for Rotational Events & Phenomena Monitoring using a small 1-D shaking table modified to generate rotational excitations are presented. The harmonic and time-history tests demonstrate its usefulness for recording rotational motions with rates up to 0.25 rad/s. PMID:27999299

Characterizing High School Students' Written Explanations in Biology Laboratories

ERIC Educational Resources Information Center

Peker, Deniz; Wallace, Carolyn S.

2011-01-01

The purpose of this qualitative interpretive research study was to examine high school students' written scientific explanations during biology laboratory investigations. Specifically, we characterized the types of epistemologies and forms of reasoning involved in students' scientific explanations and students' perceptions of scientific…

Rotation and scale invariant shape context registration for remote sensing images with background variations

NASA Astrophysics Data System (ADS)

Jiang, Jie; Zhang, Shumei; Cao, Shixiang

2015-01-01

Multitemporal remote sensing images generally suffer from background variations, which significantly disrupt traditional region feature and descriptor abstracts, especially between pre and postdisasters, making registration by local features unreliable. Because shapes hold relatively stable information, a rotation and scale invariant shape context based on multiscale edge features is proposed. A multiscale morphological operator is adapted to detect edges of shapes, and an equivalent difference of Gaussian scale space is built to detect local scale invariant feature points along the detected edges. Then, a rotation invariant shape context with improved distance discrimination serves as a feature descriptor. For a distance shape context, a self-adaptive threshold (SAT) distance division coordinate system is proposed, which improves the discriminative property of the feature descriptor in mid-long pixel distances from the central point while maintaining it in shorter ones. To achieve rotation invariance, the magnitude of Fourier transform in one-dimension is applied to calculate angle shape context. Finally, the residual error is evaluated after obtaining thin-plate spline transformation between reference and sensed images. Experimental results demonstrate the robustness, efficiency, and accuracy of this automatic algorithm.

Multi-scale modeling in cell biology

PubMed Central

Meier-Schellersheim, Martin; Fraser, Iain D. C.; Klauschen, Frederick

2009-01-01

Biomedical research frequently involves performing experiments and developing hypotheses that link different scales of biological systems such as, for instance, the scales of intracellular molecular interactions to the scale of cellular behavior and beyond to the behavior of cell populations. Computational modeling efforts that aim at exploring such multi-scale systems quantitatively with the help of simulations have to incorporate several different simulation techniques due to the different time and space scales involved. Here, we provide a non-technical overview of how different scales of experimental research can be combined with the appropriate computational modeling techniques. We also show that current modeling software permits building and simulating multi-scale models without having to become involved with the underlying technical details of computational modeling. PMID:20448808

A laboratory study of mean flow generation in rotating fluids by Reynolds stress gradients

NASA Astrophysics Data System (ADS)

McGuinness, D. S.; Boyer, D. L.; Fernando, H. J. S.

2001-06-01

Laboratory experiments were conducted that demonstrate that a mean azimuthal flow can be produced by introducing Reynolds stress gradients to a rotating fluid with zero initial mean flow. This mechanism may play a role in the generation of mean currents in coastal regions. The experiments entail the establishment of turbulence in a thin annular-shaped region centered within a cylindrical test cell through the use of a vertically oscillating grid. This region rests in a horizontal plane perpendicular to the vertical axis of the tank, and the entire system is placed on a turntable to simulate background rotation. Flow visualization techniques are used to depict qualitative features of the resulting flow field. Measurements of the mean and turbulent velocity fields are performed using a two-component laser-Doppler velocimeter. The results show how rectified currents (mean flows) can be generated via Reynolds stress gradients induced by periodic forcing of the grid. In the absence of background rotation, rectified flow is observed in the radial and vertical directions only. The presence of background rotation tends to organize these motions in that the flow tends to move parallel to the turbulent source, i.e., in the azimuthal direction, with the source (strong turbulence) located to the right, facing downstream. The influence of rotation on the Reynolds stresses and their gradients as well as on the ensuing mean flow is evaluated, and the observations are examined by considering individual contributions of the terms in the Reynolds-averaged momentum equations.

Multiweek Cell Culture Project for Use in Upper-Level Biology Laboratories

ERIC Educational Resources Information Center

Marion, Rebecca E.; Gardner, Grant E.; Parks, Lisa D.

2012-01-01

This article describes a laboratory protocol for a multiweek project piloted in a new upper-level biology laboratory (BIO 426) using cell culture techniques. Human embryonic kidney-293 cells were used, and several culture media and supplements were identified for students to design their own experiments. Treatments included amino acids, EGF,…

ScaleNet: a literature-based model of scale insect biology and systematics.

PubMed

García Morales, Mayrolin; Denno, Barbara D; Miller, Douglass R; Miller, Gary L; Ben-Dov, Yair; Hardy, Nate B

2016-01-01

Scale insects (Hemiptera: Coccoidea) are small herbivorous insects found on all continents except Antarctica. They are extremely invasive, and many species are serious agricultural pests. They are also emerging models for studies of the evolution of genetic systems, endosymbiosis and plant-insect interactions. ScaleNet was launched in 1995 to provide insect identifiers, pest managers, insect systematists, evolutionary biologists and ecologists efficient access to information about scale insect biological diversity. It provides comprehensive information on scale insects taken directly from the primary literature. Currently, it draws from 23,477 articles and describes the systematics and biology of 8194 valid species. For 20 years, ScaleNet ran on the same software platform. That platform is no longer viable. Here, we present a new, open-source implementation of ScaleNet. We have normalized the data model, begun the process of correcting invalid data, upgraded the user interface, and added online administrative tools. These improvements make ScaleNet easier to use and maintain and make the ScaleNet data more accurate and extendable. Database URL: http://scalenet.info. Published by Oxford University Press 2016. This work is written by US Government employees and is in the public domain in the US.

Building a Laboratory-Scale Biogas Plant and Verifying its Functionality

NASA Astrophysics Data System (ADS)

Boleman, Tomáš; Fiala, Jozef; Blinová, Lenka; Gerulová, Kristína

2011-01-01

The paper deals with the process of building a laboratory-scale biogas plant and verifying its functionality. The laboratory-scale prototype was constructed in the Department of Safety and Environmental Engineering at the Faculty of Materials Science and Technology in Trnava, of the Slovak University of Technology. The Department has already built a solar laboratory to promote and utilise solar energy, and designed SETUR hydro engine. The laboratory is the next step in the Department's activities in the field of renewable energy sources and biomass. The Department is also involved in the European Union project, where the goal is to upgrade all existed renewable energy sources used in the Department.

Redefining Authentic Research Experiences in Introductory Biology Laboratories and Barriers to Their Implementation

PubMed Central

Spell, Rachelle M.; Guinan, Judith A.; Miller, Kristen R.; Beck, Christopher W.

2014-01-01

Incorporating authentic research experiences in introductory biology laboratory classes would greatly expand the number of students exposed to the excitement of discovery and the rigor of the scientific process. However, the essential components of an authentic research experience and the barriers to their implementation in laboratory classes are poorly defined. To guide future reform efforts in this area, we conducted a national survey of biology faculty members to determine 1) their definitions of authentic research experiences in laboratory classes, 2) the extent of authentic research experiences currently experienced in their laboratory classes, and 3) the barriers that prevent incorporation of authentic research experiences into these classes. Strikingly, the definitions of authentic research experiences differ among faculty members and tend to emphasize either the scientific process or the discovery of previously unknown data. The low level of authentic research experiences in introductory biology labs suggests that more development and support is needed to increase undergraduate exposure to research experiences. Faculty members did not cite several barriers commonly assumed to impair pedagogical reform; however, their responses suggest that expanded support for development of research experiences in laboratory classes could address the most common barrier. PMID:24591509

Redefining authentic research experiences in introductory biology laboratories and barriers to their implementation.

PubMed

Spell, Rachelle M; Guinan, Judith A; Miller, Kristen R; Beck, Christopher W

2014-01-01

Incorporating authentic research experiences in introductory biology laboratory classes would greatly expand the number of students exposed to the excitement of discovery and the rigor of the scientific process. However, the essential components of an authentic research experience and the barriers to their implementation in laboratory classes are poorly defined. To guide future reform efforts in this area, we conducted a national survey of biology faculty members to determine 1) their definitions of authentic research experiences in laboratory classes, 2) the extent of authentic research experiences currently experienced in their laboratory classes, and 3) the barriers that prevent incorporation of authentic research experiences into these classes. Strikingly, the definitions of authentic research experiences differ among faculty members and tend to emphasize either the scientific process or the discovery of previously unknown data. The low level of authentic research experiences in introductory biology labs suggests that more development and support is needed to increase undergraduate exposure to research experiences. Faculty members did not cite several barriers commonly assumed to impair pedagogical reform; however, their responses suggest that expanded support for development of research experiences in laboratory classes could address the most common barrier.

Tested Studies for Laboratory Teaching. Proceedings of the Workshop/Conference of the Association for Biology Laboratory Education (ABLE) (16th, Atlanta, Georgia, June 7-11, 1994). Volume 16.

ERIC Educational Resources Information Center

Goldman, Corey A., Ed.

The focus of the Association for Biology Laboratory Education (ABLE) is to improve the undergraduate biology laboratory experience by promoting the development and dissemination of interesting, innovative, and reliable laboratory exercises. This proceedings volume contains 17 papers on the topics of cell and molecular biology, genetics, and…

Recommendations for accreditation of laboratories in molecular biology of hematologic malignancies.

PubMed

Flandrin-Gresta, Pascale; Cornillet, Pascale; Hayette, Sandrine; Gachard, Nathalie; Tondeur, Sylvie; Mauté, Carole; Cayuela, Jean-Michel

2015-01-01

Over recent years, the development of molecular biology techniques has improved the hematological diseases diagnostic and follow-up. Consequently, these techniques are largely used in the biological screening of these diseases; therefore the Hemato-oncology molecular diagnostics laboratories must be actively involved in the accreditation process according the ISO 15189 standard. The French group of molecular biologists (GBMHM) provides requirements for the implementation of quality assurance for the medical molecular laboratories. This guideline states the recommendations for the pre-analytical, analytical (methods validation procedures, quality controls, reagents), and post-analytical conditions. In addition, herein we state a strategy for the internal quality control management. These recommendations will be regularly updated.

Parsec-scale Faraday rotation and polarization of 20 active galactic nuclei jets

NASA Astrophysics Data System (ADS)

Kravchenko, E. V.; Kovalev, Y. Y.; Sokolovsky, K. V.

2017-05-01

We perform polarimetry analysis of 20 active galactic nuclei jets using the very long baseline array at 1.4, 1.6, 2.2, 2.4, 4.6, 5.0, 8.1, 8.4 and 15.4 GHz. The study allowed us to investigate linearly polarized properties of the jets at parsec scales: distribution of the Faraday rotation measure (RM) and fractional polarization along the jets, Faraday effects and structure of Faraday-corrected polarization images. Wavelength dependence of the fractional polarization and polarization angle is consistent with external Faraday rotation, while some sources show internal rotation. The RM changes along the jets, systematically increasing its value towards synchrotron self-absorbed cores at shorter wavelengths. The highest core RM reaches 16 900 rad m-2 in the source rest frame for the quasar 0952+179, suggesting the presence of highly magnetized, dense media in these regions. The typical RM of transparent jet regions has values of an order of a hundred rad m-2. Significant transverse RM gradients are observed in seven sources. The magnetic field in the Faraday screen has no preferred orientation, and is observed to be random or regular from source to source. Half of the sources show evidence for the helical magnetic fields in their rotating magneto-ionic media. At the same time jets themselves contain large-scale, ordered magnetic fields and tend to align its direction with the jet flow. The observed variety of polarized signatures can be explained by a model of spine-sheath jet structure.

New scaling relation for information transfer in biological networks

PubMed Central

Kim, Hyunju; Davies, Paul; Walker, Sara Imari

2015-01-01

We quantify characteristics of the informational architecture of two representative biological networks: the Boolean network model for the cell-cycle regulatory network of the fission yeast Schizosaccharomyces pombe (Davidich et al. 2008 PLoS ONE 3, e1672 (doi:10.1371/journal.pone.0001672)) and that of the budding yeast Saccharomyces cerevisiae (Li et al. 2004 Proc. Natl Acad. Sci. USA 101, 4781–4786 (doi:10.1073/pnas.0305937101)). We compare our results for these biological networks with the same analysis performed on ensembles of two different types of random networks: Erdös–Rényi and scale-free. We show that both biological networks share features in common that are not shared by either random network ensemble. In particular, the biological networks in our study process more information than the random networks on average. Both biological networks also exhibit a scaling relation in information transferred between nodes that distinguishes them from random, where the biological networks stand out as distinct even when compared with random networks that share important topological properties, such as degree distribution, with the biological network. We show that the most biologically distinct regime of this scaling relation is associated with a subset of control nodes that regulate the dynamics and function of each respective biological network. Information processing in biological networks is therefore interpreted as an emergent property of topology (causal structure) and dynamics (function). Our results demonstrate quantitatively how the informational architecture of biologically evolved networks can distinguish them from other classes of network architecture that do not share the same informational properties. PMID:26701883

Computational simulation of laboratory-scale volcanic jets

NASA Astrophysics Data System (ADS)

Solovitz, S.; Van Eaton, A. R.; Mastin, L. G.; Herzog, M.

2017-12-01

Volcanic eruptions produce ash clouds that may travel great distances, significantly impacting aviation and communities downwind. Atmospheric hazard forecasting relies partly on numerical models of the flow physics, which incorporate data from eruption observations and analogue laboratory tests. As numerical tools continue to increase in complexity, they must be validated to fine-tune their effectiveness. Since eruptions are relatively infrequent and challenging to observe in great detail, analogue experiments can provide important insights into expected behavior over a wide range of input conditions. Unfortunately, laboratory-scale jets cannot easily attain the high Reynolds numbers ( 109) of natural volcanic eruption columns. Comparisons between the computational models and analogue experiments can help bridge this gap. In this study, we investigate a 3-D volcanic plume model, the Active Tracer High-resolution Atmospheric Model (ATHAM), which has been used to simulate a variety of eruptions. However, it has not been previously validated using laboratory-scale data. We conducted numerical simulations of three flows that we have studied in the laboratory: a vertical jet in a quiescent environment, a vertical jet in horizontal cross flow, and a particle-laden jet. We considered Reynolds numbers from 10,000 to 50,000, jet-to-cross flow velocity ratios of 2 to 10, and particle mass loadings of up to 25% of the exit mass flow rate. Vertical jet simulations produce Gaussian velocity profiles in the near exit region by 3 diameters downstream, matching the mean experimental profiles. Simulations of air entrainment are of the correct order of magnitude, but they show decreasing entrainment with vertical distance from the vent. Cross flow simulations reproduce experimental trajectories for the jet centerline initially, although confinement appears to impact the response later. Particle-laden simulations display minimal variation in concentration profiles between cases with

[Non-conformities management in laboratory of medical biology: application to non-conformities of biological samples during 2009].

PubMed

Annaix, Véronique; Rogowski, Julien; Joyau, Mireille; Jaouën, Edtih

2011-01-01

The non-conformity management is required for the ISO 15189 standard. The laboratory of medical biology has to carry out suitable acts and procedures to exploit different indicators through the framework of continuous improvement. We particularly study the indicator of biological samples nonconformities and we report 2009 results to the nurses' team managers to find solutions for quality of care to the patient.

MHD scaling: from astrophysics to the laboratory

NASA Astrophysics Data System (ADS)

Ryutov, Dmitri

2000-10-01

During the last few years, considerable progress has been made in simulating astrophysical phenomena in laboratory experiments with high power lasers [1]. Astrophysical phenomena that have drawn particular interest include supernovae explosions; young supernova remnants; galactic jets; the formation of fine structures in late supernova remnants by instabilities; and the ablation driven evolution of molecular clouds illuminated by nearby bright stars, which may affect star formation. A question may arise as to what extent the laser experiments, which deal with targets of a spatial scale 0.01 cm and occur at a time scale of a few nanoseconds, can reproduce phenomena occurring at spatial scales of a million or more kilometers and time scales from hours to many years. Quite remarkably, if dissipative processes (like, e.g., viscosity, Joule dissipation, etc.) are subdominant in both systems, and the matter behaves as a polytropic gas, there exists a broad hydrodynamic similarity (the ``Euler similarity" of Ref. [2]) that allows a direct scaling of laboratory results to astrophysical phenomena. Following a review of relevant earlier work (in particular, [3]-[5]), discussion is presented of the details of the Euler similarity related to the presence of shocks and to a special case of a strong drive. After that, constraints stemming from possible development of small-scale turbulence are analyzed. Generalization of the Euler similarity to the case of a gas with spatially varying polytropic index is presented. A possibility of scaled simulations of ablation front dynamics is one more topic covered in this paper. It is shown that, with some additional constraints, a simple similarity exists. This, in particular, opens up the possibility of scaled laboratory simulation of the aforementioned ablation (photoevaporation) fronts. A nonlinear transformation [6] that establishes a duality between implosion and explosion processes is also discussed in the paper. 1. B.A. Remington et

Spatial confinement of active microtubule networks induces large-scale rotational cytoplasmic flow

PubMed Central

Suzuki, Kazuya; Miyazaki, Makito; Takagi, Jun; Itabashi, Takeshi; Ishiwata, Shin’ichi

2017-01-01

Collective behaviors of motile units through hydrodynamic interactions induce directed fluid flow on a larger length scale than individual units. In cells, active cytoskeletal systems composed of polar filaments and molecular motors drive fluid flow, a process known as cytoplasmic streaming. The motor-driven elongation of microtubule bundles generates turbulent-like flow in purified systems; however, it remains unclear whether and how microtubule bundles induce large-scale directed flow like the cytoplasmic streaming observed in cells. Here, we adopted Xenopus egg extracts as a model system of the cytoplasm and found that microtubule bundle elongation induces directed flow for which the length scale and timescale depend on the existence of geometrical constraints. At the lower activity of dynein, kinesins bundle and slide microtubules, organizing extensile microtubule bundles. In bulk extracts, the extensile bundles connected with each other and formed a random network, and vortex flows with a length scale comparable to the bundle length continually emerged and persisted for 1 min at multiple places. When the extracts were encapsulated in droplets, the extensile bundles pushed the droplet boundary. This pushing force initiated symmetry breaking of the randomly oriented bundle network, leading to bundles aligning into a rotating vortex structure. This vortex induced rotational cytoplasmic flows on the length scale and timescale that were 10- to 100-fold longer than the vortex flows emerging in bulk extracts. Our results suggest that microtubule systems use not only hydrodynamic interactions but also mechanical interactions to induce large-scale temporally stable cytoplasmic flow. PMID:28265076

A comparison of refuse attenuation in laboratory and field scale lysimeters.

PubMed

Youcai, Zhao; Luochun, Wang; Renhua, Hua; Dimin, Xu; Guowei, Gu

2002-01-01

For this study, small and middle scale laboratory lysimeters, and a large scale field lysimeter in situ in Shanghai Refuse Landfill, with refuse weights of 187,600 and 10,800,000 kg, respectively, were created. These lysimeters are compared in terms of leachate quality (pH, concentrations of COD, BOD and NH3-N), refuse composition (biodegradable matter and volatile solid) and surface settlement for a monitoring period of 0-300 days. The objectives of this study were to explore both the similarities and disparities between laboratory and field scale lysimeters, and to compare degradation behaviors of refuse at the intensive reaction phase in the different scale lysimeters. Quantitative relationships of leachate quality and refuse composition with placement time show that degradation behaviors of refuse seem to depend heavily on the scales of the lysimeters and the parameters of concern, especially in the starting period of 0-6 months. However, some similarities exist between laboratory and field lysimeters after 4-6 months of placement because COD and BOD concentrations in leachate in the field lysimeter decrease regularly in a parallel pattern with those in the laboratory lysimeters. NH3-N, volatile solid (VS) and biodegradable matter (BDM) also gradually decrease in parallel in this intensive reaction phase for all scale lysimeters as refuse ages. Though the concrete data are different among the different scale lysimeters, it may be considered that laboratory lysimeters with sufficient scale are basically applicable for a rough simulation of a real landfill, especially for illustrating the degradation pattern and mechanism. Settlement of refuse surface is roughly proportional to the initial refuse height.

Leaf LIMS: A Flexible Laboratory Information Management System with a Synthetic Biology Focus.

PubMed

Craig, Thomas; Holland, Richard; D'Amore, Rosalinda; Johnson, James R; McCue, Hannah V; West, Anthony; Zulkower, Valentin; Tekotte, Hille; Cai, Yizhi; Swan, Daniel; Davey, Robert P; Hertz-Fowler, Christiane; Hall, Anthony; Caddick, Mark

2017-12-15

This paper presents Leaf LIMS, a flexible laboratory information management system (LIMS) designed to address the complexity of synthetic biology workflows. At the project's inception there was a lack of a LIMS designed specifically to address synthetic biology processes, with most systems focused on either next generation sequencing or biobanks and clinical sample handling. Leaf LIMS implements integrated project, item, and laboratory stock tracking, offering complete sample and construct genealogy, materials and lot tracking, and modular assay data capture. Hence, it enables highly configurable task-based workflows and supports data capture from project inception to completion. As such, in addition to it supporting synthetic biology it is ideal for many laboratory environments with multiple projects and users. The system is deployed as a web application through Docker and is provided under a permissive MIT license. It is freely available for download at https://leaflims.github.io .

Experimental quantification of nonlinear time scales in inertial wave rotating turbulence

NASA Astrophysics Data System (ADS)

Yarom, Ehud; Salhov, Alon; Sharon, Eran

2017-12-01

We study nonlinearities of inertial waves in rotating turbulence. At small Rossby numbers the kinetic energy in the system is contained in helical inertial waves with time dependence amplitudes. In this regime the amplitude variations time scales are slow compared to wave periods, and the spectrum is concentrated along the dispersion relation of the waves. A nonlinear time scale was extracted from the width of the spectrum, which reflects the intensity of nonlinear wave interactions. This nonlinear time scale is found to be proportional to (U.k ) -1, where k is the wave vector and U is the root-mean-square horizontal velocity, which is dominated by large scales. This correlation, which indicates the existence of turbulence in which inertial waves undergo weak nonlinear interactions, persists only for small Rossby numbers.

Chemical and Biological Mobile Laboratory: infrastructure employed by Brazilian Army in emergency response actions

NASA Astrophysics Data System (ADS)

Cardozo, M.; Oliveira, V. G. M.; Sousa, R. B.; de Paula, R. L.

2018-03-01

The Brazilian Army specified and acquired a mobile chemical and biological laboratory in order to confirm in a fast and mobile way with more precise analytical techniques the information obtained by the emergency responders field teams. The laboratory was designed for displacement in different scenarios of the national territory. This paper describes the laboratorial structure, the material flow and the deployment of this defense product in the major international events occurred in Brazil from 2011 to 2016, with the objective of providing in situ identification of chemical and biological threats.

Design of a laboratory scale fluidized bed reactor

NASA Astrophysics Data System (ADS)

Wikström, E.; Andersson, P.; Marklund, S.

1998-04-01

The aim of this project was to construct a laboratory scale fluidized bed reactor that simulates the behavior of full scale municipal solid waste combustors. The design of this reactor is thoroughly described. The size of the laboratory scale fluidized bed reactor is 5 kW, which corresponds to a fuel-feeding rate of approximately 1 kg/h. The reactor system consists of four parts: a bed section, a freeboard section, a convector (postcombustion zone), and an air pollution control (APC) device system. The inside diameter of the reactor is 100 mm at the bed section and it widens to 200 mm in diameter in the freeboard section; the total height of the reactor is 1760 mm. The convector part consists of five identical sections; each section is 2700 mm long and has an inside diameter of 44.3 mm. The reactor is flexible regarding the placement and number of sampling ports. At the beginning of the first convector unit and at the end of each unit there are sampling ports for organic micropollutants (OMP). This makes it possible to study the composition of the flue gases at various residence times. Sampling ports for inorganic compounds and particulate matter are also placed in the convector section. All operating parameters, reactor temperatures, concentrations of CO, CO2, O2, SO2, NO, and NO2 are continuously measured and stored at selected intervals for further evaluation. These unique features enable full control over the fuel feed, air flows, and air distribution as well as over the temperature profile. Elaborate details are provided regarding the configuration of the fuel-feeding systems, the fluidized bed, the convector section, and the APC device. This laboratory reactor enables detailed studies of the formation mechanisms of OMP, such as polychlorinated dibenzo-p-dioxins (PCDDs), polychlorinated dibenzofurans (PCDFs), poly-chlorinated biphenyls (PCBs), and polychlorinated benzenes (PCBzs). With this system formation mechanisms of OMP occurring in both the combustion

On the detectability of the Lense-Thirring field from rotating laboratory masses using ring laser gyroscope interferometers

NASA Astrophysics Data System (ADS)

Stedman, G. E.; Schreiber, K. U.; Bilger, H. R.

2003-07-01

The possibility of detecting the Lense-Thirring field generated by the rotating earth (also rotating laboratory masses) is reassessed in view of recent dramatic advances in the technology of ring laser gyroscopes. This possibility is very much less remote than it was a decade ago. The effect may contribute significantly to the Sagnac frequency of planned instruments. Its discrimination and detection will require an improved metrology, linking the ring to the celestial reference frame, and a fuller study of dispersion- and backscatter-induced frequency pulling. Both these requirements have been the subject of recent major progress, and our goal looks feasible.

Guidelines for Genome-Scale Analysis of Biological Rhythms.

PubMed

Hughes, Michael E; Abruzzi, Katherine C; Allada, Ravi; Anafi, Ron; Arpat, Alaaddin Bulak; Asher, Gad; Baldi, Pierre; de Bekker, Charissa; Bell-Pedersen, Deborah; Blau, Justin; Brown, Steve; Ceriani, M Fernanda; Chen, Zheng; Chiu, Joanna C; Cox, Juergen; Crowell, Alexander M; DeBruyne, Jason P; Dijk, Derk-Jan; DiTacchio, Luciano; Doyle, Francis J; Duffield, Giles E; Dunlap, Jay C; Eckel-Mahan, Kristin; Esser, Karyn A; FitzGerald, Garret A; Forger, Daniel B; Francey, Lauren J; Fu, Ying-Hui; Gachon, Frédéric; Gatfield, David; de Goede, Paul; Golden, Susan S; Green, Carla; Harer, John; Harmer, Stacey; Haspel, Jeff; Hastings, Michael H; Herzel, Hanspeter; Herzog, Erik D; Hoffmann, Christy; Hong, Christian; Hughey, Jacob J; Hurley, Jennifer M; de la Iglesia, Horacio O; Johnson, Carl; Kay, Steve A; Koike, Nobuya; Kornacker, Karl; Kramer, Achim; Lamia, Katja; Leise, Tanya; Lewis, Scott A; Li, Jiajia; Li, Xiaodong; Liu, Andrew C; Loros, Jennifer J; Martino, Tami A; Menet, Jerome S; Merrow, Martha; Millar, Andrew J; Mockler, Todd; Naef, Felix; Nagoshi, Emi; Nitabach, Michael N; Olmedo, Maria; Nusinow, Dmitri A; Ptáček, Louis J; Rand, David; Reddy, Akhilesh B; Robles, Maria S; Roenneberg, Till; Rosbash, Michael; Ruben, Marc D; Rund, Samuel S C; Sancar, Aziz; Sassone-Corsi, Paolo; Sehgal, Amita; Sherrill-Mix, Scott; Skene, Debra J; Storch, Kai-Florian; Takahashi, Joseph S; Ueda, Hiroki R; Wang, Han; Weitz, Charles; Westermark, Pål O; Wijnen, Herman; Xu, Ying; Wu, Gang; Yoo, Seung-Hee; Young, Michael; Zhang, Eric Erquan; Zielinski, Tomasz; Hogenesch, John B

2017-10-01

Genome biology approaches have made enormous contributions to our understanding of biological rhythms, particularly in identifying outputs of the clock, including RNAs, proteins, and metabolites, whose abundance oscillates throughout the day. These methods hold significant promise for future discovery, particularly when combined with computational modeling. However, genome-scale experiments are costly and laborious, yielding "big data" that are conceptually and statistically difficult to analyze. There is no obvious consensus regarding design or analysis. Here we discuss the relevant technical considerations to generate reproducible, statistically sound, and broadly useful genome-scale data. Rather than suggest a set of rigid rules, we aim to codify principles by which investigators, reviewers, and readers of the primary literature can evaluate the suitability of different experimental designs for measuring different aspects of biological rhythms. We introduce CircaInSilico, a web-based application for generating synthetic genome biology data to benchmark statistical methods for studying biological rhythms. Finally, we discuss several unmet analytical needs, including applications to clinical medicine, and suggest productive avenues to address them.

Guidelines for Genome-Scale Analysis of Biological Rhythms

PubMed Central

Hughes, Michael E.; Abruzzi, Katherine C.; Allada, Ravi; Anafi, Ron; Arpat, Alaaddin Bulak; Asher, Gad; Baldi, Pierre; de Bekker, Charissa; Bell-Pedersen, Deborah; Blau, Justin; Brown, Steve; Ceriani, M. Fernanda; Chen, Zheng; Chiu, Joanna C.; Cox, Juergen; Crowell, Alexander M.; DeBruyne, Jason P.; Dijk, Derk-Jan; DiTacchio, Luciano; Doyle, Francis J.; Duffield, Giles E.; Dunlap, Jay C.; Eckel-Mahan, Kristin; Esser, Karyn A.; FitzGerald, Garret A.; Forger, Daniel B.; Francey, Lauren J.; Fu, Ying-Hui; Gachon, Frédéric; Gatfield, David; de Goede, Paul; Golden, Susan S.; Green, Carla; Harer, John; Harmer, Stacey; Haspel, Jeff; Hastings, Michael H.; Herzel, Hanspeter; Herzog, Erik D.; Hoffmann, Christy; Hong, Christian; Hughey, Jacob J.; Hurley, Jennifer M.; de la Iglesia, Horacio O.; Johnson, Carl; Kay, Steve A.; Koike, Nobuya; Kornacker, Karl; Kramer, Achim; Lamia, Katja; Leise, Tanya; Lewis, Scott A.; Li, Jiajia; Li, Xiaodong; Liu, Andrew C.; Loros, Jennifer J.; Martino, Tami A.; Menet, Jerome S.; Merrow, Martha; Millar, Andrew J.; Mockler, Todd; Naef, Felix; Nagoshi, Emi; Nitabach, Michael N.; Olmedo, Maria; Nusinow, Dmitri A.; Ptáček, Louis J.; Rand, David; Reddy, Akhilesh B.; Robles, Maria S.; Roenneberg, Till; Rosbash, Michael; Ruben, Marc D.; Rund, Samuel S.C.; Sancar, Aziz; Sassone-Corsi, Paolo; Sehgal, Amita; Sherrill-Mix, Scott; Skene, Debra J.; Storch, Kai-Florian; Takahashi, Joseph S.; Ueda, Hiroki R.; Wang, Han; Weitz, Charles; Westermark, Pål O.; Wijnen, Herman; Xu, Ying; Wu, Gang; Yoo, Seung-Hee; Young, Michael; Zhang, Eric Erquan; Zielinski, Tomasz; Hogenesch, John B.

2017-01-01

Genome biology approaches have made enormous contributions to our understanding of biological rhythms, particularly in identifying outputs of the clock, including RNAs, proteins, and metabolites, whose abundance oscillates throughout the day. These methods hold significant promise for future discovery, particularly when combined with computational modeling. However, genome-scale experiments are costly and laborious, yielding “big data” that are conceptually and statistically difficult to analyze. There is no obvious consensus regarding design or analysis. Here we discuss the relevant technical considerations to generate reproducible, statistically sound, and broadly useful genome-scale data. Rather than suggest a set of rigid rules, we aim to codify principles by which investigators, reviewers, and readers of the primary literature can evaluate the suitability of different experimental designs for measuring different aspects of biological rhythms. We introduce CircaInSilico, a web-based application for generating synthetic genome biology data to benchmark statistical methods for studying biological rhythms. Finally, we discuss several unmet analytical needs, including applications to clinical medicine, and suggest productive avenues to address them. PMID:29098954

Development of a Meso-Scale Fiberoptic Rotation Sensor for a Torsion Actuator.

PubMed

Sheng, Jun; Desai, Jaydev P

2018-01-01

This paper presents the development of a meso-scale fiberoptic rotation sensor for a shape memory alloy (SMA) torsion actuator for neurosurgical applications. Within the sensor, a rotary head with a reflecting surface is capable of modulating the light intensity collected by optical fibers when the rotary head is coupled to the torsion actuator. The mechanism of light intensity modulation is modeled, followed by experimental model verification. Meanwhile, working performances for different rotary head designs, optical fibers, and fabrication materials are compared. After the calibration of the fiberoptic rotation sensor, the sensor is capable of precisely measuring rotary motion and controlling the SMA torsion actuator with feedback control.

Modeling Radial Holoblastic Cleavage: A Laboratory Activity for Developmental Biology.

ERIC Educational Resources Information Center

Ellis, Linda K.

2000-01-01

Introduces a laboratory activity designed for an undergraduate developmental biology course. Uses Play-Doh (plastic modeling clay) to build a multicellular embryo in order to provide a 3-D demonstration of cleavage. Includes notes for the instructor and student directions. (YDS)

Connecting biology and organic chemistry introductory laboratory courses through a collaborative research project.

PubMed

Boltax, Ariana L; Armanious, Stephanie; Kosinski-Collins, Melissa S; Pontrello, Jason K

2015-01-01

Modern research often requires collaboration of experts in fields, such as math, chemistry, biology, physics, and computer science to develop unique solutions to common problems. Traditional introductory undergraduate laboratory curricula in the sciences often do not emphasize connections possible between the various disciplines. We designed an interdisciplinary, medically relevant, project intended to help students see connections between chemistry and biology. Second term organic chemistry laboratory students designed and synthesized potential polymer inhibitors or inducers of polyglutamine protein aggregation. The use of novel target compounds added the uncertainty of scientific research to the project. Biology laboratory students then tested the novel potential pharmaceuticals in Huntington's disease model assays, using in vitro polyglutamine peptide aggregation and in vivo lethality studies in Drosophila. Students read articles from the primary literature describing the system from both chemical and biological perspectives. Assessment revealed that students emerged from both courses with a deeper understanding of the interdisciplinary nature of biology and chemistry and a heightened interest in basic research. The design of this collaborative project for introductory biology and organic chemistry labs demonstrated how the local interests and expertise at a university can be drawn from to create an effective way to integrate these introductory courses. Rather than simply presenting a series of experiments to be replicated, we hope that our efforts will inspire other scientists to think about how some aspect of authentic work can be brought into their own courses, and we also welcome additional collaborations to extend the scope of the scientific exploration. © 2015 The International Union of Biochemistry and Molecular Biology.

Tested Studies for Laboratory Teaching. Proceedings of the Workshop/Conference of the Association for Biology Laboratory Education (ABLE) (5th, Clemson, South Carolina, June 13-17, 1983).

ERIC Educational Resources Information Center

Goldman, Corey A., Ed.; And Others

The focus of the Association for Biology Laboratory Education (ABLE) is to improve the undergraduate biology laboratory experience by promoting the development and dissemination of interesting, innovative, and reliable laboratory exercises. This proceedings volume contains eight papers: "Bacterial Transformation" (M. J. Ernest & N. J. Rosenbaum);…

Virtually-Enhanced Fluid Laboratories for Teaching Meteorology

NASA Astrophysics Data System (ADS)

Marshall, J.; Illari, L.

2015-12-01

The Weather in a Tank (WIAT) project aims to offer instructors a repertoire of rotating tank experiments, and a curriculum in fluid dynamics, to better assist students in learning how to move between phenomena in the real world and basic principles of rotating fluid dynamics which play a central role in determining the climate of the planet. Despite the increasing use of laboratory experiments in teaching meteorology, however, we are aware that many teachers and students do not have access to suitable apparatus and so cannot benefit from them. Here we describe a 'virtually-enhanced' laboratory that we hope could be very effective in getting across a flavor of the experiments and bring them to a wider audience. In the pedagogical spirit of WIAT we focus on how simple underlying principles, illustrated through laboratory experiments, shape the observed structure of the large-scale atmospheric circulation.

Investigating Coccolithophorid Biology in the Sedimentary Laboratory

NASA Astrophysics Data System (ADS)

McClelland, H. L. O.; Barbarin, N.; Beaufort, L.; Hermoso, M.; Rickaby, R. E. M.

2014-12-01

Coccolithophores are the ocean's dominant calcifying phytoplankton; they play an important, but poorly understood, role in long-term biogeochemical climatic feedbacks. Calcite producing marine organisms are likely to calcify less in a future world where higher carbon dioxide concentrations will lead to ocean acidification (OA), but coccolithophores may be the exception. In coccolithophores calcification occurs in an intracellular vesicle, where the site of calcite precipitation is buffered from the external environment and is subject to a uniquely high degree of biological control. Culture manipulation experiments mimicking the effects of OA in the laboratory have yielded empirical evidence for phenotypic plasticity, competition and evolutionary adaptation in asexual populations. However, the extent to which these results are representative of natural populations, and of the response over timescales of greater than a few hundred generations, is unclear. Here we describe a new sediment-based proxy for the PIC:POC (particulate inorganic to particulate organic carbon ratio) of coccolithophore biomass, which is equivalent to the fractional energy contribution to calcification at constant pH, and a biologically meaningful measure of the organism's tendency to calcify. Employing the geological record as a laboratory, we apply this proxy to sedimentary material from the southern Pacific Ocean to investigate the integrated response of real ancient coccolithophore populations to environmental change over many thousands of years. Our results provide a new perspective on phenotypic change in real populations of coccolithophorid algae over long timescales.

[Hygiene and security management in medical biology laboratory].

PubMed

Vinner, E; Odou, M F; Fovet, B; Ghnassia, J C

2013-06-01

Risk management in Medical Biology Laboratory (MBL) which includes hygiene and waste management, is an integrated process to the whole MBL organisation. It is composed of three stages: risks factors identification, grading and prioritization, and their evaluation in the system. From the legislation and NF EN ISO 15189 standard's requirements viewpoint, prevention and protection actions to implement are described, at premises level, but also at work station environment's one (human resources and equipments) towards biological, chemical, linked to gas, to ionizing or non ionizing radiations and fire riks, in order not to compromise patients safety, employees safety, and quality results. Then, although NF EN 15189 standard only enacts requirements in terms of prevention, curative actions after established blood or chemical exposure accident are defined.

Dynamic contact network between ribosomal subunits enables rapid large-scale rotation during spontaneous translocation

PubMed Central

Bock, Lars V.; Blau, Christian; Vaiana, Andrea C.; Grubmüller, Helmut

2015-01-01

During ribosomal translation, the two ribosomal subunits remain associated through intersubunit bridges, despite rapid large-scale intersubunit rotation. The absence of large barriers hindering rotation is a prerequisite for rapid rotation. Here, we investigate how such a flat free-energy landscape is achieved, in particular considering the large shifts the bridges undergo at the periphery. The dynamics and energetics of the intersubunit contact network are studied using molecular dynamics simulations of the prokaryotic ribosome in intermediate states of spontaneous translocation. Based on observed occupancies of intersubunit contacts, residues were grouped into clusters. In addition to the central contact clusters, peripheral clusters were found to maintain strong steady interactions by changing contacts in the course of rotation. The peripheral B1 bridges are stabilized by a changing contact pattern of charged residues that adapts to the rotational state. In contrast, steady strong interactions of the B4 bridge are ensured by the flexible helix H34 following the movement of protein S15. The tRNAs which span the subunits contribute to the intersubunit binding enthalpy to an almost constant degree, despite their different positions in the ribosome. These mechanisms keep the intersubunit interaction strong and steady during rotation, thereby preventing dissociation and enabling rapid rotation. PMID:26109353

Fracture induced electromagnetic emissions: extending laboratory findings by observations at the geophysical scale

NASA Astrophysics Data System (ADS)

Potirakis, Stelios M.; Contoyiannis, Yiannis; Kopanas, John; Kalimeris, Anastasios; Antonopoulos, George; Peratzakis, Athanasios; Eftaxias, Konstantinos; Nomicos, Constantinos

2014-05-01

Under natural conditions, it is practically impossible to install an experimental network on the geophysical scale using the same instrumentations as in laboratory experiments for understanding, through the states of stress and strain and their time variation, the laws that govern the friction during the last stages of EQ generation, or to monitor (much less to control) the principal characteristics of a fracture process. Fracture-induced electromagnetic emissions (EME) in a wide range of frequency bands are sensitive to the micro-structural chances. Thus, their study constitutes a nondestructive method for the monitoring of the evolution of damage process at the laboratory scale. It has been suggested that fracture induced MHz-kHz electromagnetic (EM) emissions, which emerge from a few days up to a few hours before the main seismic shock occurrence permit a real time monitoring of the damage process during the last stages of earthquake preparation, as it happens at the laboratory scale. Since the EME are produced both in the case of the laboratory scale fracture and the EQ preparation process (geophysical scale fracture) they should present similar characteristics in these two scales. Therefore, both the laboratory experimenting scientists and the experimental scientists studying the pre-earthquake EME could benefit from each- other's results. Importantly, it is noted that when studying the fracture process by means of laboratory experiments, the fault growth process normally occurs violently in a fraction of a second. However, a major difference between the laboratory and natural processes is the order-of-magnitude differences in scale (in space and time), allowing the possibility of experimental observation at the geophysical scale for a range of physical processes which are not observable at the laboratory scale. Therefore, the study of fracture-induced EME is expected to reveal more information, especially for the last stages of the fracture process, when it

An experimental test of an extended discretion approach for high school biology laboratory investigations

NASA Astrophysics Data System (ADS)

Leonard, William H.; Cavana, Gordon R.; Lowery, Lawrence F.

Discretion-the exercise of independent judgment-was observed to be lacking in most commercially available laboratory investigations for high school biology. An Extended Discretion (ED) laboratory approach was developed and tested experimentally against the BSCS Green Version laboratory program, using ten classes of 10th-grade biology in a suburban California high school. Five teachers were each assigned one experimental and one control group. The primary differences between the two approaches were that the BSCS was more prescriptive and directive than the ED approach and the ED approach increased discretionary demands upon the student over the school year. A treatment verification procedure showed statistically significant differences between the two approaches. The hypothesis under test was that when high school biology students are taught laboratory concepts under comparatively high discretionary demands, they would perform as well as or better than a similar group of students taught with BSCS Green Version investigations. A second hypothesis was that teachers would prefer to use the ED approach over the BSCS approach for their future classes. A t analysis between experimental and control groups for each teacher was employed. There were significant differences in favor of the ED group on laboratory report scores for three teachers and no differences for two teachers. There were significant differences in favor of the ED group on laboratory concepts quiz scores for three teachers, no differences for one teacher, and significant differences in favor of the BSCS group for only one teacher. A t analysis of teacher evaluation of the two approaches showed a significant teacher preference overall for the ED approach. Both experimental hypotheses were accepted. The ED approach was observed to be difficult for students at first, but it was found to be a workable and productive means of teaching laboratory concepts in biology which also required extensive use of individual

Removal of volatile organic compounds at extreme shock-loading using a scaled-up pilot rotating drum biofilter.

PubMed

Sawvel, Russell A; Kim, Byung; Alvarez, Pedro J J

2008-11-01

A pilot-scale rotating drum biofilter (RDB), which is a novel biofilter design that offers flexible flow-through configurations, was used to treat complex and variable volatile organic compound (VOC) emissions, including shock loadings, emanating from paint drying operations at an Army ammunition plant. The RDB was seeded with municipal wastewater activated sludge. Removal efficiencies up to 86% and an elimination capacity of 5.3 g chemical oxygen demand (COD) m(-3) hr(-1) were achieved at a filter-medium contact time of 60 sec. Efficiency increased at higher temperatures that promote higher biological activity, and decreased at lower pH, which dropped down to pH 5.5 possibly as a result of carbon dioxide and volatile fatty acid production and ammonia consumption during VOC degradation. In comparison, other studies have shown that a bench-scale RDB could achieve a removal efficiency of 95% and elimination capacity of 331 g COD m(-3) hr(-1). Sustainable performance of the pilot-scale RDB was challenged by the intermittent nature of painting operations, which typically resulted in 3-day long shutdown periods when bacteria were not fed. This challenge was overcome by adding sucrose (2 g/L weekly) as an auxiliary substrate to sustain metabolic activity during shutdown periods.

Simulations of turbulent rotating flows using a subfilter scale stress model derived from the partially integrated transport modeling method

NASA Astrophysics Data System (ADS)

Chaouat, Bruno

2012-04-01

The partially integrated transport modeling (PITM) method [B. Chaouat and R. Schiestel, "A new partially integrated transport model for subgrid-scale stresses and dissipation rate for turbulent developing flows," Phys. Fluids 17, 065106 (2005), 10.1063/1.1928607; R. Schiestel and A. Dejoan, "Towards a new partially integrated transport model for coarse grid and unsteady turbulent flow simulations," Theor. Comput. Fluid Dyn. 18, 443 (2005), 10.1007/s00162-004-0155-z; B. Chaouat and R. Schiestel, "From single-scale turbulence models to multiple-scale and subgridscale models by Fourier transform," Theor. Comput. Fluid Dyn. 21, 201 (2007), 10.1007/s00162-007-0044-3; B. Chaouat and R. Schiestel, "Progress in subgrid-scale transport modelling for continuous hybrid non-zonal RANS/LES simulations," Int. J. Heat Fluid Flow 30, 602 (2009), 10.1016/j.ijheatfluidflow.2009.02.021] viewed as a continuous approach for hybrid RANS/LES (Reynolds averaged Navier-Stoke equations/large eddy simulations) simulations with seamless coupling between RANS and LES regions is used to derive a subfilter scale stress model in the framework of second-moment closure applicable in a rotating frame of reference. This present subfilter scale model is based on the transport equations for the subfilter stresses and the dissipation rate and appears well appropriate for simulating unsteady flows on relatively coarse grids or flows with strong departure from spectral equilibrium because the cutoff wave number can be located almost anywhere inside the spectrum energy. According to the spectral theory developed in the wave number space [B. Chaouat and R. Schiestel, "From single-scale turbulence models to multiple-scale and subgrid-scale models by Fourier transform," Theor. Comput. Fluid Dyn. 21, 201 (2007), 10.1007/s00162-007-0044-3], the coefficients used in this model are no longer constants but they are some analytical functions of a dimensionless parameter controlling the spectral distribution of

Tested Studies for Laboratory Teaching. Proceedings of the Workshop/Conference of the Association for Biology Laboratory Education (ABLE) (12th, Springfield, Missouri, June 4-8, 1990). Volume 12.

ERIC Educational Resources Information Center

Goldman, Corey A., Ed.

The focus of the Association for Biology Laboratory Education (ABLE) is to improve the undergraduate biology laboratory experience by promoting the development and dissemination of interesting, innovative, and reliable laboratory exercises. This proceedings volume includes 13 papers: "Non-Radioactive DNA Hybridization Experiments for the…

A new scale measuring translation of the humeral head as a prognostic factor for the treatment of large and massive rotator cuff tears.

PubMed

Taniguchi, Noboru; D'Lima, Darryl D; Suenaga, Naoki; Chosa, Etsuo

2018-02-01

Failure rates after rotator cuff repair remain high in patients with massive tears. Although superior translation of the humeral head has been used to assess the severity of rotator cuff tears, the relevance of anterior migration of the humeral head to clinical outcomes has not been established. The purpose of this study was to investigate the potential role of the T-scale, a measure of the anterolateral translation of the humeral head, as a prognostic factor for rotator cuff repair. One hundred twenty consecutive patients with full-thickness rotator cuff tears underwent primary rotator cuff repair. The T-scale and acromiohumeral interval (AHI) were measured preoperatively on axial computed tomography scans and radiographs, respectively. The correlations of the T-scale and AHI with previously published scores and active forward elevation (FE) were investigated. The outcome of rotator cuff repairs was compared between patients with positive and patients with negative preoperative T-scale values. The preoperative T-scale but not AHI correlated significantly with postoperative FE and clinical scores in patients with large to massive tears but not in those with small to medium tears. Postoperative FE and clinical scores were significantly higher in patients with positive T-scale values than in those with negative T-scale values. The relative risk of retear was 2.0 to 7.9 times greater in patients with negative T-scale values. Patients with large to massive tears and negative T-scale values had poorer clinical outcomes and higher retear rates. A negative T-scale value represents a useful prognostic factor for considering reverse shoulder arthroplasty in patients at greater risk of retear after rotator cuff repair. Copyright © 2017 Journal of Shoulder and Elbow Surgery Board of Trustees. Published by Elsevier Inc. All rights reserved.

A compact rotating dilution refrigerator

NASA Astrophysics Data System (ADS)

Fear, M. J.; Walmsley, P. M.; Chorlton, D. A.; Zmeev, D. E.; Gillott, S. J.; Sellers, M. C.; Richardson, P. P.; Agrawal, H.; Batey, G.; Golov, A. I.

2013-10-01

We describe the design and performance of a new rotating dilution refrigerator that will primarily be used for investigating the dynamics of quantized vortices in superfluid 4He. All equipment required to operate the refrigerator and perform experimental measurements is mounted on two synchronously driven, but mechanically decoupled, rotating carousels. The design allows for relative simplicity of operation and maintenance and occupies a minimal amount of space in the laboratory. Only two connections between the laboratory and rotating frames are required for the transmission of electrical power and helium gas recovery. Measurements on the stability of rotation show that rotation is smooth to around 10-3 rad s-1 up to angular velocities in excess of 2.5 rad s-1. The behavior of a high-Q mechanical resonator during rapid changes in rotation has also been investigated.

Culturally relevant inquiry-based laboratory module implementations in upper-division genetics and cell biology teaching laboratories.

PubMed

Siritunga, Dimuth; Montero-Rojas, María; Carrero, Katherine; Toro, Gladys; Vélez, Ana; Carrero-Martínez, Franklin A

2011-01-01

Today, more minority students are entering undergraduate programs than ever before, but they earn only 6% of all science or engineering PhDs awarded in the United States. Many studies suggest that hands-on research activities enhance students' interest in pursuing a research career. In this paper, we present a model for the implementation of laboratory research in the undergraduate teaching laboratory using a culturally relevant approach to engage students. Laboratory modules were implemented in upper-division genetics and cell biology courses using cassava as the central theme. Students were asked to bring cassava samples from their respective towns, which allowed them to compare their field-collected samples against known lineages from agricultural stations at the end of the implementation. Assessment of content and learning perceptions revealed that our novel approach allowed students to learn while engaged in characterizing Puerto Rican cassava. In two semesters, based on the percentage of students who answered correctly in the premodule assessment for content knowledge, there was an overall improvement of 66% and 55% at the end in the genetics course and 24% and 15% in the cell biology course. Our proposed pedagogical model enhances students' professional competitiveness by providing students with valuable research skills as they work on a problem to which they can relate.

Culturally Relevant Inquiry-Based Laboratory Module Implementations in Upper-Division Genetics and Cell Biology Teaching Laboratories

PubMed Central

Siritunga, Dimuth; Montero-Rojas, María; Carrero, Katherine; Toro, Gladys; Vélez, Ana; Carrero-Martínez, Franklin A.

2011-01-01

Today, more minority students are entering undergraduate programs than ever before, but they earn only 6% of all science or engineering PhDs awarded in the United States. Many studies suggest that hands-on research activities enhance students’ interest in pursuing a research career. In this paper, we present a model for the implementation of laboratory research in the undergraduate teaching laboratory using a culturally relevant approach to engage students. Laboratory modules were implemented in upper-division genetics and cell biology courses using cassava as the central theme. Students were asked to bring cassava samples from their respective towns, which allowed them to compare their field-collected samples against known lineages from agricultural stations at the end of the implementation. Assessment of content and learning perceptions revealed that our novel approach allowed students to learn while engaged in characterizing Puerto Rican cassava. In two semesters, based on the percentage of students who answered correctly in the premodule assessment for content knowledge, there was an overall improvement of 66% and 55% at the end in the genetics course and 24% and 15% in the cell biology course. Our proposed pedagogical model enhances students’ professional competitiveness by providing students with valuable research skills as they work on a problem to which they can relate. PMID:21885825

Large Scale Flutter Data for Design of Rotating Blades Using Navier-Stokes Equations

NASA Technical Reports Server (NTRS)

Guruswamy, Guru P.

2012-01-01

A procedure to compute flutter boundaries of rotating blades is presented; a) Navier-Stokes equations. b) Frequency domain method compatible with industry practice. Procedure is initially validated: a) Unsteady loads with flapping wing experiment. b) Flutter boundary with fixed wing experiment. Large scale flutter computation is demonstrated for rotating blade: a) Single job submission script. b) Flutter boundary in 24 hour wall clock time with 100 cores. c) Linearly scalable with number of cores. Tested with 1000 cores that produced data in 25 hrs for 10 flutter boundaries. Further wall-clock speed-up is possible by performing parallel computations within each case.

Integrating Statistical Mechanics with Experimental Data from the Rotational-Vibrational Spectrum of HCl into the Physical Chemistry Laboratory

ERIC Educational Resources Information Center

Findley, Bret R.; Mylon, Steven E.

2008-01-01

We introduce a computer exercise that bridges spectroscopy and thermodynamics using statistical mechanics and the experimental data taken from the commonly used laboratory exercise involving the rotational-vibrational spectrum of HCl. Based on the results from the analysis of their HCl spectrum, students calculate bulk thermodynamic properties…

The First Laboratory Detection of Vibration-rotation Transitions of 12CH+ and 13CH+ and Improved Measurement of Their Rotational Transition Frequencies

NASA Astrophysics Data System (ADS)

Doménech, José L.; Jusko, Pavol; Schlemmer, Stephan; Asvany, Oskar

2018-04-01

C–H stretches of the fundamental ions CH+ and 13CH+, which have long been searched for, have been observed for the first time in the laboratory. The state-dependent attachment of He atoms to these ions at cryogenic temperatures has been exploited to obtain high-resolution rovibrational data. In addition, the lowest rotational transitions of CH+, 13CH+ and CD+ have been revisited and their rest frequency values have improved substantially.

Tested Studies for Laboratory Teaching. Proceedings. Workshop/Conference of the Association for Biology Laboratory Education (ABLE) (11th, Fredericton, New Brunswick, Canada, June 12-16, 1989). Volume 11.

ERIC Educational Resources Information Center

Goldman, Corey A., Ed.

The focus of the Association for Biology Laboratory Education (ABLE) is to improve the undergraduate biology laboratory experience by promoting the development and dissemination of interesting, innovative, and reliable laboratory exercises. This proceedings volume contains 10 papers: "Investigating Fungi Which Cause Rot and Decay" (J. A Johnson);…

Subgrid-scale models for large-eddy simulation of rotating turbulent flows

NASA Astrophysics Data System (ADS)

Silvis, Maurits; Trias, Xavier; Abkar, Mahdi; Bae, Hyunji Jane; Lozano-Duran, Adrian; Verstappen, Roel

2016-11-01

This paper discusses subgrid models for large-eddy simulation of anisotropic flows using anisotropic grids. In particular, we are looking into ways to model not only the subgrid dissipation, but also transport processes, since these are expected to play an important role in rotating turbulent flows. We therefore consider subgrid-scale models of the form τ = - 2νt S +μt (SΩ - ΩS) , where the eddy-viscosity νt is given by the minimum-dissipation model, μt represents a transport coefficient; S is the symmetric part of the velocity gradient and Ω the skew-symmetric part. To incorporate the effect of mesh anisotropy the filter length is taken in such a way that it minimizes the difference between the turbulent stress in physical and computational space, where the physical space is covered by an anisotropic mesh and the computational space is isotropic. The resulting model is successfully tested for rotating homogeneous isotropic turbulence and rotating plane-channel flows. The research was largely carried out during the CTR SP 2016. M.S, and R.V. acknowledge the financial support to attend this Summer Program.

Hubble Space Telescope scale 3D simulations of MHD disc winds: a rotating two-component jet structure

NASA Astrophysics Data System (ADS)

Staff, J. E.; Koning, N.; Ouyed, R.; Thompson, A.; Pudritz, R. E.

2015-02-01

We present the results of large scale, three-dimensional magnetohydrodynamics simulations of disc winds for different initial magnetic field configurations. The jets are followed from the source to 90 au scale, which covers several pixels of Hubble Space Telescope images of nearby protostellar jets. Our simulations show that jets are heated along their length by many shocks. We compute the emission lines that are produced, and find excellent agreement with observations. The jet width is found to be between 20 and 30 au while the maximum velocities perpendicular to the jet are found to be up to above 100 km s-1. The initially less open magnetic field configuration simulations result in a wider, two-component jet; a cylindrically shaped outer jet surrounding a narrow and much faster, inner jet. These simulations preserve the underlying Keplerian rotation profile of the inner jet to large distances from the source. However, for the initially most open magnetic field configuration the kink mode creates a narrow corkscrew-like jet without a clear Keplerian rotation profile and even regions where we observe rotation opposite to the disc (counter-rotating). The RW Aur jet is narrow, indicating that the disc field in that case is very open meaning the jet can contain a counter-rotating component that we suggest explains why observations of rotation in this jet have given confusing results. Thus magnetized disc winds from underlying Keplerian discs can develop rotation profiles far down the jet that is not Keplerian.

Experimental study of rotating wind turbine breakdown characteristics in large scale air gaps

NASA Astrophysics Data System (ADS)

Wang, Yu; Qu, Lu; Si, Tianjun; Ni, Yang; Xu, Jianwei; Wen, Xishan

2017-06-01

When a wind turbine is struck by lightning, its blades are usually rotating. The effect of blade rotation on a turbine’s ability to trigger a lightning strike is unclear. Therefore, an arching electrode was used in a wind turbine lightning discharge test to investigate the difference in lightning triggering ability when blades are rotating and stationary. A negative polarity switching waveform of 250/2500 μs was applied to the arching electrode and the up-and-down method was used to calculate the 50% discharge voltage. Lightning discharge tests of a 1:30 scale wind turbine model with 2, 4, and 6 m air gaps were performed and the discharge process was observed. The experimental results demonstrated that when a 2 m air gap was used, the breakdown voltage increased as the blade speed was increased, but when the gap length was 4 m or longer, the trend was reversed and the breakdown voltage decreased. The analysis revealed that the rotation of the blades changes the charge distribution in the blade-tip region, promotes upward leader development on the blade tip, and decreases the breakdown voltage. Thus, the blade rotation of a wind turbine increases its ability to trigger lightning strikes.

Multiweek cell culture project for use in upper-level biology laboratories.

PubMed

Marion, Rebecca E; Gardner, Grant E; Parks, Lisa D

2012-06-01

This article describes a laboratory protocol for a multiweek project piloted in a new upper-level biology laboratory (BIO 426) using cell culture techniques. Human embryonic kidney-293 cells were used, and several culture media and supplements were identified for students to design their own experiments. Treatments included amino acids, EGF, caffeine, epinephrine, heavy metals, and FBS. Students researched primary literature to determine their experimental variables, made their own solutions, and treated their cells over a period of 2 wk. Before this, a sterile technique laboratory was developed to teach students how to work with the cells and minimize contamination. Students designed their experiments, mixed their solutions, seeded their cells, and treated them with their control and experimental media. Students had the choice of manipulating a number of variables, including incubation times, exposure to treatment media, and temperature. At the end of the experiment, students observed the effects of their treatment, harvested and dyed their cells, counted relative cell numbers in control and treatment flasks, and determined the ratio of living to dead cells using a hemocytometer. At the conclusion of the experiment, students presented their findings in a poster presentation. This laboratory can be expanded or adapted to include additional cell lines and treatments. The ability to design and implement their own experiments has been shown to increase student engagement in the biology-related laboratory activities as well as develop the critical thinking skills needed for independent research.

Biotechnology by Design: An Introductory Level, Project-Based, Synthetic Biology Laboratory Program for Undergraduate Students.

PubMed

Beach, Dale L; Alvarez, Consuelo J

2015-12-01

Synthetic biology offers an ideal opportunity to promote undergraduate laboratory courses with research-style projects, immersing students in an inquiry-based program that enhances the experience of the scientific process. We designed a semester-long, project-based laboratory curriculum using synthetic biology principles to develop a novel sensory device. Students develop subject matter knowledge of molecular genetics and practical skills relevant to molecular biology, recombinant DNA techniques, and information literacy. During the spring semesters of 2014 and 2015, the Synthetic Biology Laboratory Project was delivered to sophomore genetics courses. Using a cloning strategy based on standardized BioBrick genetic "parts," students construct a "reporter plasmid" expressing a reporter gene (GFP) controlled by a hybrid promoter regulated by the lac-repressor protein (lacI). In combination with a "sensor plasmid," the production of the reporter phenotype is inhibited in the presence of a target environmental agent, arabinose. When arabinose is absent, constitutive GFP expression makes cells glow green. But the presence of arabinose activates a second promoter (pBAD) to produce a lac-repressor protein that will inhibit GFP production. Student learning was assessed relative to five learning objectives, using a student survey administered at the beginning (pre-survey) and end (post-survey) of the course, and an additional 15 open-ended questions from five graded Progress Report assignments collected throughout the course. Students demonstrated significant learning gains (p < 0.05) for all learning outcomes. Ninety percent of students indicated that the Synthetic Biology Laboratory Project enhanced their understanding of molecular genetics. The laboratory project is highly adaptable for both introductory and advanced courses.

An Open-Ended Investigative Microbial Ecology Laboratory for Introductory Biology

ERIC Educational Resources Information Center

Jones-Held, Susan; Paoletti, Robert; Glick, David; Held, Michael E.

2010-01-01

In this article we describe a multi-week investigative laboratory in microbial ecology/diversity and nitrogen cycling that we have used in our introductory biology course. This module encourages active student involvement in experimental design, using the scientific literature and quantitative analysis of large data sets. Students analyze soil…

Toward performing angular rotating measure of Heisenberg scaling by using the four-photon Holland-Burnett state

NASA Astrophysics Data System (ADS)

Zhang, Jiandong; Zhang, Zijing; Cen, Longzhu; Li, Shuo; Wang, Feng; Zhao, Yuan

2018-03-01

Quantum process tomography, as an advanced means of metrology, has a capacious range of applications for estimating numerous meaningful parameters. The parameter estimate precision of using coherent state and single photon state as probe are limited by the shot noise limit. Here we demonstrate a quantum enhanced rotating angle measure scheme based on the four-photon Holland-Burnett state can achieve the Heisenberg scaling by the coincidence counting technology. At the same time, the output signal of our scheme has an 8-fold super-resolution compared to the Malus law. In addition, the accuracy achieved by four photons is consistent with using 12 photons of single photon probe. That has incomparable preponderance in a situation in which only weak light can be exploited, like the measure of frangible biological specimens and photosensitive crystals. Moreover, the four-photon Holland-Burnett state can be generated by a polarization-entangled light source. These ensure that our scheme has a champaign application prospect.

Redefining Authentic Research Experiences in Introductory Biology Laboratories and Barriers to Their Implementation

ERIC Educational Resources Information Center

Spell, Rachelle M.; Guinan, Judith A.; Miller, Kristen R.; Beck, Christopher W.

2014-01-01

Incorporating authentic research experiences in introductory biology laboratory classes would greatly expand the number of students exposed to the excitement of discovery and the rigor of the scientific process. However, the essential components of an authentic research experience and the barriers to their implementation in laboratory classes are…

Laboratory hemostasis: from biology to the bench.

PubMed

Lippi, Giuseppe; Favaloro, Emmanuel J

2018-06-27

Physiological hemostasis is an intricate biological system, where procoagulant and anticoagulant forces interplay and preserves blood fluidity when blood vessels are intact, or trigger clot formation to prevent excessive bleeding when blood vessels are injured. The modern model of hemostasis is divided into two principal phases. The first, defined as primary hemostasis, involves the platelet-vessel interplay, whilst the second, defined as secondary hemostasis, mainly involves coagulation factors, damaged cells and platelet surfaces, where the so-called coagulation cascade rapidly develops. The activation and amplification of the coagulation cascade is finely modulated by the activity of several physiological inhibitors. Once bleeding has been efficiently stopped by blood clot formation, dissolution of the thrombus is essential to restore vessel permeability. This process, known as fibrinolysis, also develops through coordinate action of a vast array of proteins and enzymes. An accurate diagnosis of hemostasis disturbance entails a multifaceted approach, encompassing family and personal history of hemostatic disorders, accurate collection of clinical signs and symptoms, integrated with laboratory hemostasis testing. Regarding laboratory testing, a reasonable approach entails classifying hemostasis testing according to cost, complexity and available clinical information. Laboratory workout may hence initiate with some rapid and inexpensive "screening" tests, characterized by high negative predictive value, then followed by second- or third-line analyses, specifically aimed to clarify the nature and severity of bleeding or thrombotic phenotype. This article aims to provide a general overview of the hemostatic process, and to provide some general suggestions to optimally facilitate laboratory hemostasis testing.

Scale relativity theory and integrative systems biology: 1. Founding principles and scale laws.

PubMed

Auffray, Charles; Nottale, Laurent

2008-05-01

In these two companion papers, we provide an overview and a brief history of the multiple roots, current developments and recent advances of integrative systems biology and identify multiscale integration as its grand challenge. Then we introduce the fundamental principles and the successive steps that have been followed in the construction of the scale relativity theory, and discuss how scale laws of increasing complexity can be used to model and understand the behaviour of complex biological systems. In scale relativity theory, the geometry of space is considered to be continuous but non-differentiable, therefore fractal (i.e., explicitly scale-dependent). One writes the equations of motion in such a space as geodesics equations, under the constraint of the principle of relativity of all scales in nature. To this purpose, covariant derivatives are constructed that implement the various effects of the non-differentiable and fractal geometry. In this first review paper, the scale laws that describe the new dependence on resolutions of physical quantities are obtained as solutions of differential equations acting in the scale space. This leads to several possible levels of description for these laws, from the simplest scale invariant laws to generalized laws with variable fractal dimensions. Initial applications of these laws to the study of species evolution, embryogenesis and cell confinement are discussed.

Laboratory techniques in plant molecular biology taught with UniformMu insertion alleles of maize

USDA-ARS?s Scientific Manuscript database

An undergraduate course - Laboratory Techniques in Plant Molecular Biology - was organized around our research application of UniformMu insertion alleles to investigate mitochondrial functions in plant reproduction. The course objectives were to develop students’ laboratory, record keeping, bioinfor...

Large-scale Density Structures in Magneto-rotational Disk Turbulence

NASA Astrophysics Data System (ADS)

Youdin, Andrew; Johansen, A.; Klahr, H.

2009-01-01

Turbulence generated by the magneto-rotational instability (MRI) is a strong candidate to drive accretion flows in disks, including sufficiently ionized regions of protoplanetary disks. The MRI is often studied in local shearing boxes, which model a small section of the disk at high resolution. I will present simulations of large, stratified shearing boxes which extend up to 10 gas scale-heights across. These simulations are a useful bridge to fully global disk simulations. We find that MRI turbulence produces large-scale, axisymmetric density perturbations . These structures are part of a zonal flow --- analogous to the banded flow in Jupiter's atmosphere --- which survives in near geostrophic balance for tens of orbits. The launching mechanism is large-scale magnetic tension generated by an inverse cascade. We demonstrate the robustness of these results by careful study of various box sizes, grid resolutions, and microscopic diffusion parameterizations. These gas structures can trap solid material (in the form of large dust or ice particles) with important implications for planet formation. Resolved disk images at mm-wavelengths (e.g. from ALMA) will verify or constrain the existence of these structures.

Tested Studies for Laboratory Teaching. Proceedings of the Workshop/Conference of the Association for Biology Laboratory Education (ABLE) (14th, Las Vegas, Nevada, June 2-6, 1992). Volume 14.

ERIC Educational Resources Information Center

Goldman, Corey A., Ed.

The focus of the Association for Biology Laboratory Education (ABLE) is to improve undergraduate biology laboratory experiences by promoting the development and dissemination of interesting, innovative, and reliable laboratory exercises. This proceedings volume contains 11 papers: "A Practical Guide to the Use of Cellular Slime Molds for…

Tested Studies for Laboratory Teaching. Proceedings of the Workshop/Conference of the Association for Biology Laboratory Education (ABLE) (15th, Toronto, Ontario, Canada, June 8-12, 1993). Volume 15.

ERIC Educational Resources Information Center

Goldman, Corey A., Ed.

The focus of the Association for Biology Laboratory Education (ABLE) is to improve the undergraduate biology laboratory experience by promoting the development and dissemination of interesting, innovative, and reliable laboratory exercises. This proceedings volume contains 18 papers: "Human DNA Fingerprinting by Polymerase Chain Reaction" (M. V.…

Scales and scaling in turbulent ocean sciences; physics-biology coupling

NASA Astrophysics Data System (ADS)

Schmitt, Francois

2015-04-01

Geophysical fields possess huge fluctuations over many spatial and temporal scales. In the ocean, such property at smaller scales is closely linked to marine turbulence. The velocity field is varying from large scales to the Kolmogorov scale (mm) and scalar fields from large scales to the Batchelor scale, which is often much smaller. As a consequence, it is not always simple to determine at which scale a process should be considered. The scale question is hence fundamental in marine sciences, especially when dealing with physics-biology coupling. For example, marine dynamical models have typically a grid size of hundred meters or more, which is more than 105 times larger than the smallest turbulence scales (Kolmogorov scale). Such scale is fine for the dynamics of a whale (around 100 m) but for a fish larvae (1 cm) or a copepod (1 mm) a description at smaller scales is needed, due to the nonlinear nature of turbulence. The same is verified also for biogeochemical fields such as passive and actives tracers (oxygen, fluorescence, nutrients, pH, turbidity, temperature, salinity...) In this framework, we will discuss the scale problem in turbulence modeling in the ocean, and the relation of Kolmogorov's and Batchelor's scales of turbulence in the ocean, with the size of marine animals. We will also consider scaling laws for organism-particle Reynolds numbers (from whales to bacteria), and possible scaling laws for organism's accelerations.

Rotational relaxation time as unifying time scale for polymer and fiber drag reduction

NASA Astrophysics Data System (ADS)

Boelens, A. M. P.; Muthukumar, M.

2016-05-01

Using hybrid direct numerical simulation plus Langevin dynamics, a comparison is performed between polymer and fiber stress tensors in turbulent flow. The stress tensors are found to be similar, suggesting a common drag reducing mechanism in the onset regime for both flexible polymers and rigid fibers. Since fibers do not have an elastic backbone, this must be a viscous effect. Analysis of the viscosity tensor reveals that all terms are negligible, except the off-diagonal shear viscosity associated with rotation. Based on this analysis, we identify the rotational orientation time as the unifying time scale setting a new time criterion for drag reduction by both flexible polymers and rigid fibers.

Rotational relaxation time as unifying time scale for polymer and fiber drag reduction.

PubMed

Boelens, A M P; Muthukumar, M

2016-05-01

Using hybrid direct numerical simulation plus Langevin dynamics, a comparison is performed between polymer and fiber stress tensors in turbulent flow. The stress tensors are found to be similar, suggesting a common drag reducing mechanism in the onset regime for both flexible polymers and rigid fibers. Since fibers do not have an elastic backbone, this must be a viscous effect. Analysis of the viscosity tensor reveals that all terms are negligible, except the off-diagonal shear viscosity associated with rotation. Based on this analysis, we identify the rotational orientation time as the unifying time scale setting a new time criterion for drag reduction by both flexible polymers and rigid fibers.

Beyond-laboratory-scale prediction for channeling flows through subsurface rock fractures with heterogeneous aperture distributions revealed by laboratory evaluation

NASA Astrophysics Data System (ADS)

Ishibashi, Takuya; Watanabe, Noriaki; Hirano, Nobuo; Okamoto, Atsushi; Tsuchiya, Noriyoshi

2015-01-01

The present study evaluates aperture distributions and fluid flow characteristics for variously sized laboratory-scale granite fractures under confining stress. As a significant result of the laboratory investigation, the contact area in fracture plane was found to be virtually independent of scale. By combining this characteristic with the self-affine fractal nature of fracture surfaces, a novel method for predicting fracture aperture distributions beyond laboratory scale is developed. Validity of this method is revealed through reproduction of the results of laboratory investigation and the maximum aperture-fracture length relations, which are reported in the literature, for natural fractures. The present study finally predicts conceivable scale dependencies of fluid flows through joints (fractures without shear displacement) and faults (fractures with shear displacement). Both joint and fault aperture distributions are characterized by a scale-independent contact area, a scale-dependent geometric mean, and a scale-independent geometric standard deviation of aperture. The contact areas for joints and faults are approximately 60% and 40%. Changes in the geometric means of joint and fault apertures (µm), em, joint and em, fault, with fracture length (m), l, are approximated by em, joint = 1 × 102 l0.1 and em, fault = 1 × 103 l0.7, whereas the geometric standard deviations of both joint and fault apertures are approximately 3. Fluid flows through both joints and faults are characterized by formations of preferential flow paths (i.e., channeling flows) with scale-independent flow areas of approximately 10%, whereas the joint and fault permeabilities (m2), kjoint and kfault, are scale dependent and are approximated as kjoint = 1 × 10-12 l0.2 and kfault = 1 × 10-8 l1.1.

Low-gravity Orbiting Research Laboratory Environment Potential Impact on Space Biology Research

NASA Technical Reports Server (NTRS)

Jules, Kenol

2006-01-01

One of the major objectives of any orbital space research platform is to provide a quiescent low gravity, preferably a zero gravity environment, to perform fundamental as well as applied research. However, small disturbances exist onboard any low earth orbital research platform. The impact of these disturbances must be taken into account by space research scientists during their research planning, design and data analysis in order to avoid confounding factors in their science results. The reduced gravity environment of an orbiting research platform in low earth orbit is a complex phenomenon. Many factors, among others, such as experiment operations, equipment operation, life support systems and crew activity (if it is a crewed platform), aerodynamic drag, gravity gradient, rotational effects as well as the vehicle structural resonance frequencies (structural modes) contribute to form the overall reduced gravity environment in which space research is performed. The contribution of these small disturbances or accelerations is precisely why the environment is NOT a zero gravity environment, but a reduced acceleration environment. This paper does not discuss other factors such as radiation, electromagnetic interference, thermal and pressure gradient changes, acoustic and CO2 build-up to name a few that affect the space research environment as well, but it focuses solely on the magnitude of the acceleration level found on orbiting research laboratory used by research scientists to conduct space research. For ease of analysis this paper divides the frequency spectrum relevant to most of the space research disciplines into three regimes: a) quasi-steady, b) vibratory and c) transient. The International Space Station is used as an example to illustrate the point. The paper discusses the impact of these three regimes on space biology research and results from space flown experiments are used to illustrate the potential negative impact of these disturbances (accelerations

Developmental Biology and Regenerative Medicine: Addressing the Vexing Problem of Persistent Muscle Atrophy in the Chronically Torn Human Rotator Cuff.

PubMed

Meyer, Gretchen A; Ward, Samuel R

2016-05-01

Persistent muscle atrophy in the chronically torn rotator cuff is a significant obstacle for treatment and recovery. Large atrophic changes are predictive of poor surgical and nonsurgical outcomes and frequently fail to resolve even following functional restoration of loading and rehabilitation. New insights into the processes of muscle atrophy and recovery gained through studies in developmental biology combined with the novel tools and strategies emerging in regenerative medicine provide new avenues to combat the vexing problem of muscle atrophy in the rotator cuff. Moving these treatment strategies forward likely will involve the combination of surgery, biologic/cellular agents, and physical interventions, as increasing experimental evidence points to the beneficial interaction between biologic therapies and physiologic stresses. Thus, the physical therapy profession is poised to play a significant role in defining the success of these combinatorial therapies. This perspective article will provide an overview of the developmental biology and regenerative medicine strategies currently under investigation to combat muscle atrophy and how they may integrate into the current and future practice of physical therapy. © 2016 American Physical Therapy Association.

The Subsurface Flow and Transport Laboratory: A New Department of Energy User's Facility for Intermediate-Scale Experimentation

NASA Astrophysics Data System (ADS)

Wietsma, T. W.; Oostrom, M.; Foster, N. S.

2003-12-01

Intermediate-scale experiments (ISEs) for flow and transport are a valuable tool for simulating subsurface features and conditions encountered in the field at government and private sites. ISEs offer the ability to study, under controlled laboratory conditions, complicated processes characteristic of mixed wastes and heterogeneous subsurface environments, in multiple dimensions and at different scales. ISEs may, therefore, result in major cost savings if employed prior to field studies. A distinct advantage of ISEs is that researchers can design physical and/or chemical heterogeneities in the porous media matrix that better approximate natural field conditions and therefore address research questions that contain the additional complexity of processes often encountered in the natural environment. A new Subsurface Flow and Transport Laboratory (SFTL) has been developed for ISE users in the Environmental Spectroscopy & Biogeochemistry Facility in the Environmental Molecular Sciences Laboratory (EMSL) at Pacific Northwest National Laboratory (PNNL). The SFTL offers a variety of columns and flow cells, a new state-of-the-art dual-energy gamma system, a fully automated saturation-pressure apparatus, and analytical equipment for sample processing. The new facility, including qualified staff, is available for scientists interested in collaboration on conducting high-quality flow and transport experiments, including contaminant remediation. Close linkages exist between the SFTL and numerical modelers to aid in experimental design and interpretation. This presentation will discuss the facility and outline the procedures required to submit a proposal to use this unique facility for research purposes. The W. R. Wiley Environmental Molecular Sciences Laboratory, a national scientific user facility, is sponsored by the U.S. Department of Energy's Office of Biological and Environmental Research and located at Pacific Northwest National Laboratory.

Biotechnology by Design: An Introductory Level, Project-Based, Synthetic Biology Laboratory Program for Undergraduate Students†

PubMed Central

Beach, Dale L.; Alvarez, Consuelo J.

2015-01-01

Synthetic biology offers an ideal opportunity to promote undergraduate laboratory courses with research-style projects, immersing students in an inquiry-based program that enhances the experience of the scientific process. We designed a semester-long, project-based laboratory curriculum using synthetic biology principles to develop a novel sensory device. Students develop subject matter knowledge of molecular genetics and practical skills relevant to molecular biology, recombinant DNA techniques, and information literacy. During the spring semesters of 2014 and 2015, the Synthetic Biology Laboratory Project was delivered to sophomore genetics courses. Using a cloning strategy based on standardized BioBrick genetic “parts,” students construct a “reporter plasmid” expressing a reporter gene (GFP) controlled by a hybrid promoter regulated by the lac-repressor protein (lacI). In combination with a “sensor plasmid,” the production of the reporter phenotype is inhibited in the presence of a target environmental agent, arabinose. When arabinose is absent, constitutive GFP expression makes cells glow green. But the presence of arabinose activates a second promoter (pBAD) to produce a lac-repressor protein that will inhibit GFP production. Student learning was assessed relative to five learning objectives, using a student survey administered at the beginning (pre-survey) and end (post-survey) of the course, and an additional 15 open-ended questions from five graded Progress Report assignments collected throughout the course. Students demonstrated significant learning gains (p < 0.05) for all learning outcomes. Ninety percent of students indicated that the Synthetic Biology Laboratory Project enhanced their understanding of molecular genetics. The laboratory project is highly adaptable for both introductory and advanced courses. PMID:26753032

EFFECTS OF LARVAL STOCKING DENSITY ON LABORATORY-SCALE AND COMMERICAL-SCALE PRODUCTION OF SUMMER FLOUNDER, PARALICHTHYS DENTATUS

EPA Science Inventory

Three experiments investigating larval stocking densities of summer flounder from hatch to metamorphosis, Paralichthys dentatus, were conducted at laboratory-scale (75-L aquaria) and at commercial scale (1,000-L tanks). Experiments 1 and 2 at commercial scale tested the densities...

Integrating Internet Assignments into a Biochemistry/Molecular Biology Laboratory Course

ERIC Educational Resources Information Center

Kaspar, Roger L.

2002-01-01

A main challenge in educating undergraduate students is to introduce them to the Internet and to teach them how to effectively use it in research. To this end, an Internet assignment was developed that introduces students to websites related to biomedical research at the beginning of a biochemistry/molecular biology laboratory course. The basic…

HalX: an open-source LIMS (Laboratory Information Management System) for small- to large-scale laboratories.

PubMed

Prilusky, Jaime; Oueillet, Eric; Ulryck, Nathalie; Pajon, Anne; Bernauer, Julie; Krimm, Isabelle; Quevillon-Cheruel, Sophie; Leulliot, Nicolas; Graille, Marc; Liger, Dominique; Trésaugues, Lionel; Sussman, Joel L; Janin, Joël; van Tilbeurgh, Herman; Poupon, Anne

2005-06-01

Structural genomics aims at the establishment of a universal protein-fold dictionary through systematic structure determination either by NMR or X-ray crystallography. In order to catch up with the explosive amount of protein sequence data, the structural biology laboratories are spurred to increase the speed of the structure-determination process. To achieve this goal, high-throughput robotic approaches are increasingly used in all the steps leading from cloning to data collection and even structure interpretation is becoming more and more automatic. The progress made in these areas has begun to have a significant impact on the more 'classical' structural biology laboratories, dramatically increasing the number of individual experiments. This automation creates the need for efficient data management. Here, a new piece of software, HalX, designed as an 'electronic lab book' that aims at (i) storage and (ii) easy access and use of all experimental data is presented. This should lead to much improved management and tracking of structural genomics experimental data.

RESOLVING THE ROTATION MEASURE OF THE M87 JET ON KILOPARSEC SCALES

DOE Office of Scientific and Technical Information (OSTI.GOV)

Algaba, J. C.; Asada, K.; Nakamura, M., E-mail: algaba@asiaa.sinica.edu.tw

2016-06-01

We investigate the distribution of Faraday rotation measure (RM) in the M87 jet at arcsecond scales by using archival polarimetric Very Large Array data at 8, 15, 22 and 43 GHz. We resolve the structure of the RM in several knots along the jet for the first time. We derive the power spectrum in the arcsecond-scale jet and find indications that the RM cannot be associated with a turbulent magnetic field with a 3D Kolmogorov spectrum. Our analysis indicates that the RM probed on jet scales has a significant contribution of a Faraday screen associated with the vicinity of themore » jet, in contrast with that on kiloparsec scales, typically assumed to be disconnected from the jet. Comparison with previous RM analyses suggests that the magnetic fields giving rise to the RMs observed in jet scales have different properties and are well less turbulent than those observed in the lobes.« less

Experiments on point plumes in a rotating environment

NASA Astrophysics Data System (ADS)

Frank, Daria; Landel, Julien; Dalziel, Stuart; Linden, Paul

2016-11-01

Motivated by the Deepwater Horizon oil spill in the Gulf of Mexico we study the dynamics of point plumes in a stratified and homogeneous rotating environment. To this end, we conduct small-scale experiments in the laboratory on salt water and bubble plumes over a wide range of Rossby numbers. The rotation modifies the entrainment into the plume and also inhibits the lateral spreading of the plume fluid which leads to various instabilities in the flow. In particular, we focus on the plume behaviour in the near-source region (where the plume is dominated by the source conditions) and at intermediate water depths, e.g., lateral intrusions at the neutral buoyancy level in the stratified environment. One of the striking features in the rotating environment is the anticyclonic precession of the plume axis which leads to an enhanced dispersion of the plume fluid in the ambient and which is absent in the non-rotating system. In this talk, we present our experimental results and develop simple models to explain the observed plume dynamics.

Evidence for Bolgiano-Obukhov scaling in rotating stratified turbulence using high-resolution direct numerical simulations

DOE Office of Scientific and Technical Information (OSTI.GOV)

Rosenberg, Duane L; Pouquet, Dr. Annick; Mininni, Dr. Pablo D.

2015-01-01

We report results on rotating stratified turbulence in the absence of forcing, with large-scale isotropic initial conditions, using direct numerical simulations computed on grids of up tomore » $4096^3$ points. The Reynolds and Froude numbers are respectively equal to $$Re=5.4\\times 10^4$$ and $Fr=0.0242$$. The ratio of the Brunt-V\\"ais\\"al\\"a to the inertial wave frequency, $$N/f$, is taken to be equal to 5, a choice appropriate to model the dynamics of the southern abyssal ocean at mid latitudes. This gives a global buoyancy Reynolds number $$R_B=ReFr^2=32$$, a value sufficient for some isotropy to be recovered in the small scales beyond the Ozmidov scale, but still moderate enough that the intermediate scales where waves are prevalent are well resolved. We concentrate on the large-scale dynamics and confirm that the Froude number based on a typical vertical length scale is of order unity, with strong gradients in the vertical. Two characteristic scales emerge from this computation, and are identified from sharp variations in the spectral distribution of either total energy or helicity. A spectral break is also observed at a scale at which the partition of energy between the kinetic and potential modes changes abruptly, and beyond which a Kolmogorov-like spectrum recovers. Large slanted layers are ubiquitous in the flow in the velocity and temperature fields, and a large-scale enhancement of energy is also observed, directly attributable to the effect of rotation.« less

Semester-Long Inquiry-Based Molecular Biology Laboratory: Transcriptional Regulation in Yeast

ERIC Educational Resources Information Center

Oelkers, Peter M.

2017-01-01

A single semester molecular biology laboratory has been developed in which students design and execute a project examining transcriptional regulation in "Saccharomyces cerevisiae." Three weeks of planning are allocated to developing a hypothesis through literature searches and use of bioinformatics. Common experimental plans address a…

Laboratory-Scale Internal Wave Apparatus for Studying Copepod Behavior

NASA Astrophysics Data System (ADS)

Jung, S.; Webster, D. R.; Haas, K. A.; Yen, J.

2016-02-01

Internal waves are ubiquitous features in coastal marine environments and have been observed to mediate vertical distributions of zooplankton in situ. Internal waves create fine-scale hydrodynamic cues that copepods and other zooplankton are known to sense, such as fluid density gradients and velocity gradients (quantified as shear deformation rate). The role of copepod behavior in response to cues associated with internal waves is largely unknown. The objective is to provide insight to the bio-physical interaction and the role of biological versus physical forcing in mediating organism distributions. We constructed a laboratory-scale internal wave apparatus to facilitate fine-scale observations of copepod behavior in flows that replicate in situ conditions of internal waves in two-layer stratification. Two cases were chosen with density jump of 1 and 1.5 sigma-t units. Analytical analysis of the two-layer system provided guidance to the target forcing frequency needed to generate a standing internal wave with a single dominate frequency of oscillation. Flow visualization and signal processing of the interface location were used to quantify the wave characteristics. The results show a close match to the target wave parameters. Marine copepod (mixed population of Acartia tonsa, Temora longicornis, and Eurytemora affinis) behavior assays were conducted for three different physical arrangements: (1) no density stratification, (2) stagnant two-layer density stratification, and (3) two-layer density stratification with internal wave motion. Digitized trajectories of copepod swimming behavior indicate that in the control (case 1) the animals showed no preferential motion in terms of direction. In the stagnant density jump treatment (case 2) copepods preferentially moved horizontally, parallel to the density interface. In the internal wave treatment (case 3) copepods demonstrated orbital trajectories near the density interface.

[Assessment of biological sampling's quality in a medical laboratory: case of Côte d' Ivoire Institute Pasteur].

PubMed

Kouassi-M'Bengue, Alphonsine; Koffi, Stephane; Manizan, Pascale; Ouattara, Abdoulaye; N'Douba, Adele Kacou; Dosso, Mireille

2008-01-01

Assurance quality is important in medical laboratory, but in Africa, few laboratories are involved in this process. The aim of this study was to assess biological sampling's quality in a bacteriological laboratory. A cross sectional study was undertaken in medical bacteriological laboratory of Côte d' Ivoire Institute Pasteur during 6 months. All urines, saddles, and bronchial expectorations collected from ambulatory patients during this period were included in the study. The quality of urine's, saddles and bronchial expectorations' sampling for a bacteriological analysis was evaluated. An interview based on Guidelines of good laboratories practices and referential ISO 15189 was used. A total of 300 samples were indexed. On a total of 300 recorded biological samples, 224 (74.7%) were not in conformity. In 87.5% of the cases of nonconformities, an antibiotic's treatment were preliminary instituted before the sampling. Corrective actions were carried in the laboratory on 30 samples with 56.6% for the urines, 26.7% for the saddles and 16.7% for the bronchial expectorations. At the end of this study, it arises that the quality of the biological sampling received at the medical bacteriology laboratory need to be improved.

A Comparison of Student Reactions to Biology Instruction by Interactive Videodisc or Conventional Laboratory.

ERIC Educational Resources Information Center

Leonard, William H.

1989-01-01

Examines college students' perception of an interactive videodisc learning system as an alternative to the conventional laboratory for learning biology skills and concepts taught under classroom laboratory conditions. Reports that the videodisc instruction gave more experimental and procedural options and more efficient use of time than the…

Laboratory Experiences in Marine Biology for Upper Elementary and Secondary School Grades, Teachers Edition.

ERIC Educational Resources Information Center

Raimist, Roger J.

Designed to assist the teacher who wishes to use marine organisms for biological laboratory investigations, this manual includes general information on maintaining marine aquaria and collecting marine organisms as well as five tested laboratory exercises. The exercises deal with the measurement of oxygen consumption (giving techniques for…

Construction and laboratory test of the fiber optic rotational seismograph FOSREM for rotational seismology area of interest

NASA Astrophysics Data System (ADS)

Kurzych, Anna; Jaroszewicz, Leszek R.; Kowalski, Jerzy K.

2017-05-01

A relatively young field of study named Rotational Seismology caused a highly interest in an investigation of rotational movements generated by earthquakes, explosions, and ambient vibrations. It includes a wide range of scientific branches. However, this field needs to apply appropriate rotational sensors which should fulfill restrict technical requirements. The presented in this work system FOSREM (Fibre-Optic System for Rotational Events and Phenomena Monitoring) seems to be a promising rotational sensor for such investigation. FOSREM works by measuring the Sagnac effect and generally consists of two basic elements: optical sensor and electronic part. Regarding to its theoretical sensitivity equals 2·10-8 rad/s/Hz1/2, it enables to measure rotation in a wide range of signal amplitude (10-8 rad/s ÷ 10 rad/s) and frequency (DC ÷ 328.12 Hz). Moreover, FOSREM is mobile and remotely controlled via Internet using a special designed software.

The Role of Laboratory-Based Studies of the Physical and Biological Properties of Sea Ice in Supporting the Observation and Modeling of Ice Covered Seas

NASA Astrophysics Data System (ADS)

Light, B.; Krembs, C.

2003-12-01

Laboratory-based studies of the physical and biological properties of sea ice are an essential link between high latitude field observations and existing numerical models. Such studies promote improved understanding of climatic variability and its impact on sea ice and the structure of ice-dependent marine ecosystems. Controlled laboratory experiments can help identify feedback mechanisms between physical and biological processes and their response to climate fluctuations. Climatically sensitive processes occurring between sea ice and the atmosphere and sea ice and the ocean determine surface radiative energy fluxes and the transfer of nutrients and mass across these boundaries. High temporally and spatially resolved analyses of sea ice under controlled environmental conditions lend insight to the physics that drive these transfer processes. Techniques such as optical probing, thin section photography, and microscopy can be used to conduct experiments on natural sea ice core samples and laboratory-grown ice. Such experiments yield insight on small scale processes from the microscopic to the meter scale and can be powerful interdisciplinary tools for education and model parameterization development. Examples of laboratory investigations by the authors include observation of the response of sea ice microstructure to changes in temperature, assessment of the relationships between ice structure and the partitioning of solar radiation by first-year sea ice covers, observation of pore evolution and interfacial structure, and quantification of the production and impact of microbial metabolic products on the mechanical, optical, and textural characteristics of sea ice.

Demonstrations of Extraterrestrial Life Detection Techniques in the High School Biology Laboratory

ERIC Educational Resources Information Center

Saltinski, Ronald

1969-01-01

Discusses the experimental procedures and equipment for exobiology projects at the high school level. An interdisciplinary approach involving electronic equipment and micro-biological laboratory techniques is used. Photographs and diagrams of equipment are included. Bibliography. (LC)

Mouse Genome Informatics (MGI) Resource: Genetic, Genomic, and Biological Knowledgebase for the Laboratory Mouse.

PubMed

Eppig, Janan T

2017-07-01

The Mouse Genome Informatics (MGI) Resource supports basic, translational, and computational research by providing high-quality, integrated data on the genetics, genomics, and biology of the laboratory mouse. MGI serves a strategic role for the scientific community in facilitating biomedical, experimental, and computational studies investigating the genetics and processes of diseases and enabling the development and testing of new disease models and therapeutic interventions. This review describes the nexus of the body of growing genetic and biological data and the advances in computer technology in the late 1980s, including the World Wide Web, that together launched the beginnings of MGI. MGI develops and maintains a gold-standard resource that reflects the current state of knowledge, provides semantic and contextual data integration that fosters hypothesis testing, continually develops new and improved tools for searching and analysis, and partners with the scientific community to assure research data needs are met. Here we describe one slice of MGI relating to the development of community-wide large-scale mutagenesis and phenotyping projects and introduce ways to access and use these MGI data. References and links to additional MGI aspects are provided. © The Author 2017. Published by Oxford University Press.

Mouse Genome Informatics (MGI) Resource: Genetic, Genomic, and Biological Knowledgebase for the Laboratory Mouse

PubMed Central

Eppig, Janan T.

2017-01-01

Abstract The Mouse Genome Informatics (MGI) Resource supports basic, translational, and computational research by providing high-quality, integrated data on the genetics, genomics, and biology of the laboratory mouse. MGI serves a strategic role for the scientific community in facilitating biomedical, experimental, and computational studies investigating the genetics and processes of diseases and enabling the development and testing of new disease models and therapeutic interventions. This review describes the nexus of the body of growing genetic and biological data and the advances in computer technology in the late 1980s, including the World Wide Web, that together launched the beginnings of MGI. MGI develops and maintains a gold-standard resource that reflects the current state of knowledge, provides semantic and contextual data integration that fosters hypothesis testing, continually develops new and improved tools for searching and analysis, and partners with the scientific community to assure research data needs are met. Here we describe one slice of MGI relating to the development of community-wide large-scale mutagenesis and phenotyping projects and introduce ways to access and use these MGI data. References and links to additional MGI aspects are provided. PMID:28838066

Biologically Plausible, Human-Scale Knowledge Representation.

PubMed

Crawford, Eric; Gingerich, Matthew; Eliasmith, Chris

2016-05-01

Several approaches to implementing symbol-like representations in neurally plausible models have been proposed. These approaches include binding through synchrony (Shastri & Ajjanagadde, ), "mesh" binding (van der Velde & de Kamps, ), and conjunctive binding (Smolensky, ). Recent theoretical work has suggested that most of these methods will not scale well, that is, that they cannot encode structured representations using any of the tens of thousands of terms in the adult lexicon without making implausible resource assumptions. Here, we empirically demonstrate that the biologically plausible structured representations employed in the Semantic Pointer Architecture (SPA) approach to modeling cognition (Eliasmith, ) do scale appropriately. Specifically, we construct a spiking neural network of about 2.5 million neurons that employs semantic pointers to successfully encode and decode the main lexical relations in WordNet, which has over 100,000 terms. In addition, we show that the same representations can be employed to construct recursively structured sentences consisting of arbitrary WordNet concepts, while preserving the original lexical structure. We argue that these results suggest that semantic pointers are uniquely well-suited to providing a biologically plausible account of the structured representations that underwrite human cognition. Copyright © 2015 Cognitive Science Society, Inc.

EPOS-WP16: A coherent and collaborative network of Solid Earth Multi-scale laboratories

NASA Astrophysics Data System (ADS)

Calignano, Elisa; Rosenau, Matthias; Lange, Otto; Spiers, Chris; Willingshofer, Ernst; Drury, Martyn; van Kan-Parker, Mirjam; Elger, Kirsten; Ulbricht, Damian; Funiciello, Francesca; Trippanera, Daniele; Sagnotti, Leonardo; Scarlato, Piergiorgio; Tesei, Telemaco; Winkler, Aldo

2017-04-01

Laboratory facilities are an integral part of Earth Science research. The diversity of methods employed in such infrastructures reflects the multi-scale nature of the Earth system and is essential for the understanding of its evolution, for the assessment of geo-hazards and for the sustainable exploitation of geo-resources. In the frame of EPOS (European Plate Observing System), the Working Package 16 represents a developing community of European Geoscience Multi-scale laboratories. The participant and collaborating institutions (Utrecht University, GFZ, RomaTre University, INGV, NERC, CSIC-ICTJA, CNRS, LMU, C4G-UBI, ETH, CNR*) embody several types of laboratory infrastructures, engaged in different fields of interest of Earth Science: from high temperature and pressure experimental facilities, to electron microscopy, micro-beam analysis, analogue tectonic and geodynamic modelling and paleomagnetic laboratories. The length scales encompassed by these infrastructures range from the nano- and micrometre levels (electron microscopy and micro-beam analysis) to the scale of experiments on centimetres-sized samples, and to analogue model experiments simulating the reservoir scale, the basin scale and the plate scale. The aim of WP16 is to provide two services by the year 2019: first, providing virtual access to data from laboratories (data service) and, second, providing physical access to laboratories (transnational access, TNA). Regarding the development of a data service, the current status is such that most data produced by the various laboratory centres and networks are available only in limited "final form" in publications, many data remain inaccessible and/or poorly preserved. Within EPOS the TCS Multi-scale laboratories is collecting and harmonizing available and emerging laboratory data on the properties and process controlling rock system behaviour at all relevant scales, in order to generate products accessible and interoperable through services for supporting

Apoptosis: a four-week laboratory investigation for advanced molecular and cellular biology students.

PubMed

DiBartolomeis, Susan M; Moné, James P

2003-01-01

Over the past decade, apoptosis has emerged as an important field of study central to ongoing research in many diverse fields, from developmental biology to cancer research. Apoptosis proceeds by a highly coordinated series of events that includes enzyme activation, DNA fragmentation, and alterations in plasma membrane permeability. The detection of each of these phenotypic changes is accessible to advanced undergraduate cell and molecular biology students. We describe a 4-week laboratory sequence that integrates cell culture, fluorescence microscopy, DNA isolation and analysis, and western blotting (immunoblotting) to follow apoptosis in cultured human cells. Students working in teams chemically induce apoptosis, and harvest, process, and analyze cells, using their data to determine the order of events during apoptosis. We, as instructors, expose the students to an environment closely simulating what they would encounter in an active cell or molecular biology research laboratory by having students coordinate and perform multiple tasks simultaneously and by having them experience experimental design using current literature, data interpretation, and analysis to answer a single question. Students are assessed by examination of laboratory notebooks for completeness of experimental protocols and analysis of results and for completion of an assignment that includes questions pertaining to data interpretation and apoptosis.

Visuomotor mental rotation of a saccade: The contingent negative variation scales to the angle of rotation.

PubMed

Heath, Matthew; Colino, Francisco L; Chan, Jillian; Krigolson, Olave E

2018-02-01

The visuomotor mental rotation (VMR) of a saccade requires a response to a region of space that is dissociated from a stimulus by a pre-specified angle, and work has shown a monotonic increase in reaction times as a function of increasing oblique angles of rotation. These results have been taken as evidence of a continuous process of rotation and have generated competing hypotheses. One hypothesis asserts that rotation is mediated via frontoparietal structures, whereas a second states that a continuous shift in the activity of direction-specific neurons in the superior colliculus (SC) supports rotation. Research to date, however, has not examined the neural mechanisms underlying VMR saccades and both hypotheses therefore remain untested. The present study measured the behavioural data and event-related brain potentials (ERP) of standard (i.e., 0° of rotation) and VMR saccades involving 35°, 70° and 105° of rotation. Behavioural results showed that participants adhered to task-based rotation demands and ERP findings showed that the amplitude of the contingent negative variation (CNV) linearly decreased with increasing angle of rotation. The cortical generators of the CNV are linked to frontoparietal structures supporting movement preparation. Although our ERP design does not allow us to exclude a possible role of the SC in the rotation of a VMR saccade, they do demonstrate that such actions are supported by a continuous and cortically based rotation process. Copyright © 2017 Elsevier Ltd. All rights reserved.

Developing Information Fluency in Introductory Biology Students in the Context of an Investigative Laboratory

ERIC Educational Resources Information Center

Lindquester, Gary J.; Burks, Romi L.; Jaslow, Carolyn R.

2005-01-01

Students of biology must learn the scientific method for generating information in the field. Concurrently, they should learn how information is reported and accessed. We developed a progressive set of exercises for the undergraduate introductory biology laboratory that combine these objectives. Pre- and postassessments of approximately 100…

Wet Lab Accelerator: A Web-Based Application Democratizing Laboratory Automation for Synthetic Biology.

PubMed

Bates, Maxwell; Berliner, Aaron J; Lachoff, Joe; Jaschke, Paul R; Groban, Eli S

2017-01-20

Wet Lab Accelerator (WLA) is a cloud-based tool that allows a scientist to conduct biology via robotic control without the need for any programming knowledge. A drag and drop interface provides a convenient and user-friendly method of generating biological protocols. Graphically developed protocols are turned into programmatic instruction lists required to conduct experiments at the cloud laboratory Transcriptic. Prior to the development of WLA, biologists were required to write in a programming language called "Autoprotocol" in order to work with Transcriptic. WLA relies on a new abstraction layer we call "Omniprotocol" to convert the graphical experimental description into lower level Autoprotocol language, which then directs robots at Transcriptic. While WLA has only been tested at Transcriptic, the conversion of graphically laid out experimental steps into Autoprotocol is generic, allowing extension of WLA into other cloud laboratories in the future. WLA hopes to democratize biology by bringing automation to general biologists.

Scaling laws for homogeneous turbulent shear flows in a rotating frame

NASA Technical Reports Server (NTRS)

Speziale, Charles G.; Mhuiris, Nessan Macgiolla

1988-01-01

The scaling properties of plane homogeneous turbulent shear flows in a rotating frame are examined mathematically by a direct analysis of the Navier-Stokes equations. It is proved that two such shear flows are dynamically similar if and only if their initial dimensionless energy spectrum E star (k star, 0), initial dimensionless shear rate SK sub 0/epsilon sub 0, initial Reynolds number K squared sub 0/nu epsilon sub 0, and the ration of the rotation rate to the shear rate omega/S are identical. Consequently, if universal equilibrium states exist, at high Reynolds numbers, they will only depend on the single parameter omega/S. The commonly assumed dependence of such equilibrium states on omega/S through the Richardson number Ri=-2(omega/S)(1-2 omega/S) is proven to be inconsistent with the full Navier-Stokes equations and to constitute no more than a weak approximation. To be more specific, Richardson number similarity is shown to only rigorously apply to certain low-order truncations of the Navier-Stokes equations (i.e., to certain second-order closure models) wherein closure is achieved at the second-moment level by assuming that the higher-order moments are a small perturbation of their isotropic states. The physical dependence of rotating turbulent shear flows on omega/S is discussed in detail along with the implications for turbulence modeling.

Modified forest rotation lengths: Long-term effects on landscape-scale habitat availability for specialized species.

PubMed

Roberge, Jean-Michel; Öhman, Karin; Lämås, Tomas; Felton, Adam; Ranius, Thomas; Lundmark, Tomas; Nordin, Annika

2018-03-15

We evaluated the long-term implications from modifying rotation lengths in production forests for four forest-reliant species with different habitat requirements. By combining simulations of forest development with habitat models, and accounting both for stand and landscape scale influences, we projected habitat availability over 150 years in a large Swedish landscape, using rotation lengths which are longer (+22% and +50%) and shorter (-22%) compared to current practices. In terms of mean habitat availability through time, species requiring older forest were affected positively by extended rotations, and negatively by shortened rotations. For example, the mean habitat area for the treecreeper Certhia familiaris (a bird preferring forest with larger trees) increased by 31% when rotations were increased by 22%, at a 5% cost to net present value (NPV) and a 7% decrease in harvested volume. Extending rotation lengths by 50% provided more habitat for this species compared to a 22% extension, but at a much higher marginal cost. In contrast, the beetle Hadreule elongatula, which is dependent on sun-exposed dead wood, benefited from shortened rather than prolonged rotations. Due to an uneven distribution of stand-ages within the landscape, the relative amounts of habitat provided by different rotation length scenarios for a given species were not always consistent through time during the simulation period. If implemented as a conservation measure, prolonging rotations will require long-term strategic planning to avoid future bottlenecks in habitat availability, and will need to be accompanied by complementary measures accounting for the diversity of habitats necessary for the conservation of forest biodiversity. Copyright © 2018 Elsevier Ltd. All rights reserved.

The assessment of the coke wastewater treatment efficacy in rotating biological contractor.

PubMed

Cema, G; Żabczyński, S; Ziembińska-Buczyńska, A

2016-01-01

Coke wastewater is known to be relatively difficult for biological treatment. Nonetheless, biofilm-based systems seem to be promising tool for such treatment. That is why a rotating biological contactor (RBC) system focused on the Anammox process was used in this study. The experiment was divided into two parts with synthetic and then real wastewater. It was proven that it is possible to treat coke wastewater with RBC but such a procedure requires a very long start-up period for the nitritation (190 days), as well as for the Anammox process, where stable nitrogen removal over 70% was achieved after 400 days of experiment. Interestingly, it was possible at a relatively low (20.2 ± 2.2 °C) temperature. The polymerase chain reaction-denaturing gradient gel electrophoresis (PCR-DGGE) based monitoring of the bacterial community showed that its biodiversity decreased when the real wastewater was treated and it was composed mainly of GC-rich genotypes, probably because of the modeling influence of this wastewater and the genotypes specialization.

Fate of estrone in laboratory-scale constructed wetlands

USDA-ARS?s Scientific Manuscript database

A horizontal, subsurface, laboratory-scale constructed wetland (CW) consisting of four cells in series was used to determine the attenuation of the steroid hormone estrone (E1) present in animal wastewater. Liquid swine manure diluted 1:80 with farm pond water and dosed with [14C]E1 flowed through ...

Continuous micron-scaled rope engineering using a rotating multi-nozzle electrospinning emitter

NASA Astrophysics Data System (ADS)

Zhang, Chunchen; Gao, Chengcheng; Chang, Ming-Wei; Ahmad, Zeeshan; Li, Jing-Song

2016-10-01

Electrospinning (ES) enables simple production of fibers for broad applications (e.g., biomedical engineering, energy storage, and electronics). However, resulting structures are predominantly random; displaying significant disordered fiber entanglement, which inevitably gives rise to structural variations and reproducibility on the micron scale. Surface and structural features on this scale are critical for biomaterials, tissue engineering, and pharmaceutical sciences. In this letter, a modified ES technique using a rotating multi-nozzle emitter is developed and utilized to fabricate continuous micron-scaled polycaprolactone (PCL) ropes, providing control on fiber intercalation (twist) and structural order. Micron-scaled ropes comprising 312 twists per millimeter are generated, and rope diameter and pitch length are regulated using polymer concentration and process parameters. Electric field simulations confirm vector and distribution mechanisms, which influence fiber orientation and deposition during the process. The modified fabrication system provides much needed control on reproducibility and fiber entanglement which is crucial for electrospun biomedical materials.

SUSTAINED TURBULENCE IN DIFFERENTIALLY ROTATING MAGNETIZED FLUIDS AT A LOW MAGNETIC PRANDTL NUMBER

DOE Office of Scientific and Technical Information (OSTI.GOV)

Nauman, Farrukh; Pessah, Martin E., E-mail: nauman@nbi.ku.dk

2016-12-20

We show for the first time that sustained turbulence is possible at a low magnetic Prandtl number in local simulations of Keplerian flows with no mean magnetic flux. Our results indicate that increasing the vertical domain size is equivalent to increasing the dynamical range between the energy injection scale and the dissipative scale. This has important implications for a large variety of differentially rotating systems with low magnetic Prandtl number such as protostellar disks and laboratory experiments.

Space Station Freedom: a unique laboratory for gravitational biology research

NASA Technical Reports Server (NTRS)

Phillips, R. W.; Cowing, K. L.

1993-01-01

The advent of Space Station Freedom (SSF) will provide a permanent laboratory in space with unparalleled opportunities to perform biological research. As with any spacecraft there will also be limitations. It is our intent to describe this space laboratory and present a picture of how scientists will conduct research in this unique environment we call space. SSF is an international venture which will continue to serve as a model for other peaceful international efforts. It is hoped that as the human race moves out from this planet back to the moon and then on to Mars that SSF can serve as a successful example of how things can and should be done.

Blueprints for green biotech: development and application of standards for plant synthetic biology.

PubMed

Patron, Nicola J

2016-06-15

Synthetic biology aims to apply engineering principles to the design and modification of biological systems and to the construction of biological parts and devices. The ability to programme cells by providing new instructions written in DNA is a foundational technology of the field. Large-scale de novo DNA synthesis has accelerated synthetic biology by offering custom-made molecules at ever decreasing costs. However, for large fragments and for experiments in which libraries of DNA sequences are assembled in different combinations, assembly in the laboratory is still desirable. Biological assembly standards allow DNA parts, even those from multiple laboratories and experiments, to be assembled together using the same reagents and protocols. The adoption of such standards for plant synthetic biology has been cohesive for the plant science community, facilitating the application of genome editing technologies to plant systems and streamlining progress in large-scale, multi-laboratory bioengineering projects. © 2016 The Author(s). published by Portland Press Limited on behalf of the Biochemical Society.

Characterization of seismic properties across scales: from the laboratory- to the field scale

NASA Astrophysics Data System (ADS)

Grab, Melchior; Quintal, Beatriz; Caspari, Eva; Maurer, Hansruedi; Greenhalgh, Stewart

2016-04-01

When exploring geothermal systems, the main interest is on factors controlling the efficiency of the heat exchanger. This includes the energy state of the pore fluids and the presence of permeable structures building part of the fluid transport system. Seismic methods are amongst the most common exploration techniques to image the deep subsurface in order to evaluate such a geothermal heat exchanger. They make use of the fact that a seismic wave caries information on the properties of the rocks in the subsurface through which it passes. This enables the derivation of the stiffness and the density of the host rock from the seismic velocities. Moreover, it is well-known that the seismic waveforms are modulated while propagating trough the subsurface by visco-elastic effects due to wave induced fluid flow, hence, delivering information about the fluids in the rock's pore space. To constrain the interpretation of seismic data, that is, to link seismic properties with the fluid state and host rock permeability, it is common practice to measure the rock properties of small rock specimens in the laboratory under in-situ conditions. However, in magmatic geothermal systems or in systems situated in the crystalline basement, the host rock is often highly impermeable and fluid transport predominately takes place in fracture networks, consisting of fractures larger than the rock samples investigated in the laboratory. Therefore, laboratory experiments only provide the properties of relatively intact rock and an up-scaling procedure is required to characterize the seismic properties of large rock volumes containing fractures and fracture networks and to study the effects of fluids in such fractured rock. We present a technique to parameterize fractured rock volumes as typically encountered in Icelandic magmatic geothermal systems, by combining laboratory experiments with effective medium calculations. The resulting models can be used to calculate the frequency-dependent bulk

Large-scale block rotations from Late Tortonian to Present in the Gibraltar Arc System: input into the Messinian salinity crisis

NASA Astrophysics Data System (ADS)

Crespo-Blanc, Ana; Comas, Menchu; Balanyá, Juan Carlos

2016-04-01

We propose a reconstruction of one of the tightest orogenic arcs on Earth: the Gibraltar Arc System (GAS), which closes the Alpine-Mediterranean orogenic system to the west. This reconstruction, which includes onshore and offshore data, is completed for approximately 9 Ma, a few Ma before the Messinian Salinity Crisis (MSC). By that time a change in the direction of the Africa-Iberia convergence took place, the main shortening in the external wedge was accomplished, most of the low-angle normal fault systems that contribute to crustal-scale extension in the GAS ceased, and a significant emersion along the Africa and Iberia continental margins occurred, due to an overall contractive reorganization in the GAS. Our paleotectonic reconstruction is based on a review in terms of structures and age of the superposed deformational events that took place during the Miocene within the GAS, with special attention to the external zones of its northern branch. Our review and new structural data permit to constrain the timing of vertical axis-rotations evidenced by previously published paleomagnetic data, and to identify homogeneous domains in terms of relationships between timing of deformation events and block rotations. Block-rotations as high as 53° took place from 9 Ma to Present, which represents around 6°/Ma. The size of the rotated blocks reach 150 to 200 km long (measured along-strike). It implies that the rotations were accommodated by relatively rigid large-scale domains instead of smaller segments rotated progressively, which favors a model of vertical-axis block-rotations on top of crustal-scale decoupling levels. These rotations accommodated tightening and lengthening of the GAS and drastically altered its onshore and offshore geometry from 9 Ma onwards. In the back-arc Alboran Basin, this post-Miocene tightening produced inversion on Middle Miocene normal faults, wrench tectonics, the reactivation of shale diapirism and volcanism, and the uplift of the margins

What are undergraduates doing at biological field stations and marine laboratories?

Treesearch

Janet Hodder

2009-01-01

Biological field stations and marine laboratories (FSMLs) serve as places to study the natural environment in a variety of ways, from the level of the molecule to the globe. Undergraduate opportunities at FSMLs reflect the diversity of study options -- formal courses, research and service internships, and field-trip experiences -- and students are responding to those...

A Statistical Analysis of Student Questions in a Cell Biology Laboratory

ERIC Educational Resources Information Center

Keeling, Elena L.; Polacek, Kelly M.; Ingram, Ella L.

2009-01-01

Asking questions is an essential component of the practice of science, but question-asking skills are often underemphasized in science education. In this study, we examined questions written by students as they prepared for laboratory exercises in a senior-level cell biology class. Our goals were to discover 1) what types of questions students…

SensorDB: a virtual laboratory for the integration, visualization and analysis of varied biological sensor data.

PubMed

Salehi, Ali; Jimenez-Berni, Jose; Deery, David M; Palmer, Doug; Holland, Edward; Rozas-Larraondo, Pablo; Chapman, Scott C; Georgakopoulos, Dimitrios; Furbank, Robert T

2015-01-01

To our knowledge, there is no software or database solution that supports large volumes of biological time series sensor data efficiently and enables data visualization and analysis in real time. Existing solutions for managing data typically use unstructured file systems or relational databases. These systems are not designed to provide instantaneous response to user queries. Furthermore, they do not support rapid data analysis and visualization to enable interactive experiments. In large scale experiments, this behaviour slows research discovery, discourages the widespread sharing and reuse of data that could otherwise inform critical decisions in a timely manner and encourage effective collaboration between groups. In this paper we present SensorDB, a web based virtual laboratory that can manage large volumes of biological time series sensor data while supporting rapid data queries and real-time user interaction. SensorDB is sensor agnostic and uses web-based, state-of-the-art cloud and storage technologies to efficiently gather, analyse and visualize data. Collaboration and data sharing between different agencies and groups is thereby facilitated. SensorDB is available online at http://sensordb.csiro.au.

SIMILARITY PROPERTIES AND SCALING LAWS OF RADIATION HYDRODYNAMIC FLOWS IN LABORATORY ASTROPHYSICS

DOE Office of Scientific and Technical Information (OSTI.GOV)

Falize, E.; Bouquet, S.; Michaut, C., E-mail: emeric.falize@cea.fr

The spectacular recent development of modern high-energy density laboratory facilities which concentrate more and more energy in millimetric volumes allows the astrophysical community to reproduce and to explore, in millimeter-scale targets and during very short times, astrophysical phenomena where radiation and matter are strongly coupled. The astrophysical relevance of these experiments can be checked from the similarity properties and especially scaling law establishment, which constitutes the keystone of laboratory astrophysics. From the radiating optically thin regime to the so-called optically thick radiative pressure regime, we present in this paper, for the first time, a complete analysis of the main radiatingmore » regimes that we encountered in laboratory astrophysics with the same formalism based on Lie group theory. The use of the Lie group method appears to be a systematic method which allows us to construct easily and systematically the scaling laws of a given problem. This powerful tool permits us to unify the recent major advances on scaling laws and to identify new similarity concepts that we discuss in this paper, and suggests important applications for present and future laboratory astrophysics experiments. All these results enable us to demonstrate theoretically that astrophysical phenomena in such radiating regimes can be explored experimentally thanks to powerful facilities. Consequently, the results presented here are a fundamental tool for the high-energy density laboratory astrophysics community in order to quantify the astrophysics relevance and justify laser experiments. Moreover, relying on Lie group theory, this paper constitutes the starting point of any analysis of the self-similar dynamics of radiating fluids.« less

Issues with Tissues: A Tale of Gameful Learning in an Introductory Undergraduate Biology Laboratory Course

ERIC Educational Resources Information Center

Owens, David

2017-01-01

An introductory undergraduate biology laboratory session about vertebrate tissues was gamified to elucidate the effects of gameful learning on students' perceptions of their own learning and motivation. Student groups were randomly assigned a vertebrate tissue, including corresponding slides and content from the laboratory manual, and tasked with…

Characterizing High School Students' Written Explanations in Biology Laboratories

NASA Astrophysics Data System (ADS)

Peker, Deniz; Wallace, Carolyn S.

2011-03-01

The purpose of this qualitative interpretive research study was to examine high school students' written scientific explanations during biology laboratory investigations. Specifically, we characterized the types of epistemologies and forms of reasoning involved in students' scientific explanations and students' perceptions of scientific explanations. Sixteen students from a rural high school in the Southeastern United States were the participants of this research study. The data consisted of students' laboratory reports and individual interviews. The results indicated that students' explanations were primarily based on first-hand knowledge gained in the science laboratories and mostly representing procedural recounts. Most students did not give explanations based on a theory or a principle and did not use deductive reasoning in their explanations. The students had difficulties explaining phenomena that involved intricate cause-effect relationships. Students perceived scientific explanation as the final step of a scientific inquiry and as an account of what happened in the inquiry process, and held a constructivist-empiricist view of scientific explanations. Our results imply the need for more explicit guidance to help students construct better scientific explanations and explicit teaching of the explanatory genre with particular focus on theoretical and causal explanations.

Multi-scale computational modeling of developmental biology.

PubMed

Setty, Yaki

2012-08-01

Normal development of multicellular organisms is regulated by a highly complex process in which a set of precursor cells proliferate, differentiate and move, forming over time a functioning tissue. To handle their complexity, developmental systems can be studied over distinct scales. The dynamics of each scale is determined by the collective activity of entities at the scale below it. I describe a multi-scale computational approach for modeling developmental systems and detail the methodology through a synthetic example of a developmental system that retains key features of real developmental systems. I discuss the simulation of the system as it emerges from cross-scale and intra-scale interactions and describe how an in silico study can be carried out by modifying these interactions in a way that mimics in vivo experiments. I highlight biological features of the results through a comparison with findings in Caenorhabditis elegans germline development and finally discuss about the applications of the approach in real developmental systems and propose future extensions. The source code of the model of the synthetic developmental system can be found in www.wisdom.weizmann.ac.il/~yaki/MultiScaleModel. yaki.setty@gmail.com Supplementary data are available at Bioinformatics online.

Deaf, Hard-of-Hearing, and Hearing Signing Undergraduates’ Attitudes toward Science in Inquiry-Based Biology Laboratory Classes

PubMed Central

Gormally, Cara

2017-01-01

For science learning to be successful, students must develop attitudes toward support future engagement with challenging social issues related to science. This is especially important for increasing participation of students from underrepresented populations. This study investigated how participation in inquiry-based biology laboratory classes affected students’ attitudes toward science, focusing on deaf, hard-of-hearing, and hearing signing students in bilingual learning environments (i.e., taught in American Sign Language and English). Analysis of reflection assignments and interviews revealed that the majority of students developed positive attitudes toward science and scientific attitudes after participating in inquiry-based biology laboratory classes. Attitudinal growth appears to be driven by student value of laboratory activities, repeated direct engagement with scientific inquiry, and peer collaboration. Students perceived that hands-on experimentation involving peer collaboration and a positive, welcoming learning environment were key features of inquiry-based laboratories, affording attitudinal growth. Students who did not perceive biology as useful for their majors, careers, or lives did not develop positive attitudes. Students highlighted the importance of the climate of the learning environment for encouraging student contribution and noted both the benefits and pitfalls of teamwork. Informed by students’ characterizations of their learning experiences, recommendations are made for inquiry-based learning in college biology. PMID:28188279

Bioreactor Scalability: Laboratory-Scale Bioreactor Design Influences Performance, Ecology, and Community Physiology in Expanded Granular Sludge Bed Bioreactors

PubMed Central

Connelly, Stephanie; Shin, Seung G.; Dillon, Robert J.; Ijaz, Umer Z.; Quince, Christopher; Sloan, William T.; Collins, Gavin

2017-01-01

Studies investigating the feasibility of new, or improved, biotechnologies, such as wastewater treatment digesters, inevitably start with laboratory-scale trials. However, it is rarely determined whether laboratory-scale results reflect full-scale performance or microbial ecology. The Expanded Granular Sludge Bed (EGSB) bioreactor, which is a high-rate anaerobic digester configuration, was used as a model to address that knowledge gap in this study. Two laboratory-scale idealizations of the EGSB—a one-dimensional and a three- dimensional scale-down of a full-scale design—were built and operated in triplicate under near-identical conditions to a full-scale EGSB. The laboratory-scale bioreactors were seeded using biomass obtained from the full-scale bioreactor, and, spent water from the distillation of whisky from maize was applied as substrate at both scales. Over 70 days, bioreactor performance, microbial ecology, and microbial community physiology were monitored at various depths in the sludge-beds using 16S rRNA gene sequencing (V4 region), specific methanogenic activity (SMA) assays, and a range of physical and chemical monitoring methods. SMA assays indicated dominance of the hydrogenotrophic pathway at full-scale whilst a more balanced activity profile developed during the laboratory-scale trials. At each scale, Methanobacterium was the dominant methanogenic genus present. Bioreactor performance overall was better at laboratory-scale than full-scale. We observed that bioreactor design at laboratory-scale significantly influenced spatial distribution of microbial community physiology and taxonomy in the bioreactor sludge-bed, with 1-D bioreactor types promoting stratification of each. In the 1-D laboratory bioreactors, increased abundance of Firmicutes was associated with both granule position in the sludge bed and increased activity against acetate and ethanol as substrates. We further observed that stratification in the sludge-bed in 1-D laboratory-scale

A comparison of relative toxicity rankings by some small-scale laboratory tests

NASA Technical Reports Server (NTRS)

Hilado, C. J.; Cumming, H. J.

1977-01-01

Small-scale laboratory tests for fire toxicity, suitable for use in the average laboratory hood, are needed for screening and ranking materials on the basis of relative toxicity. The performance of wool, cotton, and aromatic polyamide under several test procedures is presented.

A Laboratory Study of Vortical Structures in Rotating Convection Plumes

NASA Astrophysics Data System (ADS)

Fu, Hao; Sun, Shiwei; Wang, Yuan; Zhou, Bowen; Thermal Turbulence Research Team

2015-11-01

A laboratory study of the columnar vortex structure in rotating Rayleigh-Bénard convection is conducted. A rectangular water tank is uniformly heated from below and cooled from above, with Ra = (6 . 35 +/- 0 . 77) ×107 , Ta = 9 . 84 ×107 , Pr = 7 . 34 . The columnar vortices are vertically aligned and quasi steady. Two 2D PIV systems were used to measure velocity field. One system performs horizontal scans at 9 different heights every 13.6s, covering 62% of the total depth. The other system scans vertically to obtain the vertical velocity profile. The measured vertical vorticity profiles of most vortices are quasi-linear with height while the vertical velocities are nearly uniform with only a small curvature. A simple model to deduce vertical velocity profile from vertical vorticity profile is proposed. Under quasi-steady and axisymmetric conditions, a ``vortex core'' assumption is introduced to simplify vertical vorticity equation. A linear ODE about vertical velocity is obtained whenever a vertical vorticity profile is given and solved with experimental data as input. The result is approximately in agreement with the measurement. This work was supported by Undergraduates Training Project (J1103410).

The Importance of Rotational Time-scales in Accretion Variability

NASA Astrophysics Data System (ADS)

Costigan, Gráinne; Vink, Joirck; Scholz, Aleks; Testi, Leonardo; Ray, Tom

2013-07-01

For the first few million years, one of the dominant sources of emission from a low mass young stellar object is from accretion. This process regulates the flow of material and angular moments from the surroundings to the central object, and is thought to play an important role in the definition of the long term stellar properties. Variability is a well documented attribute of accretion, and has been observed on time-scales of from days to years. However, where these variations come from is not clear. Th current model for accretion is magnetospheric accretion, where the stellar magnetic field truncates the disc, allowing the matter to flow from the disc onto the surface of the star. This model allows for variations in the accretion rate to come from many different sources, such as the magnetic field, the circumstellar disc and the interaction of the different parts of the system. We have been studying unbiased samples of accretors in order to identify the dominant time-scales and typical magnitudes of variations. In this way different sources of variations can be excluded and any missing physics in these systems identified. Through our previous work with the Long-term Accretion Monitoring Program (LAMP), we found 10 accretors in the ChaI region, whose variability is dominated by short term variations of 2 weeks. This was the shortest time period between spectroscopic observations which spanned 15 months, and rules out large scale processes in the disk as origins of this variability. On the basis of this study we have gone further to study the accretion signature H-alpha, over the time-scales of minutes and days in a set of Herbig Ae and T Tauri stars. Using the same methods as we used in LAMP we found the dominant time-scales of variations to be days. These samples both point towards rotation period of these objects as being an important time-scale for accretion variations. This allows us to indicate which are the most likely sources of these variations.

Who Should Join the Environmental Response Laboratory Network

EPA Pesticide Factsheets

Laboratories that analyze biological samples, chemical warfare agents, radiological, or toxic industrial chemical samples can join the ERLN. Members make up a critical infrastructure that delivers data necessary for responses to large scale emergencies.

A comparison of student reactions to biology instruction by interactive videodisc or conventional laboratory

NASA Astrophysics Data System (ADS)

Leonard, William H.

This study was designed to learn if students perceived an interactive computer/videodisc learning system to represent a viable alternative to (or extension of) the conventional laboratory for learning biology skills and concepts normally taught under classroom laboratory conditions. Data were collected by questionnaire for introductory biology classes at a large midwestern university where students were randomly assigned to two interactive videodisc/computer lessons titled Respiration and Climate and Life or traditional laboratory investigation with the same titles and concepts. The interactive videodisc system consisted of a TRS-80 Model III microcomputer interfaced to a Pioneer laser-disc player and a color TV monitor. Students indicated an overall level satisfaction with this strategy very similar to that of conventional laboratory instruction. Students frequently remarked that videodisc instruction gave them more experimental and procedural options and more efficient use of instructional time than did the conventional laboratory mode. These two results are consistent with past CAI research. Students also had a strong perception that the images on the videodisc were not real and this factor was perceived as having both advantages and disadvantages. Students found the two approaches to be equivalent to conventional laboratory instruction in the areas of general interest, understanding of basic principles, help on examinations, and attitude toward science. The student-opinion data in this study do not suggest that interactive videodisc technology serve as a substitute to the wet laboratory experience, but that this medium may enrich the spectrum of educational experiences usually not possible in typical classroom settings.

Optical high-resolution analysis of rotational movement: testing circular spatial filter velocimetry (CSFV) with rotating biological cells

NASA Astrophysics Data System (ADS)

Schaeper, M.; Schmidt, R.; Kostbade, R.; Damaschke, N.; Gimsa, J.

2016-07-01

Circular spatial filtering velocimetry (CSFV) was tested during the microscopic registration of the individual rotations of baker’s yeast cells. Their frequency-dependent rotation (electrorotation; ER) was induced in rotating electric fields, which were generated in a glass chip chamber with four electrodes (600 μm tip-to-tip distance). The electrodes were driven with sinusoidal quadrature signals of 5 or 8 V PP with frequencies up to 3 MHz. The observed cell rotation was of the order of 1-100 s per revolution. At each measuring frequency, the independent rotations of up to 20 cells were simultaneously recorded with a high-speed camera. CSFV was software-implemented using circular spatial filters with harmonic gratings. ER was proportional to the phase shift between the values of the spatial filtering signal of consecutive frames. ER spectra obtained by CSFV from the rotation velocities at different ER-field frequencies agreed well with manual measurements and theoretical spectra. Oscillations in the rotation velocity of a single cell in the elliptically polarized field near an electrode, which were resolved by CSFV, could not be visually discerned. ER step responses after field-on were recorded at 2500 frames per second. Analysis proved the high temporal resolution of CSFV and revealed a largely linear torque-friction relation during the acceleration phase of ER. Future applications of CSFV will allow for the simple and cheap automated high-resolution analysis of rotational movements where mechanical detection has too low a resolution or is not possible, e.g. in polluted environments or for gas and fluid vortices, microscopic objects, etc.

Deaf, Hard-of-Hearing, and Hearing Signing Undergraduates' Attitudes toward Science in Inquiry-Based Biology Laboratory Classes.

PubMed

Gormally, Cara

2017-01-01

For science learning to be successful, students must develop attitudes toward support future engagement with challenging social issues related to science. This is especially important for increasing participation of students from underrepresented populations. This study investigated how participation in inquiry-based biology laboratory classes affected students' attitudes toward science, focusing on deaf, hard-of-hearing, and hearing signing students in bilingual learning environments (i.e., taught in American Sign Language and English). Analysis of reflection assignments and interviews revealed that the majority of students developed positive attitudes toward science and scientific attitudes after participating in inquiry-based biology laboratory classes. Attitudinal growth appears to be driven by student value of laboratory activities, repeated direct engagement with scientific inquiry, and peer collaboration. Students perceived that hands-on experimentation involving peer collaboration and a positive, welcoming learning environment were key features of inquiry-based laboratories, affording attitudinal growth. Students who did not perceive biology as useful for their majors, careers, or lives did not develop positive attitudes. Students highlighted the importance of the climate of the learning environment for encouraging student contribution and noted both the benefits and pitfalls of teamwork. Informed by students' characterizations of their learning experiences, recommendations are made for inquiry-based learning in college biology. © 2017 C. Gormally. CBE—Life Sciences Education © 2017 The American Society for Cell Biology. This article is distributed by The American Society for Cell Biology under license from the author(s). It is available to the public under an Attribution–Noncommercial–Share Alike 3.0 Unported Creative Commons License (http://creativecommons.org/licenses/by-nc-sa/3.0).

Multi-scale Observation of Biological Interactions of Nanocarriers: from Nano to Macro

PubMed Central

Jin, Su-Eon; Bae, Jin Woo; Hong, Seungpyo

2010-01-01

Microscopic observations have played a key role in recent advancements in nanotechnology-based biomedical sciences. In particular, multi-scale observation is necessary to fully understand the nano-bio interfaces where a large amount of unprecedented phenomena have been reported. This review describes how to address the physicochemical and biological interactions of nanocarriers within the biological environments using microscopic tools. The imaging techniques are categorized based on the size scale of detection. For observation of the nano-scale biological interactions of nanocarriers, we discuss atomic force microscopy (AFM), scanning electron microscopy (SEM), and transmission electron microscopy (TEM). For the micro to macro-scale (in vitro and in vivo) observation, we focus on confocal laser scanning microscopy (CLSM) as well as in vivo imaging systems such as magnetic resonance imaging (MRI), superconducting quantum interference devices (SQUIDs), and IVIS®. Additionally, recently developed combined techniques such as AFM-CLSM, correlative Light and Electron Microscopy (CLEM), and SEM-spectroscopy are also discussed. In this review, we describe how each technique helps elucidate certain physicochemical and biological activities of nanocarriers such as dendrimers, polymers, liposomes, and polymeric/inorganic nanoparticles, thus providing a toolbox for bioengineers, pharmaceutical scientists, biologists, and research clinicians. PMID:20232368

Time scale of diffusion in molecular and cellular biology

NASA Astrophysics Data System (ADS)

Holcman, D.; Schuss, Z.

2014-05-01

Diffusion is the driver of critical biological processes in cellular and molecular biology. The diverse temporal scales of cellular function are determined by vastly diverse spatial scales in most biophysical processes. The latter are due, among others, to small binding sites inside or on the cell membrane or to narrow passages between large cellular compartments. The great disparity in scales is at the root of the difficulty in quantifying cell function from molecular dynamics and from simulations. The coarse-grained time scale of cellular function is determined from molecular diffusion by the mean first passage time of molecular Brownian motion to a small targets or through narrow passages. The narrow escape theory (NET) concerns this issue. The NET is ubiquitous in molecular and cellular biology and is manifested, among others, in chemical reactions, in the calculation of the effective diffusion coefficient of receptors diffusing on a neuronal cell membrane strewn with obstacles, in the quantification of the early steps of viral trafficking, in the regulation of diffusion between the mother and daughter cells during cell division, and many other cases. Brownian trajectories can represent the motion of a molecule, a protein, an ion in solution, a receptor in a cell or on its membrane, and many other biochemical processes. The small target can represent a binding site or an ionic channel, a hidden active site embedded in a complex protein structure, a receptor for a neurotransmitter on the membrane of a neuron, and so on. The mean time to attach to a receptor or activator determines diffusion fluxes that are key regulators of cell function. This review describes physical models of various subcellular microdomains, in which the NET coarse-grains the molecular scale to a higher cellular-level, thus clarifying the role of cell geometry in determining subcellular function.

A Vision-Based Dynamic Rotational Angle Measurement System for Large Civil Structures

PubMed Central

Lee, Jong-Jae; Ho, Hoai-Nam; Lee, Jong-Han

2012-01-01

In this paper, we propose a vision-based rotational angle measurement system for large-scale civil structures. Despite the fact that during the last decade several rotation angle measurement systems were introduced, they however often required complex and expensive equipment. Therefore, alternative effective solutions with high resolution are in great demand. The proposed system consists of commercial PCs, commercial camcorders, low-cost frame grabbers, and a wireless LAN router. The calculation of rotation angle is obtained by using image processing techniques with pre-measured calibration parameters. Several laboratory tests were conducted to verify the performance of the proposed system. Compared with the commercial rotation angle measurement, the results of the system showed very good agreement with an error of less than 1.0% in all test cases. Furthermore, several tests were conducted on the five-story modal testing tower with a hybrid mass damper to experimentally verify the feasibility of the proposed system. PMID:22969348

A vision-based dynamic rotational angle measurement system for large civil structures.

PubMed

Lee, Jong-Jae; Ho, Hoai-Nam; Lee, Jong-Han

2012-01-01

In this paper, we propose a vision-based rotational angle measurement system for large-scale civil structures. Despite the fact that during the last decade several rotation angle measurement systems were introduced, they however often required complex and expensive equipment. Therefore, alternative effective solutions with high resolution are in great demand. The proposed system consists of commercial PCs, commercial camcorders, low-cost frame grabbers, and a wireless LAN router. The calculation of rotation angle is obtained by using image processing techniques with pre-measured calibration parameters. Several laboratory tests were conducted to verify the performance of the proposed system. Compared with the commercial rotation angle measurement, the results of the system showed very good agreement with an error of less than 1.0% in all test cases. Furthermore, several tests were conducted on the five-story modal testing tower with a hybrid mass damper to experimentally verify the feasibility of the proposed system.

Laboratory and pilot-scale bioremediation of pentaerythritol tetranitrate (PETN) contaminated soil.

PubMed

Zhuang, Li; Gui, Lai; Gillham, Robert W; Landis, Richard C

2014-01-15

PETN (pentaerythritol tetranitrate), a munitions constituent, is commonly encountered in munitions-contaminated soils, and pose a serious threat to aquatic organisms. This study investigated anaerobic remediation of PETN-contaminated soil at a site near Denver Colorado. Both granular iron and organic carbon amendments were used in both laboratory and pilot-scale tests. The laboratory results showed that, with various organic carbon amendments, PETN at initial concentrations of between 4500 and 5000mg/kg was effectively removed within 84 days. In the field trial, after a test period of 446 days, PETN mass removal of up to 53,071mg/kg of PETN (80%) was achieved with an organic carbon amendment (DARAMEND) of 4% by weight. In previous laboratory studies, granular iron has shown to be highly effective in degrading PETN. However, for both the laboratory and pilot-scale tests, granular iron was proven to be ineffective. This was a consequence of passivation of the iron surfaces caused by the very high concentrations of nitrate in the contaminated soil. This study indicated that low concentration of organic carbon was a key factor limiting bioremediation of PETN in the contaminated soil. Furthermore, the addition of organic carbon amendments such as the DARAMEND materials or brewers grain, proved to be highly effective in stimulating the biodegradation of PETN and could provide the basis for full-scale remediation of PETN-contaminated sites. Copyright © 2013 Elsevier B.V. All rights reserved.

Replicating the microbial community and water quality performance of full-scale slow sand filters in laboratory-scale filters.

PubMed

Haig, Sarah-Jane; Quince, Christopher; Davies, Robert L; Dorea, Caetano C; Collins, Gavin

2014-09-15

Previous laboratory-scale studies to characterise the functional microbial ecology of slow sand filters have suffered from methodological limitations that could compromise their relevance to full-scale systems. Therefore, to ascertain if laboratory-scale slow sand filters (L-SSFs) can replicate the microbial community and water quality production of industrially operated full-scale slow sand filters (I-SSFs), eight cylindrical L-SSFs were constructed and were used to treat water from the same source as the I-SSFs. Half of the L-SSFs sand beds were composed of sterilized sand (sterile) from the industrial filters and the other half with sand taken directly from the same industrial filter (non-sterile). All filters were operated for 10 weeks, with the microbial community and water quality parameters sampled and analysed weekly. To characterize the microbial community phyla-specific qPCR assays and 454 pyrosequencing of the 16S rRNA gene were used in conjunction with an array of statistical techniques. The results demonstrate that it is possible to mimic both the water quality production and the structure of the microbial community of full-scale filters in the laboratory - at all levels of taxonomic classification except OTU - thus allowing comparison of LSSF experiments with full-scale units. Further, it was found that the sand type composing the filter bed (non-sterile or sterile), the water quality produced, the age of the filters and the depth of sand samples were all significant factors in explaining observed differences in the structure of the microbial consortia. This study is the first to the authors' knowledge that demonstrates that scaled-down slow sand filters can accurately reproduce the water quality and microbial consortia of full-scale slow sand filters. Copyright © 2014 Elsevier Ltd. All rights reserved.

Inquiry-based Investigation in Biology Laboratories: Does Neem Provide Bioprotection against Bean Beetles?

ERIC Educational Resources Information Center

Pearce, Amy R.; Sale, Amanda Lovelace; Srivatsan, Malathi; Beck, Christopher W.; Blumer, Lawrence S.; Grippo, Anne A.

2013-01-01

We developed an inquiry-based biology laboratory exercise in which undergraduate students designed experiments addressing whether material from the neem tree ("Azadirachta indica") altered bean beetle ("Callosobruchus maculatus") movements and oviposition. Students were introduced to the bean beetle life cycle, experimental…

Students' Knowledge Construction in Small Groups in the Seventh Grade Biology Laboratory: Verbal Communication and Physical Engagement.

ERIC Educational Resources Information Center

She, Hsiao-Ching

1999-01-01

Reports on a study of seventh-grade students' interactions in small groups during a biology laboratory activity. Finds that girls have the potential to perform equally as well as do boys in the science laboratory and that both individual and gender differences contribute to students' differential verbal communication and laboratory engagement.…

Keeping an eye on the biology

USDA-ARS?s Scientific Manuscript database

Genomic data sets offer remarkable opportunities for students to explore hypotheses and generate original findings without expensive laboratory equipment and supplies, scaling the benefits of traditional undergraduate research experiences to classrooms. Yet, biology students can become frustrated wi...

[Experience of the development special medical technical laboratory for studies of effects caused by potent electromagnetic radiation in biologic objects].

PubMed

Gorodetsky, B N; Kalyada, T V; Petrov, S V

2015-01-01

This article covers topics of creating special medical technical laboratory for medial and biologic studies concerning influence of potent high-frequency elecromagnetic radiation on various biologic objects. The authors gave example of such laboratory, described its construction features, purpose and main characteristics of the included devices.

The effect of cooperative learning on the attitudes toward science and the achievement of students in a non-science majors' general biology laboratory course at an urban community college

NASA Astrophysics Data System (ADS)

Chung-Schickler, Genevieve C.

The purpose of this study was to evaluate the effect of cooperative learning strategies on students' attitudes toward science and achievement in BSC 1005L, a non-science majors' general biology laboratory course at an urban community college. Data were gathered on the participants' attitudes toward science and cognitive biology level pre and post treatment in BSC 1005L. Elements of the Learning Together model developed by Johnson and Johnson and the Student Team-Achievement Divisions model created by Slavin were incorporated into the experimental sections of BSC 1005L. Four sections of BSC 1005L participated in this study. Participants were enrolled in the 1998 spring (January) term. Students met weekly in a two hour laboratory session. The treatment was administered to the experimental group over a ten week period. A quasi-experimental pretest-posttest control group design was used. Students in the cooperative learning group (nsb1 = 27) were administered the Test of Science-Related Attitudes (TOSRA) and the cognitive biology test at the same time as the control group (nsb2 = 19) (at the beginning and end of the term). Statistical analyses confirmed that both groups were equivalent regarding ethnicity, gender, college grade point average and number of absences. Independent sample t-tests performed on pretest mean scores indicated no significant differences in the TOSRA scale two or biology knowledge between the cooperative learning group and the control group. The scores of TOSRA scales: one, three, four, five, six, and seven were significantly lower in the cooperative learning group. Independent sample t-tests of the mean score differences did not show any significant differences in posttest attitudes toward science or biology knowledge between the two groups. Paired t-tests did not indicate any significant differences on the TOSRA or biology knowledge within the cooperative learning group. Paired t-tests did show significant differences within the control group

Applications of large-scale density functional theory in biology

NASA Astrophysics Data System (ADS)

Cole, Daniel J.; Hine, Nicholas D. M.

2016-10-01

Density functional theory (DFT) has become a routine tool for the computation of electronic structure in the physics, materials and chemistry fields. Yet the application of traditional DFT to problems in the biological sciences is hindered, to a large extent, by the unfavourable scaling of the computational effort with system size. Here, we review some of the major software and functionality advances that enable insightful electronic structure calculations to be performed on systems comprising many thousands of atoms. We describe some of the early applications of large-scale DFT to the computation of the electronic properties and structure of biomolecules, as well as to paradigmatic problems in enzymology, metalloproteins, photosynthesis and computer-aided drug design. With this review, we hope to demonstrate that first principles modelling of biological structure-function relationships are approaching a reality.

Coarse-coded higher-order neural networks for PSRI object recognition. [position, scale, and rotation invariant

NASA Technical Reports Server (NTRS)

Spirkovska, Lilly; Reid, Max B.

1993-01-01

A higher-order neural network (HONN) can be designed to be invariant to changes in scale, translation, and inplane rotation. Invariances are built directly into the architecture of a HONN and do not need to be learned. Consequently, fewer training passes and a smaller training set are required to learn to distinguish between objects. The size of the input field is limited, however, because of the memory required for the large number of interconnections in a fully connected HONN. By coarse coding the input image, the input field size can be increased to allow the larger input scenes required for practical object recognition problems. We describe a coarse coding technique and present simulation results illustrating its usefulness and its limitations. Our simulations show that a third-order neural network can be trained to distinguish between two objects in a 4096 x 4096 pixel input field independent of transformations in translation, in-plane rotation, and scale in less than ten passes through the training set. Furthermore, we empirically determine the limits of the coarse coding technique in the object recognition domain.

Research and Teaching: The Impact of a Four-Step Laboratory Pedagogical Framework on Biology Students' Perceptions of Laboratory Skills, Knowledge, and Interest in Research

ERIC Educational Resources Information Center

McLaughlin, Jacqueline Shea; Favre, David E.; Weinstein, Suzanne E.; Goedhart, Christine M.

2017-01-01

Authentic undergraduate research laboratory experiences are essential to aid in the implementation of science education reform mandates and to effectively train a new generation of biology students. Here we present assessment data on a unique four-step laboratory pedagogical framework that allows students to develop scientific thinking and…

Apoptosis occurs throughout the diseased rotator cuff.

PubMed

Lee, Hyo-Jin; Kim, Yang-Soo; Ok, Ji-Hoon; Song, Ha-Jung

2013-10-01

Even though apoptosis is known to be closely associated with rotator cuff tears, the differences in apoptosis according to the location within the torn supraspinatus tendon are still unknown. To elucidate where apoptosis begins within the supraspinatus tendon. Controlled laboratory study. Tendon tissues were collected from 14 patients undergoing arthroscopic rotator cuff repair surgery and 7 patients undergoing surgery for proximal humeral fracture who served as controls. In the patients with rotator cuff tears, the samples were harvested at 3 sites: the most lateral torn margin, 1 cm medial from the torn margin, and at the posterior torn corner. Caspase 3/7, 8, and 9 and cytochrome c activities were measured to determine the intracellular apoptosis pathway. Apoptotic cells were determined by in situ TUNEL (terminal deoxynucleotidyltransferase-mediated dUTP-biotin nick end labeling) staining, and immunohistochemistry was performed. The apoptotic activities of tendons from the experimental subjects were significantly higher than those of the controls. There were, however, no significant differences between the 3 sample sites. Immunohistochemistry also revealed strong expression of increased caspase 3/7, 8, and 9 and cytochrome c but no significant difference between them. This study shows that the intracellular apoptotic pathway is not only through the cell membrane receptor but also via intracellular mitochondria cascade. Because apoptosis occurs regardless of the location within the rotator cuff, debridement of the torn margin to obtain a healthy tendon may not be needed. Further study should focus on not only the technique of tying the torn tendon back to the bone but also biological augmentation to reverse or prevent further apoptosis within rotator cuff tendon.

Some Problems of Industrial Scale-Up.

ERIC Educational Resources Information Center

Jackson, A. T.

1985-01-01

Scientific ideas of the biological laboratory are turned into economic realities in industry only after several problems are solved. Economics of scale, agitation, heat transfer, sterilization of medium and air, product recovery, waste disposal, and future developments are discussed using aerobic respiration as the example in the scale-up…

Experiments on Thermal Convection in Rotating Spherical Shells With Radial Gravity: The Geophysical Fluid Flow Cell

NASA Technical Reports Server (NTRS)

Hart, John E.

1996-01-01

Experiments designed to study the fluid dynamics of buoyancy driven circulations in rotating spherical shells were conducted on the United States Microgravity Laboratory 2 spacelab mission. These experiments address several aspects of prototypical global convection relevant to large scale motions on the Sun, Earth, and on the giant planets. The key feature is the consistent modeling of radially directed gravity in spherical geometry by using dielectric polarization forces. Imagery of the planforms of thermally driven flows for rapidly-rotating regimes shows an initial separation and eventual merger of equatorial and polar convection as the heating (i.e. the Rayleigh number) is increased. At low rotation rates, multiple-states of motion for the same external parameters were observed.

Elliptical Instability of Rotating Von Karman Street

NASA Astrophysics Data System (ADS)

Stegner, A.; Pichon, T.; Beunier, M.

Clouds often reveal a meso-scale vortex shedding in the wake of mountainous islands. Unlike the classical bi-dimensional Von-Karman street, these observed vortex street are affected by the earth rot ation and vertical stratification. Theses effects could induce a selective destabilization of anticyclonic vortices. It is well known that inertial instability (also called centrifugal instability) induce a three- dimensional destabilization of anticyclonic structures when the absolute vorticity is larger than the local Coriolis parameter. However, we have shown, by the mean of laboratory experiments, that it is a different type of instability which is mainly responsible for asymmetric rotating Von-Karman street. A serie of experiments were performed to study the wake of a cylinder in a rotating fluid, at medium Reynolds number and order one Rossby number. We have shown that the vertical structure of unstable anticyclonic vortices is characteristic of an elliptical instability. Besides, unlike the inertial instability, the vertical unstable wavelength depends on the Rossby number.

Laboratory based instruction in Pakistan: Comparative evaluation of three laboratory instruction methods in biological science at higher secondary school level

NASA Astrophysics Data System (ADS)

Cheema, Tabinda Shahid

This study of laboratory based instruction at higher secondary school level was an attempt to gain some insight into the effectiveness of three laboratory instruction methods: cooperative group instruction method, individualised instruction method and lecture demonstration method on biology achievement and retention. A Randomised subjects, Pre-test Post-test Comparative Methods Design was applied. Three groups of students from a year 11 class in Pakistan conducted experiments using the different laboratory instruction methods. Pre-tests, achievement tests after the experiments and retention tests one month later were administered. Results showed no significant difference between the groups on total achievement and retention, nor was there any significant difference on knowledge and comprehension test scores or skills performance. Future research investigating a similar problem is suggested.

Scaling laws for mixing and dissipation in unforced rotating stratified turbulence

NASA Astrophysics Data System (ADS)

Pouquet, A.; Rosenberg, D.; Marino, R.; Herbert, C.

2018-06-01

We present a model for the scaling of mixing in weakly rotating stratified flows characterized by their Rossby, Froude and Reynolds numbers Ro, Fr, Re. It is based on quasi-equipartition between kinetic and potential modes, sub-dominant vertical velocity and lessening of the energy transfer to small scales as measured by the ratio rE of kinetic energy dissipation to its dimensional expression. We determine their domains of validity for a numerical study of the unforced Boussinesq equations mostly on grids of 10243 points, with Ro/Fr> 2.5 and with 1600< Re<1.9x104; the Prandtl number is one, initial conditions are either isotropic and at large scale for the velocity, and zero for the temperature {\\theta}, or in geostrophic balance. Three regimes in Fr are observed: dominant waves, eddy-wave interactions and strong turbulence. A wave-turbulence balance for the transfer time leads to rE growing linearly with Fr in the intermediate regime, with a saturation at ~0.3 or more, depending on initial conditions for larger Froude numbers. The Ellison scale is also found to scale linearly with Fr, and the flux Richardson number Rf transitions for roughly the same parameter values as well. Putting together the 3 relationships of the model allows for the prediction of mixing efficiency scaling as Fr-2~RB-1 in the low and intermediate regimes, whereas for higher Fr, it scales as RB-1/2, as already observed: as turbulence strengthens, rE~1, the velocity is isotropic and smaller buoyancy fluxes altogether correspond to a decoupling of velocity and temperature fluctuations, the latter becoming passive.

State of laboratory manual instruction in California community college introductory (non-majors) biology laboratory instruction

NASA Astrophysics Data System (ADS)

Priest, Michelle

College students must complete a life science course prior to graduation for a bachelor's degree. Generally, the course has lecture and laboratory components. It is in the laboratory where there are exceptional opportunities for exploration, challenge and application of the material learned. Optimally, this would utilize the best of inquiry based approaches. Most community colleges are using a home-grown or self written laboratory manual for the direction of work in the laboratory period. Little was known about the motivation, development and adaptation of use. It was also not known about the future of the laboratory manuals in light of the recent learning reform in California Community Colleges, Student Learning Outcomes. Extensive interviews were conducted with laboratory manual authors to determine the motivation, process of development, who was involved and learning framework used in the creation of the manuals. It was further asked of manual authors their ideas about the future of the manual, the development of staff and faculty and finally, the role Student Learning Outcomes would play in the manual. Science faculty currently teaching the non-majors biology laboratories for at least two semesters were surveyed on-line about actual practice of the manual, assessment, manual flexibility, faculty training and incorporation of Student Learning Outcomes. Finally, an evaluation of the laboratory manual was done using an established Laboratory Task Analysis Instrument. Laboratory manuals were evaluated on a variety of categories to determine the level of inquiry instruction done by students in the laboratory section. The results were that the development of homegrown laboratory manuals was done by community colleges in the Los Angeles and Orange Counties in an effort to minimize the cost of the manual to the students, to utilize all the exercises in a particular lab and to effectively utilize the materials already owned by the department. Further, schools wanted to

Laboratory Rotational Spectroscopy in the Era of ALMA: Applications to Disks and Circumstellar Outflows

NASA Astrophysics Data System (ADS)

Ziurys, Lucy M.; McCarthy, Michael C.; Stancil, Phillip C.; Halfen, DeWayne; Burton, Mark; Gottlieb, Carl A.; Lee, Kelvin

2018-06-01

The enormous leap in sensitivity and angular resolution offered by the Atacama Large Millimeter Array (ALMA) has revealed the presence of ever greater chemical complexity in astronomical sources, with an increasing number of unidentified lines. The need for supporting laboratory spectroscopy has become more urgent to fully exploit the scientific impact of ALMA. Rotational transition measurements are particularly important in this regard, as are the evaluation of line strengths, collisional cross sections, and dipole moments. Here we present new spectroscopic data concerning a wide range of potential interstellar and circumstellar molecules, including silicon and metal-bearing species, lines arising from vibrationally-excited molecules, and supporting theoretical calculations. Recent work concerning AlC2, KO, and vibrationally-excited AlO will be presented.

Bioprocess scale-up/down as integrative enabling technology: from fluid mechanics to systems biology and beyond.

PubMed

Delvigne, Frank; Takors, Ralf; Mudde, Rob; van Gulik, Walter; Noorman, Henk

2017-09-01

Efficient optimization of microbial processes is a critical issue for achieving a number of sustainable development goals, considering the impact of microbial biotechnology in agrofood, environment, biopharmaceutical and chemical industries. Many of these applications require scale-up after proof of concept. However, the behaviour of microbial systems remains unpredictable (at least partially) when shifting from laboratory-scale to industrial conditions. The need for robust microbial systems is thus highly needed in this context, as well as a better understanding of the interactions between fluid mechanics and cell physiology. For that purpose, a full scale-up/down computational framework is already available. This framework links computational fluid dynamics (CFD), metabolic flux analysis and agent-based modelling (ABM) for a better understanding of the cell lifelines in a heterogeneous environment. Ultimately, this framework can be used for the design of scale-down simulators and/or metabolically engineered cells able to cope with environmental fluctuations typically found in large-scale bioreactors. However, this framework still needs some refinements, such as a better integration of gas-liquid flows in CFD, and taking into account intrinsic biological noise in ABM. © 2017 The Authors. Microbial Biotechnology published by John Wiley & Sons Ltd and Society for Applied Microbiology.

Neutron Imaging at the Oak Ridge National Laboratory: Application to Biological Research

DOE Office of Scientific and Technical Information (OSTI.GOV)

Bilheux, Hassina Z; Cekanova, Maria; Bilheux, Jean-Christophe

2014-01-01

The Oak Ridge National Laboratory Neutron Sciences Directorate (NScD) has recently installed a neutron imaging beamline at the High Flux Isotope Reactor (HFIR) cold guide hall. The CG-1D beamline supports a broad range of user research spanning from engineering to material research, energy storage, additive manufacturing, vehicle technologies, archaeology, biology, and plant physiology. The beamline performance (spatial resolution, field of view, etc.) and its utilization for biological research are presented. The NScD is also considering a proposal to build the VENUS imaging beamline (beam port 10) at the Spallation Neutron Source (SNS). Unlike CG-1D which provides cold neutrons, VENUS willmore » offer a broad range of neutron wavelengths, from epithermal to cold, and enhanced contrast mechanisms. This new capability will also enable the imaging of thicker biological samples than is currently available at CG-1D. A brief overview of the VENUS capability for biological research is discussed.« less

Final Report - Advanced Ion Trap Mass Spectrometry Program - Oak Ridge National Laboratory - Sandia National Laboratory

DOE Office of Scientific and Technical Information (OSTI.GOV)

Whitten, W.B.

This report covers the three main projects that collectively comprised the Advanced Ion Trap Mass Spectrometry Program. Chapter 1 describes the direct interrogation of individual particles by laser desorption within the ion trap mass spectrometer analyzer. The goals were (1) to develop an ''intelligent trigger'' capable of distinguishing particles of biological origin from those of nonbiological origin in the background and interferent particles and (2) to explore the capability for individual particle identification. Direct interrogation of particles by laser ablation and ion trap mass spectrometry was shown to have good promise for discriminating between particles of biological origin and thosemore » of nonbiological origin, although detailed protocols and operating conditions were not worked out. A library of more than 20,000 spectra of various types of biological particles has been assembled. Methods based on multivariate analysis and on neural networks were used to discriminate between particles of biological origin and those of nonbiological origin. It was possible to discriminate between at least some species of bacteria if mass spectra of several hundred similar particles were obtained. Chapter 2 addresses the development of a new ion trap mass analyzer geometry that offers the potential for a significant increase in ion storage capacity for a given set of analyzer operating conditions. This geometry may lead to the development of smaller, lower-power field-portable ion trap mass spectrometers while retaining laboratory-scale analytical performance. A novel ion trap mass spectrometer based on toroidal ion storage geometry has been developed. The analyzer geometry is based on the edge rotation of a quadrupolar ion trap cross section into the shape of a torus. Initial performance of this device was poor, however, due to the significant contribution of nonlinear fields introduced by the rotation of the symmetric ion-trapping geometry. These nonlinear

A Curriculum Skills Matrix for Development and Assessment of Undergraduate Biochemistry and Molecular Biology Laboratory Programs

ERIC Educational Resources Information Center

Caldwell, Benjamin; Rohlman, Christopher; Benore-Parsons, Marilee

2004-01-01

We have designed a skills matrix to be used for developing and assessing undergraduate biochemistry and molecular biology laboratory curricula. We prepared the skills matrix for the Project Kaleidoscope Summer Institute workshop in Snowbird, Utah (July 2001) to help current and developing undergraduate biochemistry and molecular biology program…

Variations of characteristic time scales in rotating stratified turbulence using a large parametric numerical study.

PubMed

Rosenberg, D; Marino, R; Herbert, C; Pouquet, A

2016-01-01

We study rotating stratified turbulence (RST) making use of numerical data stemming from a large parametric study varying the Reynolds, Froude and Rossby numbers, Re, Fr and Ro in a broad range of values. The computations are performed using periodic boundary conditions on grids of 1024(3) points, with no modeling of the small scales, no forcing and with large-scale random initial conditions for the velocity field only, and there are altogether 65 runs analyzed in this paper. The buoyancy Reynolds number defined as R(B) = ReFr2 varies from negligible values to ≈ 10(5), approaching atmospheric or oceanic regimes. This preliminary analysis deals with the variation of characteristic time scales of RST with dimensionless parameters, focusing on the role played by the partition of energy between the kinetic and potential modes, as a key ingredient for modeling the dynamics of such flows. We find that neither rotation nor the ratio of the Brunt-Väisälä frequency to the inertial frequency seem to play a major role in the absence of forcing in the global dynamics of the small-scale kinetic and potential modes. Specifically, in these computations, mostly in regimes of wave turbulence, characteristic times based on the ratio of energy to dissipation of the velocity and temperature fluctuations, T(V) and T(P), vary substantially with parameters. Their ratio γ=T(V)/T(P) follows roughly a bell-shaped curve in terms of Richardson number Ri. It reaches a plateau - on which time scales become comparable, γ≈0.6 - when the turbulence has significantly strengthened, leading to numerous destabilization events together with a tendency towards an isotropization of the flow.

Infusing Bioinformatics and Research-Like Experience into a Molecular Biology Laboratory Course

ERIC Educational Resources Information Center

Nogaj, Luiza A.

2014-01-01

A nine-week laboratory project designed for a sophomore level molecular biology course is described. Small groups of students (3-4 per group) choose a tumor suppressor gene (TSG) or an oncogene for this project. Each group researches the role of their TSG/oncogene from primary literature articles and uses bioinformatics engines to find the gene…

Oxy-acetylene driven laboratory scale shock tubes for studying blast wave effects

NASA Astrophysics Data System (ADS)

Courtney, Amy C.; Andrusiv, Lubov P.; Courtney, Michael W.

2012-04-01

This paper describes the development and characterization of modular, oxy-acetylene driven laboratory scale shock tubes. Such tools are needed to produce realistic blast waves in a laboratory setting. The pressure-time profiles measured at 1 MHz using high-speed piezoelectric pressure sensors have relevant durations and show a true shock front and exponential decay characteristic of free-field blast waves. Descriptions are included for shock tube diameters of 27-79 mm. A range of peak pressures from 204 kPa to 1187 kPa (with 0.5-5.6% standard error of the mean) were produced by selection of the driver section diameter and distance from the shock tube opening. The peak pressures varied predictably with distance from the shock tube opening while maintaining both a true blast wave profile and relevant pulse duration for distances up to about one diameter from the shock tube opening. This shock tube design provides a more realistic blast profile than current compression-driven shock tubes, and it does not have a large jet effect. In addition, operation does not require specialized personnel or facilities like most blast-driven shock tubes, which reduces operating costs and effort and permits greater throughput and accessibility. It is expected to be useful in assessing the response of various sensors to shock wave loading; assessing the reflection, transmission, and absorption properties of candidate armor materials; assessing material properties at high rates of loading; assessing the response of biological materials to shock wave exposure; and providing a means to validate numerical models of the interaction of shock waves with structures. All of these activities have been difficult to pursue in a laboratory setting due in part to lack of appropriate means to produce a realistic blast loading profile.

Student Perceptions of the Cell Biology Laboratory Learning Environment in Four Undergraduate Science Courses in Spain

ERIC Educational Resources Information Center

De Juan, Joaquin; Pérez-Cañaveras, Rosa M.; Segovia, Yolanda; Girela, Jose Luis; Martínez-Ruiz, Noemi; Romero-Rameta, Alejandro; Gómez-Torres, Maria José; Vizcaya-Moreno, M. Flores

2016-01-01

Cell biology is an academic discipline that organises and coordinates the learning of the structure, function and molecular composition of cells in some undergraduate biomedical programs. Besides course content and teaching methodologies, the laboratory environment is considered a key element in the teaching of and learning of cell biology. The…

Connecting Biology and Organic Chemistry Introductory Laboratory Courses through a Collaborative Research Project

ERIC Educational Resources Information Center

Boltax, Ariana L.; Armanious, Stephanie; Kosinski-Collins, Melissa S.; Pontrello, Jason K.

2015-01-01

Modern research often requires collaboration of experts in fields, such as math, chemistry, biology, physics, and computer science to develop unique solutions to common problems. Traditional introductory undergraduate laboratory curricula in the sciences often do not emphasize connections possible between the various disciplines. We designed an…

Evidence of Rentian Scaling of Functional Modules in Diverse Biological Networks.

PubMed

How, Javier J; Navlakha, Saket

2018-06-12

Biological networks have long been known to be modular, containing sets of nodes that are highly connected internally. Less emphasis, however, has been placed on understanding how intermodule connections are distributed within a network. Here, we borrow ideas from engineered circuit design and study Rentian scaling, which states that the number of external connections between nodes in different modules is related to the number of nodes inside the modules by a power-law relationship. We tested this property in a broad class of molecular networks, including protein interaction networks for six species and gene regulatory networks for 41 human and 25 mouse cell types. Using evolutionarily defined modules corresponding to known biological processes in the cell, we found that all networks displayed Rentian scaling with a broad range of exponents. We also found evidence for Rentian scaling in functional modules in the Caenorhabditis elegans neural network, but, interestingly, not in three different social networks, suggesting that this property does not inevitably emerge. To understand how such scaling may have arisen evolutionarily, we derived a new graph model that can generate Rentian networks given a target Rent exponent and a module decomposition as inputs. Overall, our work uncovers a new principle shared by engineered circuits and biological networks.

Analysis of the genitalia rotation in the male Anopheles funestus (Diptera: Culicidae).

PubMed

Dahan, Yael Leah; Koekemoer, Lizette Leonie

2014-04-01

Anopheles funestus is a major malaria vector in Africa. Insecticide resistance has developed in populations of this species in several African countries, prompting the need to develop additional vector control methods such as the sterile insect technique (SIT). This technique requires an understanding of those underlying physiological events that lead to sexual maturity of An. funestus males, the rotation of their genitalia in particular. The aim of this study was to qualitatively and quantitatively describe genital rotation in An. funestus males as it is an essential function of sexual maturation. Genital rotation of all the males reached its final rotation stage (135-180° rotation) 36 h post emergence at 23 ± 1 °C in laboratory colonised An. funestus males. These males had a comparable rotation rate to wild caught An. funestus at the same temperature setting. A temperature change (either 18 ± 1 °C or 29 ± 1 °C versus 23 ± 1 °C) significantly influenced the genital rotation rate such that this rate increased with increasing temperature. This information enhances our knowledge of the An. funestus male biology. This is important in terms of applying the sterile insect technique as the understanding and manipulation of the rate of sexual maturation in males has implications for the timing of sterile male release. Copyright © 2013 International Atomic Energy Agency 2013. Published by Elsevier B.V. All rights reserved.

Prepare, Do, Review: A skills-based approach for laboratory practical classes in biochemistry and molecular biology.

PubMed

Arthur, Peter; Ludwig, Martha; Castelli, Joane; Kirkwood, Paul; Attwood, Paul

2016-05-06

A new laboratory practical system is described which is comprised of a number of laboratory practical modules, each based around a particular technique or set of techniques, related to the theory part of the course but not designed to be dependent on it. Each module comprises an online recorded pre-lab lecture, the laboratory practical itself and a post-lab session in which students make oral presentations on different aspects of the practical. Each part of the module is assessed with the aim of providing rapid feedback to staff and students. Each laboratory practical is the responsibility of a single staff member and through this "ownership," continual review and updating is promoted. Examples of changes made by staff to modules as a result of student feedback are detailed. A survey of students who had experienced both the old-style laboratory course and the new one provided evidence of increased satisfaction with the new program. The assessment of acquired shills in the new program showed that it was much more effective than the old course. © 2016 by The International Union of Biochemistry and Molecular Biology, 44:276-287, 2016. © 2016 The International Union of Biochemistry and Molecular Biology.

Laboratory-Scale Evidence for Lightning-Mediated Gene Transfer in Soil

PubMed Central

Demanèche, Sandrine; Bertolla, Franck; Buret, François; Nalin, Renaud; Sailland, Alain; Auriol, Philippe; Vogel, Timothy M.; Simonet, Pascal

2001-01-01

Electrical fields and current can permeabilize bacterial membranes, allowing for the penetration of naked DNA. Given that the environment is subjected to regular thunderstorms and lightning discharges that induce enormous electrical perturbations, the possibility of natural electrotransformation of bacteria was investigated. We demonstrated with soil microcosm experiments that the transformation of added bacteria could be increased locally via lightning-mediated current injection. The incorporation of three genes coding for antibiotic resistance (plasmid pBR328) into the Escherichia coli strain DH10B recipient previously added to soil was observed only after the soil had been subjected to laboratory-scale lightning. Laboratory-scale lightning had an electrical field gradient (700 versus 600 kV m−1) and current density (2.5 versus 12.6 kA m−2) similar to those of full-scale lightning. Controls handled identically except for not being subjected to lightning produced no detectable antibiotic-resistant clones. In addition, simulated storm cloud electrical fields (in the absence of current) did not produce detectable clones (transformation detection limit, 10−9). Natural electrotransformation might be a mechanism involved in bacterial evolution. PMID:11472916

Energy Spectra of Strongly Stratified and Rotating Turbulence

NASA Technical Reports Server (NTRS)

Mahalov, Alex; Nicolaenko, Basil; Zhou, Ye

1998-01-01

Turbulence under strong stratification and rotation is usually characterized as quasi-two dimensional turbulence. We develop a "quasi-two dimensional" energy spectrum which changes smoothly between the Kolmogorov -5/3 law (no stratification), the -2 scalings of Zhou for the case of strong rotation, as well as the -2 scalings for the case of strong rotation and stratification. For strongly stratified turbulence, the model may give the -2 scaling predicted by Herring; and the -5/3 scaling indicated by some mesoscale observations.

From genes to proteins to behavior: a laboratory project that enhances student understanding in cell and molecular biology.

PubMed

Aronson, Benjamin D; Silveira, Linda A

2009-01-01

In the laboratory, students can actively explore concepts and experience the nature of scientific research. We have devised a 5-wk laboratory project in our introductory college biology course whose aim was to improve understanding in five major concepts that are central to basic cellular, molecular biology, and genetics while teaching molecular biology techniques. The project was focused on the production of adenine in Saccharomyces cerevisiae and investigated the nature of mutant red colonies of this yeast. Students created red mutants from a wild-type strain, amplified the two genes capable of giving rise to the red phenotype, and then analyzed the nucleotide sequences. A quiz assessing student understanding in the five areas was given at the start and the end of the course. Analysis of the quiz showed significant improvement in each of the areas. These areas were taught in the laboratory and the classroom; therefore, students were surveyed to determine whether the laboratory played a role in their improved understanding of the five areas. Student survey data demonstrated that the laboratory did have an important role in their learning of the concepts. This project simulated steps in a research project and could be adapted for an advanced course in genetics.

Coupled solar photo-Fenton and biological treatment for the degradation of diuron and linuron herbicides at pilot scale.

PubMed

Farré, Maria José; Maldonado, Manuel Ignacio; Gernjak, Wolfgang; Oller, Isabel; Malato, Sixto; Domènech, Xavier; Peral, José

2008-06-01

A coupled solar photo-Fenton (chemical) and biological treatment has been used to remove biorecalcitrant diuron (42 mg l(-1)) and linuron (75 mg l(-1)) herbicides from water at pilot plant scale. The chemical process has been carried out in a 82 l solar pilot plant made up by four compound parabolic collector units, and it was followed by a biological treatment performed in a 40 l sequencing batch reactor. Two Fe(II) doses (2 and 5 mg l(-1)) and sequential additions of H2O2 (20 mg l(-1)) have been used to chemically degrade the initially polluted effluent. Next, biodegradability at different oxidation states has been assessed by means of BOD/COD ratio. A reagent dose of Fe=5 mg l(-1) and H2O2=100 mg l(-1) has been required to obtain a biodegradable effluent after 100 min of irradiation time. Finally, the organic content of the photo-treated solution has been completely assimilated by a biomass consortium in the sequencing batch reactor using a total suspended solids concentration of 0.2 g l(-1) and a hydraulic retention time of 24h. Comparison between the data obtained at pilot plant scale (specially the one corresponding to the chemical step) and previously published data from a similar system performing at laboratory scale, has been carried out.

Half dozen of one, six billion of the other: What can small- and large-scale molecular systems biology learn from one another?

PubMed

Mellis, Ian A; Raj, Arjun

2015-10-01

Small-scale molecular systems biology, by which we mean the understanding of a how a few parts work together to control a particular biological process, is predicated on the assumption that cellular regulation is arranged in a circuit-like structure. Results from the omics revolution have upset this vision to varying degrees by revealing a high degree of interconnectivity, making it difficult to develop a simple, circuit-like understanding of regulatory processes. We here outline the limitations of the small-scale systems biology approach with examples from research into genetic algorithms, genetics, transcriptional network analysis, and genomics. We also discuss the difficulties associated with deriving true understanding from the analysis of large data sets and propose that the development of new, intelligent, computational tools may point to a way forward. Throughout, we intentionally oversimplify and talk about things in which we have little expertise, and it is likely that many of our arguments are wrong on one level or another. We do believe, however, that developing a true understanding via molecular systems biology will require a fundamental rethinking of our approach, and our goal is to provoke thought along these lines. © 2015 Mellis and Raj; Published by Cold Spring Harbor Laboratory Press.

Tone and Broadband Noise Separation from Acoustic Data of a Scale-Model Counter-Rotating Open Rotor

NASA Technical Reports Server (NTRS)

Sree, David; Stephens, David B.

2014-01-01

Renewed interest in contra-rotating open rotor technology for aircraft propulsion application has prompted the development of advanced diagnostic tools for better design and improved acoustical performance. In particular, the determination of tonal and broadband components of open rotor acoustic spectra is essential for properly assessing the noise control parameters and also for validating the open rotor noise simulation codes. The technique of phase averaging has been employed to separate the tone and broadband components from a single rotor, but this method does not work for the two-shaft contra-rotating open rotor. A new signal processing technique was recently developed to process the contra-rotating open rotor acoustic data. The technique was first tested using acoustic data taken of a hobby aircraft open rotor propeller, and reported previously. The intent of the present work is to verify and validate the applicability of the new technique to a realistic one-fifth scale open rotor model which has 12 forward and 10 aft contra-rotating blades operating at realistic forward flight Mach numbers and tip speeds. The results and discussions of that study are presented in this paper.

Tone and Broadband Noise Separation from Acoustic Data of a Scale-Model Contra-Rotating Open Rotor

NASA Technical Reports Server (NTRS)

Sree, Dave; Stephens, David B.

2014-01-01

Renewed interest in contra-rotating open rotor technology for aircraft propulsion application has prompted the development of advanced diagnostic tools for better design and improved acoustical performance. In particular, the determination of tonal and broadband components of open rotor acoustic spectra is essential for properly assessing the noise control parameters and also for validating the open rotor noise simulation codes. The technique of phase averaging has been employed to separate the tone and broadband components from a single rotor, but this method does not work for the two-shaft contra-rotating open rotor. A new signal processing technique was recently developed to process the contra-rotating open rotor acoustic data. The technique was first tested using acoustic data taken of a hobby aircraft open rotor propeller, and reported previously. The intent of the present work is to verify and validate the applicability of the new technique to a realistic one-fifth scale open rotor model which has 12 forward and 10 aft contra-rotating blades operating at realistic forward flight Mach numbers and tip speeds. The results and discussions of that study are presented in this paper.

Strategies for efficient numerical implementation of hybrid multi-scale agent-based models to describe biological systems

PubMed Central

Cilfone, Nicholas A.; Kirschner, Denise E.; Linderman, Jennifer J.

2015-01-01

Biologically related processes operate across multiple spatiotemporal scales. For computational modeling methodologies to mimic this biological complexity, individual scale models must be linked in ways that allow for dynamic exchange of information across scales. A powerful methodology is to combine a discrete modeling approach, agent-based models (ABMs), with continuum models to form hybrid models. Hybrid multi-scale ABMs have been used to simulate emergent responses of biological systems. Here, we review two aspects of hybrid multi-scale ABMs: linking individual scale models and efficiently solving the resulting model. We discuss the computational choices associated with aspects of linking individual scale models while simultaneously maintaining model tractability. We demonstrate implementations of existing numerical methods in the context of hybrid multi-scale ABMs. Using an example model describing Mycobacterium tuberculosis infection, we show relative computational speeds of various combinations of numerical methods. Efficient linking and solution of hybrid multi-scale ABMs is key to model portability, modularity, and their use in understanding biological phenomena at a systems level. PMID:26366228

Biological Risks and Laboratory-Acquired Infections: A Reality That Cannot be Ignored in Health Biotechnology

PubMed Central

Coelho, Ana Cláudia; García Díez, Juan

2015-01-01

Advances and research in biotechnology have applications over a wide range of areas, such as microbiology, medicine, the food industry, agriculture, genetically modified organisms, and nanotechnology, among others. However, research with pathogenic agents, such as virus, parasites, fungi, rickettsia, bacterial microorganisms, or genetic modified organisms, has generated concern because of their potential biological risk – not only for people, but also for the environment due to their unpredictable behavior. In addition, concern for biosafety is associated with the emergence of new diseases or re-emergence of diseases that were already under control. Biotechnology laboratories require biosafety measures designed to protect their staff, the population, and the environment, which may be exposed to hazardous organisms and materials. Laboratory staff training and education is essential, not only to acquire a good understanding about the direct handling of hazardous biological agents but also knowledge of the epidemiology, pathogenicity, and human susceptibility to the biological materials used in research. Biological risk can be reduced and controlled by the correct application of internationally recognized procedures such as proper microbiological techniques, proper containment apparatus, adequate facilities, protective barriers, and special training and education of laboratory workers. To avoid occupational infections, knowledge about standardized microbiological procedures and techniques and the use of containment devices, facilities, and protective barriers is necessary. Training and education about the epidemiology, pathogenicity, and biohazards of the microorganisms involved may prevent or decrease the risk. In this way, the scientific community may benefit from the lessons learned in the past to anticipate future problems. PMID:25973418

Optical Signature Analysis of Tumbling Rocket Bodies via Laboratory Measurements

NASA Astrophysics Data System (ADS)

Cowardin, H.; Lederer, S.; Liou, J.-C.; Ojakangas, G.; Mulrooney, M.

2012-09-01

The NASA Orbital Debris Program Office has acquired telescopic lightcurve data on massive intact objects, specifically spent rocket bodies (R/Bs), to ascertain tumble rates in support of the Active Debris Removal (ADR) studies to help remediate the LEO environment. Tumble rates are needed to plan and develop proximity and docking operations for potential future ADR operations. To better characterize and model optical data acquired from ground-based telescopes, the Optical Measurements Center (OMC) at NASA/JSC emulates illumination conditions in space using equipment and techniques that parallel telescopic observations and source-target-sensor orientations. The OMC employs a 75-W Xenon arc lamp as a solar simulator, an SBIG CCD camera with standard Johnson/Bessel filters, and a robotic arm to simulate an object's position and rotation. The OMC does not attempt to replicate the rotation rates, but focuses on ascertaining how an object is rotating as seen from multiple phase angles. The two targets studied are scaled (1:48) SL-8 Cosmos 3M second stages. The first target is painted in the standard Russian government "gray" scheme and the second target is white/orange as used for commercial missions. This paper summarizes results of the two scaled rocket bodies, each observed in three independent rotation states: (a) spin-stabilized rotation (about the long axis), (b) end-over-end rotation, and (c) a 10 degree wobble about the center of mass. The first two cases represent simple spin about either primary axis. The third - what we call "wobble" - represents maximum principal axis rotation, with an inertia tensor that is offset from the symmetry axes. By comparing the resultant phase and orientation-dependent laboratory signatures with actual lightcurves derived from telescopic observations of orbiting R/Bs, we intend to assess the intrinsic R/B rotation states. In the simplest case, simulated R/B behavior coincides with principal axis spin states, while more complex R

Integration of a Faculty's Ongoing Research into an Undergraduate Laboratory Teaching Class in Developmental Biology

ERIC Educational Resources Information Center

Nam, Sang-Chul

2018-01-01

Traditional developmental biology laboratory classes have utilized a number of different model organisms to allow students to be exposed to diverse biological phenomena in developing organisms. This traditional approach has mainly focused on the diverse morphological and anatomical descriptions of the developing organisms. However, modern…

Scale-Up of GRCop: From Laboratory to Rocket Engines

NASA Technical Reports Server (NTRS)

Ellis, David L.

2016-01-01

GRCop is a high temperature, high thermal conductivity copper-based series of alloys designed primarily for use in regeneratively cooled rocket engine liners. It began with laboratory-level production of a few grams of ribbon produced by chill block melt spinning and has grown to commercial-scale production of large-scale rocket engine liners. Along the way, a variety of methods of consolidating and working the alloy were examined, a database of properties was developed and a variety of commercial and government applications were considered. This talk will briefly address the basic material properties used for selection of compositions to scale up, the methods used to go from simple ribbon to rocket engines, the need to develop a suitable database, and the issues related to getting the alloy into a rocket engine or other application.

Geometry of tracer trajectories in rotating turbulent flows

NASA Astrophysics Data System (ADS)

Alards, Kim M. J.; Rajaei, Hadi; Del Castello, Lorenzo; Kunnen, Rudie P. J.; Toschi, Federico; Clercx, Herman J. H.

2017-04-01

The geometry of passive tracer trajectories is studied in two different types of rotating turbulent flows; rotating Rayleigh-Bénard convection (RBC; experiments and direct numerical simulations) and rotating electromagnetically forced turbulence (EFT; experiments). This geometry is fully described by the curvature and torsion of trajectories, and from these geometrical quantities we can subtract information on the typical flow structures at different rotation rates. Previous studies, focusing on nonrotating homogeneous isotropic turbulence (HIT), show that the probability density functions (PDFs) of curvature and torsion reveal pronounced power laws. However, the set-ups studied here involve inhomogeneous turbulence, and in RBC the flow near the horizontal plates is definitely anisotropic. We investigate how the typical shapes of the curvature and torsion PDFs, including the pronounced scaling laws, are influenced by this level of anisotropy and inhomogeneity and how this effect changes with rotation. A first effect of rotation is observed as a shift of the curvature and torsion PDFs towards higher values in the case of RBC and towards lower values in the case of EFT. This shift is related to the length scale of typical vortical structures that decreases with rotation in RBC, but increases with rotation in EFT, explaining the opposite shifts of the curvature (and torsion) PDFs. A second remarkable observation is that in RBC the HIT scaling laws are always recovered, as long as the boundary layer (BL) is excluded. This suggests that these scaling laws are very robust and hold as long as we measure in the turbulent bulk. In the BL of the RBC cell, however, the scaling deviates from the HIT prediction for lower rotation rates. This scaling behavior is found to be consistent with the coupling between the boundary layer dynamics and the bulk flow, which changes under rotation. In particular, it is found that the active coupling of the Ekman-type boundary layer with the

Inquiry-based laboratory investigations and student performance on standardized tests in biological science

NASA Astrophysics Data System (ADS)

Patke, Usha

Achievement data from the 3rd International Mathematics and Sciences Study and Program for International Student Assessment in science have indicated that Black students from economically disadvantaged families underachieve at alarming rates in comparison to White and economically advantaged peer groups. The study site was a predominately Black, urban school district experiencing underachievement. The purpose of this correlational study was to examine the relationship between students' use of inquiry-based laboratory investigations and their performance on the Biology End of Course Test, as well as to examine the relationship while partialling out the effects of student gender. Constructivist theory formed the theoretical foundation of the study. Students' perceived levels of experience with inquiry-based laboratory investigations were measured using the Laboratory Program Variable Inventory (LPVI) survey. LPVI scores of 256 students were correlated with test scores and were examined by student gender. The Pearson correlation coefficient revealed a small direct correlation between students' experience in inquiry-based laboratory investigation classes and standardized test scores on the Biology EOCT. A partial correlational analysis indicated that the correlation remained after controlling for gender. This study may prompt a change from teacher-centered to student-centered pedagogy at the local site in order to increase academic achievement for all students. The results of this study may also influence administrators and policy makers to initiate local, state, or nationwide curricular development. A change in curriculum may promote social change as students become more competent, and more able, to succeed in life beyond secondary school.

Through Microgravity and Towards the Stars: Microgravity and Strategic Research at Marshall's Biological and Physical Space Research Laboratory

NASA Technical Reports Server (NTRS)

Curreri, Peter A.

2003-01-01

The Microgravity and Strategic research at Marshall s Biological and Physical Space Research Laboratory will be reviewed. The environment in orbit provides a unique opportunity to study Materials Science and Biotechnology in the absence of sedimentation and convection. There are a number of peer-selected investigations that have been selected to fly on the Space Station that have been conceived and are led by Marshall s Biological and Physical Research Laboratory s scientists. In addition to Microgravity research the Station will enable research in "Strategic" Research Areas that focus on enabling humans to live, work, and explore the solar system safely. New research in Radiation Protection, Strategic Molecular Biology, and In-Space Fabrication will be introduced.

Development of a large-scale isolation chamber system for the safe and humane care of medium-sized laboratory animals harboring infectious diseases*

PubMed Central

Pan, Xin; Qi, Jian-cheng; Long, Ming; Liang, Hao; Chen, Xiao; Li, Han; Li, Guang-bo; Zheng, Hao

2010-01-01

The close phylogenetic relationship between humans and non-human primates makes non-human primates an irreplaceable model for the study of human infectious diseases. In this study, we describe the development of a large-scale automatic multi-functional isolation chamber for use with medium-sized laboratory animals carrying infectious diseases. The isolation chamber, including the transfer chain, disinfection chain, negative air pressure isolation system, animal welfare system, and the automated system, is designed to meet all biological safety standards. To create an internal chamber environment that is completely isolated from the exterior, variable frequency drive blowers are used in the air-intake and air-exhaust system, precisely controlling the filtered air flow and providing an air-barrier protection. A double door transfer port is used to transfer material between the interior of the isolation chamber and the outside. A peracetic acid sterilizer and its associated pipeline allow for complete disinfection of the isolation chamber. All of the isolation chamber parameters can be automatically controlled by a programmable computerized menu, allowing for work with different animals in different-sized cages depending on the research project. The large-scale multi-functional isolation chamber provides a useful and safe system for working with infectious medium-sized laboratory animals in high-level bio-safety laboratories. PMID:20872984

Validation of laboratory-scale recycling test method of paper PSA label products

Treesearch

Carl Houtman; Karen Scallon; Richard Oldack

2008-01-01

Starting with test methods and a specification developed by the U.S. Postal Service (USPS) Environmentally Benign Pressure Sensitive Adhesive Postage Stamp Program, a laboratory-scale test method and a specification were developed and validated for pressure-sensitive adhesive labels, By comparing results from this new test method and pilot-scale tests, which have been...

Understanding and predicting profile structure and parametric scaling of intrinsic rotation

DOE Office of Scientific and Technical Information (OSTI.GOV)

Wang, W. X.; Grierson, B. A.; Ethier, S.

2017-08-10

This study reports on a recent advance in developing physical understanding and a first-principles-based model for predicting intrinsic rotation profiles in magnetic fusion experiments. It is shown for the first time that turbulent fluctuation-driven residual stress (a non-diffusive component of momentum flux) along with diffusive momentum flux can account for both the shape and magnitude of the observed intrinsic toroidal rotation profile. Both the turbulence intensity gradient and zonal flow E×B shear are identified as major contributors to the generation of the k ∥-asymmetry needed for the residual stress generation. The model predictions of core rotation based on global gyrokineticmore » simulations agree well with the experimental measurements of main ion toroidal rotation for a set of DIII-D ECH discharges. The validated model is further used to investigate the characteristic dependence of residual stress and intrinsic rotation profile structure on the multi-dimensional parametric space covering the turbulence type, q-profile structure, and up-down asymmetry in magnetic geometry with the goal of developing the physics understanding needed for rotation profile control and optimization. It is shown that in the flat-q profile regime, intrinsic rotations driven by ITG and TEM turbulence are in the opposite direction (i.e., intrinsic rotation reverses). The predictive model also produces reversed intrinsic rotation for plasmas with weak and normal shear q-profiles.« less

Rotation Period of Blanco 1 Members from KELT Light Curves: Comparing Rotation-Ages to Various Stellar Chronometers at 100 Myr

NASA Astrophysics Data System (ADS)

Cargile, Phillip; James, D. J.; Pepper, J.; Kuhn, R.; Siverd, R. J.; Stassun, K. G.

2012-01-01

The age of a star is one of its most fundamental properties, and yet tragically it is also the one property that is not directly measurable in observations. We must therefore rely on age estimates based on mostly model-dependent or empirical methods. Moreover, there remains a critical need for direct comparison of different age-dating techniques using the same stars analyzed in a consistent fashion. One chronometer commonly being employed is using stellar rotation rates to measure stellar ages, i.e., gyrochronology. Although this technique is one of the better-understood chronometers, its calibration relies heavily on the solar datum, as well as benchmark open clusters with reliable ages, and also lacks a comprehensive comparative analysis to other stellar chronometers. The age of the nearby (? pc) open cluster Blanco 1 has been estimated using various techniques, including being one of only 7 clusters with an LDB age measurement, making it a unique and powerful comparative laboratory for stellar chronometry, including gyrochronology. Here, we present preliminary results from our light-curve analysis of solar-type stars in Blanco 1 in order to identify and measure rotation periods of cluster members. The light-curve data were obtained during the engineering and calibration phase of the KELT-South survey. The large area on the sky and low number of contaminating field stars makes Blanco 1 an ideal target for the extremely wide field and large pixel scale of the KELT telescope. We apply a period-finding technique using the Lomb-Scargle periodogram and FAP statistics to measure significant rotation periods in the KELT-South light curves for confirmed Blanco 1 members. These new rotation periods allow us to test and inform rotation evolution models for stellar ages at ? Myr, determining a rotation-age for Blanco 1 using gyrochronology, and compare this rotation-age to other age measurements for this cluster.

Linking the concept of scale to studies of biological diversity: evolving approaches and tools.

USGS Publications Warehouse

Beever, E.A.; Swihart, R.K.; Bestelmeyer, B. T.

2006-01-01

Although the concepts of scale and biological diversity independently have received rapidly increasing attention in the scientific literature since the 1980s, the rate at which the two concepts have been investigated jointly has grown much more slowly. We find that scale considerations have been incorporated explicitly into six broad areas of investigation related to biological diversity: (1) heterogeneity within and among ecosystems, (2) disturbance ecology, (3) conservation and restoration, (4) invasion biology, (5) importance of temporal scale for understanding processes, and (6) species responses to environmental heterogeneity. In addition to placing the papers of this Special Feature within the context of brief summaries of the expanding literature on these six topics, we provide an overview of tools useful for integrating scale considerations into studies of biological diversity. Such tools include hierarchical and structural-equation modelling, kriging, variable-width buffers, k-fold cross-validation, and cascading graph diagrams, among others. Finally, we address some of the major challenges and research frontiers that remain, and conclude with a look to the future.

Predicting the performance uncertainty of a 1-MW pilot-scale carbon capture system after hierarchical laboratory-scale calibration and validation

DOE Office of Scientific and Technical Information (OSTI.GOV)

Xu, Zhijie; Lai, Canhai; Marcy, Peter William

2017-05-01

A challenging problem in designing pilot-scale carbon capture systems is to predict, with uncertainty, the adsorber performance and capture efficiency under various operating conditions where no direct experimental data exist. Motivated by this challenge, we previously proposed a hierarchical framework in which relevant parameters of physical models were sequentially calibrated from different laboratory-scale carbon capture unit (C2U) experiments. Specifically, three models of increasing complexity were identified based on the fundamental physical and chemical processes of the sorbent-based carbon capture technology. Results from the corresponding laboratory experiments were used to statistically calibrate the physical model parameters while quantifying some of theirmore » inherent uncertainty. The parameter distributions obtained from laboratory-scale C2U calibration runs are used in this study to facilitate prediction at a larger scale where no corresponding experimental results are available. In this paper, we first describe the multiphase reactive flow model for a sorbent-based 1-MW carbon capture system then analyze results from an ensemble of simulations with the upscaled model. The simulation results are used to quantify uncertainty regarding the design’s predicted efficiency in carbon capture. In particular, we determine the minimum gas flow rate necessary to achieve 90% capture efficiency with 95% confidence.« less

Looking for scaling laws, or physics with nuts and shells

NASA Astrophysics Data System (ADS)

Sheets, H. David; Lauffenburger, James C.

1999-09-01

Scaling laws relating the volume of a class of objects to a characteristic dimension of the object appear commonly in physics, chemistry, and biology. In this laboratory exercise for an introductory physics course scaling laws are derived for machine nuts and clam shells. In addition to covering a standard problem in physics, determining volume of the object by measuring the buoyant force on it, the biologically interesting idea of scaling laws are incorporated into the same lab.

The OME Framework for genome-scale systems biology

DOE Office of Scientific and Technical Information (OSTI.GOV)

Palsson, Bernhard O.; Ebrahim, Ali; Federowicz, Steve

The life sciences are undergoing continuous and accelerating integration with computational and engineering sciences. The biology that many in the field have been trained on may be hardly recognizable in ten to twenty years. One of the major drivers for this transformation is the blistering pace of advancements in DNA sequencing and synthesis. These advances have resulted in unprecedented amounts of new data, information, and knowledge. Many software tools have been developed to deal with aspects of this transformation and each is sorely needed [1-3]. However, few of these tools have been forced to deal with the full complexity ofmore » genome-scale models along with high throughput genome- scale data. This particular situation represents a unique challenge, as it is simultaneously necessary to deal with the vast breadth of genome-scale models and the dizzying depth of high-throughput datasets. It has been observed time and again that as the pace of data generation continues to accelerate, the pace of analysis significantly lags behind [4]. It is also evident that, given the plethora of databases and software efforts [5-12], it is still a significant challenge to work with genome-scale metabolic models, let alone next-generation whole cell models [13-15]. We work at the forefront of model creation and systems scale data generation [16-18]. The OME Framework was borne out of a practical need to enable genome-scale modeling and data analysis under a unified framework to drive the next generation of genome-scale biological models. Here we present the OME Framework. It exists as a set of Python classes. However, we want to emphasize the importance of the underlying design as an addition to the discussions on specifications of a digital cell. A great deal of work and valuable progress has been made by a number of communities [13, 19-24] towards interchange formats and implementations designed to achieve similar goals. While many software tools exist for handling

Hall effect in the presence of rotation

NASA Astrophysics Data System (ADS)

Zubkov, M. A.

2018-02-01

A rotating relativistic fermion system is considered. The consideration is based on the Dirac equation written in the laboratory (non-rotating) reference frame. Rotation in this approach gives rise to the effective magnetic and electric fields that act in the same way both on positive and negative electric charges. In the presence of external electric field in the given system the electric current appears orthogonal to both the electric field and the axis of rotation. The possible applications to the physics of quark-gluon plasma are discussed.

Status of Biology Laboratory and Practical Activities in Some Selected Secondary and Preparatory Schools of Borena Zone, South Ethiopia

ERIC Educational Resources Information Center

Daba, Tolessa Muleta; Anbassa, Baressa; Oda, Bula Kere; Degefa, Itefa

2016-01-01

Science laboratory is a very important resource input for teaching science. Learning science is enhanced and the understanding level is improved when students are engaged in science laboratory for practical experiments. The current study aimed to assess the status of Biology laboratory and practical activities in some selected secondary and…

Sex Differences in the Mental Rotation of Chemistry Representations

ERIC Educational Resources Information Center

Stieff, Mike

2013-01-01

Mental-rotation ability modestly predicts chemistry achievement. As such, sex differences in mental-rotation ability have been implicated as a causal factor that can explain sex differences in chemistry achievement and degree attainment. Although there is a correlation between mental-rotation ability and chemistry achievement, laboratory and field…

A visual understanding of optical rotation using corn syrup

NASA Astrophysics Data System (ADS)

Nixon, M.; Hughes, I. G.

2017-07-01

In this paper a visual demonstration of optical rotation is presented, with content appropriate for use in a lecture demonstration as well as quantitative techniques suitable for an undergraduate-laboratory experiment. Linearly polarised lasers of various wavelengths are propagated through a glass tube containing corn syrup. The rotation of the plane of polarisation of the light is visible with the naked eye, making the experiment dramatic and engaging and aiding understanding of the phenomenon of optical rotation. In addition, we present a simple approach to quantitatively analyse data using only equipment commonly found in undergraduate teaching laboratories.

Screening biological methods for laboratory scale stabilization of fine fraction from landfill mining.

PubMed

Mönkäre, Tiina J; Palmroth, Marja R T; Rintala, Jukka A

2017-02-01

Increasing interest for the landfill mining and the amount of fine fraction (FF) in landfills (40-70% (w/w) of landfill content) mean that sustainable treatment and utilization methods for FF are needed. For this study FF (<20mm) was mined from a municipal solid waste (MSW) landfill operated from 1967 to 1989. FF, which resembles soil, was stabilized in laboratory scale reactors in two phases: first, anaerobically for 101days and second, for 72days using four different methods: anaerobic with the addition of moisture (water) or inoculum (sewage sludge) and aerobic with continuous water washing, with, or without, bulking material. The aim was to evaluate the effect on the stability of mined FF, which has been rarely reported, and to study the quality and quantity of gas and leachate produced during the stabilization experiment. The study showed that aerobic treatment reduced respiration activity (final values 0.9-1.1mgO 2 /gTS) and residual methane potential (1.1LCH 4 /kgTS) better than anaerobic methods (1.8-2.3mg O 2 /g TS and 1.3-2.4L CH 4 /kg TS, respectively). Bulking material mixed in FF in one aerobic reactor had no effect on the stability of FF. The benefit of anaerobic treatment was the production of methane, which could be utilized as energy. Even though the inoculum addition increased methane production from FF about 30%, but the methane production was still relatively low (in total 1.5-1.7L CH 4 /kg TS). Continuous water washing was essential to remove leachable organic matter and soluble nutrients from FF, while increasing the volume of leachate collected. In the aerobic treatment, nitrogen was oxidized into nitrite and nitrate and then washed out in the leachate. Both anaerobic and aerobic methods could be used for FF stabilization. The use of FF, in landscaping for example, is possible because its nutrient content (4gN/kg TS and 1g P/kg TS) can increase the nutrient content of soil, but this may have limitations due to the possible presence of heavy

Parallel Clustering Algorithm for Large-Scale Biological Data Sets

PubMed Central

Wang, Minchao; Zhang, Wu; Ding, Wang; Dai, Dongbo; Zhang, Huiran; Xie, Hao; Chen, Luonan; Guo, Yike; Xie, Jiang

2014-01-01

Backgrounds Recent explosion of biological data brings a great challenge for the traditional clustering algorithms. With increasing scale of data sets, much larger memory and longer runtime are required for the cluster identification problems. The affinity propagation algorithm outperforms many other classical clustering algorithms and is widely applied into the biological researches. However, the time and space complexity become a great bottleneck when handling the large-scale data sets. Moreover, the similarity matrix, whose constructing procedure takes long runtime, is required before running the affinity propagation algorithm, since the algorithm clusters data sets based on the similarities between data pairs. Methods Two types of parallel architectures are proposed in this paper to accelerate the similarity matrix constructing procedure and the affinity propagation algorithm. The memory-shared architecture is used to construct the similarity matrix, and the distributed system is taken for the affinity propagation algorithm, because of its large memory size and great computing capacity. An appropriate way of data partition and reduction is designed in our method, in order to minimize the global communication cost among processes. Result A speedup of 100 is gained with 128 cores. The runtime is reduced from serval hours to a few seconds, which indicates that parallel algorithm is capable of handling large-scale data sets effectively. The parallel affinity propagation also achieves a good performance when clustering large-scale gene data (microarray) and detecting families in large protein superfamilies. PMID:24705246

Implementing the Science Assessment Standards: Developing and validating a set of laboratory assessment tasks in high school biology

NASA Astrophysics Data System (ADS)

Saha, Gouranga Chandra

Very often a number of factors, especially time, space and money, deter many science educators from using inquiry-based, hands-on, laboratory practical tasks as alternative assessment instruments in science. A shortage of valid inquiry-based laboratory tasks for high school biology has been cited. Driven by this need, this study addressed the following three research questions: (1) How can laboratory-based performance tasks be designed and developed that are doable by students for whom they are designed/written? (2) Do student responses to the laboratory-based performance tasks validly represent at least some of the intended process skills that new biology learning goals want students to acquire? (3) Are the laboratory-based performance tasks psychometrically consistent as individual tasks and as a set? To answer these questions, three tasks were used from the six biology tasks initially designed and developed by an iterative process of trial testing. Analyses of data from 224 students showed that performance-based laboratory tasks that are doable by all students require careful and iterative process of development. Although the students demonstrated more skill in performing than planning and reasoning, their performances at the item level were very poor for some items. Possible reasons for the poor performances have been discussed and suggestions on how to remediate the deficiencies have been made. Empirical evidences for validity and reliability of the instrument have been presented both from the classical and the modern validity criteria point of view. Limitations of the study have been identified. Finally implications of the study and directions for further research have been discussed.

The Next Generation of Synthetic Biology Chassis: Moving Synthetic Biology from the Laboratory to the Field.

PubMed

Adams, Bryn L

2016-12-16

Escherichia coli (E. coli) has played a pivotal role in the development of genetics and molecular biology as scientific fields. It is therefore not surprising that synthetic biology (SB) was built upon E. coli and continues to dominate the field. However, scientific capabilities have advanced from simple gene mutations to the insertion of rationally designed, complex synthetic circuits and creation of entirely synthetic genomes. The point is rapidly approaching where E. coli is no longer an adequate host for the increasingly sophisticated genetic designs of SB. It is time to develop the next generation of SB chassis; robust organisms that can provide the advanced physiology novel synthetic circuits will require to move SB from the laboratory into fieldable technologies. This can be accomplished by developing chassis-specific genetic toolkits that are as extensive as those for E. coli. However, the holy grail of SB would be the development of a universal toolkit that can be ported into any chassis. This viewpoint article underscores the need for new bacterial chassis, as well as discusses some of the important considerations in their selection. It also highlights a few examples of robust, tractable bacterial species that can meet the demands of tomorrow's state-of-the-art in SB. Significant advances have been made in the first 15 years since this field has emerged. However, the advances over the next 15 years will occur not in laboratory organisms, but in fieldable species where the potential of SB can be fully realized in game changing technology.

Glucose Transport in Cultured Animal Cells: An Exercise for the Undergraduate Cell Biology Laboratory

ERIC Educational Resources Information Center

Ledbetter, Mary Lee S.; Lippert, Malcolm J.

2002-01-01

Membrane transport is a fundamental concept that undergraduate students of cell biology understand better with laboratory experience. Formal teaching exercises commonly used to illustrate this concept are unbiological, qualitative, or intricate and time consuming to prepare. We have developed an exercise that uses uptake of radiolabeled nutrient…

Potential for improved radiation thermometry measurement uncertainty through implementing a primary scale in an industrial laboratory

NASA Astrophysics Data System (ADS)

Willmott, Jon R.; Lowe, David; Broughton, Mick; White, Ben S.; Machin, Graham

2016-09-01

A primary temperature scale requires realising a unit in terms of its definition. For high temperature radiation thermometry in terms of the International Temperature Scale of 1990 this means extrapolating from the signal measured at the freezing temperature of gold, silver or copper using Planck’s radiation law. The difficulty in doing this means that primary scales above 1000 °C require specialist equipment and careful characterisation in order to achieve the extrapolation with sufficient accuracy. As such, maintenance of the scale at high temperatures is usually only practicable for National Metrology Institutes, and calibration laboratories have to rely on a scale calibrated against transfer standards. At lower temperatures it is practicable for an industrial calibration laboratory to have its own primary temperature scale, which reduces the number of steps between the primary scale and end user. Proposed changes to the SI that will introduce internationally accepted high temperature reference standards might make it practicable to have a primary high temperature scale in a calibration laboratory. In this study such a scale was established by calibrating radiation thermometers directly to high temperature reference standards. The possible reduction in uncertainty to an end user as a result of the reduced calibration chain was evaluated.

Surface quality of unsaturated polyester resin processed via continuous multi-shot rotational molding

NASA Astrophysics Data System (ADS)

Ogila, K. O.; Yang, W.; Shao, M.; Tan, J.

2017-05-01

Unsaturated Polyester Resin is a versatile and cost efficient thermosetting plastic whose application in rotational molding is currently limited by its relatively high initial viscosity and heat of reaction. These material characteristics result in uneven material distribution, poor surface finish and imperfections in the moldings especially when large wall thicknesses are required. The current work attempts to remedy these shortcomings through the development of a continuous multi-shot system which adds predetermined loads of unsaturated polyester resin into a rotating mold at various intervals. As part of this system, a laboratory-scale uniaxial rotational molding machine was used to produce Unsaturated Polyester Resin moldings in single and double shots. Optimal processing conditions were determined through visual studies, three dimensional microscopic studies, thickness distribution analysis and Fourier Transform Infrared spectroscopy. Volume filling fractions of 0.049-0.065, second shot volumes of 0.5-0.75 from the first shot, rotational speeds of 15-20 rpm and temperatures of 30-50 °C resulted in moldings of suitable quality on both the inner and outer surfaces.

Biological Filters.

ERIC Educational Resources Information Center

Klemetson, S. L.

1978-01-01

Presents the 1978 literature review of wastewater treatment. The review is concerned with biological filters, and it covers: (1) trickling filters; (2) rotating biological contractors; and (3) miscellaneous reactors. A list of 14 references is also presented. (HM)

Determination of Rate Constants for Ouabain Inhibition of Adenosine Triphosphatase: An Undergraduate Biological Chemistry Laboratory Experiment

ERIC Educational Resources Information Center

Sall, Eri; And Others

1978-01-01

Describes an undergraduate biological chemistry laboratory experiment which provides students with an example of pseudo-first-order kinetics with the cardiac glycoside inhibition of mammalism sodium and potassium transport. (SL)

RANS Simulation (Rotating Reference Frame Model [RRF]) of Single Full Scale DOE RM1 MHK Turbine

DOE Data Explorer

Javaherchi, Teymour; Stelzenmuller, Nick; Aliseda, Alberto

2013-04-10

Attached are the .cas and .dat files for the Reynolds Averaged Navier-Stokes (RANS) simulation of a single full scale DOE RM1 turbine implemented in ANSYS FLUENT CFD-package. In this case study taking advantage of the symmetry of the DOE RM1 geometry, only half of the geometry is modeled using (Single) Rotating Reference Frame model [RRF]. In this model RANS equations, coupled with k-\\omega turbulence closure model, are solved in the rotating reference frame. The actual geometry of the turbine blade is included and the turbulent boundary layer along the blade span is simulated using wall-function approach. The rotation of the blade is modeled by applying periodic boundary condition to sets of plane of symmetry. This case study simulates the performance and flow field in both the near and far wake of the device at the desired operating conditions. The results of these simulations showed good agreement to the only publicly available numerical simulation of the device done in the NREL. Please see the attached paper.

An Inquiry-Infused Introductory Biology Laboratory That Integrates Mendel's Pea Phenotypes with Molecular Mechanisms

ERIC Educational Resources Information Center

Kudish, Philip; Schlag, Erin; Kaplinsky, Nicholas J.

2015-01-01

We developed a multi-week laboratory in which college-level introductory biology students investigate Mendel's stem length phenotype in peas. Students collect, analyze and interpret convergent evidence from molecular and physiological techniques. In weeks 1 and 2, students treat control and experimental plants with Gibberellic Acid (GA) to…

Tested Studies for Laboratory Teaching. Proceedings of the Workshop/Conference of the Association for Biology Laboratory Education (ABLE) (7th, Las Vegas, Nevada, June 3-7, 1985; 8th, Ithaca, New York, June 16-20, 1986). Volume 7/8.

ERIC Educational Resources Information Center

Goldman, Corey A., Ed.; Hauta, P. Lynn, Ed.

The focus of the Association for Biology Laboratory Education (ABLE) is to improve the undergraduate biology laboratory experience by promoting the development and dissemination of interesting, innovative, and reliable laboratory exercises. This proceeding volume contains 12 papers: "Experimental Design and Testing: Hatching and Development in…

MOJAVE: Monitoring of Jets in Active Galactic Nuclei with VLBA Experiments. VIII. Faraday Rotation in Parsec-scale AGN Jets

NASA Astrophysics Data System (ADS)

Hovatta, Talvikki; Lister, Matthew L.; Aller, Margo F.; Aller, Hugh D.; Homan, Daniel C.; Kovalev, Yuri Y.; Pushkarev, Alexander B.; Savolainen, Tuomas

2012-10-01

We report observations of Faraday rotation measures for a sample of 191 extragalactic radio jets observed within the MOJAVE program. Multifrequency Very Long Baseline Array observations were carried out over 12 epochs in 2006 at four frequencies between 8 and 15 GHz. We detect parsec-scale Faraday rotation measures in 149 sources and find the quasars to have larger rotation measures on average than BL Lac objects. The median core rotation measures are significantly higher than in the jet components. This is especially true for quasars where we detect a significant negative correlation between the magnitude of the rotation measure and the de-projected distance from the core. We perform detailed simulations of the observational errors of total intensity, polarization, and Faraday rotation, and concentrate on the errors of transverse Faraday rotation measure gradients in unresolved jets. Our simulations show that the finite image restoring beam size has a significant effect on the observed rotation measure gradients, and spurious gradients can occur due to noise in the data if the jet is less than two beams wide in polarization. We detect significant transverse rotation measure gradients in four sources (0923+392, 1226+023, 2230+114, and 2251+158). In 1226+023 the rotation measure is for the first time seen to change sign from positive to negative over the transverse cuts, which supports the presence of a helical magnetic field in the jet. In this source we also detect variations in the jet rotation measure over a timescale of three months, which are difficult to explain with external Faraday screens and suggest internal Faraday rotation. By comparing fractional polarization changes in jet components between the four frequency bands to depolarization models, we find that an external purely random Faraday screen viewed through only a few lines of sight can explain most of our polarization observations, but in some sources, such as 1226+023 and 2251+158, internal

MOJAVE: MONITORING OF JETS IN ACTIVE GALACTIC NUCLEI WITH VLBA EXPERIMENTS. VIII. FARADAY ROTATION IN PARSEC-SCALE AGN JETS

DOE Office of Scientific and Technical Information (OSTI.GOV)

Hovatta, Talvikki; Lister, Matthew L.; Aller, Margo F.

2012-10-01

We report observations of Faraday rotation measures for a sample of 191 extragalactic radio jets observed within the MOJAVE program. Multifrequency Very Long Baseline Array observations were carried out over 12 epochs in 2006 at four frequencies between 8 and 15 GHz. We detect parsec-scale Faraday rotation measures in 149 sources and find the quasars to have larger rotation measures on average than BL Lac objects. The median core rotation measures are significantly higher than in the jet components. This is especially true for quasars where we detect a significant negative correlation between the magnitude of the rotation measure andmore » the de-projected distance from the core. We perform detailed simulations of the observational errors of total intensity, polarization, and Faraday rotation, and concentrate on the errors of transverse Faraday rotation measure gradients in unresolved jets. Our simulations show that the finite image restoring beam size has a significant effect on the observed rotation measure gradients, and spurious gradients can occur due to noise in the data if the jet is less than two beams wide in polarization. We detect significant transverse rotation measure gradients in four sources (0923+392, 1226+023, 2230+114, and 2251+158). In 1226+023 the rotation measure is for the first time seen to change sign from positive to negative over the transverse cuts, which supports the presence of a helical magnetic field in the jet. In this source we also detect variations in the jet rotation measure over a timescale of three months, which are difficult to explain with external Faraday screens and suggest internal Faraday rotation. By comparing fractional polarization changes in jet components between the four frequency bands to depolarization models, we find that an external purely random Faraday screen viewed through only a few lines of sight can explain most of our polarization observations, but in some sources, such as 1226+023 and 2251

IO Rotation Movie

NASA Technical Reports Server (NTRS)

2000-01-01

During its 1979 flyby, Voyager 2 observed Io only from a distance. However, the volcanic activity discovered by Voyager 1 months earlier was readily visible. This sequence of nine color images was collected using the Blue, Green and Orange filters from about 1.2 million kilometers. A 2.5 hour period is covered during which Io rotates 7 degrees.

Rotating into view over the limb of Io are the plumes of the volcanoes Amirani (top) and Maui (lower). These plumes are very distinct against the black sky because they are being illuminated from behind. Notice that as Io rotates, the proportion of Io which is sunlit decreases greatly. This changing phase angle is because Io is moving between the spacecraft and the Sun.

This time-lapse movie was produced at JPL by the Image Processing Laboratory in 1985.

Synthetic biology and occupational risk.

PubMed

Howard, John; Murashov, Vladimir; Schulte, Paul

2017-03-01

Synthetic biology is an emerging interdisciplinary field of biotechnology that involves applying the principles of engineering and chemical design to biological systems. Biosafety professionals have done an excellent job in addressing research laboratory safety as synthetic biology and gene editing have emerged from the larger field of biotechnology. Despite these efforts, risks posed by synthetic biology are of increasing concern as research procedures scale up to industrial processes in the larger bioeconomy. A greater number and variety of workers will be exposed to commercial synthetic biology risks in the future, including risks to a variety of workers from the use of lentiviral vectors as gene transfer devices. There is a need to review and enhance current protection measures in the field of synthetic biology, whether in experimental laboratories where new advances are being researched, in health care settings where treatments using viral vectors as gene delivery systems are increasingly being used, or in the industrial bioeconomy. Enhanced worker protection measures should include increased injury and illness surveillance of the synthetic biology workforce; proactive risk assessment and management of synthetic biology products; research on the relative effectiveness of extrinsic and intrinsic biocontainment methods; specific safety guidance for synthetic biology industrial processes; determination of appropriate medical mitigation measures for lentiviral vector exposure incidents; and greater awareness and involvement in synthetic biology safety by the general occupational safety and health community as well as by government occupational safety and health research and regulatory agencies.

Rotational molding of bio-polymers

NASA Astrophysics Data System (ADS)

Greco, Antonio; Maffezzoli, Alfonso; Forleo, Stefania

2014-05-01

This paper is aimed to study the suitability of bio-polymers, including poly-lactic acid (PLLA) and Mater-Bi, for the production of hollow components by rotational molding. In order to reduce the brittleness of PLLA, the material was mixed with two different plasticizers, bis-ethyl-hexyl-phthalate (DEHP) and poly-ethylene-glycol (PEG). The materials were characterized in terms of sinterability. To this purpose, thermomechanical (TMA) analysis was performed at different heating rates, in order to identify the endset temperatures of densification and the onset temperatures of degradation. Results obtained indicated that the materials are characterized by a very fast sintering process, occurring just above the melting temperature, and an adequately high onset of degradation. The difference between the onset of degradation and the endset of sintering, defined as the processing window of the polymer, is sufficiently wide, indicating that the polymers can be efficiently processed by rotational molding. Therefore, a laboratory scale apparatus was used for the production of PLLA and Mater-Bi prototypes. The materials were processed using very similar conditions to those used for LLDPE. The production of void-free samples of uniform wall thickness was considered as an indication of the potentiality of the process for the production of biodegradable containers.

Modified rotating biological contactor for removal of dichloromethane vapours.

PubMed

Ravi, R; Philip, Ligy; Swaminathan, T

2015-01-01

Bioreactors are used for the treatment of waste gas and odour that has gained much acceptance in the recent years to treat volatile organic compounds (VOCs). The different types of bioreactors (biofilter, biotrickling filter and bioscrubber) have been used for waste gas treatment. Each of these reactors has some advantages and some limitations. Though biodegradation is the main process for the removal of the pollutants, the mechanisms of removal and the microbial communities may differ among these bioreactors. Consequently, their performance or removal efficiency may also be different. Clogging of reactor and pressure drop are the main problems. In this study attempts are made to use the principle of rotating biological contactor (RBC) used for wastewater treatment for the removal of VOC. To overcome the above problem the RBC is modified which is suitable for the treatment of VOC (dichloromethane, DCM). DCM is harmful to human health and hazardous to the atmospheric environment. Modified RBC had no clogging problems and no pressure drop. So, it can handle the pollutant load for a longer period of time. A maximum elimination capacity of 25.7 g/m3 h has been achieved in this study for the DCM inlet load of 58 g/m3 h. The average biofilm thickness is 1 mm. The transient behaviour of the modified RBC treating DCM was investigated. The modified RBC is able to handle shutdown, restart and shock loading operations.

Injection Therapies for Rotator Cuff Disease.

PubMed

Lin, Kenneth M; Wang, Dean; Dines, Joshua S

2018-04-01

Rotator cuff disease affects a large proportion of the overall population and encompasses a wide spectrum of pathologies, including subacromial impingement, rotator cuff tendinopathy or tear, and calcific tendinitis. Various injection therapies have been used for the treatment of rotator cuff disease, including corticosteroid, prolotherapy, platelet-rich plasma, stem cells, and ultrasound-guided barbotage for calcific tendinitis. However, the existing evidence for these therapies remains controversial or sparse. Ultimately, improved understanding of the underlying structural and compositional deficiencies of the injured rotator cuff tissue is needed to identify the biological needs that can potentially be targeted with injection therapies. Copyright © 2017 Elsevier Inc. All rights reserved.

Variations in VLT/UVES-based OH rotational temperatures for time scales from hours to 15 years

NASA Astrophysics Data System (ADS)

Noll, Stefan; Kimeswenger, Stefan; Proxauf, Bastian; Kausch, Wolfgang; Unterguggenberger, Stefanie; Jones, Amy M.

2017-04-01

Hydroxyl (OH) emission is an important tracer of the climate, chemistry, and dynamics of the Earth's mesopause region. However, the relation of intensity variations in different OH lines is not well understood yet. This is critical for the most popular use of OH lines: the estimate of ambient temperatures based on transitions at low rotational levels of the same band. It is possible that the measured variability of the derived rotational temperature does not coincide with changes in the ambient temperature. Such differences can be caused by varying deviations from the local thermodynamic equilibrium (LTE) for the population distribution over the considered rotational levels. The non-LTE effects depend on the ratio of the thermalising collisions (mostly related to molecular oxygen) and competing radiative transitions or collisions without thermalisation of the rotational level distribution. Therefore, significant changes in the vertical structure of excited OH and its main quenchers can affect the temperature measurements. We have investigated the variability of OH rotational temperatures and the corresponding contributions of non-LTE effects for different OH bands and time scales up to 15 years based on data of the high-resolution echelle spectrograph UVES at the Very Large Telescope at Cerro Paranal in Chile. In order to link the measured rotational temperatures with the structure of the OH emission layer, we have also studied OH emission and kinetic temperature profiles from the multi-channel radiometer SABER on the TIMED satellite taken between 2002 and 2015. The results show that non-LTE contributions can significantly affect the OH rotational temperatures. Their variations can be especially strong during the night and for high upper vibrational levels of the transitions, where amplitudes of several Kelvins can be measured. They appear to be weak if long-term variations such as those caused by the solar cycle are investigated. These differences in the response

Zero-valent iron/biotic treatment system for perchlorate-contaminated water: lab-scale performance, modeling, and full-scale implications

EPA Science Inventory

The computer program AQUASIM was used to model biological treatment of perchlorate-contaminated water using zero-valent iron corrosion as the hydrogen gas source. The laboratory-scale column was seeded with an autohydrogenotrophic microbial consortium previously shown to degrade ...

Multi-scale phenomena of rotation-modified mode-2 internal waves

NASA Astrophysics Data System (ADS)

Deepwell, David; Stastna, Marek; Coutino, Aaron

2018-03-01

We present high-resolution, three-dimensional simulations of rotation-modified mode-2 internal solitary waves at various rotation rates and Schmidt numbers. Rotation is seen to change the internal solitary-like waves observed in the absence of rotation into a leading Kelvin wave followed by Poincaré waves. Mass and energy is found to be advected towards the right-most side wall (for a Northern Hemisphere rotation), leading to increased amplitude of the leading Kelvin wave and the formation of Kelvin-Helmholtz (K-H) instabilities on the upper and lower edges of the deformed pycnocline. These fundamentally three-dimensional instabilities are localized within a region near the side wall and intensify in vigour with increasing rotation rate. Secondary Kelvin waves form further behind the wave from either resonance with radiating Poincaré waves or the remnants of the K-H instability. The first of these mechanisms is in accord with published work on mode-1 Kelvin waves; the second is, to the best of our knowledge, novel to the present study. Both types of secondary Kelvin waves form on the same side of the channel as the leading Kelvin wave. Comparisons of equivalent cases with different Schmidt numbers indicate that while adopting a numerically advantageous low Schmidt number results in the correct general characteristics of the Kelvin waves, excessive diffusion of the pycnocline and various density features precludes accurate representation of both the trailing Poincaré wave field and the intensity and duration of the Kelvin-Helmholtz instabilities.

Evaluating scaling models in biology using hierarchical Bayesian approaches

PubMed Central

Price, Charles A; Ogle, Kiona; White, Ethan P; Weitz, Joshua S

2009-01-01

Theoretical models for allometric relationships between organismal form and function are typically tested by comparing a single predicted relationship with empirical data. Several prominent models, however, predict more than one allometric relationship, and comparisons among alternative models have not taken this into account. Here we evaluate several different scaling models of plant morphology within a hierarchical Bayesian framework that simultaneously fits multiple scaling relationships to three large allometric datasets. The scaling models include: inflexible universal models derived from biophysical assumptions (e.g. elastic similarity or fractal networks), a flexible variation of a fractal network model, and a highly flexible model constrained only by basic algebraic relationships. We demonstrate that variation in intraspecific allometric scaling exponents is inconsistent with the universal models, and that more flexible approaches that allow for biological variability at the species level outperform universal models, even when accounting for relative increases in model complexity. PMID:19453621

Geometry of tracer trajectories in turbulent rotating convection

NASA Astrophysics Data System (ADS)

Alards, Kim; Rajaei, Hadi; Kunnen, Rudie; Toschi, Federico; Clercx, Herman

2016-11-01

In Rayleigh-Bénard convection rotation is known to cause transitions in flow structures and to change the level of anisotropy close to the horizontal plates. To analyze this effect of rotation, we collect curvature and torsion statistics of passive tracer trajectories in rotating Rayleigh-Bénard convection, using both experiments and direct numerical simulations. In previous studies, focusing on homogeneous isotropic turbulence (HIT), curvature and torsion PDFs are found to reveal pronounced power laws. In the center of the convection cell, where the flow is closest to HIT, we recover these power laws, regardless of the rotation rate. However, near the top plate, where we expect the flow to be anisotropic, the scaling of the PDFs deviates from the HIT prediction for lower rotation rates. This indicates that anisotropy clearly affects the geometry of tracer trajectories. Another effect of rotation is observed as a shift of curvature and torsion PDFs towards higher values. We expect this shift to be related to the length scale of typical flow structures. Using curvature and torsion statistics, we can characterize how these typical length scales evolve under rotation and moreover analyze the effect of rotation on more complicated flow characteristics, such as anisotropy.

WHY ARE RAPIDLY ROTATING M DWARFS IN THE PLEIADES SO (INFRA)RED? NEW PERIOD MEASUREMENTS CONFIRM ROTATION-DEPENDENT COLOR OFFSETS FROM THE CLUSTER SEQUENCE

DOE Office of Scientific and Technical Information (OSTI.GOV)

Covey, Kevin R.; Agüeros, Marcel A.; Liu, Jiyu

2016-05-10

Stellar rotation periods ( P {sub rot}) measured in open clusters have proved to be extremely useful for studying stars’ angular momentum content and rotationally driven magnetic activity, which are both age- and mass-dependent processes. While P {sub rot} measurements have been obtained for hundreds of solar-mass members of the Pleiades, measurements exist for only a few low-mass (<0.5 M {sub ⊙}) members of this key laboratory for stellar evolution theory. To fill this gap, we report P {sub rot} for 132 low-mass Pleiades members (including nearly 100 with M ≤ 0.45 M {sub ⊙}), measured from photometric monitoring ofmore » the cluster conducted by the Palomar Transient Factory in late 2011 and early 2012. These periods extend the portrait of stellar rotation at 125 Myr to the lowest-mass stars and re-establish the Pleiades as a key benchmark for models of the transport and evolution of stellar angular momentum. Combining our new P {sub rot} with precise BVIJHK photometry reported by Stauffer et al. and Kamai et al., we investigate known anomalies in the photometric properties of K and M Pleiades members. We confirm the correlation detected by Kamai et al. between a star's P {sub rot} and position relative to the main sequence in the cluster's color–magnitude diagram. We find that rapid rotators have redder ( V − K ) colors than slower rotators at the same V , indicating that rapid and slow rotators have different binary frequencies and/or photospheric properties. We find no difference in the photometric amplitudes of rapid and slow rotators, indicating that asymmetries in the longitudinal distribution of starspots do not scale grossly with rotation rate.« less

Root Systems Biology: Integrative Modeling across Scales, from Gene Regulatory Networks to the Rhizosphere1

PubMed Central

Hill, Kristine; Porco, Silvana; Lobet, Guillaume; Zappala, Susan; Mooney, Sacha; Draye, Xavier; Bennett, Malcolm J.

2013-01-01

Genetic and genomic approaches in model organisms have advanced our understanding of root biology over the last decade. Recently, however, systems biology and modeling have emerged as important approaches, as our understanding of root regulatory pathways has become more complex and interpreting pathway outputs has become less intuitive. To relate root genotype to phenotype, we must move beyond the examination of interactions at the genetic network scale and employ multiscale modeling approaches to predict emergent properties at the tissue, organ, organism, and rhizosphere scales. Understanding the underlying biological mechanisms and the complex interplay between systems at these different scales requires an integrative approach. Here, we describe examples of such approaches and discuss the merits of developing models to span multiple scales, from network to population levels, and to address dynamic interactions between plants and their environment. PMID:24143806

[Proposed recommendations for the practical use of internal quality controls (IQC) in a medical biology laboratory].

PubMed

Giannoli, Jean-Marc; Szymanowicz, Anton

2011-01-01

We propose a set of recommendations and practices to optimize the use of quality control of medical biology examinations. The fundamentals are reviewed: definition of a series of analysis, IQC at one or more level, Westgard alert rules and rejection, practical remedial actions to take for the technician, corrective and preventive actions to be implemented by the biologist. We have also formalized three flowcharts to guide the technician in their daily practice to ensure analytical quality of investigations carried out. These decision trees are the result of the experience submitted by an accredited and professional laboratory attentive to the ongoing improvement of IQC. This article can provide useful assistance to biologists for accreditation but also aims to foster collaboration reliable medical biology laboratory at the appropriate management of patients.

Jet Engine Bird Ingestion Simulations: Comparison of Rotating to Non-Rotating Fan Blades

NASA Technical Reports Server (NTRS)

Howard, Samuel A.; Hammer, Jeremiah; Carney, Kelly S.; Pereira, J. Michael

2013-01-01

Bird strike events in commercial airliners are a fairly common occurrence. According to data collected by the US Department of Agriculture, over 80,000 bird strikes were reported in the period 1990-2007 in the US alone [1]. As a result, bird ingestion is an important factor in aero engine design and FAA certification. When it comes to bird impacts on engine fan blades, the FAA requires full-scale bird ingestion tests on an engine running at full speed to pass certification requirements. These rotating tests are complex and very expensive. To reduce development costs associated with new materials for fan blades, it is desirable to develop more cost effective testing procedures than full-scale rotating engine tests for material evaluation. An impact test on a non-rotating single blade that captures most of the salient physics of the rotating test would go a long way towards enabling large numbers of evaluative material screening tests. NASA Glenn Research Center has been working to identify a static blade test procedure that would be effective at reproducing similar results as seen in rotating tests. The current effort compares analytical simulations of a bird strike on various nonrotating blades to a bird strike simulation on a rotating blade as a baseline case. Several different concepts for simulating the rotating loads on a non-rotating blade were analyzed with little success in duplicating the deformation results seen in the rotating case. The rotating blade behaves as if it were stiffer than the non-rotating blade resulting in less plastic deformation from a given bird impact. The key factor limiting the success of the non-rotating blade simulations is thought to be the effect of gyroscopics. Prior to this effort, it was anticipated the difficulty would be in matching the pre-stress in the blade due to centrifugal forces Additional work is needed to verify this assertion, and to determine if a static test procedure can simulate the gyroscopic effects in a

Jet Engine Bird Ingestion Simulations: Comparison of Rotating to Non-Rotating Fan Blades

NASA Technical Reports Server (NTRS)

Howard, Samuel A.; Hammer, Jeremiah T.; Carney, Kelly S.; Pereira, J. Michael

2013-01-01

Bird strike events in commercial airliners are a fairly common occurrence. According to data collected by the US Department of Agriculture, over 80,000 bird strikes were reported in the period 1990 to 2007 in the US alone (Ref. 1). As a result, bird ingestion is an important factor in aero engine design and FAA certification. When it comes to bird impacts on engine fan blades, the FAA requires full-scale bird ingestion tests on an engine running at full speed to pass certification requirements. These rotating tests are complex and very expensive. To reduce development costs associated with new materials for fan blades, it is desirable to develop more cost effective testing procedures than full-scale rotating engine tests for material evaluation. An impact test on a nonrotating single blade that captures most of the salient physics of the rotating test would go a long way towards enabling large numbers of evaluative material screening tests. NASA Glenn Research Center has been working to identify a static blade test procedure that would be effective at reproducing similar results as seen in rotating tests. The current effort compares analytical simulations of a bird strike on various non-rotating blades to a bird strike simulation on a rotating blade as a baseline case. Several different concepts for simulating the rotating loads on a non-rotating blade were analyzed with little success in duplicating the deformation results seen in the rotating case. The rotating blade behaves as if it were stiffer than the non-rotating blade resulting in less plastic deformation from a given bird impact. The key factor limiting the success of the non-rotating blade simulations is thought to be the effect of gyroscopics. Prior to this effort, it was anticipated the difficulty would be in matching the prestress in the blade due to centrifugal forces Additional work is needed to verify this assertion, and to determine if a static test procedure can simulate the gyroscopic effects in

Using Phylogenetic Analysis to Detect Market Substitution of Atlantic Salmon for Pacific Salmon: An Introductory Biology Laboratory Experiment

ERIC Educational Resources Information Center

Cline, Erica; Gogarten, Jennifer

2012-01-01

We describe a laboratory exercise developed for the cell and molecular biology quarter of a year-long majors' undergraduate introductory biology sequence. In an analysis of salmon samples collected by students in their local stores and restaurants, DNA sequencing and phylogenetic analysis were used to detect market substitution of Atlantic salmon…

A phenomenological treatment of rotating turbulence

NASA Technical Reports Server (NTRS)

Zhou, YE

1995-01-01

The strong similarity between the magnetohydrodynamic (MHD) turbulence and initially isotropic turbulence subject to rotation is noted. We then apply the MHD phenomenologies of Kraichnan and Matthaeus & Zhou to rotating turbulence. When the turbulence is subject to a strong rotation, the energy spectrum is found to scale as E(k) = C(sub Omega)(Omega(sub epsilon))(sup 1/2)k(sup -2), where Omega is the rotation rate, k is the wavenumber, and epsilon is the dissipation rate. This spectral form is consistent with a recent letter by Zeman. However, here the constant C(sub Omega) is found to be related to the Kolmogorov constant and is estimated in the range 1.22 - 1.87 for the typical values of the latter constant. A 'rule' that relates spectral transfer times to the eddy turnover time and the time scale for decay of the triple correlations is deduced. A hypothesis for the triple correlation decay rate leads to the spectral law which varies between the '-5/3' (without rotation) and '-2' laws (with strong rotation). For intermediate rotation rates, the spectrum varies according to the value of a dimensionless parameter that measures the strength of the rotation wavenumber k(sub Omega) = (Omega(sup 3)/epsiolon)(sup 1/2) relative to the wavenumber k. An eddy viscosity is derived with an explicit dependence on the rotation rate.

Shift-, rotation-, and scale-invariant shape recognition system using an optical Hough transform

NASA Astrophysics Data System (ADS)

Schmid, Volker R.; Bader, Gerhard; Lueder, Ernst H.

1998-02-01

We present a hybrid shape recognition system with an optical Hough transform processor. The features of the Hough space offer a separate cancellation of distortions caused by translations and rotations. Scale invariance is also provided by suitable normalization. The proposed system extends the capabilities of Hough transform based detection from only straight lines to areas bounded by edges. A very compact optical design is achieved by a microlens array processor accepting incoherent light as direct optical input and realizing the computationally expensive connections massively parallel. Our newly developed algorithm extracts rotation and translation invariant normalized patterns of bright spots on a 2D grid. A neural network classifier maps the 2D features via a nonlinear hidden layer onto the classification output vector. We propose initialization of the connection weights according to regions of activity specifically assigned to each neuron in the hidden layer using a competitive network. The presented system is designed for industry inspection applications. Presently we have demonstrated detection of six different machined parts in real-time. Our method yields very promising detection results of more than 96% correctly classified parts.

Nonlinear Influence of Background Rotation on Iceberg Melting

NASA Astrophysics Data System (ADS)

Meroni, A. N.; McConnochie, C. D.; Cenedese, C.; Sutherland, B. R.; Snow, K.

2017-12-01

The Antarctic and Greenland Ice Sheets lose mass through direct melting from ice shelves and from the calving of icebergs. Once icebergs have calved they will drift in ocean currents and gradually melt. Where and how rapidly they melt will determine where the freshwater and nutrients contained in the iceberg will be released which can then affect sea ice formation and biological activity. Standard parameterizations of iceberg melting consider the fluid velocity and temperature but not the effect of planetary rotation. Particularly for large icebergs, such as that which recently calved from the Larson C ice shelf, rotation may also be important due to the formation of Taylor columns.We present the results of laboratory experiments investigating the effect of rotation on the melting of icebergs. In particular, the possible formation of Taylor columns underneath an iceberg is investigated. At high Rossby numbers, when rotation is weak compared to advection, iceberg melting is unaffected by the background rotation rate. However, as the Rossby number is decreased, the melt rate initially increases before decreasing as the Rossby number is further decreased.This non-monotonic dependence of iceberg melting on the Rossby number is explained by considering the integrated horizontal velocity under the iceberg. For moderate Rossby numbers the Taylor column that forms only occupies a small fraction of the iceberg bottom area. Although there is near-zero relative flow in the Taylor column, which reduces the melt rate, the effective blocking by the Taylor column causes an acceleration of the flow under the remainder of the iceberg and increases the total melt rate. However, for low Rossby numbers the Taylor column occupies a larger fraction of the iceberg bottom area and the flow acceleration no longer occurs underneath the iceberg, hence it is unable to increase the melt rate. We suggest an improved parameterization of iceberg melt that includes the effects of rotation.

Glucose Disappearance in Biological Treatment Systems

PubMed Central

Jeris, John S.; Cardenas, Raul R.

1966-01-01

Laboratory scale anaerobic and aerobic treatment units were conditioned with a daily slug-feed of glucose. After a period of acclimation and stabilization, glucose disappearance was monitored continuously after the slug feed. A continuous sampling apparatus is described. Mathematical analysis of the data indicate zero-order reactions for both biological treatment systems. PMID:16349685

Microbial survey of a full-scale, biologically active filter for treatment of drinking water.

PubMed

White, Colin P; Debry, Ronald W; Lytle, Darren A

2012-09-01

The microbial community of a full-scale, biologically active drinking water filter was surveyed using molecular techniques. Nitrosomonas, Nitrospira, Sphingomonadales, and Rhizobiales dominated the clone libraries. The results elucidate the microbial ecology of biological filters and demonstrate that biological treatment of drinking water should be considered a viable alternative to physicochemical methods.

Laboratory formation of a scaled protostellar jet by coaligned poloidal magnetic field.

PubMed

Albertazzi, B; Ciardi, A; Nakatsutsumi, M; Vinci, T; Béard, J; Bonito, R; Billette, J; Borghesi, M; Burkley, Z; Chen, S N; Cowan, T E; Herrmannsdörfer, T; Higginson, D P; Kroll, F; Pikuz, S A; Naughton, K; Romagnani, L; Riconda, C; Revet, G; Riquier, R; Schlenvoigt, H-P; Skobelev, I Yu; Faenov, A Ya; Soloviev, A; Huarte-Espinosa, M; Frank, A; Portugall, O; Pépin, H; Fuchs, J

2014-10-17

Although bipolar jets are seen emerging from a wide variety of astrophysical systems, the issue of their formation and morphology beyond their launching is still under study. Our scaled laboratory experiments, representative of young stellar object outflows, reveal that stable and narrow collimation of the entire flow can result from the presence of a poloidal magnetic field whose strength is consistent with observations. The laboratory plasma becomes focused with an interior cavity. This gives rise to a standing conical shock from which the jet emerges. Following simulations of the process at the full astrophysical scale, we conclude that it can also explain recently discovered x-ray emission features observed in low-density regions at the base of protostellar jets, such as the well-studied jet HH 154. Copyright © 2014, American Association for the Advancement of Science.

Cocaine Use among the College Age Group: Biological and Psychological Effects--Clinical and Laboratory Research Findings.

ERIC Educational Resources Information Center

Nicholi, Armand M., Jr.

1984-01-01

Knowledge about cocaine's effect on the human mind and body is limited and not clearly documented. This article discusses various biological and psychological effects of the drug based on clinical and laboratory studies of man. (Author/DF)

Nonlinear dynamics and anisotropic structure of rotating sheared turbulence.

PubMed

Salhi, A; Jacobitz, F G; Schneider, K; Cambon, C

2014-01-01

Homogeneous turbulence in rotating shear flows is studied by means of pseudospectral direct numerical simulation and analytical spectral linear theory (SLT). The ratio of the Coriolis parameter to shear rate is varied over a wide range by changing the rotation strength, while a constant moderate shear rate is used to enable significant contributions to the nonlinear interscale energy transfer and to the nonlinear intercomponental redistribution terms. In the destabilized and neutral cases, in the sense of kinetic energy evolution, nonlinearity cannot saturate the growth of the largest scales. It permits the smallest scale to stabilize by a scale-by-scale quasibalance between the nonlinear energy transfer and the dissipation spectrum. In the stabilized cases, the role of rotation is mainly nonlinear, and interacting inertial waves can affect almost all scales as in purely rotating flows. In order to isolate the nonlinear effect of rotation, the two-dimensional manifold with vanishing spanwise wave number is revisited and both two-component spectra and single-point two-dimensional energy components exhibit an important effect of rotation, whereas the SLT as well as the purely two-dimensional nonlinear analysis are unaffected by rotation as stated by the Proudman theorem. The other two-dimensional manifold with vanishing streamwise wave number is analyzed with similar tools because it is essential for any shear flow. Finally, the spectral approach is used to disentangle, in an analytical way, the linear and nonlinear terms in the dynamical equations.

Microbial Survey of a Full-Scale, Biologically Active Filter for Treatment of Drinking Water

PubMed Central

DeBry, Ronald W.; Lytle, Darren A.

2012-01-01

The microbial community of a full-scale, biologically active drinking water filter was surveyed using molecular techniques. Nitrosomonas, Nitrospira, Sphingomonadales, and Rhizobiales dominated the clone libraries. The results elucidate the microbial ecology of biological filters and demonstrate that biological treatment of drinking water should be considered a viable alternative to physicochemical methods. PMID:22752177

Ultrafast time scale X-rotation of cold atom storage qubit using Rubidium clock states

NASA Astrophysics Data System (ADS)

Song, Yunheung; Lee, Han-Gyeol; Kim, Hyosub; Jo, Hanlae; Ahn, Jaewook

2017-04-01

Ultrafast-time-scale optical interaction is a local operation on the electronic subspace of an atom, thus leaving its nuclear state intact. However, because atomic clock states are maximally entangled states of the electronic and nuclear degrees of freedom, their entire Hilbert space should be accessible only with local operations and classical communications (LOCC). Therefore, it may be possible to achieve hyperfine qubit gates only with electronic transitions. Here we show an experimental implementation of ultrafast X-rotation of atomic hyperfine qubits, in which an optical Rabi oscillation induces a geometric phase between the constituent fine-structure states, thus bringing about the X-rotation between the two ground hyperfine levels. In experiments, cold atoms in a magneto-optical trap were controlled with a femtosecond laser pulse from a Ti:sapphire laser amplifier. Absorption imaging of the as-controlled atoms initially in the ground hyperfine state manifested polarization dependence, strongly agreeing with the theory. The result indicates that single laser pulse implementations of THz clock speed qubit controls are feasible for atomic storage qubits. Samsung Science and Technology Foundation [SSTF-BA1301-12].

A new multi-scale method to reveal hierarchical modular structures in biological networks.

PubMed

Jiao, Qing-Ju; Huang, Yan; Shen, Hong-Bin

2016-11-15

Biological networks are effective tools for studying molecular interactions. Modular structure, in which genes or proteins may tend to be associated with functional modules or protein complexes, is a remarkable feature of biological networks. Mining modular structure from biological networks enables us to focus on a set of potentially important nodes, which provides a reliable guide to future biological experiments. The first fundamental challenge in mining modular structure from biological networks is that the quality of the observed network data is usually low owing to noise and incompleteness in the obtained networks. The second problem that poses a challenge to existing approaches to the mining of modular structure is that the organization of both functional modules and protein complexes in networks is far more complicated than was ever thought. For instance, the sizes of different modules vary considerably from each other and they often form multi-scale hierarchical structures. To solve these problems, we propose a new multi-scale protocol for mining modular structure (named ISIMB) driven by a node similarity metric, which works in an iteratively converged space to reduce the effects of the low data quality of the observed network data. The multi-scale node similarity metric couples both the local and the global topology of the network with a resolution regulator. By varying this resolution regulator to give different weightings to the local and global terms in the metric, the ISIMB method is able to fit the shape of modules and to detect them on different scales. Experiments on protein-protein interaction and genetic interaction networks show that our method can not only mine functional modules and protein complexes successfully, but can also predict functional modules from specific to general and reveal the hierarchical organization of protein complexes.

Determination of Teacher Candidates' Views Concerning V Diagrams Used in General Biology Laboratories

ERIC Educational Resources Information Center

Kayacan, Kadriye

2018-01-01

This study was conducted within the scope of the General Biology Laboratory II course, which was taught in the Science Teaching Department in the Spring semester of the 2016-2017 academic year. The study group consisted of 40 teacher candidates in their second year in the Science Teaching Department at a state university in Konya. The purpose of…

Mean field analysis of algorithms for scale-free networks in molecular biology

PubMed Central

2017-01-01

The sampling of scale-free networks in Molecular Biology is usually achieved by growing networks from a seed using recursive algorithms with elementary moves which include the addition and deletion of nodes and bonds. These algorithms include the Barabási-Albert algorithm. Later algorithms, such as the Duplication-Divergence algorithm, the Solé algorithm and the iSite algorithm, were inspired by biological processes underlying the evolution of protein networks, and the networks they produce differ essentially from networks grown by the Barabási-Albert algorithm. In this paper the mean field analysis of these algorithms is reconsidered, and extended to variant and modified implementations of the algorithms. The degree sequences of scale-free networks decay according to a powerlaw distribution, namely P(k) ∼ k−γ, where γ is a scaling exponent. We derive mean field expressions for γ, and test these by numerical simulations. Generally, good agreement is obtained. We also found that some algorithms do not produce scale-free networks (for example some variant Barabási-Albert and Solé networks). PMID:29272285

Mean field analysis of algorithms for scale-free networks in molecular biology.

PubMed

Konini, S; Janse van Rensburg, E J

2017-01-01

The sampling of scale-free networks in Molecular Biology is usually achieved by growing networks from a seed using recursive algorithms with elementary moves which include the addition and deletion of nodes and bonds. These algorithms include the Barabási-Albert algorithm. Later algorithms, such as the Duplication-Divergence algorithm, the Solé algorithm and the iSite algorithm, were inspired by biological processes underlying the evolution of protein networks, and the networks they produce differ essentially from networks grown by the Barabási-Albert algorithm. In this paper the mean field analysis of these algorithms is reconsidered, and extended to variant and modified implementations of the algorithms. The degree sequences of scale-free networks decay according to a powerlaw distribution, namely P(k) ∼ k-γ, where γ is a scaling exponent. We derive mean field expressions for γ, and test these by numerical simulations. Generally, good agreement is obtained. We also found that some algorithms do not produce scale-free networks (for example some variant Barabási-Albert and Solé networks).

Merging of Research and Teaching in Developmental Biology: Adaptation of Current Scientific Research Papers for Use in Undergraduate Laboratory Exercises

ERIC Educational Resources Information Center

Lee, H. H.; and others

1970-01-01

Describes two laboratory exercises adopted from current research papers for use in an undergraduate developmental biology course. Gives methods, summary of student results, and student comments. Lists lecture topics, text and reprint assignments, and laboratory exercises for course. (EB)

Rotational evolution of slow-rotator sequence stars

NASA Astrophysics Data System (ADS)

Lanzafame, A. C.; Spada, F.

2015-12-01

Context. The observed relationship between mass, age and rotation in open clusters shows the progressive development of a slow-rotator sequence among stars possessing a radiative interior and a convective envelope during their pre-main sequence and main-sequence evolution. After 0.6 Gyr, most cluster members of this type have settled on this sequence. Aims: The observed clustering on this sequence suggests that it corresponds to some equilibrium or asymptotic condition that still lacks a complete theoretical interpretation, and which is crucial to our understanding of the stellar angular momentum evolution. Methods: We couple a rotational evolution model, which takes internal differential rotation into account, with classical and new proposals for the wind braking law, and fit models to the data using a Monte Carlo Markov chain (MCMC) method tailored to the problem at hand. We explore to what extent these models are able to reproduce the mass and time dependence of the stellar rotational evolution on the slow-rotator sequence. Results: The description of the evolution of the slow-rotator sequence requires taking the transfer of angular momentum from the radiative core to the convective envelope into account. We find that, in the mass range 0.85-1.10 M⊙, the core-envelope coupling timescale for stars in the slow-rotator sequence scales as M-7.28. Quasi-solid body rotation is achieved only after 1-2 Gyr, depending on stellar mass, which implies that observing small deviations from the Skumanich law (P ∝ √{t}) would require period data of older open clusters than is available to date. The observed evolution in the 0.1-2.5 Gyr age range and in the 0.85-1.10 M⊙ mass range is best reproduced by assuming an empirical mass dependence of the wind angular momentum loss proportional to the convective turnover timescale and to the stellar moment of inertia. Period isochrones based on our MCMC fit provide a tool for inferring stellar ages of solar-like main

Cloning Yeast Actin cDNA Leads to an Investigative Approach for the Molecular Biology Laboratory

ERIC Educational Resources Information Center

Black, Michael W.; Tuan, Alice; Jonasson, Erin

2008-01-01

The emergence of molecular tools in multiple disciplines has elevated the importance of undergraduate laboratory courses that train students in molecular biology techniques. Although it would also be desirable to provide students with opportunities to apply these techniques in an investigative manner, this is generally not possible in the…

How to Generate Understanding of the Scientific Process in Introductory Biology: A Student-Designed Laboratory Exercise on Yeast Fermentation

ERIC Educational Resources Information Center

Collins, Linda T.; Bell, Rebekah P.

2004-01-01

Heavy faculty teaching loads and limited funds biology teachers designed certain objectives in order to increase the understandability of the subject matter of the laboratory exercises they write. In relation to these objectives an old "cookbook" laboratory exercise on yeast fermentation is introduced which involve students asking questions,…

Note: Measurement system for the radiative forcing of greenhouse gases in a laboratory scale.

PubMed

Kawamura, Yoshiyuki

2016-01-01

The radiative forcing of the greenhouse gases has been studied being based on computational simulations or the observation of the real atmosphere meteorologically. In order to know the greenhouse effect more deeply and to study it from various viewpoints, the study on it in a laboratory scale is important. We have developed a direct measurement system for the infrared back radiation from the carbon dioxide (CO2) gas. The system configuration is similar with that of the practical earth-atmosphere-space system. Using this system, the back radiation from the CO2 gas was directly measured in a laboratory scale, which roughly coincides with meteorologically predicted value.

The horizontal computerized rotational impulse test.

PubMed

Furman, Joseph M; Shirey, Ian; Roxberg, Jillyn; Kiderman, Alexander

2016-01-01

Whole-body impulsive rotations were used to overcome several limitations associated with manual head impulse testing. A computer-controlled rotational chair delivered brief, whole-body, earth-vertical axis yaw impulsive rotations while eye movements were measured using video-oculography. Results from an unselected group of 20 patients with dizziness and a group of 22 control subjects indicated that the horizontal computerized rotational head impulse test (crHIT) is well-tolerated and provides an estimate of unidirectional vestibulo-ocular reflex gain comparable to results from caloric testing. This study demonstrates that the horizontal crHIT is a new assessment tool that overcomes many of the limitations of manual head impulse testing and provides a reliable laboratory-based measure of unilateral horizontal semicircular canal function.

Developing information fluency in introductory biology students in the context of an investigative laboratory.

PubMed

Lindquester, Gary J; Burks, Romi L; Jaslow, Carolyn R

2005-01-01

Students of biology must learn the scientific method for generating information in the field. Concurrently, they should learn how information is reported and accessed. We developed a progressive set of exercises for the undergraduate introductory biology laboratory that combine these objectives. Pre- and postassessments of approximately 100 students suggest that increases occurred, some statistically significant, in the number of students using various library-related resources, in the numbers and confidence level of students using various technologies, and in the numbers and confidence levels of students involved in various activities related to the scientific method. Following this course, students should be better prepared for more advanced and independent study.

Developing Information Fluency in Introductory Biology Students in the Context of an Investigative Laboratory

PubMed Central

2005-01-01

Students of biology must learn the scientific method for generating information in the field. Concurrently, they should learn how information is reported and accessed. We developed a progressive set of exercises for the undergraduate introductory biology laboratory that combine these objectives. Pre- and postassessments of approximately 100 students suggest that increases occurred, some statistically significant, in the number of students using various library-related resources, in the numbers and confidence level of students using various technologies, and in the numbers and confidence levels of students involved in various activities related to the scientific method. Following this course, students should be better prepared for more advanced and independent study. PMID:15746979

Augmentation of Rotator Cuff Repair With Soft Tissue Scaffolds

PubMed Central

Thangarajah, Tanujan; Pendegrass, Catherine J.; Shahbazi, Shirin; Lambert, Simon; Alexander, Susan; Blunn, Gordon W.

2015-01-01

Background Tears of the rotator cuff are one of the most common tendon disorders. Treatment often includes surgical repair, but the rate of failure to gain or maintain healing has been reported to be as high as 94%. This has been substantially attributed to the inadequate capacity of tendon to heal once damaged, particularly to bone at the enthesis. A number of strategies have been developed to improve tendon-bone healing, tendon-tendon healing, and tendon regeneration. Scaffolds have received considerable attention for replacement, reconstruction, or reinforcement of tendon defects but may not possess situation-specific or durable mechanical and biological characteristics. Purpose To provide an overview of the biology of tendon-bone healing and the current scaffolds used to augment rotator cuff repairs. Study Design Systematic review; Level of evidence, 4. Methods A preliminary literature search of MEDLINE and Embase databases was performed using the terms rotator cuff scaffolds, rotator cuff augmentation, allografts for rotator cuff repair, xenografts for rotator cuff repair, and synthetic grafts for rotator cuff repair. Results The search identified 438 unique articles. Of these, 214 articles were irrelevant to the topic and were therefore excluded. This left a total of 224 studies that were suitable for analysis. Conclusion A number of novel biomaterials have been developed into biologically and mechanically favorable scaffolds. Few clinical trials have examined their effect on tendon-bone healing in well-designed, long-term follow-up studies with appropriate control groups. While there is still considerable work to be done before scaffolds are introduced into routine clinical practice, there does appear to be a clear indication for their use as an interpositional graft for large and massive retracted rotator cuff tears and when repairing a poor-quality degenerative tendon. PMID:26665095

Improving laboratory efficiencies to scale-up HIV viral load testing.

PubMed

Alemnji, George; Onyebujoh, Philip; Nkengasong, John N

2017-03-01

Viral load measurement is a key indicator that determines patients' response to treatment and risk for disease progression. Efforts are ongoing in different countries to scale-up access to viral load testing to meet the Joint United Nations Programme on HIV and AIDS target of achieving 90% viral suppression among HIV-infected patients receiving antiretroviral therapy. However, the impact of these initiatives may be challenged by increased inefficiencies along the viral load testing spectrum. This will translate to increased costs and ineffectiveness of scale-up approaches. This review describes different parameters that could be addressed across the viral load testing spectrum aimed at improving efficiencies and utilizing test results for patient management. Though progress is being made in some countries to scale-up viral load, many others still face numerous challenges that may affect scale-up efficiencies: weak demand creation, ineffective supply chain management systems; poor specimen referral systems; inadequate data and quality management systems; and weak laboratory-clinical interface leading to diminished uptake of test results. In scaling up access to viral load testing, there should be a renewed focus to address efficiencies across the entire spectrum, including factors related to access, uptake, and impact of test results.

The Submillimeter-wave Rotational Spectra of Interstellar Molecules

NASA Technical Reports Server (NTRS)

Herbst, Eric; DeLucia, Frank C.; Butler, R. A. H.; Winnewisser, M.; Winnewisser, G.; Fuchs, U.; Groner, P.; Sastry, K. V. L. N.

2002-01-01

We discuss past and recent progress in our long-term laboratory program concerning the submillimeter-wave rotational spectroscopy of known and likely interstellar molecules, especially those associated with regions of high-mass star formation. Our program on the use of spectroscopy to study rotationally inelastic collisions of interstellar interest is also briefly mentioned.

Biological assessment for the effluent reduction program, Los Alamos National Laboratory, Los Alamos, New Mexico

DOE Office of Scientific and Technical Information (OSTI.GOV)

Cross, S.P.

1996-08-01

This report describes the biological assessment for the effluent recution program proposed to occur within the boundaries of Los Alamos National Laboratory. Potential effects on wetland plants and on threatened and endangered species are discussed, along with a detailed description of the individual outfalls resulting from the effluent reduction program.

Introductory Physics Laboratories for Life Scientists - Hands on Physics of Complex Systems

NASA Astrophysics Data System (ADS)

Losert, Wolfgang; Moore, Kim

2015-03-01

We have developed a set of laboratories and hands on activities to accompany a new two-semester interdisciplinary physics course that has been successfully implemented as the required physics course for premeds at the University of Maryland. The laboratories include significant content on physics relevant to cellular scales, from chemical interactions to random motion and charge screening in fluids. We also introduce the students to research-grade equipment and modern physics analysis tools in contexts relevant to biology, while maintaining the pedagogically valuable open-ended laboratory structure of reformed laboratories.

3D nanoscale imaging of biological samples with laboratory-based soft X-ray sources

NASA Astrophysics Data System (ADS)

Dehlinger, Aurélie; Blechschmidt, Anne; Grötzsch, Daniel; Jung, Robert; Kanngießer, Birgit; Seim, Christian; Stiel, Holger

2015-09-01

In microscopy, where the theoretical resolution limit depends on the wavelength of the probing light, radiation in the soft X-ray regime can be used to analyze samples that cannot be resolved with visible light microscopes. In the case of soft X-ray microscopy in the water-window, the energy range of the radiation lies between the absorption edges of carbon (at 284 eV, 4.36 nm) and oxygen (543 eV, 2.34 nm). As a result, carbon-based structures, such as biological samples, posses a strong absorption, whereas e.g. water is more transparent to this radiation. Microscopy in the water-window, therefore, allows the structural investigation of aqueous samples with resolutions of a few tens of nanometers and a penetration depth of up to 10μm. The development of highly brilliant laser-produced plasma-sources has enabled the transfer of Xray microscopy, that was formerly bound to synchrotron sources, to the laboratory, which opens the access of this method to a broader scientific community. The Laboratory Transmission X-ray Microscope at the Berlin Laboratory for innovative X-ray technologies (BLiX) runs with a laser produced nitrogen plasma that emits radiation in the soft X-ray regime. The mentioned high penetration depth can be exploited to analyze biological samples in their natural state and with several projection angles. The obtained tomogram is the key to a more precise and global analysis of samples originating from various fields of life science.

Laboratory measurements of immersion freezing abilities of non-proteinaceous and proteinaceous biological particulate proxies

NASA Astrophysics Data System (ADS)

Cory, K.; Tobo, Y.; Murata, K.; Whiteside, C. L.; McCauley, B.; Bouma, C.; Hiranuma, N.

2017-12-01

Non-proteinaceous and proteinaceous biological aerosols are abundant within the atmosphere and have the potential to impact the climate through cloud and precipitation formation. In this study, we present the differences in the laboratory-measured freezing capabilities of the non-proteinaceous and proteinaceous biological materials to determine which has more potential to impact the ice nucleation in the clouds. As non-proteinaceous surrogates, we examined multiple cellulose materials (e.g., microcrystalline and nanocrystalline cellulose) whose sizes range from 100 nm to >100 μm (according to manufacturer report). For proteinaceous proxies, we looked at different gram-negative bacteria, such as Pseudamonas aeruginosa, Escherichia coli, Serratia marcescens, Citrobacter freundii, and Snomax, (which contains P. syringae) that can be found around the proximity of the Texas Panhandle. By using the Cryogenic Refrigeration Applied Freezing Test (CRAFT) system, we estimated immersion freezing efficiency (i.e., ice nucleation activity scaled to a unit of mass) of each sample at the temperatures greater than -30°C. We have observed that not all gram-negative bacteria has high immersion freezing activity, but the few do have a warmer temperature onset (>-20 °C) than the cellulose used. For those that did not exhibit substantial freezing efficiencies, they had similar freezing properties as the broth, in which the bacteria were incubated, as well as the cellulose materials examined. These observations suggest the presence and potential importance of bacterial cellulose in the atmospheric ice nucleation. From here, we need to conduct more in-depth investigation in the effects of a wider variety of atmospherically relevant biological aerosols to get a better understanding of the effects of said aerosols on overall aerosol-cloud interactions. Acknowledgments: K. Cory would like to acknowledge NSF-EAPSI and JSPS Summer Program for the travel fellowship support. N. Hiranuma

Fumigation of a laboratory-scale HVAC system with hydrogen peroxide for decontamination following a biological contamination incident.

PubMed

Meyer, K M; Calfee, M W; Wood, J P; Mickelsen, L; Attwood, B; Clayton, M; Touati, A; Delafield, R

2014-03-01

To evaluate hydrogen peroxide vapour (H2 O2 ) for its ability to inactivate Bacillus spores within a laboratory-scale heating, ventilation and air-conditioning (HVAC) duct system. Experiments were conducted in a closed-loop duct system, constructed of either internally lined or unlined galvanized metal. Bacterial spores were aerosol-deposited onto 18-mm-diameter test material coupons and strategically placed at several locations within the duct environment. Various concentrations of H2 O2 and exposure times were evaluated to determine the sporicidal efficacy and minimum exposure needed for decontamination. For the unlined duct, high variability was observed in the recovery of spores between sample locations, likely due to complex, unpredictable flow patterns within the ducts. In comparison, the lined duct exhibited a significant desorption of the H2 O2 following the fumigant dwell period and thus resulted in complete decontamination at all sampling locations. These findings suggest that decontamination of Bacillus spore-contaminated unlined HVAC ducts by hydrogen peroxide fumigation may require more stringent conditions (higher concentrations, longer dwell duration) than internally insulated ductwork. These data may help emergency responders when developing remediation plans during building decontamination. © 2013 The Society for Applied Microbiology This article has been contributed to by US Government employees and their work is in the public domain in the USA.

Scaling of Multimillion-Atom Biological Molecular Dynamics Simulation on a Petascale Supercomputer.

PubMed

Schulz, Roland; Lindner, Benjamin; Petridis, Loukas; Smith, Jeremy C

2009-10-13

A strategy is described for a fast all-atom molecular dynamics simulation of multimillion-atom biological systems on massively parallel supercomputers. The strategy is developed using benchmark systems of particular interest to bioenergy research, comprising models of cellulose and lignocellulosic biomass in an aqueous solution. The approach involves using the reaction field (RF) method for the computation of long-range electrostatic interactions, which permits efficient scaling on many thousands of cores. Although the range of applicability of the RF method for biomolecular systems remains to be demonstrated, for the benchmark systems the use of the RF produces molecular dipole moments, Kirkwood G factors, other structural properties, and mean-square fluctuations in excellent agreement with those obtained with the commonly used Particle Mesh Ewald method. With RF, three million- and five million-atom biological systems scale well up to ∼30k cores, producing ∼30 ns/day. Atomistic simulations of very large systems for time scales approaching the microsecond would, therefore, appear now to be within reach.

Numerical Study of Rotating Turbulence with External Forcing

NASA Technical Reports Server (NTRS)

Yeung, P. K.; Zhou, Ye

1998-01-01

Direct numerical simulation at 256(exp 3) resolution have been carried out to study the response of isotropic turbulence to the concurrent effects of solid-body rotation and numerical forcing at the large scales. Because energy transfer to the smaller scales is weakened by rotation, energy input from forcing gradually builds up at the large scales, causing the overall kinetic energy to increase. At intermediate wavenumbers the energy spectrum undergoes a transition from a limited k(exp -5/3) inertial range to k(exp -2) scaling recently predicted in the literature. Although the Reynolds stress tensor remains approximately isotropic and three-components, evidence for anisotropy and quasi- two-dimensionality in length scales and spectra in different velocity components and directions is strong. The small scales are found to deviate from local isotropy, primarily as a result of anisotropic transfer to the high wavenumbers. To understand the spectral dynamics of this flow we study the detailed behavior of nonlinear triadic interactions in wavenumber space. Spectral transfer in the velocity component parallel to the axis of rotation is qualitatively similar to that in non-rotating turbulence; however the perpendicular component is characterized by a greatly suppressed energy cascade at high wavenumber and a local reverse transfer at the largest scales. The broader implications of this work are briefly addressed.

Formulation and development of tablets based on Ludipress and scale-up from laboratory to production scale.

PubMed

Heinz, R; Wolf, H; Schuchmann, H; End, L; Kolter, K

2000-05-01

In spite of the wealth of experience available in the pharmaceutical industry, tablet formulations are still largely developed on an empirical basis, and the scale-up from laboratory to production is a time-consuming and costly process. Using Ludipress greatly simplifies formulation development and the manufacturing process because only the active ingredient Ludipress and a lubricant need to be mixed briefly before being compressed into tablets. The studies described here were designed to investigate the scale-up of Ludipress-based formulations from laboratory to production scale, and to predict changes in tablet properties due to changes in format, compaction pressure, and the use of different tablet presses. It was found that the tensile strength of tablets made of Ludipress increased linearly with compaction pressures up to 300 MPa. It was also independent of the geometry of the tablets (diameter, thickness, shape). It is therefore possible to give an equation with which the compaction pressure required to achieve a given hardness can be calculated for a given tablet form. The equation has to be modified slightly to convert from a single-punch press to a rotary tableting machine. Tablets produced in the rotary machine at the same pressure have a slightly higher tensile strength. The rate of increase in pressure, and therefore the throughput, has no effect on the tensile strength of Ludipress tablets. It is thought that a certain minimum dwell time is responsible for this difference. The production of tablets based on Ludipress can be scaled up from one rotary press to another without problem if the powder mixtures are prepared with the same mixing energy. The tensile strength curve determined for tablets made with Ludipress alone can also be applied to tablets with a small quantity (< 10%) of an active ingredient.

Microfluidic large-scale integration: the evolution of design rules for biological automation.

PubMed

Melin, Jessica; Quake, Stephen R

2007-01-01

Microfluidic large-scale integration (mLSI) refers to the development of microfluidic chips with thousands of integrated micromechanical valves and control components. This technology is utilized in many areas of biology and chemistry and is a candidate to replace today's conventional automation paradigm, which consists of fluid-handling robots. We review the basic development of mLSI and then discuss design principles of mLSI to assess the capabilities and limitations of the current state of the art and to facilitate the application of mLSI to areas of biology. Many design and practical issues, including economies of scale, parallelization strategies, multiplexing, and multistep biochemical processing, are discussed. Several microfluidic components used as building blocks to create effective, complex, and highly integrated microfluidic networks are also highlighted.

Rotational response of suspended particles to turbulent flow: laboratory and numerical synthesis

NASA Astrophysics Data System (ADS)

Variano, Evan; Zhao, Lihao; Byron, Margaret; Bellani, Gabriele; Tao, Yiheng; Andersson, Helge

2014-11-01

Using laboratory and DNS measurements, we consider how aspherical and inertial particles suspended in a turbulent flow act to ``filter'' the fluid-phase vorticity. We use three approaches to predict the magnitude and structure of this filter. The first approach is based on Buckingham's Pi theorem, which shows a clear result for the relationship between filter strength and particle aspect ratio. Results are less clear for the dependence of filter strength on Stokes number; we briefly discuss some issues in the proper definition of Stokes number for use in this context. The second approach to predicting filter strength is based on a consideration of vorticity and enstrophy spectra in the fluid phase. This method has a useful feature: it can be used to predict the filter a priori, without need for measurements as input. We compare the results of this approach to measurements as a method of validation. The third and final approach to predicting filter strength is from the consideration of torques experienced by particles, and how the ``angular slip'' or ``spin slip'' evolves in an unsteady flow. We show results from our DNS that indicate different flow conditions in which the spin slip is more or less important in setting the particle rotation dynamics. Collaboration made possible by the Peder Sather Center.

Virtual lab demonstrations improve students' mastery of basic biology laboratory techniques.

PubMed

Maldarelli, Grace A; Hartmann, Erica M; Cummings, Patrick J; Horner, Robert D; Obom, Kristina M; Shingles, Richard; Pearlman, Rebecca S

2009-01-01

Biology laboratory classes are designed to teach concepts and techniques through experiential learning. Students who have never performed a technique must be guided through the process, which is often difficult to standardize across multiple lab sections. Visual demonstration of laboratory procedures is a key element in teaching pedagogy. The main goals of the study were to create videos explaining and demonstrating a variety of lab techniques that would serve as teaching tools for undergraduate and graduate lab courses and to assess the impact of these videos on student learning. Demonstrations of individual laboratory procedures were videotaped and then edited with iMovie. Narration for the videos was edited with Audacity. Undergraduate students were surveyed anonymously prior to and following screening to assess the impact of the videos on student lab performance by completion of two Participant Perception Indicator surveys. A total of 203 and 171 students completed the pre- and posttesting surveys, respectively. Statistical analyses were performed to compare student perceptions of knowledge of, confidence in, and experience with the lab techniques before and after viewing the videos. Eleven demonstrations were recorded. Chi-square analysis revealed a significant increase in the number of students reporting increased knowledge of, confidence in, and experience with the lab techniques after viewing the videos. Incorporation of instructional videos as prelaboratory exercises has the potential to standardize techniques and to promote successful experimental outcomes.

Full-scale and laboratory-scale anaerobic treatment of citric acid production wastewater.

PubMed

Colleran, E; Pender, S; Philpott, U; O'Flaherty, V; Leahy, B

1998-01-01

This paper reviews the operation of a full-scale, fixed-bed digester treating a citric acid production wastewater with a COD:sulphate ratio of 3-4:1. Support matrix pieces were removed from the digester at intervals during the first 5 years of operation in order to quantify the vertical distribution of biomass within the digester. Detailed analysis of the digester biomass after 5 years of operation indicated that H2 and propionate-utilising SRB had outcompeted hydrogenophilic methanogens and propionate syntrophs. Acetoclastic methanogens were shown to play the dominant role in acetate conversion. Butyrate and ethanol-degrading syntrophs also remained active in the digester after 5 years of operation. Laboratory-scale hybrid reactor treatment at 55 degrees C of a diluted molasses influent, with and without sulphate supplementation, showed that the reactors could be operated with high stability at volumetric loading rates of 24 kgCOD.m-3.d-1 (12 h HRT). In the presence of sulphate (2 g/l-1; COD/sulphate ratio of 6:1), acetate conversion was severely inhibited, resulting in effluent acetate concentrations of up to 4000 mg.l-1.

Fluid dynamics structures in a fire environment observed in laboratory-scale experiments

Treesearch

J. Lozano; W. Tachajapong; D.R. Weise; S. Mahalingam; M. Princevac

2010-01-01

Particle Image Velocimetry (PIV) measurements were performed in laboratory-scale experimental fires spreading across horizontal fuel beds composed of aspen (Populus tremuloides Michx) excelsior. The continuous flame, intermittent flame, and thermal plume regions of a fire were investigated. Utilizing a PIV system, instantaneous velocity fields for...

Difficulties in Laboratory Studies and Astronomical Observations of Organic Molecules: Hydroxyacetone and Lactic Acid

NASA Technical Reports Server (NTRS)

Apponi, A. J.; Brewster, M. A.; Hoy, J.; Ziurys, L. M.

2006-01-01

For the past 35 years, radio astronomy has revealed a rich organic chemistry in the interstellar gas, which is exceptionally complex towards active star-forming regions. New solar systems condense out of this gas and may influence the evolution of life on newly formed planets. Much of the biologically important functionality is present among the some 130 gas-phase molecules found to date, including alcohols, aldehydes, ketones, acids, amines, amides and even the simplest sugar - glycolaldehyde. Still, many unidentified interstellar radio signals remain, and their identification relies on further laboratory study. The molecules hydroxyacetone and lactic acid are relatively small organic molecules, but possess rather complex rotational spectra owing to their high asymmetry. Hydroxyacetone is particularly problematic because it possess a very low barrier to internal rotation, and exhibits strong coupling of the free-rotor states with the overall rotation of the molecule. As in the case of acetamide, a full decomposition method was employed to order the resultant eigenstates onto normal asymmetric top eigenvectors.

Enhancement of Laboratory and Field Instruction in Environmental Science, Biology, and Chemistry Degree Programs at University of the Incarnate Word

DTIC Science & Technology

1999-10-12

The project provided state-of-the-art training to students on the use of modern field and laboratory equipment in Environmental Science , Chemistry...laboratory instruction in Environmental Science , Chemistry, and Biology during the past 1998-99 academic year at the University of the Incarnate Word...development of maps at selected study sites. Dr. William F. Thomann, Environmental Science provided instruction on field and laboratory studies of water

On the dominant noise components of tactical aircraft: Laboratory to full scale

NASA Astrophysics Data System (ADS)

Tam, Christopher K. W.; Aubert, Allan C.; Spyropoulos, John T.; Powers, Russell W.

2018-05-01

This paper investigates the dominant noise components of a full-scale high performance tactical aircraft. The present study uses acoustic measurements of the exhaust jet from a single General Electric F414-400 turbofan engine installed in a Boeing F/A-18E Super Hornet aircraft operating from flight idle to maximum afterburner. The full-scale measurements are to the ANSI S12.75-2012 standard employing about 200 microphones. By comparing measured noise spectra with those from hot supersonic jets observed in the laboratory, the dominant noise components specific to the F/A-18E aircraft at different operating power levels are identified. At intermediate power, it is found that the dominant noise components of an F/A-18E aircraft are essentially the same as those of high temperature supersonic laboratory jets. However, at military and afterburner powers, there are new dominant noise components. Their characteristics are then documented and analyzed. This is followed by an investigation of their origin and noise generation mechanisms.

Effect of nacelle on wake meandering in a laboratory scale wind turbine using LES

NASA Astrophysics Data System (ADS)

Foti, Daniel; Yang, Xiaolei; Guala, Michele; Sotiropoulos, Fotis

2015-11-01

Wake meandering, large scale motion in the wind turbine wakes, has considerable effects on the velocity deficit and turbulence intensity in the turbine wake from the laboratory scale to utility scale wind turbines. In the dynamic wake meandering model, the wake meandering is assumed to be caused by large-scale atmospheric turbulence. On the other hand, Kang et al. (J. Fluid Mech., 2014) demonstrated that the nacelle geometry has a significant effect on the wake meandering of a hydrokinetic turbine, through the interaction of the inner wake of the nacelle vortex with the outer wake of the tip vortices. In this work, the significance of the nacelle on the wake meandering of a miniature wind turbine previously used in experiments (Howard et al., Phys. Fluid, 2015) is demonstrated with large eddy simulations (LES) using immersed boundary method with fine enough grids to resolve the turbine geometric characteristics. The three dimensionality of the wake meandering is analyzed in detail through turbulent spectra and meander reconstruction. The computed flow fields exhibit wake dynamics similar to those observed in the wind tunnel experiments and are analyzed to shed new light into the role of the energetic nacelle vortex on wake meandering. This work was supported by Department of Energy DOE (DE-EE0002980, DE-EE0005482 and DE-AC04-94AL85000), and Sandia National Laboratories. Computational resources were provided by Sandia National Laboratories and the University of Minnesota Supercomputing.

Influence of toroidal rotation on tearing modes

NASA Astrophysics Data System (ADS)

Cai, Huishan; Cao, Jintao; Li, Ding

2017-10-01

Tearing modes stability analysis including toroidal rotation is studied. It is found that rotation affects the stability of tearing modes mainly through the interaction with resistive inner region of tearing mode. The coupling of magnetic curvature with centrifugal force and Coriolis force provides a perturbed perpendicular current, and a return parallel current is induced to affect the stability of tearing modes. Toroidal rotation plays a stable role, which depends on the magnitude of Mach number and adiabatic index Γ, and is independent on the direction of toroidal rotation. For Γ >1, the scaling of growth rate is changed for typical Mach number in present tokamaks. For Γ = 1 , the scaling keeps unchanged, and the effect of toroidal rotation is much less significant, compared with that for Γ >1. National Magnetic Confinement Fusion Science Program and National Science Foundation of China under Grants No. 2014GB106004, No. 2013GB111000, No. 11375189, No. 11075161 and No. 11275260, and Youth Innovation Promotion Association CAS.

A Paleomagnetic Investigation of Large-Scale Vertical Axis Rotations in Coastal Sonora: Evidence for Transtensional Proto-Gulf Deformation

NASA Astrophysics Data System (ADS)

Herman, S. W.; Gans, P. B.

2006-12-01

A paleomagnetic investigation into possible vertical axis rotations has been conducted in the Sierra el Aguaje and Sierra Tinajas del Carmen, Sonora, Mexico, in order assess proposed styles for oblique continental rifting in the Gulf of California. Two styles of rifting have been proposed; (1) strain partitioning (Stock and Hodges, 89), and (2) transtension (Gans, 97), for the Proto-Gulf period of the Gulf of California. The presence of large- scale vertical axis rotations would lend weight to the argument for transtension. The Sierra el Aguaje and Sierra Tinajas del Carmen are located in southwestern coastal Sonora, Mexico. The ranges represent the eastern-rifted margin of the central Gulf of California. This is one of the few areas of that margin which is entirely above water, with new ocean crust of the Guaymas basin lying immediately offshore of the western edge of the ranges. The ranges are composed of volcanic units and their corresponding volcaniclastic units that are the result of persistent magmatic activity between 20 and 8.8 Ma, including three packages of basalt and andesite that make excellent paleomagnetic recorders. Based on cross cutting relations and geochronologic data for pre-, syn-, and post-tectonic volcanic units, most of the faulting and tilting in the Sierra El Aguaje and Sierra Tinajas del Carmen is bracketed between 11.9 and 9.0 Ma, thus falling entirely within Proto-Gulf time. Existing field relations suggest the presence of large (>45°) vertical axis rotations in this region. This evidence includes: a) abrupt changes in the strike of tilted strata in different parts of the range b) ubiquitous NE-SW striking faults with left lateral-normal oblique slip, that terminate against major NW-trending right lateral faults, and c) obliquity between the general strike of tilted strata and the strike of faults. The results of the paleomagnetic investigation are consistent with the field evidence and show large clockwise rotations between ~30° and

Yield and Economic Responses of Peanut to Crop Rotation Sequence

USDA-ARS?s Scientific Manuscript database

National Peanut Research Laboratory, Dawson, GA 39842. Proper crop rotation is essential to maintaining high peanut yield and quality. However, the economic considerations of maintaining or altering crop rotation sequences must incorporate the commodity prices, production costs, and yield responses...

Semester-long inquiry-based molecular biology laboratory: Transcriptional regulation in yeast.

PubMed

Oelkers, Peter M

2017-03-04

A single semester molecular biology laboratory has been developed in which students design and execute a project examining transcriptional regulation in Saccharomyces cerevisiae. Three weeks of planning are allocated to developing a hypothesis through literature searches and use of bioinformatics. Common experimental plans address a cell process and how three genes that encode for proteins involved in that process are transcriptionally regulated in response to changing environmental conditions. Planning includes designing oligonucleotides to amplify the putative promoters of the three genes of interest. After the PCR, each product is cloned proximal to β-galactosidase in a yeast reporter plasmid. Techniques used include agarose electrophoresis, extraction of DNA from agarose, plasmid purification from bacteria, restriction digestion, ligation, and bacterial transformation. This promoter/reporter plasmid is then transformed into yeast. Transformed yeast are cultured in conditions prescribed in the experimental design, lysed and β-galactosidase activity is measured. The course provides an independent research experience in a group setting. Notebooks are maintained on-line with regular feedback. Projects culminate with the presentation of a poster worth 60% of the grade. Over the last three years, about 65% of students met expectations for experimental design, data acquisition, and analysis. © 2016 by The International Union of Biochemistry and Molecular Biology, 45(2):145-151, 2017. © 2016 The International Union of Biochemistry and Molecular Biology.

Functional model of biological neural networks.

PubMed

Lo, James Ting-Ho

2010-12-01

A functional model of biological neural networks, called temporal hierarchical probabilistic associative memory (THPAM), is proposed in this paper. THPAM comprises functional models of dendritic trees for encoding inputs to neurons, a first type of neuron for generating spike trains, a second type of neuron for generating graded signals to modulate neurons of the first type, supervised and unsupervised Hebbian learning mechanisms for easy learning and retrieving, an arrangement of dendritic trees for maximizing generalization, hardwiring for rotation-translation-scaling invariance, and feedback connections with different delay durations for neurons to make full use of present and past informations generated by neurons in the same and higher layers. These functional models and their processing operations have many functions of biological neural networks that have not been achieved by other models in the open literature and provide logically coherent answers to many long-standing neuroscientific questions. However, biological justifications of these functional models and their processing operations are required for THPAM to qualify as a macroscopic model (or low-order approximate) of biological neural networks.

A Simple Laboratory Scale Model of Iceberg Dynamics and its Role in Undergraduate Education

NASA Astrophysics Data System (ADS)

Burton, J. C.; MacAyeal, D. R.; Nakamura, N.

2011-12-01

Lab-scale models of geophysical phenomena have a long history in research and education. For example, at the University of Chicago, Dave Fultz developed laboratory-scale models of atmospheric flows. The results from his laboratory were so stimulating that similar laboratories were subsequently established at a number of other institutions. Today, the Dave Fultz Memorial Laboratory for Hydrodynamics (http://geosci.uchicago.edu/~nnn/LAB/) teaches general circulation of the atmosphere and oceans to hundreds of students each year. Following this tradition, we have constructed a lab model of iceberg-capsize dynamics for use in the Fultz Laboratory, which focuses on the interface between glaciology and physical oceanography. The experiment consists of a 2.5 meter long wave tank containing water and plastic "icebergs". The motion of the icebergs is tracked using digital video. Movies can be found at: http://geosci.uchicago.edu/research/glaciology_files/tsunamigenesis_research.shtml. We have had 3 successful undergraduate interns with backgrounds in mathematics, engineering, and geosciences perform experiments, analyze data, and interpret results. In addition to iceberg dynamics, the wave-tank has served as a teaching tool in undergraduate classes studying dam-breaking and tsunami run-up. Motivated by the relatively inexpensive cost of our apparatus (~1K-2K dollars) and positive experiences of undergraduate students, we hope to serve as a model for undergraduate research and education that other universities may follow.

Experiments with a New, Unique Large-Scale Rig Investigating the Effects of Background System Rotation on Vortex Rings in Water

NASA Astrophysics Data System (ADS)

Brend, Mark A.; Verzicco, Roberto

2005-11-01

We introduce our unique, new large-scale experimental facility [1] designed for our long-term research program investigating the effects of background system rotation on the stability and the dynamics of vortex rings. The new rig constitutes a large water-filled tank positioned on a rotating turntable and its overall height and diameter are 5.7m and 1.4 m, respectively. First experimental and computational results of our program are summarized. We will show various videos of flow visualizations that illustrate some major, qualitative differences between rings propagating in rotating and non-rotating flows. Some of the investigated characteristics of the vortex rings include their translation velocity, the velocity field inside and surrounding the rings, and, in particular, their stability. We will briefly outline experiments employing the relatively new Ultrasonic-Velocity-Profiler technique (UVP). This technique appears to be particularly suited for some of our measurements and it was, as far as we are aware, not previously used in the context of vortex-ring studies. [1] http://www.eng.warwick.ac.uk/staff/pjt/turntabpics/voriskt.html

Direct and inverse energy cascades in a forced rotating turbulence experiment

NASA Astrophysics Data System (ADS)

Campagne, Antoine; Gallet, Basile; Moisy, Frédéric; Cortet, Pierre-Philippe

2014-11-01

Turbulence in a rotating frame provides a remarkable system where 2D and 3D properties may coexist, with a possible tuning between direct and inverse cascades. We present here experimental evidence for a double cascade of kinetic energy in a statistically stationary rotating turbulence experiment. Turbulence is generated by a set of vertical flaps which continuously injects velocity fluctuations towards the center of a rotating water tank. The energy transfers are evaluated from two-point third-order three-component velocity structure functions, which we measure using stereoscopic PIV in the rotating frame. Without global rotation, the energy is transferred from large to small scales, as in classical 3D turbulence. For nonzero rotation rates, the horizontal kinetic energy presents a double cascade: a direct cascade at small horizontal scales and an inverse cascade at large horizontal scales. By contrast, the vertical kinetic energy is always transferred from large to small horizontal scales, a behavior reminiscent of the dynamics of a passive scalar in 2D turbulence. At the largest rotation rate, the flow is nearly 2D and a pure inverse energy cascade is found for the horizontal energy.

Scale relativity theory and integrative systems biology: 2. Macroscopic quantum-type mechanics.

PubMed

Nottale, Laurent; Auffray, Charles

2008-05-01

In these two companion papers, we provide an overview and a brief history of the multiple roots, current developments and recent advances of integrative systems biology and identify multiscale integration as its grand challenge. Then we introduce the fundamental principles and the successive steps that have been followed in the construction of the scale relativity theory, which aims at describing the effects of a non-differentiable and fractal (i.e., explicitly scale dependent) geometry of space-time. The first paper of this series was devoted, in this new framework, to the construction from first principles of scale laws of increasing complexity, and to the discussion of some tentative applications of these laws to biological systems. In this second review and perspective paper, we describe the effects induced by the internal fractal structures of trajectories on motion in standard space. Their main consequence is the transformation of classical dynamics into a generalized, quantum-like self-organized dynamics. A Schrödinger-type equation is derived as an integral of the geodesic equation in a fractal space. We then indicate how gauge fields can be constructed from a geometric re-interpretation of gauge transformations as scale transformations in fractal space-time. Finally, we introduce a new tentative development of the theory, in which quantum laws would hold also in scale space, introducing complexergy as a measure of organizational complexity. Initial possible applications of this extended framework to the processes of morphogenesis and the emergence of prokaryotic and eukaryotic cellular structures are discussed. Having founded elements of the evolutionary, developmental, biochemical and cellular theories on the first principles of scale relativity theory, we introduce proposals for the construction of an integrative theory of life and for the design and implementation of novel macroscopic quantum-type experiments and devices, and discuss their potential

Pattern recognition neural-net by spatial mapping of biology visual field

NASA Astrophysics Data System (ADS)

Lin, Xin; Mori, Masahiko

2000-05-01

The method of spatial mapping in biology vision field is applied to artificial neural networks for pattern recognition. By the coordinate transform that is called the complex-logarithm mapping and Fourier transform, the input images are transformed into scale- rotation- and shift- invariant patterns, and then fed into a multilayer neural network for learning and recognition. The results of computer simulation and an optical experimental system are described.

Emergent dynamics of laboratory insect swarms

NASA Astrophysics Data System (ADS)

Kelley, Douglas H.; Ouellette, Nicholas T.

2013-01-01

Collective animal behaviour occurs at nearly every biological size scale, from single-celled organisms to the largest animals on earth. It has long been known that models with simple interaction rules can reproduce qualitative features of this complex behaviour. But determining whether these models accurately capture the biology requires data from real animals, which has historically been difficult to obtain. Here, we report three-dimensional, time-resolved measurements of the positions, velocities, and accelerations of individual insects in laboratory swarms of the midge Chironomus riparius. Even though the swarms do not show an overall polarisation, we find statistical evidence for local clusters of correlated motion. We also show that the swarms display an effective large-scale potential that keeps individuals bound together, and we characterize the shape of this potential. Our results provide quantitative data against which the emergent characteristics of animal aggregation models can be benchmarked.

Development of a Semester-Long, Inquiry-Based Laboratory Course in Upper-Level Biochemistry and Molecular Biology

ERIC Educational Resources Information Center

Murthy, Pushpalatha P. N.; Thompson, Martin; Hungwe, Kedmon

2014-01-01

A semester-long laboratory course was designed and implemented to familiarize students with modern biochemistry and molecular biology techniques. The designed format involved active student participation, evaluation of data, and critical thinking, and guided students to become independent researchers. The first part of the course focused on…

A self-calibration method in single-axis rotational inertial navigation system with rotating mechanism

NASA Astrophysics Data System (ADS)

Chen, Yuanpei; Wang, Lingcao; Li, Kui

2017-10-01

Rotary inertial navigation modulation mechanism can greatly improve the inertial navigation system (INS) accuracy through the rotation. Based on the single-axis rotational inertial navigation system (RINS), a self-calibration method is put forward. The whole system is applied with the rotation modulation technique so that whole inertial measurement unit (IMU) of system can rotate around the motor shaft without any external input. In the process of modulation, some important errors can be decoupled. Coupled with the initial position information and attitude information of the system as the reference, the velocity errors and attitude errors in the rotation are used as measurement to perform Kalman filtering to estimate part of important errors of the system after which the errors can be compensated into the system. The simulation results show that the method can complete the self-calibration of the single-axis RINS in 15 minutes and estimate gyro drifts of three-axis, the installation error angle of the IMU and the scale factor error of the gyro on z-axis. The calibration accuracy of optic gyro drifts could be about 0.003°/h (1σ) as well as the scale factor error could be about 1 parts per million (1σ). The errors estimate reaches the system requirements which can effectively improve the longtime navigation accuracy of the vehicle or the boat.

In situ atomic scale mechanical microscopy discovering the atomistic mechanisms of plasticity in nano-single crystals and grain rotation in polycrystalline metals.

PubMed

Han, Xiaodong; Wang, Lihua; Yue, Yonghai; Zhang, Ze

2015-04-01

In this review, we briefly introduce our in situ atomic-scale mechanical experimental technique (ASMET) for transmission electron microscopy (TEM), which can observe the atomic-scale deformation dynamics of materials. This in situ mechanical testing technique allows the deformation of TEM samples through a simultaneous double-tilt function, making atomic-scale mechanical microscopy feasible. This methodology is generally applicable to thin films, nanowires (NWs), tubes and regular TEM samples to allow investigation of the dynamics of mechanically stressed samples at the atomic scale. We show several examples of this technique applied to Pt and Cu single/polycrystalline specimens. The in situ atomic-scale observation revealed that when the feature size of these materials approaches the nano-scale, they often exhibit "unusual" deformation behaviours compared to their bulk counterparts. For example, in Cu single-crystalline NWs, the elastic-plastic transition is size-dependent. An ultra-large elastic strain of 7.2%, which approaches the theoretical elasticity limit, can be achieved as the diameter of the NWs decreases to ∼6 nm. The crossover plasticity transition from full dislocations to partial dislocations and twins was also discovered as the diameter of the single-crystalline Cu NWs decreased. For Pt nanocrystals (NC), the long-standing uncertainties of atomic-scale plastic deformation mechanisms in NC materials (grain size G less than 15 nm) were clarified. For larger grains with G<∼10 nm, we frequently observed movements and interactions of cross-grain full dislocations. For G between 6 and 10 nm, stacking faults resulting from partial dislocations become more frequent. For G<∼6 nm, the plasticity mechanism transforms from a mode of cross-grain dislocation to a collective grain rotation mechanism. This grain rotation process is mediated by grain boundary (GB) dislocations with the assistance of GB diffusion and shuffling. These in situ atomic-scale images

Virtually the Same: A Comparison of STEM Students' Content Knowledge, Course Performance, and Motivation to Learn in Virtual and Face-to-Face Introductory Biology Laboratories. Research and Teaching

ERIC Educational Resources Information Center

Reece, Amber J.; Butler, Malcolm B.

2017-01-01

Biology I is a required course for many science, technology, engineering, and mathematics (STEM) majors and is often their first college-level laboratory experience. The replacement of the traditional face-to-face laboratory experience with virtual laboratories could influence students' content knowledge, motivation to learn biology, and overall…

Crop rotations in the sea: Increasing returns and reducing risk of collapse in sea cucumber fisheries

PubMed Central

Skewes, Timothy; Murphy, Nicole; Pascual, Ricardo; Fischer, Mibu

2015-01-01

Rotational harvesting is one of the oldest management strategies applied to terrestrial and marine natural resources, with crop rotations dating back to the time of the Roman Empire. The efficacy of this strategy for sessile marine species is of considerable interest given that these resources are vital to underpin food security and maintain the social and economic wellbeing of small-scale and commercial fishers globally. We modeled the rotational zone strategy applied to the multispecies sea cucumber fishery in Australia’s Great Barrier Reef Marine Park and show a substantial reduction in the risk of localized depletion, higher long-term yields, and improved economic performance. We evaluated the performance of rotation cycles of different length and show an improvement in biological and economic performance with increasing time between harvests up to 6 y. As sea cucumber fisheries throughout the world succumb to overexploitation driven by rising demand, there has been an increasing demand for robust assessments of fishery sustainability and a need to address local depletion concerns. Our results provide motivation for increased use of relatively low-information, low-cost, comanagement rotational harvest approaches in coastal and reef systems globally. PMID:25964357

Geometric Analyses of Rotational Faults.

ERIC Educational Resources Information Center

Schwert, Donald Peters; Peck, Wesley David

1986-01-01

Describes the use of analysis of rotational faults in undergraduate structural geology laboratories to provide students with applications of both orthographic and stereographic techniques. A demonstration problem is described, and an orthographic/stereographic solution and a reproducible black model demonstration pattern are provided. (TW)

Characterization of Orbital Debris Photometric Properties Derived from Laboratory-Based Measurements

NASA Technical Reports Server (NTRS)

Cowardin, H.; Abercromby, K.; Barker, E.; Seitzer, P.; Schildknecht, T.

2010-01-01

To better characterize and model optical data acquired from ground-based telescopes, the Optical Measurements Center (OMC) at NASA/JSC attempts to emulate illumination conditions seen in space using equipment and techniques that parallel telescopic observations and source-target-sensor orientations. The OMC uses a 75 Watt Xenon arc lamp as a solar simulator, an SBIG CCD camera with standard Johnson/Bessel filters, and a robotic arm to simulate an object's position and rotation. The laboratory uses known shapes, materials suspected to be consistent with the orbital debris population, and three phase angles to best match the lighting conditions of the telescope based data. The fourteen objects studied in the laboratory are fragments or materials acquired through ground-tests of scaled-model satellites/rocket bodies as well as material samples in more/less "flight-ready" condition. All fragments were measured at 10 increments in a full 360 rotation at 6 , 36 , and 60 phase angles. This paper will investigate published color photometric data for a series of orbital debris targets and compare it to the empirical photometric measurements generated in the OMC. Using the data acquired over specific rotational angles through different filters (B, V, R, I), a color index is acquired (B-R, R-I). Using these values and their associated lightcurves, this laboratory data is compared to observational data obtained on the 1 m telescope of the Astronomical Institute of the University of Bern (AUIB), the 0.9 m operated by the Small- and Medium-Aperture Research Telescope System (SMARTS) Consortium and the Curtis-Schmidt 0.6 m Michigan Orbital Debris Space Debris Telescope both located at Cerro Tololo Inter-American Observatory (CTIO). An empirical based optical characterization model will be presented to provide preliminary correlations between laboratory based and telescope-based data in the context of classification of GEO debris objects.

Broadband integrated polarization rotator using three-layer metallic grating structures

DOE PAGES

Fan, Ren -Hao; Liu, Dong; Peng, Ru -Wen; ...

2018-01-05

In this work, we demonstrate broadband integrated polarization rotator (IPR) with a series of three-layer rotating metallic grating structures. This transmissive optical IPR can conveniently rotate the polarization of linearly polarized light to any desired directions at different spatial locations with high conversion efficiency, which is nearly constant for different rotation angles. The linear polarization rotation originates from multi-wave interference in the three-layer grating structure. As a result, we anticipate that this type of IPR will find wide applications in analytical chemistry, biology, communication technology, imaging, etc.

Broadband integrated polarization rotator using three-layer metallic grating structures

DOE Office of Scientific and Technical Information (OSTI.GOV)

Fan, Ren -Hao; Liu, Dong; Peng, Ru -Wen

In this work, we demonstrate broadband integrated polarization rotator (IPR) with a series of three-layer rotating metallic grating structures. This transmissive optical IPR can conveniently rotate the polarization of linearly polarized light to any desired directions at different spatial locations with high conversion efficiency, which is nearly constant for different rotation angles. The linear polarization rotation originates from multi-wave interference in the three-layer grating structure. As a result, we anticipate that this type of IPR will find wide applications in analytical chemistry, biology, communication technology, imaging, etc.

Operational Characteristics of a Rotating Detonation Engine Using Hydrogen and Air

DTIC Science & Technology

2011-06-01

Naval Research Laboratory PDE Pulsed detonation engine RDE Rotating detonation engine TDW Transverse detonation wave Symbols [SI units...primarily been on pulsed detonation engines ( PDEs ). Recently, however, detonation research has begun to also focus on rotating , or continuous... rotating detonation engines have been studied, however, more progress was initially made regarding PDEs . Recently, though, there has been a renewed

Laboratory Safety in the Biology Lab.

ERIC Educational Resources Information Center

Ritch, Donna; Rank, Jane

2001-01-01

Reports on a research project to determine if students possess and comprehend basic safety knowledge. Shows a significant increase in the amount of safety knowledge gained when students are exposed to various topics in laboratory safety and are held accountable for learning the information as required in a laboratory safety course. (Author/MM)

Direct and inverse energy cascades in a forced rotating turbulence experiment

NASA Astrophysics Data System (ADS)

Campagne, Antoine; Gallet, Basile; Moisy, Frédéric; Cortet, Pierre-Philippe

2014-12-01

We present experimental evidence for a double cascade of kinetic energy in a statistically stationary rotating turbulence experiment. Turbulence is generated by a set of vertical flaps, which continuously injects velocity fluctuations towards the center of a rotating water tank. The energy transfers are evaluated from two-point third-order three-component velocity structure functions, which we measure using stereoscopic particle image velocimetry in the rotating frame. Without global rotation, the energy is transferred from large to small scales, as in classical three-dimensional turbulence. For nonzero rotation rates, the horizontal kinetic energy presents a double cascade: a direct cascade at small horizontal scales and an inverse cascade at large horizontal scales. By contrast, the vertical kinetic energy is always transferred from large to small horizontal scales, a behavior reminiscent of the dynamics of a passive scalar in two-dimensional turbulence. At the largest rotation rate, the flow is nearly two-dimensional, and a pure inverse energy cascade is found for the horizontal energy. To describe the scale-by-scale energy budget, we consider a generalization of the Kármán-Howarth-Monin equation to inhomogeneous turbulent flows, in which the energy input is explicitly described as the advection of turbulent energy from the flaps through the surface of the control volume where the measurements are performed.

Scaling of Multimillion-Atom Biological Molecular Dynamics Simulation on a Petascale Supercomputer

DOE Office of Scientific and Technical Information (OSTI.GOV)

Schulz, Roland; Lindner, Benjamin; Petridis, Loukas

2009-01-01

A strategy is described for a fast all-atom molecular dynamics simulation of multimillion-atom biological systems on massively parallel supercomputers. The strategy is developed using benchmark systems of particular interest to bioenergy research, comprising models of cellulose and lignocellulosic biomass in an aqueous solution. The approach involves using the reaction field (RF) method for the computation of long-range electrostatic interactions, which permits efficient scaling on many thousands of cores. Although the range of applicability of the RF method for biomolecular systems remains to be demonstrated, for the benchmark systems the use of the RF produces molecular dipole moments, Kirkwood G factors,more » other structural properties, and mean-square fluctuations in excellent agreement with those obtained with the commonly used Particle Mesh Ewald method. With RF, three million- and five million atom biological systems scale well up to 30k cores, producing 30 ns/day. Atomistic simulations of very large systems for time scales approaching the microsecond would, therefore, appear now to be within reach.« less

The development and assessment of constructivist-based curriculum changes in a university general biology laboratory course

NASA Astrophysics Data System (ADS)

Herron, Sherry Shelton

1999-11-01

This study describes the processes involved in transforming the curriculum of the second semester general biology laboratory course for science majors, BSC 111L, at the University of Southern Mississippi from one based on the behaviorist model of teaching and learning to one based on the constructivist model. The study encompasses pilot and research phases. During the pilot phase conducted fall semester of 1997, the researcher presented to graduate teaching assistants an overview of the need for curriculum reform and some of the theoretical underpinnings for the movement. The researcher worked with all of the general biology teaching assistants to determine factors they considered supportive of the effort, identified specific goals and exercises, and developed a mission statement. The researcher then worked with two of the teaching assistants to write the new curriculum materials and pilot them in a designated laboratory section each week. During the research phase, the researcher facilitated the use of constructivist teaching methods and interviewed the teaching assistants during weekly group meetings. The researcher videotaped and observed the laboratories at various times throughout spring semester of 1998. Student responses to survey questions about the laboratories were collected during the observation sessions. Data derived from self-assessments on teaching beliefs completed by the teaching assistants, interview transcripts, videotaped laboratory sessions, and student surveys were used to assess the effectiveness of the new curriculum and the intervention program. It was observed that despite being given the same instructions, curriculum, and materials, each teaching assistant conducted his laboratory section in a unique way and rarely conducted the complete laboratory in the intended manner. It was also observed that one TA in particular needed more training in interpersonal skill development and content than was provided during the weekly intervention

[Establishment of Quality Control System of Nucleic Acid Detection for Ebola Virus in Sierra Leone-China Friendship Biological Safety Laboratory].

PubMed

Wang, Qin; Zhang, Yong; Nie, Kai; Wang, Huanyu; Du, Haijun; Song, Jingdong; Xiao, Kang; Lei, Wenwen; Guo, Jianqiang; Wei, Hejiang; Cai, Kun; Wang, Yanhai; Wu, Jiang; Gerald, Bangura; Kamara, Idrissa Laybohr; Liang, Mifang; Wu, Guizhen; Dong, Xiaoping

2016-03-01

The quality control process throughout the Ebola virus nucleic acid detection in Sierra Leone-China Friendship Biological Safety Laboratory (SLE-CHN Biosafety Lab) was described in detail, in order to comprehensively display the scientific, rigorous, accurate and efficient practice in detection of Ebola virus of first batch detection team in SLE-CHN Biosafety Lab. Firstly, the key points of laboratory quality control system was described, including the managements and organizing, quality control documents and information management, instrument, reagents and supplies, assessment, facilities design and space allocation, laboratory maintenance and biosecurity. Secondly, the application of quality control methods in the whole process of the Ebola virus detection, including before the test, during the test and after the test, was analyzed. The excellent and professional laboratory staffs, the implementation of humanized management are the cornerstone of the success; High-level biological safety protection is the premise for effective quality control and completion of Ebola virus detection tasks. And professional logistics is prerequisite for launching the laboratory diagnosis of Ebola virus. The establishment and running of SLE-CHN Biosafety Lab has landmark significance for the friendship between Sierra Leone and China, and the lab becomes the most important base for Ebola virus laboratory testing in Sierra Leone.

Changes in the biological activity of chestnut soils upon the long-term application of fertilizers in a rotation with oil-bearing crops

NASA Astrophysics Data System (ADS)

Eleshev, R. E.; Bakenova, Z. B.

2012-11-01

Experimental studies showed that irrigated chestnut soils on the piedmont of the Zailiiskiy Alatau Range are characterized by the moderate activity of the hydrolytic and redox enzymes. The use of these soils in the crop rotation system increases the hydrolytic activity of the enzymes (invertase, urease, and ATP synthase) by 30% in comparison with the monoculture; at the same time, it does not have a significant impact on the changes in the biological activity of the redox enzymes (catalase and dehydrogenase). The hydrolytic activity of the soils is activated to a greater extent in the crop rotation and in the monoculture against the background application of organic fertilizers. In this case, the recommended rates of mineral fertilizers do not inhibit the activity of the hydrolytic and redox enzymes. An increase in the hydrolytic activity of the enzymes directly affects the yield of oilseed flax. Therefore, indices of the hydrolytic activity of soils can be used as a test for the diagnostics of the efficiency of fertilizers both in crop rotation and monoculture systems.

Horse Manure and Other Fun Projects. Field Studies and Laboratory Experiences in Environmental Biology - A Book of Experimental Ideas for Secondary School Biology Teachers.

ERIC Educational Resources Information Center

Brown, Robert T., Ed.; Clark, Barbara G., Ed.

This guide contains a collection of laboratory and field inquiries designed to promote ecological awareness, sensitivity, and understanding. The activities compiled by 28 teachers are for use in teaching biology at the secondary level. They are presented in a "recipe" form to make it possible for teachers without prior experience or training to…

Bridging the physical scales in evolutionary biology: From protein sequence space to fitness of organisms and populations

PubMed Central

Bershtein, Shimon; Serohijos, Adrian W.R.; Shakhnovich, Eugene I.

2016-01-01

Bridging the gap between the molecular properties of proteins and organismal/population fitness is essential for understanding evolutionary processes. This task requires the integration of the several physical scales of biological organization, each defined by a distinct set of mechanisms and constraints, into a single unifying model. The molecular scale is dominated by the constraints imposed by the physico-chemical properties of proteins and their substrates, which give rise to trade-offs and epistatic (non-additive) effects of mutations. At the systems scale, biological networks modulate protein expression and can either buffer or enhance the fitness effects of mutations. The population scale is influenced by the mutational input, selection regimes, and stochastic changes affecting the size and structure of populations, which eventually determine the evolutionary fate of mutations. Here, we summarize the recent advances in theory, computer simulations, and experiments that advance our understanding of the links between various physical scales in biology. PMID:27810574

Bridging the physical scales in evolutionary biology: from protein sequence space to fitness of organisms and populations.

PubMed

Bershtein, Shimon; Serohijos, Adrian Wr; Shakhnovich, Eugene I

2017-02-01

Bridging the gap between the molecular properties of proteins and organismal/population fitness is essential for understanding evolutionary processes. This task requires the integration of the several physical scales of biological organization, each defined by a distinct set of mechanisms and constraints, into a single unifying model. The molecular scale is dominated by the constraints imposed by the physico-chemical properties of proteins and their substrates, which give rise to trade-offs and epistatic (non-additive) effects of mutations. At the systems scale, biological networks modulate protein expression and can either buffer or enhance the fitness effects of mutations. The population scale is influenced by the mutational input, selection regimes, and stochastic changes affecting the size and structure of populations, which eventually determine the evolutionary fate of mutations. Here, we summarize the recent advances in theory, computer simulations, and experiments that advance our understanding of the links between various physical scales in biology. Copyright © 2016 Elsevier Ltd. All rights reserved.

The design of dapog rice seeder model for laboratory scale

NASA Astrophysics Data System (ADS)

Purba, UI; Rizaldi, T.; Sumono; Sigalingging, R.

2018-02-01

The dapog system is seeding rice seeds using a special nursery tray. Rice seedings with dapog systems can produce seedlings in the form of higher quality and uniform seed rolls. This study aims to reduce the cost of making large-scale apparatus by designing models for small-scale and can be used for learning in the laboratory. Parameters observed were soil uniformity, seeds and fertilizers, soil looses, seeds and fertilizers, effective capacity of apparatus, and power requirements. The results showed a high uniformity in soil, seed and fertilizer respectively 92.8%, 1-3 seeds / cm2 and 82%. The scattered materials for soil, seed and fertilizer were respectively 6.23%, 2.7% and 2.23%. The effective capacity of apparatus was 360 boxes / hour with 237.5 kWh of required power.

Methyl Group Internal Rotation in the Pure Rotational Spectrum of 1,1-DIFLUOROACETONE

NASA Astrophysics Data System (ADS)

Grubbs, G. S. Grubbs, II; Cooke, S. A.; Groner, P.

2011-06-01

We have used chirped pulse Fourier transform microwave spectroscopy to record the pure rotational spectrum of the title molecule. The spectrum was doubled owing to the internal rotation of the methyl group. The spectrum has been assigned and two approaches to the spectral analysis have been performed. In the first case, the A and E components were fit separately using a principal axis method with the SPFIT code of Pickett. In the second case, the A and E states were fit simultaneously using the ERHAM code. For a satisfactory analysis of the spectral data it has been found that the choice of Hamiltonian reduction, i.e. Watson A or S, is very important. The barrier to the internal rotation has been determined to be 261.1(8) Cm-1 and it will be compared to that of acetone and other halogenated acetone species recently studied in our laboratory.

Terrestrial Slugs as a Model Organism for Inquiry-Based Experimentation in a Majors General Biology Laboratory

ERIC Educational Resources Information Center

Peters, Brenda J.; Blair, Amy C.

2013-01-01

Many biology educators at the undergraduate level are revamping their laboratory curricula to incorporate inquiry-based research experiences so that students can directly participate in the process of science and improve their scientific reasoning skills. Slugs are an ideal organism for use in such a student-directed, hypothesis-driven experience.…

The generation and amplification of intergalactic magnetic fields in analogue laboratory experiments with high power lasers

NASA Astrophysics Data System (ADS)

Gregori, G.; Reville, B.; Miniati, F.

2015-11-01

The advent of high-power laser facilities has, in the past two decades, opened a new field of research where astrophysical environments can be scaled down to laboratory dimensions, while preserving the essential physics. This is due to the invariance of the equations of magneto-hydrodynamics to a class of similarity transformations. Here we review the relevant scaling relations and their application in laboratory astrophysics experiments with a focus on the generation and amplification of magnetic fields in cosmic environment. The standard model for the origin of magnetic fields is a multi stage process whereby a vanishing magnetic seed is first generated by a rotational electric field and is then amplified by turbulent dynamo action to the characteristic values observed in astronomical bodies. We thus discuss the relevant seed generation mechanisms in cosmic environment including resistive mechanism, collision-less and fluid instabilities, as well as novel laboratory experiments using high power laser systems aimed at investigating the amplification of magnetic energy by magneto-hydrodynamic (MHD) turbulence. Future directions, including efforts to model in the laboratory the process of diffusive shock acceleration are also discussed, with an emphasis on the potential of laboratory experiments to further our understanding of plasma physics on cosmic scales.

Metabolic systems biology: a brief primer.

PubMed

Edwards, Lindsay M

2017-05-01

In the early to mid-20th century, reductionism as a concept in biology was challenged by key thinkers, including Ludwig von Bertalanffy. He proposed that living organisms were specific examples of complex systems and, as such, they should display characteristics including hierarchical organisation and emergent behaviour. Yet the true study of complete biological systems (for example, metabolism) was not possible until technological advances that occurred 60 years later. Technology now exists that permits the measurement of complete levels of the biological hierarchy, for example the genome and transcriptome. The complexity and scale of these data require computational models for their interpretation. The combination of these - systems thinking, high-dimensional data and computation - defines systems biology, typically accompanied by some notion of iterative model refinement. Only sequencing-based technologies, however, offer full coverage. Other 'omics' platforms trade coverage for sensitivity, although the densely connected nature of biological networks suggests that full coverage may not be necessary. Systems biology models are often characterised as either 'bottom-up' (mechanistic) or 'top-down' (statistical). This distinction can mislead, as all models rely on data and all are, to some degree, 'middle-out'. Systems biology has matured as a discipline, and its methods are commonplace in many laboratories. However, many challenges remain, especially those related to large-scale data integration. © 2016 The Authors. The Journal of Physiology © 2016 The Physiological Society.

Partial Thickness Rotator Cuff Tears: Current Concepts

PubMed Central

Matthewson, Graeme; Beach, Cara J.; Nelson, Atiba A.; Woodmass, Jarret M.; Ono, Yohei; Boorman, Richard S.; Lo, Ian K. Y.; Thornton, Gail M.

2015-01-01

Partial thickness rotator cuff tears are a common cause of pain in the adult shoulder. Despite their high prevalence, the diagnosis and treatment of partial thickness rotator cuff tears remains controversial. While recent studies have helped to elucidate the anatomy and natural history of disease progression, the optimal treatment, both nonoperative and operative, is unclear. Although the advent of arthroscopy has improved the accuracy of the diagnosis of partial thickness rotator cuff tears, the number of surgical techniques used to repair these tears has also increased. While multiple repair techniques have been described, there is currently no significant clinical evidence supporting more complex surgical techniques over standard rotator cuff repair. Further research is required to determine the clinical indications for surgical and nonsurgical management, when formal rotator cuff repair is specifically indicated and when biologic adjunctive therapy may be utilized. PMID:26171251

Rotational motions from the 2016, Central Italy seismic sequence, as observed by an underground ring laser gyroscope

NASA Astrophysics Data System (ADS)

Simonelli, A.; Igel, H.; Wassermann, J.; Belfi, J.; Di Virgilio, A.; Beverini, N.; De Luca, G.; Saccorotti, G.

2018-05-01

We present the analysis of rotational and translational ground motions from earthquakes recorded during October/November, 2016, in association with the Central Italy seismic-sequence. We use co-located measurements of the vertical ground rotation rate from a large ring laser gyroscope (RLG), and the three components of ground velocity from a broadband seismometer. Both instruments are positioned in a deep underground environment, within the Gran Sasso National Laboratories (LNGS) of the Istituto Nazionale di Fisica Nucleare (INFN). We collected dozens of events spanning the 3.5-5.9 Magnitude range, and epicentral distances between 30 km and 70 km. This data set constitutes an unprecedented observation of the vertical rotational motions associated with an intense seismic sequence at local distance. Under the plane wave approximation we process the data set in order to get an experimental estimation of the events back azimuth. Peak values of rotation rate (PRR) and horizontal acceleration (PGA) are markedly correlated, according to a scaling constant which is consistent with previous measurements from different earthquake sequences. We used a prediction model in use for Italy to calculate the expected PGA at the recording site, obtaining consequently predictions for PRR. Within the modeling uncertainties, predicted rotations are consistent with the observed ones, suggesting the possibility of establishing specific attenuation models for ground rotations, like the scaling of peak velocity and peak acceleration in empirical ground-motion prediction relationships. In a second step, after identifying the direction of the incoming wave-field, we extract phase velocity data using the spectral ratio of the translational and rotational components.. This analysis is performed over time windows associated with the P-coda, S-coda and Lg phase. Results are consistent with independent estimates of shear-wave velocities in the shallow crust of the Central Apennines.

Granular flow in a rotating drum: Experiments and theory

NASA Astrophysics Data System (ADS)

Hung, C. Y.; Stark, C. P.; Capart, H.; Li, L.; Smith, B.; Grinspun, E.

2015-12-01

Erosion at the base of a debris flow fundamentally controls how large the flow will become and how far it will travel. Experimental observations of this important phenomenon are rather limited, and this lack has led theoretical treatments to making ad hoc assumptions about the basal process. In light of this, we carried out a combination of laboratory experiments and theoretical analysis of granular flow in a rotating drum, a canonical example of steady grain motion in which entrainment rates can be precisely controlled. Our main result is that basal sediment is entrained as the velocity profile adjusts to imbalance in the flow of kinetic energy.Our experimental apparatus consisted of a 40cm-diameter drum, 4cm-deep, half-filled with 2.3mm grains. Rotation rates varied from 1-70 rpm. We varied the effective scale by varying effective gravity from 1g to 70g on a geotechnical centrifuge. The field of grain motion was recorded using high-speed video and mapped using particle tracking velocimetry. In tandem we developed a depth-averaged theory using balance equations for mass, momentum and kinetic energy. We assumed a linearized GDR Midi granular rheology [da Cruz, 2005] and a Coulomb friction law along the sidewalls [Jop et al., 2005]. A scaling analysis of our equations yields a dimensionless "entrainment number" En, which neatly parametrizes the flow geometry in the drum for a wide range of variables, e.g., rotation rate and effective gravity. At low En, the flow profile is planar and kinetic energy is balanced locally in the flow layer. At high En, the flow profile is sigmoidal (yin-yang shaped) and the kinetic energy is dominated by longitudinal, streamwise transfer. We observe different scaling behavior under each of these flow regimes, e.g., between En and kinetic energy, surface slope and flow depth. Our theory correctly predicts their scaling exponents and the value of En at which the regime transition takes place. We are also able to make corrections for

Fast laboratory-based micro-computed tomography for pore-scale research: Illustrative experiments and perspectives on the future

NASA Astrophysics Data System (ADS)

Bultreys, Tom; Boone, Marijn A.; Boone, Matthieu N.; De Schryver, Thomas; Masschaele, Bert; Van Hoorebeke, Luc; Cnudde, Veerle

2016-09-01

Over the past decade, the wide-spread implementation of laboratory-based X-ray micro-computed tomography (micro-CT) scanners has revolutionized both the experimental and numerical research on pore-scale transport in geological materials. The availability of these scanners has opened up the possibility to image a rock's pore space in 3D almost routinely to many researchers. While challenges do persist in this field, we treat the next frontier in laboratory-based micro-CT scanning: in-situ, time-resolved imaging of dynamic processes. Extremely fast (even sub-second) micro-CT imaging has become possible at synchrotron facilities over the last few years, however, the restricted accessibility of synchrotrons limits the amount of experiments which can be performed. The much smaller X-ray flux in laboratory-based systems bounds the time resolution which can be attained at these facilities. Nevertheless, progress is being made to improve the quality of measurements performed on the sub-minute time scale. We illustrate this by presenting cutting-edge pore scale experiments visualizing two-phase flow and solute transport in real-time with a lab-based environmental micro-CT set-up. To outline the current state of this young field and its relevance to pore-scale transport research, we critically examine its current bottlenecks and their possible solutions, both on the hardware and the software level. Further developments in laboratory-based, time-resolved imaging could prove greatly beneficial to our understanding of transport behavior in geological materials and to the improvement of pore-scale modeling by providing valuable validation.

Cooperative and Active Learning in Undergraduate Biological Laboratories at FIU--Implications to TA Teaching and Training

ERIC Educational Resources Information Center

Penwell, Rebecca A.; Elsawa, Sherine F.; Pitzer, Thomas

2004-01-01

There were several changes in the laboratory teaching program in the Biological Sciences at Florida International University (FIU) between 1993-1994. The underlying goal was the improvement of the amount of material learned and retained by the student, but these changes showed little positive improvement. It was deemed necessary for FIU to…

Occupant Motion Sensors : Rotational Accelerometer Development

DOT National Transportation Integrated Search

1972-04-01

A miniature mouthpiece rotational accelerometer has been developed to measure the angular acceleration of a head during vehicle crash or impact conditions. The device has been tested in the laboratory using a shake table and in the field using dummie...