Trials of the urban ecologist

A group of scientists describe some of the obstacles encountered and insights gained while carrying out ecological research in and around the city of Indianapolis

Enzymatic conformational fluctuations along the reaction coordinate of cytidine deaminase

Analysis of the crystal structures for cytidine deaminase complexed with substrate analog 3-deazacytidine, transition-state analog zebularine 3,4-hydrate, and product uridine establishes significant changes in the magnitude of atomic-scale fluctuations along the (approximate) reaction coordinate of this enzyme. Differences in fluctuations between the substrate analog complex, transition-state analog complex, and product complex are monitored via changes in corresponding crystallographic temperature factors. Previously, we reported that active-site conformational disorder is substantially reduced in the transition-state complex relative to the two ground-state complexes. Here, this result is statistically corroborated by crystallographic data for fluorinated zebularine 3,4-hydrate, a second transition-state analog, and by multiple regression analysis. Multiple regression explains 70% of the total temperature factor variation through a predictive model for the average B-value of an amino acid as a function of the catalytic state of the enzyme (substrate, transition state, product) and five other physical and structural descriptors. Furthermore, correlations of atomic fluctuation magnitudes throughout the body of each complex are quantified through an auto-correlation function. The transition-state analog complex shows the greatest correlations between temperature factor magnitudes for spatially separated atoms, underscoring the strong ability of this reaction-coordinate species to "organize" enzymatic fluctuations. The catalytic significance for decreased atomic-scale motions in the transition state is discussed. A thermodynamic argument indicates that the significant decreases in local enzymatic conformational entropy at the transition state result in enhanced energetic stabilization there

Towards a formalism for mapping the spacetimes of massive compact objects: Bumpy black holes and their orbits

Observations have established that extremely compact, massive objects are common in the universe. It is generally accepted that these objects are black holes. As observations improve, it becomes possible to test this hypothesis in ever greater detail. In particular, it is or will be possible to measure the properties of orbits deep in the strong field of a black hole candidate (using x-ray timing or with gravitational-waves) and to test whether they have the characteristics of black hole orbits in general relativity. Such measurements can be used to map the spacetime of a massive compact object, testing whether the object's multipoles satisfy the strict constraints of the black hole hypothesis. Such a test requires that we compare against objects with the ``wrong'' multipole structure. In this paper, we present tools for constructing bumpy black holes: objects that are almost black holes, but that have some multipoles with the wrong value. The spacetimes which we present are good deep into the strong field of the object -- we do not use a large r expansion, except to make contact with weak field intuition. Also, our spacetimes reduce to the black hole spacetimes of general relativity when the ``bumpiness'' is set to zero. We propose bumpy black holes as the foundation for a null experiment: if black hole candidates are the black holes of general relativity, their bumpiness should be zero. By comparing orbits in a bumpy spacetime with those of an astrophysical source, observations should be able to test this hypothesis, stringently testing whether they are the black holes of general relativity. (Abridged)Comment: 16 pages + 2 appendices + 3 figures. Submitted to PR

Binary Cosmic Strings

The properties of cosmic strings have been investigated in detail for their implications in early-universe cosmology. Although many variations of the basic structure have been discovered, with implications for both the microscopic and macroscopic properties of cosmic strings, the cylindrical symmetry of the short-distance structure of the string is generally unaffected. In this paper we describe some mechanisms leading to an asymmetric structure of the string core, giving the defects a quasi-two-dimensional character. We also begin to investigate the consequences of this internal structure for the microscopic and macroscopic physics.Comment: 19 pages; uses harvmac (not included

Mapping spacetimes with LISA: inspiral of a test-body in a `quasi-Kerr' field

The future LISA detector will constitute the prime instrument for high-precision gravitational wave observations.LISA is expected to provide information for the properties of spacetime in the vicinity of massive black holes which reside in galactic nuclei.Such black holes can capture stellar-mass compact objects, which afterwards slowly inspiral,radiating gravitational waves.The body's orbital motion and the associated waveform carry information about the spacetime metric of the massive black hole,and it is possible to extract this information and experimentally identify (or not!) a Kerr black hole.In this paper we lay the foundations for a practical `spacetime-mapping' framework. Our work is based on the assumption that the massive body is not necessarily a Kerr black hole, and that the vacuum exterior spacetime is stationary axisymmetric,described by a metric which deviates slightly from the Kerr metric. We first provide a simple recipe for building such a `quasi-Kerr' metric by adding to the Kerr metric the deviation in the value of the quadrupole moment. We then study geodesic motion in this metric,focusing on equatorial orbits. We proceed by computing `kludge' waveforms which we compare with their Kerr counterparts. We find that a modest deviation from the Kerr metric is sufficient for producing a significant mismatch between the waveforms, provided we fix the orbital parameters. This result suggests that an attempt to use Kerr waveform templates for studying EMRIs around a non-Kerr object might result in serious loss of signal-to-noise ratio and total number of detected events. The waveform comparisons also unveil a `confusion' problem, that is the possibility of matching a true non-Kerr waveform with a Kerr template of different orbital parameters.Comment: 19 pages, 6 figure

Chern-Simons functional and the no-boundary proposal in Bianchi IX quantum cosmology

The Chern-Simons functional $S_{\rm CS}$ is an exact solution to the Ashtekar-Hamilton-Jacobi equation of general relativity with a nonzero cosmological constant. In this paper we consider $S_{\rm CS}$ in Bianchi type IX cosmology with $S^3$ spatial surfaces. We show that among the classical solutions generated by~$S_{\rm CS}$, there is a two-parameter family of Euclidean spacetimes that have a regular NUT-type closing. When two of the three scale factors are equal, these spacetimes reduce to a one-parameter family within the Euclidean Taub-NUT-de~Sitter metrics. For a nonzero cosmological constant, $\exp(iS_{\rm CS})$ therefore provides a semiclassical estimate to the Bianchi~IX no-boundary wave function in Ashtekar's variables.Comment: 9 pages, REVTeX v3.0. (One reference added.

Selected In-Season Nutritional Strategies to Enhance Recovery for Team Sport Athletes: A Practical Overview

Team sport athletes face a variety of nutritional challenges related to recovery during the competitive season. The purpose of this article is to review nutrition strategies related to muscle regeneration, glycogen restoration, fatigue, physical and immune health, and preparation for subsequent training bouts and competitions. Given the limited opportunities to recover between training bouts and games throughout the competitive season, athletes must be deliberate in their recovery strategy. Foundational components of recovery related to protein, carbohydrates, and fluid have been extensively reviewed and accepted. Micronutrients and supplements that may be efficacious for promoting recovery include vitamin D, omega-3 polyunsaturated fatty acids, creatine, collagen/vitamin C, and antioxidants. Curcumin and bromelain may also provide a recovery benefit during the competitive season but future research is warranted prior to incorporating supplemental dosages into the athlete's diet. Air travel poses nutritional challenges related to nutrient timing and quality. Incorporating strategies to consume efficacious micronutrients and ingredients is necessary to support athlete recovery in season

Unmanned Vehicle Systems & Operations on Air, Sea, Land

Unmanned Vehicle Systems & Operations On Air, Sea, Land is our fourth textbook in a series covering the world of Unmanned Aircraft Systems (UAS) and Counter Unmanned Aircraft Systems (CUAS). (Nichols R. K., 2018) (Nichols R. K., et al., 2019) (Nichols R. , et al., 2020)The authors have expanded their purview beyond UAS / CUAS systems. Our title shows our concern for growth and unique cyber security unmanned vehicle technology and operations for unmanned vehicles in all theaters: Air, Sea and Land – especially maritime cybersecurity and China proliferation issues. Topics include: Information Advances, Remote ID, and Extreme Persistence ISR; Unmanned Aerial Vehicles & How They Can Augment Mesonet Weather Tower Data Collection; Tour de Drones for the Discerning Palate; Underwater Autonomous Navigation & other UUV Advances; Autonomous Maritime Asymmetric Systems; UUV Integrated Autonomous Missions & Drone Management; Principles of Naval Architecture Applied to UUV’s; Unmanned Logistics Operating Safely and Efficiently Across Multiple Domains; Chinese Advances in Stealth UAV Penetration Path Planning in Combat Environment; UAS, the Fourth Amendment and Privacy; UV & Disinformation / Misinformation Channels; Chinese UAS Proliferation along New Silk Road Sea / Land Routes; Automaton, AI, Law, Ethics, Crossing the Machine – Human Barrier and Maritime Cybersecurity.Unmanned Vehicle Systems are an integral part of the US national critical infrastructure The authors have endeavored to bring a breadth and quality of information to the reader that is unparalleled in the unclassified sphere. Unmanned Vehicle (UV) Systems & Operations On Air, Sea, Land discusses state-of-the-art technology / issues facing U.S. UV system researchers / designers / manufacturers / testers. We trust our newest look at Unmanned Vehicles in Air, Sea, and Land will enrich our students and readers understanding of the purview of this wonderful technology we call UV.https://newprairiepress.org/ebooks/1035/thumbnail.jp