8 results on '"Soule, Terence"'
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2. Microbial community structure in polluted Baltic Sea sediments.
- Author
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Edlund, Anna, Soule, Terence, Sjöling, Sara, and Jansson, Janet K.
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OCEAN bottom , *POLLUTION , *ENVIRONMENTAL degradation , *ENVIRONMENTAL protection , *HAZARDOUS substances , *HAZARDOUS wastes , *POLLUTANTS , *MARINE sediments - Abstract
Nearly half the seabed of the Baltic Proper is incapable of supporting life of higher organisms as a consequence of oxygen depletion resulting from eutrophication. However, these areas are actually teeming with microbial life. Here we used terminal-restriction fragment length polymorphism (T-RFLP) to investigate the dominant archaeal and bacterial groups, with respect to community structure, in surface layers of bottom sediments of the Baltic Sea along a coastal pollution gradient. Both archaeal and bacterial communities formed distinct clusters along the pollution gradient and the community compositions were different at the polluted sites compared with the relatively clean reference sites. The structures of the bacterial communities were most strongly correlated to water depth, followed by organic carbon, oxygen, salinity and silicate levels. In contrast, the structures of the archaeal communities were most strongly correlated to oxygen, salinity, organic carbon, silicate and nitrate levels. Some members of the microbial communities were identified using a combination of traditional and molecular approaches. Isolates obtained on different culture media were identified by partial sequencing of their 16S rRNA genes and some novel species were found. In addition, we developed a computer program,aplaus, to elucidate the putative identities of the most dominant community members by T-RFLP. [ABSTRACT FROM AUTHOR]
- Published
- 2006
- Full Text
- View/download PDF
3. Resilient Individuals Improve Evolutionary Search.
- Author
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Soule, Terence
- Subjects
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EVOLUTIONARY computation , *ARTIFICIAL neural networks , *ARTIFICIAL intelligence , *ARTIFICIAL life , *LIFE - Abstract
Results from the artificial life community show that under some conditions evolving populations converge on broader, but less fit peaks in the fitness landscape and avoid more fit, but narrower peaks. Results from the evolutionary computation community show that over time genotypes evolve to become more resilient, where resiliency (or genetic robustness) is defined as the ability of an individual to resist the potentially negative effects of genetic operations. This article demonstrates a previously unobserved evolutionary dynamic: in populations initially favoring a low, broad fitness peak, increases in resiliency result in the population shifting to a higher, narrower fitness peak. In these cases increasing resiliency is a necessary precondition for finding narrower peaks. If increasing resiliency is restricted, for example by restricting growth, populations fail to shift to the narrower peak and remain stuck on the broader, less fit peaks. Thus, restricting growth or other resiliency-enhancing strategies may significantly inhibit evolutionary search by making it impossible for an evolutionary algorithm to find solutions represented by better, but narrower, peaks. [ABSTRACT FROM AUTHOR]
- Published
- 2006
- Full Text
- View/download PDF
4. Effects of Code Growth and Parsimony Pressure on Populations in Genetic Programming.
- Author
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Soule, Terence and Foster, James A.
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GENETICS education , *GENETIC programming - Abstract
Presents information on a study which showed that parsimony pressure can produce poorer performance in a genetic program. How the goals of performance and parsimony affects the evolutionary process; Methodology of the study; Results and discussion on the study; Conclusions.
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- 1998
- Full Text
- View/download PDF
5. Choas in a simple impact oscillator: The Bender bouncer.
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Walker, James S. and Soule, Terence
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OSCILLATOR strengths , *PHYSICS - Abstract
Presents information on a computer study of the Bender bouncer, an impact oscillator. What the bouncer consists of; Role of the barrier in the bouncer; Increase of energy due to barrier; Impact of chaos and sensitivity to the conditions.
- Published
- 1996
- Full Text
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6. An improved algorithm for the detection of genomic variation using short oligonucleotide expression microarrays.
- Author
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Settles, Matthew L., Coram, Tristan, Soule, Terence, and Robison, Barrie D.
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OLIGONUCLEOTIDES , *MICROARRAY technology , *BIOINFORMATICS , *ECOLOGICAL genetics , *ALGORITHMS , *MOLECULAR evolution , *GENETIC polymorphisms - Abstract
High-throughput microarray experiments often generate far more biological information than is required to test the experimental hypotheses. Many microarray analyses are considered finished after differential expression and additional analyses are typically not performed, leaving untapped biological information left undiscovered. This is especially true if the microarray experiment is from an ecological study of multiple populations. Comparisons across populations may also contain important genomic polymorphisms, and a subset of these polymorphisms may be identified with microarrays using techniques for the detection of single feature polymorphisms ( SFP). SFPs are differences in microarray probe level intensities caused by genetic polymorphisms such as single-nucleotide polymorphisms and small insertions/deletions and not expression differences. In this study, we provide a new algorithm for the detection of SFPs, evaluate the algorithm using existing data from two publicly available Affymetrix Barley ( Hordeum vulgare) microarray data sets and compare them to two previously published SFP detection algorithms. Results show that our algorithm provides more consistent and sensitive calling of SFPs with a lower false discovery rate. Simultaneous analysis of SFPs and differential expression is a low-cost method for the enhanced analysis of microarray data, enabling additional biological inferences to be made. [ABSTRACT FROM AUTHOR]
- Published
- 2012
- Full Text
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7. Thermal constraints on energy balance, behaviour and spatial distribution of grizzly bears.
- Author
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Rogers, Savannah A., Robbins, Charles T., Mathewson, Paul D., Carnahan, Anthony M., Manen, Frank T., Haroldson, Mark A., Porter, Warren P., Rogers, Taylor R., Soule, Terence, Long, Ryan A., and Levesque, Danielle
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GRIZZLY bear , *HEAT , *BROWN bear , *COOLING of water , *HEAT transfer - Abstract
Heat dissipation limit theory posits that energy available for growth and reproduction in endotherms is limited by their ability to dissipate heat. In mammals, endogenous heat production increases markedly during gestation and lactation, and thus female mammals may be subject to greater thermal constraints on energy expenditure than males. Such constraints likely have important implications for behaviour and population performance in a warming climate.We used a mechanistic simulation model based on the first principles of heat and mass transfer to study thermal constraints on activity (both timing and intensity) of captive female grizzly bears Ursus arctos in current and future climate scenarios. We then quantified the relative importance of regulatory behaviours for maintaining heat balance using GPS telemetry locations of lactating versus non‐lactating female bears from Yellowstone National Park, and assessed the degree to which costs of thermoregulation constrained the distribution of sampled bears in space and time.Lactating female bears benefitted considerably more from behavioural cooling mechanisms (e.g. partial submersion in cool water or bedding on cool substrate) than non‐lactating females in our simulations; the availability of water for thermoregulation increased the number of hours during which lactating females could be active by up to 60% under current climatic conditions and by up to 43% in the future climate scenario. Moreover, even in the future climate scenario, lactating bears were able to achieve heat balance 24 hr/day by thermoregulating behaviourally when water was available to facilitate cooling.The most important predictor of female grizzly bear distribution in Yellowstone, regardless of reproductive status, was elevation. However, variables associated with the thermal environment were relatively more important for predicting the distribution of lactating than non‐lactating female bears.Our results suggest that the costs of heat dissipation, which are modulated by climate, may impose constraints on the behaviour and energetics of large endotherms like grizzly bears, and that access to water for cooling will likely be an increasingly important driver of grizzly bear distribution in Yellowstone as the climate continues to warm. A free Plain Language Summary can be found within the Supporting Information of this article. [ABSTRACT FROM AUTHOR]
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- 2021
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8. Maximizing microbial degradation of perchlorate using a genetic algorithm: Media optimization
- Author
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Kucharzyk, Katarzyna H., Crawford, Ronald L., Paszczynski, Andrzej J., Soule, Terence, and Hess, Thomas F.
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PERCHLORATES , *GENETIC algorithms , *BACTERIAL cultures , *TEMPERATURE effect , *CARBON , *CHEMICAL kinetics , *CELL culture - Abstract
Abstract: Microbial communities are under constant influence of physical and chemical components in ecosystems. Shifts in conditions such as pH, temperature or carbon source concentration can translate into shifts in overall ecosystem functioning. These conditions can be manipulated in a laboratory setup using evolutionary computation methods such as genetic algorithms (GAs). In work described here, a GA methodology was successfully applied to define sets of environmental conditions for microbial enrichments and pure cultures to achieve maximum rates of perchlorate degradation. Over the course of 11 generations of optimization using a GA, we saw a statistically significant 16.45 and 16.76-fold increases in average perchlorate degradation rates by Dechlorosoma sp. strain KJ and Dechloromonas sp. strain Miss R, respectively. For two bacterial consortia, Pl6 and Cw3, 5.79 and 5.75-fold increases in average perchlorate degradation were noted. Comparison of zero-order kinetic rate constants for environmental conditions in GA-determined first and last generations of all bacterial cultures additionally showed marked increases. [Copyright &y& Elsevier]
- Published
- 2012
- Full Text
- View/download PDF
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