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Articles 1 - 7 of 7
Full-Text Articles in Physics
Testing A Thermodynamic Approach To Collective Animal Behavior In Laboratory Fish Schools, Julia A. Giannini, James G. Puckett
Testing A Thermodynamic Approach To Collective Animal Behavior In Laboratory Fish Schools, Julia A. Giannini, James G. Puckett
Physics and Astronomy Faculty Publications
Collective behaviors displayed by groups of social animals are observed frequently in nature. Understanding and predicting the behavior of complex biological systems is dependent on developing effective descriptions and models. While collective animal systems are characteristically nonequilibrium, we can employ concepts from equilibrium statistical mechanics to motivate the measurement of material-like properties in laboratory animal aggregates. Here, we present results from a new set of experiments that utilize high speed footage of two-dimensional schooling events, particle tracking, and projected static and dynamic light fields to observe and control the behavior of negatively phototaxic fish schools (Hemigrammus bleheri). First, …
Additive Modulation Of Dna-Dna Interactions By Interstitial Ions, Wei Meng, Raju Timsina, Abby Bull, Kurt Andresen, Xiangyun Qiu
Additive Modulation Of Dna-Dna Interactions By Interstitial Ions, Wei Meng, Raju Timsina, Abby Bull, Kurt Andresen, Xiangyun Qiu
Physics and Astronomy Faculty Publications
Quantitative understanding of biomolecular electrostatics, particularly involving multivalent ions and highly charged surfaces, remains lacking. Ion-modulated interactions between nucleic acids provide a model system in which electrostatics plays a dominant role. Using ordered DNA arrays neutralized by spherical cobalt3+ hexammine and Mg2+ ions, we investigate how the interstitial ions modulate DNA-DNA interactions. Using methods of ion counting, osmotic stress, and x-ray diffraction, we systematically determine thermodynamic quantities, including ion chemical potentials, ion partition, DNA osmotic pressure and force, and DNA-DNA spacing. Analyses of the multidimensional data provide quantitative insights into their interdependencies. The key finding of this study is that …
The Impact Of Base Stacking On The Conformations And Electrostatics Of Single-Stranded Dna, Alex Plumridge, Steve P. Meisburger, Kurt Andresen, Lois Pollack
The Impact Of Base Stacking On The Conformations And Electrostatics Of Single-Stranded Dna, Alex Plumridge, Steve P. Meisburger, Kurt Andresen, Lois Pollack
Physics and Astronomy Faculty Publications
Single-stranded DNA (ssDNA) is notable for its interactions with ssDNA binding proteins (SSBs) during fundamentally important biological processes including DNA repair and replication. Previous work has begun to characterize the conformational and electrostatic properties of ssDNA in association with SSBs. However, the conformational distributions of free ssDNA have been difficult to determine. To capture the vast array of ssDNA conformations in solution, we pair small angle X-ray scattering with novel ensemble fitting methods, obtaining key parameters such as the size, shape and stacking character of strands with different sequences. Complementary ion counting measurements using inductively coupled plasma atomic emission spectroscopy …
Long-Range Acoustic Interactions In Insect Swarms: An Adaptive Gravity Model, Dan Gorbonos, Reuven Ianconescu, James G. Puckett, Rui Ni, Nicholas T. Ouellette, Nir S. Gov
Long-Range Acoustic Interactions In Insect Swarms: An Adaptive Gravity Model, Dan Gorbonos, Reuven Ianconescu, James G. Puckett, Rui Ni, Nicholas T. Ouellette, Nir S. Gov
Physics and Astronomy Faculty Publications
The collective motion of groups of animals emerges from the net effect of the interactions between individual members of the group. In many cases, such as birds, fish, or ungulates, these interactions are mediated by sensory stimuli that predominantly arise from nearby neighbors. But not all stimuli in animal groups are short range. Here, we consider mating swarms of midges, which are thought to interact primarily via long-range acoustic stimuli. We exploit the similarity in form between the decay of acoustic and gravitational sources to build a model for swarm behavior. By accounting for the adaptive nature of the midges' …
Intrinsic Fluctuations And Driven Response Of Insect Swarms, Rui Ni, James G. Puckett, Eric R. Dufresne, Nicholas T. Ouellette
Intrinsic Fluctuations And Driven Response Of Insect Swarms, Rui Ni, James G. Puckett, Eric R. Dufresne, Nicholas T. Ouellette
Physics and Astronomy Faculty Publications
Animals of all sizes form groups, as acting together can convey advantages over acting alone; thus, collective animal behavior has been identified as a promising template for designing engineered systems. However, models and observations have focused predominantly on characterizing the overall group morphology, and often focus on highly ordered groups such as bird flocks. We instead study a disorganized aggregation (an insect mating swarm), and compare its natural fluctuations with the group-level response to an external stimulus. We quantify the swarm’s frequency-dependent linear response and its spectrum of intrinsic fluctuations, and show that the ratio of these two quantities has …
Time-Frequency Analysis Reveals Pairwise Interactions In Insect Swarms, James G. Puckett, Rui Ni, Nicholas T. Ouellette
Time-Frequency Analysis Reveals Pairwise Interactions In Insect Swarms, James G. Puckett, Rui Ni, Nicholas T. Ouellette
Physics and Astronomy Faculty Publications
The macroscopic emergent behavior of social animal groups is a classic example of dynamical self-organization, and is thought to arise from the local interactions between individuals. Determining these interactions from empirical data sets of real animal groups, however, is challenging. Using multicamera imaging and tracking, we studied the motion of individual flying midges in laboratory mating swarms. By performing a time-frequency analysis of the midge trajectories, we show that the midge behavior can be segmented into two distinct modes: one that is independent and composed of low-frequency maneuvers, and one that consists of higher-frequency nearly harmonic oscillations conducted in synchrony …
Functional Organization And Restoration Of The Brain Motor-Execution Network After Stroke And Rehabilitation, Sahil Bajaj, Andrew Butler, Daniel Drake, Mukesh Dhamala
Functional Organization And Restoration Of The Brain Motor-Execution Network After Stroke And Rehabilitation, Sahil Bajaj, Andrew Butler, Daniel Drake, Mukesh Dhamala
Physics and Astronomy Faculty Publications
Multiple cortical areas of the human brain motor system interact coherently in the low frequency range (<0.1 Hz), even in the absence of explicit tasks. Following stroke, cortical interactions are functionally disturbed. How these interactions are affected and how the functional organization is regained from rehabilitative treatments as people begin to recover motor behaviors has not been systematically studied. We recorded the intrinsic functional magnetic resonance imaging (fMRI) signals from 30 participants: 17 young healthy controls and 13 aged stroke survivors. Stroke participants underwent mental practice (MP) or both mental practice and physical therapy (MP+PT) within 14–51 days following stroke. We investigated the network activity of five core areas in the motor-execution network, consisting of the left primary motor area (LM1), the right primary motor area (RM1), the left pre-motor cortex (LPMC), the right pre-motor cortex (RPMC) and the supplementary motor area (SMA). We discovered that (i) the network activity dominated in the frequency range 0.06–0.08 Hz for all the regions, and for both able-bodied and stroke participants (ii) the causal information flow between the regions: LM1 and SMA, RPMC and SMA, RPMC and LM1, SMA and RM1, SMA and LPMC, was reduced significantly for stroke survivors (iii) the flow did not increase significantly after MP alone and (iv) the flow among the regions during MP+PT increased significantly. We also found that sensation and motor scores were significantly higher and correlated with directed functional connectivity measures when the stroke-survivors underwent MP+PT but not MP alone. The findings provide evidence that a combination of mental practice and physical therapy can be an effective means of treatment for stroke survivors to recover or regain the strength of motor behaviors, and that the spectra of causal information flow can be used as a reliable biomarker for evaluating rehabilitation in stroke survivors.