Mesa Isochrones and Stellar Tracks (MIST). I. Solar-scaled Models

NASA Astrophysics Data System (ADS)

Choi, Jieun; Dotter, Aaron; Conroy, Charlie; Cantiello, Matteo; Paxton, Bill; Johnson, Benjamin D.

2016-06-01

This is the first of a series of papers presenting the Modules for Experiments in Stellar Astrophysics (MESA) Isochrones and Stellar Tracks (MIST) project, a new comprehensive set of stellar evolutionary tracks and isochrones computed using MESA, a state-of-the-art open-source 1D stellar evolution package. In this work, we present models with solar-scaled abundance ratios covering a wide range of ages (5≤slant {log}({Age}) [{year}]≤slant 10.3), masses (0.1≤slant M/{M}⊙ ≤slant 300), and metallicities (-2.0≤slant [{{Z}}/{{H}}]≤slant 0.5). The models are self-consistently and continuously evolved from the pre-main sequence (PMS) to the end of hydrogen burning, the white dwarf cooling sequence, or the end of carbon burning, depending on the initial mass. We also provide a grid of models evolved from the PMS to the end of core helium burning for -4.0≤slant [{{Z}}/{{H}}]\\lt -2.0. We showcase extensive comparisons with observational constraints as well as with some of the most widely used existing models in the literature. The evolutionary tracks and isochrones can be downloaded from the project website at http://waps.cfa.harvard.edu/MIST/.

Evolution of the beta-amylase gene in the temperate grasses: Non-purifying selection, recombination, semiparalogy, homeology and phylogenetic signal.

PubMed

Minaya, Miguel; Díaz-Pérez, Antonio; Mason-Gamer, Roberta; Pimentel, Manuel; Catalán, Pilar

2015-10-01

Low-copy nuclear genes (LCNGs) have complex genetic architectures and evolutionary dynamics. However, unlike multicopy nuclear genes, LCNGs are rarely subject to gene conversion or concerted evolution, and they have higher mutation rates than organellar or nuclear ribosomal DNA markers, so they have great potential for improving the robustness of phylogenetic reconstructions at all taxonomic levels. In this study, our first objective is to evaluate the evolutionary dynamics of the LCNG β-amylase by testing for potential pseudogenization, paralogy, homeology, recombination, and phylogenetic incongruence within a broad representation of the main Pooideae lineages. Our second objective is to determine whether β-amylase shows sufficient phylogenetic signal to reconstruct the evolutionary history of the Pooid grasses. A multigenic (ITS, matK, ndhF, trnTL, and trnLF) tree of the study group provided a framework for assessing the β-amylase phylogeny. Eight accessions showed complete absence of selection, suggesting putative pseudogenic copies or other relaxed selection pressures; resolution of Vulpia alopecuros 2x clones indicated its potential (semi) paralogy; and homeologous copies of allopolyploid species Festuca simensis, F. fenas, and F. arundinacea tracked their Mediterranean origin. Two recombination events were found within early-diverged Pooideae lineages, and five within the PACCMAD clade. The unexpected phylogenetic relationships of 37 grass species (26% of the sampled species) highlight the frequent occurrence of non-treelike evolutionary events, so this LCNG should be used with caution as a phylogenetic marker. However, once the pitfalls are identified and removed, the phylogenetic reconstruction of the grasses based on the β-amylase exon+intron positions is optimal at all taxonomic levels. Copyright © 2015 Elsevier Inc. All rights reserved.

The Emergence of Life as a First-Order Phase Transition

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

Mathis, Cole; Bhattacharya, Tanmoy; Walker, Sara Imari

It is well known that life on Earth alters its environment over evolutionary and geological timescales. An important open question is whether this is a result of evolutionary optimization or a universal feature of life. In the latter case, the origin of life would be coincident with a shift in environmental conditions. Here in this paper we present a model for the emergence of life in which replicators are explicitly coupled to their environment through the recycling of a finite supply of resources. The model exhibits a dynamic, first-order phase transition from nonlife to life, where the life phase ismore » distinguished by selection on replicators. We show that environmental coupling plays an important role in the dynamics of the transition. The transition corresponds to a redistribution of matter in replicators and their environment, driven by selection on replicators, exhibiting an explosive growth in diversity as replicators are selected. The transition is accurately tracked by the mutual information shared between replicators and their environment. In the absence of successfully repartitioning system resources, the transition fails to complete, leading to the possibility of many frustrated trials before life first emerges. Often, the replicators that initiate the transition are not those that are ultimately selected. The results are consistent with the view that life's propensity to shape its environment is indeed a universal feature of replicators, characteristic of the transition from nonlife to life. We discuss the implications of these results for understanding life's emergence and evolutionary transitions more broadly.« less

The Emergence of Life as a First-Order Phase Transition

DOE PAGES

Mathis, Cole; Bhattacharya, Tanmoy; Walker, Sara Imari

2017-03-01

It is well known that life on Earth alters its environment over evolutionary and geological timescales. An important open question is whether this is a result of evolutionary optimization or a universal feature of life. In the latter case, the origin of life would be coincident with a shift in environmental conditions. Here in this paper we present a model for the emergence of life in which replicators are explicitly coupled to their environment through the recycling of a finite supply of resources. The model exhibits a dynamic, first-order phase transition from nonlife to life, where the life phase ismore » distinguished by selection on replicators. We show that environmental coupling plays an important role in the dynamics of the transition. The transition corresponds to a redistribution of matter in replicators and their environment, driven by selection on replicators, exhibiting an explosive growth in diversity as replicators are selected. The transition is accurately tracked by the mutual information shared between replicators and their environment. In the absence of successfully repartitioning system resources, the transition fails to complete, leading to the possibility of many frustrated trials before life first emerges. Often, the replicators that initiate the transition are not those that are ultimately selected. The results are consistent with the view that life's propensity to shape its environment is indeed a universal feature of replicators, characteristic of the transition from nonlife to life. We discuss the implications of these results for understanding life's emergence and evolutionary transitions more broadly.« less

The Emergence of Life as a First-Order Phase Transition

NASA Astrophysics Data System (ADS)

Mathis, Cole; Bhattacharya, Tanmoy; Imari Walker, Sara

2017-03-01

It is well known that life on Earth alters its environment over evolutionary and geological timescales. An important open question is whether this is a result of evolutionary optimization or a universal feature of life. In the latter case, the origin of life would be coincident with a shift in environmental conditions. Here we present a model for the emergence of life in which replicators are explicitly coupled to their environment through the recycling of a finite supply of resources. The model exhibits a dynamic, first-order phase transition from nonlife to life, where the life phase is distinguished by selection on replicators. We show that environmental coupling plays an important role in the dynamics of the transition. The transition corresponds to a redistribution of matter in replicators and their environment, driven by selection on replicators, exhibiting an explosive growth in diversity as replicators are selected. The transition is accurately tracked by the mutual information shared between replicators and their environment. In the absence of successfully repartitioning system resources, the transition fails to complete, leading to the possibility of many frustrated trials before life first emerges. Often, the replicators that initiate the transition are not those that are ultimately selected. The results are consistent with the view that life's propensity to shape its environment is indeed a universal feature of replicators, characteristic of the transition from nonlife to life. We discuss the implications of these results for understanding life's emergence and evolutionary transitions more broadly.

Properties of LEGUS Clusters Obtained with Different Massive-Star Evolutionary Tracks

NASA Astrophysics Data System (ADS)

Wofford, A.; Charlot, S.; Eldridge, J. J.

We compute spectral libraries for populations of coeval stars using state-of-the-art massive-star evolutionary tracks that account for different astrophysics including rotation and close-binarity. Our synthetic spectra account for stellar and nebular contributions. We use our models to obtain E(B - V ), age, and mass for six clusters in spiral galaxy NGC 1566, which have ages of < 50 Myr and masses of > 5 x 104M⊙ according to standard models. NGC 1566 was observed from the NUV to the I-band as part of the imaging Treasury HST program LEGUS: Legacy Extragalactic UV Survey. We aim to establish i) if the models provide reasonable fits to the data, ii) how well the models and photometry are able to constrain the cluster properties, and iii) how different the properties obtained with different models are.

On evolutionary climate tracks in deep mantle volatile cycle computed from numerical mantle convection simulations and its impact on the habitability of the Earth-like planets

NASA Astrophysics Data System (ADS)

Nakagawa, T.; Tajika, E.; Kadoya, S.

2017-12-01

Discussing an impact of evolution and dynamics in the Earth's deep interior on the surface climate change for the last few decades (see review by Ehlmann et al., 2016), the mantle volatile (particularly carbon) degassing in the mid-oceanic ridges seems to play a key role in understanding the evolutionary climate track for Earth-like planets (e.g. Kadoya and Tajika, 2015). However, since the mantle degassing occurs not only in the mid-oceanic ridges but also in the wedge mantle (island arc volcanism) and hotspots, to incorporate more accurate estimate of mantle degassing flux into the climate evolution framework, we developed a coupled model of surface climate-deep Earth evolution in numerical mantle convection simulations, including more accurate deep water and carbon cycle (e.g. Nakagawa and Spiegelman, 2017) with an energy balance theory of climate change. Modeling results suggest that the evolution of planetary climate computed from a developed model is basically consistent with an evolutionary climate track in simplified mantle degassing model (Kadoya and Tajika, 2015), but an occurrence timing of global (snowball) glaciation is strongly dependent on mantle degassing rate occurred with activities of surface plate motions. With this implication, the surface plate motion driven by deep mantle dynamics would play an important role in the planetary habitability of such as the Earth and Earth-like planets over geologic time-scale.

VizieR Online Data Catalog: Comparison of evolutionary tracks (Martins+, 2013)

NASA Astrophysics Data System (ADS)

Martins, F.; Palacios, A.

2013-11-01

Tables of evolutionary models for massive stars. The files m*_stol.dat correspond to models computed with the code STAREVOL. The files m*_mesa.dat correspond to models computed with the code MESA. For each code, models with initial masses equal to 7, 9, 15, 20, 25, 40 and 60M⊙ are provided. No rotation is included. The overshooting parameter f is equal to 0.01. The metallicity is solar. (14 data files).

A dynamic eco-evolutionary model predicts slow response of alpine plants to climate warming.

PubMed

Cotto, Olivier; Wessely, Johannes; Georges, Damien; Klonner, Günther; Schmid, Max; Dullinger, Stefan; Thuiller, Wilfried; Guillaume, Frédéric

2017-05-05

Withstanding extinction while facing rapid climate change depends on a species' ability to track its ecological niche or to evolve a new one. Current methods that predict climate-driven species' range shifts use ecological modelling without eco-evolutionary dynamics. Here we present an eco-evolutionary forecasting framework that combines niche modelling with individual-based demographic and genetic simulations. Applying our approach to four endemic perennial plant species of the Austrian Alps, we show that accounting for eco-evolutionary dynamics when predicting species' responses to climate change is crucial. Perennial species persist in unsuitable habitats longer than predicted by niche modelling, causing delayed range losses; however, their evolutionary responses are constrained because long-lived adults produce increasingly maladapted offspring. Decreasing population size due to maladaptation occurs faster than the contraction of the species range, especially for the most abundant species. Monitoring of species' local abundance rather than their range may likely better inform on species' extinction risks under climate change.

Determination of Fundamental Properties of an M31 Globular Cluster from Main-Sequence Photometry

NASA Astrophysics Data System (ADS)

Ma, Jun; Wu, Zhenyu; Wang, Song; Fan, Zhou; Zhou, Xu; Wu, Jianghua; Jiang, Zhaoji; Chen, Jiansheng

2010-10-01

M31 globular cluster B379 is the first extragalactic cluster whose age was determined by main-sequence photometry. In the main-sequence photometric method, the age of a cluster is obtained by fitting its color-magnitude diagram (CMD) with stellar evolutionary models. However, different stellar evolutionary models use different parameters of stellar evolution, such as range of stellar masses, different opacities and equations of state, and different recipes, and so on. So, it is interesting to check whether different stellar evolutionary models can give consistent results for the same cluster. Brown et al. constrained the age of B379 by comparing its CMD with isochrones of the 2006 VandenBerg models. Using SSP models of Bruzual & Charlot and its multiphotometry, ZMa et al. independently determined the age of B379, which is in good agreement with the determination of Brown et al. The models of Bruzual & Charlot are calculated based on the Padova evolutionary tracks. It is necessary to check whether the age of B379 as determined based on the Padova evolutionary tracks is in agreement with the determination of Brown et al.. In this article, we redetermine the age of B379 using isochrones of the Padova stellar evolutionary models. In addition, the metal abundance, the distance modulus, and the reddening value for B379 are reported. The results obtained are consistent with the previous determinations, which include the age obtained by Brown et al. This article thus confirms the consistency of the age scale of B379 between the Padova isochrones and the 2006 VandenBerg isochrones; i.e., the comparison between the results of Brown et al. and Ma et al. is meaningful. The results reported in this article of values found for B379 are: metallicity [M/H] = log(Z/Z ⊙) = -0.325, age τ = 11.0 ± 1.5 Gyr, reddening E(B - V) = 0.08, and distance modulus (m - M)0 = 24.44 ± 0.10.

Tracking the Molecular Evolution of Calcium Permeability in a Nicotinic Acetylcholine Receptor

PubMed Central

Lipovsek, Marcela; Fierro, Angélica; Pérez, Edwin G.; Boffi, Juan C.; Millar, Neil S.; Fuchs, Paul A.; Katz, Eleonora; Elgoyhen, Ana Belén

2014-01-01

Nicotinic acetylcholine receptors are a family of ligand-gated nonselective cationic channels that participate in fundamental physiological processes at both the central and the peripheral nervous system. The extent of calcium entry through ligand-gated ion channels defines their distinct functions. The α9α10 nicotinic cholinergic receptor, expressed in cochlear hair cells, is a peculiar member of the family as it shows differences in the extent of calcium permeability across species. In particular, mammalian α9α10 receptors are among the ligand-gated ion channels which exhibit the highest calcium selectivity. This acquired differential property provides the unique opportunity of studying how protein function was shaped along evolutionary history, by tracking its evolutionary record and experimentally defining the amino acid changes involved. We have applied a molecular evolution approach of ancestral sequence reconstruction, together with molecular dynamics simulations and an evolutionary-based mutagenesis strategy, in order to trace the molecular events that yielded a high calcium permeable nicotinic α9α10 mammalian receptor. Only three specific amino acid substitutions in the α9 subunit were directly involved. These are located at the extracellular vestibule and at the exit of the channel pore and not at the transmembrane region 2 of the protein as previously thought. Moreover, we show that these three critical substitutions only increase calcium permeability in the context of the mammalian but not the avian receptor, stressing the relevance of overall protein structure on defining functional properties. These results highlight the importance of tracking evolutionarily acquired changes in protein sequence underlying fundamental functional properties of ligand-gated ion channels. PMID:25193338

Cooperative combinatorial optimization: evolutionary computation case study.

PubMed

Burgin, Mark; Eberbach, Eugene

2008-01-01

This paper presents a formalization of the notion of cooperation and competition of multiple systems that work toward a common optimization goal of the population using evolutionary computation techniques. It is proved that evolutionary algorithms are more expressive than conventional recursive algorithms, such as Turing machines. Three classes of evolutionary computations are introduced and studied: bounded finite, unbounded finite, and infinite computations. Universal evolutionary algorithms are constructed. Such properties of evolutionary algorithms as completeness, optimality, and search decidability are examined. A natural extension of evolutionary Turing machine (ETM) model is proposed to properly reflect phenomena of cooperation and competition in the whole population.

Incorporating evolutionary processes into population viability models.

PubMed

Pierson, Jennifer C; Beissinger, Steven R; Bragg, Jason G; Coates, David J; Oostermeijer, J Gerard B; Sunnucks, Paul; Schumaker, Nathan H; Trotter, Meredith V; Young, Andrew G

2015-06-01

We examined how ecological and evolutionary (eco-evo) processes in population dynamics could be better integrated into population viability analysis (PVA). Complementary advances in computation and population genomics can be combined into an eco-evo PVA to offer powerful new approaches to understand the influence of evolutionary processes on population persistence. We developed the mechanistic basis of an eco-evo PVA using individual-based models with individual-level genotype tracking and dynamic genotype-phenotype mapping to model emergent population-level effects, such as local adaptation and genetic rescue. We then outline how genomics can allow or improve parameter estimation for PVA models by providing genotypic information at large numbers of loci for neutral and functional genome regions. As climate change and other threatening processes increase in rate and scale, eco-evo PVAs will become essential research tools to evaluate the effects of adaptive potential, evolutionary rescue, and locally adapted traits on persistence. © 2014 Society for Conservation Biology.

Tracking the evolutionary rise of C4 metabolism.

PubMed

Sage, Rowan F

2016-05-01

Upregulation of the C4 metabolic cycle is a major step in the evolution of C4 photosynthesis. Why this happened remains unclear, in part because of difficulties measuring the C4 cycle in situ in C3-C4 intermediate species. Now, Alonso-Cantabrana and von Caemmerer (2016) have described a new approach for quantifying C4 cycle activity, thereby providing the means to analyze its upregulation in an evolutionary context. © The Author 2016. Published by Oxford University Press on behalf of the Society for Experimental Biology.

Didactyl Tracks of Paravian Theropods (Maniraptora) from the ?Middle Jurassic of Africa

PubMed Central

Mudroch, Alexander; Richter, Ute; Joger, Ulrich; Kosma, Ralf; Idé, Oumarou; Maga, Abdoulaye

2011-01-01

Background A new dinosaur tracksite from ?Middle Jurassic sediments of the Irhazer Group on the plains of Agadez (Rep. Niger, northwest Africa) revealed extraordinarily well preserved didactyl tracks of a digitigrade bipedal trackmaker. The distinct morphology of the pes imprints indicates a theropod trackmaker from a paravian maniraptoran closely related to birds. Methodology/Principal Findings The early age and the morphological traits of the tracks allow for description of the new ichnotaxon Paravipus didactyloides. A total of 120 tracks are assigned to 5 individual trackways. The ‘medium-sized’ tracks with an average footprint length of 27.5 cm and footprint width of 23.1 cm are deeply imprinted into the track bearing sandstone. Conclusions/Significance A comparison with other didactyl tracks gives new insights into the foot morphology of advanced maniraptoran theropods and contributes to knowledge of their evolutionary history. The new ichnotaxon takes an important position in the ichnological fossil record of Gondwana and the mid-Jurassic biota worldwide, because it is among the earliest known records of paravian maniraptorans and of didactyl theropod tracks from Africa. PMID:21339816

New PARSEC data base of α-enhanced stellar evolutionary tracks and isochrones - I. Calibration with 47 Tuc (NGC 104) and the improvement on RGB bump

NASA Astrophysics Data System (ADS)

Fu, Xiaoting; Bressan, Alessandro; Marigo, Paola; Girardi, Léo; Montalbán, Josefina; Chen, Yang; Nanni, Ambra

2018-05-01

Precise studies on the Galactic bulge, globular cluster, Galactic halo, and Galactic thick disc require stellar models with α enhancement and various values of helium content. These models are also important for extra-Galactic population synthesis studies. For this purpose, we complement the existing PARSEC models, which are based on the solar partition of heavy elements, with α-enhanced partitions. We collect detailed measurements on the metal mixture and helium abundance for the two populations of 47 Tuc (NGC 104) from the literature, and calculate stellar tracks and isochrones with these α-enhanced compositions. By fitting the precise colour-magnitude diagram with HST ACS/WFC data, from low main sequence till horizontal branch (HB), we calibrate some free parameters that are important for the evolution of low mass stars like the mixing at the bottom of the convective envelope. This new calibration significantly improves the prediction of the red giant branch bump (RGBB) brightness. Comparison with the observed RGB and HB luminosity functions also shows that the evolutionary lifetimes are correctly predicted. As a further result of this calibration process, we derive the age, distance modulus, reddening, and the RGB mass-loss for 47 Tuc. We apply the new calibration and α-enhanced mixtures of the two 47 Tuc populations ([α/Fe] ˜ 0.4 and 0.2) to other metallicities. The new models reproduce the RGB bump observations much better than previous models. This new PARSEC data base, with the newly updated α-enhanced stellar evolutionary tracks and isochrones, will also be a part of the new stellar products for Gaia.

Tracking niche variation over millennial timescales in sympatric killer whale lineages

PubMed Central

Foote, Andrew D.; Newton, Jason; Ávila-Arcos, María C.; Kampmann, Marie-Louise; Samaniego, Jose A.; Post, Klaas; Rosing-Asvid, Aqqalu; Sinding, Mikkel-Holger S.; Gilbert, M. Thomas P.

2013-01-01

Niche variation owing to individual differences in ecology has been hypothesized to be an early stage of sympatric speciation. Yet to date, no study has tracked niche width over more than a few generations. In this study, we show the presence of isotopic niche variation over millennial timescales and investigate the evolutionary outcomes. Isotopic ratios were measured from tissue samples of sympatric killer whale Orcinus orca lineages from the North Sea, spanning over 10 000 years. Isotopic ratios spanned a range similar to the difference in isotopic values of two known prey items, herring Clupea harengus and harbour seal Phoca vitulina. Two proxies of the stage of speciation, lineage sorting of mitogenomes and genotypic clustering, were both weak to intermediate indicating that speciation has made little progress. Thus, our study confirms that even with the necessary ecological conditions, i.e. among-individual variation in ecology, it is difficult for sympatric speciation to progress in the face of gene flow. In contrast to some theoretical models, our empirical results suggest that sympatric speciation driven by among-individual differences in ecological niche is a slow process and may not reach completion. We argue that sympatric speciation is constrained in this system owing to the plastic nature of the behavioural traits under selection when hunting either mammals or fish. PMID:23945688

Tracking niche variation over millennial timescales in sympatric killer whale lineages.

PubMed

Foote, Andrew D; Newton, Jason; Ávila-Arcos, María C; Kampmann, Marie-Louise; Samaniego, Jose A; Post, Klaas; Rosing-Asvid, Aqqalu; Sinding, Mikkel-Holger S; Gilbert, M Thomas P

2013-10-07

Niche variation owing to individual differences in ecology has been hypothesized to be an early stage of sympatric speciation. Yet to date, no study has tracked niche width over more than a few generations. In this study, we show the presence of isotopic niche variation over millennial timescales and investigate the evolutionary outcomes. Isotopic ratios were measured from tissue samples of sympatric killer whale Orcinus orca lineages from the North Sea, spanning over 10 000 years. Isotopic ratios spanned a range similar to the difference in isotopic values of two known prey items, herring Clupea harengus and harbour seal Phoca vitulina. Two proxies of the stage of speciation, lineage sorting of mitogenomes and genotypic clustering, were both weak to intermediate indicating that speciation has made little progress. Thus, our study confirms that even with the necessary ecological conditions, i.e. among-individual variation in ecology, it is difficult for sympatric speciation to progress in the face of gene flow. In contrast to some theoretical models, our empirical results suggest that sympatric speciation driven by among-individual differences in ecological niche is a slow process and may not reach completion. We argue that sympatric speciation is constrained in this system owing to the plastic nature of the behavioural traits under selection when hunting either mammals or fish.

Tracking the Evolution of Infrastructure Systems and Mass Responses Using Publically Available Data

PubMed Central

Guan, Xiangyang; Chen, Cynthia; Work, Dan

2016-01-01

Networks can evolve even on a short-term basis. This phenomenon is well understood by network scientists, but receive little attention in empirical literature involving real-world networks. On one hand, this is due to the deceitfully fixed topology of some networks such as many physical infrastructures, whose evolution is often deemed unlikely to occur in short term; on the other hand, the lack of data prohibits scientists from studying subjects such as social networks that seem likely to evolve on a short-term basis. We show that both networks—the infrastructure network and social network—are able to demonstrate evolutionary dynamics at the system level even in the short-term, characterized by shifting between different phases as predicted in network science. We develop a methodology of tracking the evolutionary dynamics of the two networks by incorporating flows and the microstructure of networks such as motifs. This approach is applied to the human interaction network and two transportation networks (subway and taxi) in the context of Hurricane Sandy, using publically available Twitter data and transportation data. Our result shows that significant changes in the system-level structure of networks can be detected on a continuous basis. This result provides a promising channel for real-time tracking in the future. PMID:27907061

Simple versus complex models of trait evolution and stasis as a response to environmental change

NASA Astrophysics Data System (ADS)

Hunt, Gene; Hopkins, Melanie J.; Lidgard, Scott

2015-04-01

Previous analyses of evolutionary patterns, or modes, in fossil lineages have focused overwhelmingly on three simple models: stasis, random walks, and directional evolution. Here we use likelihood methods to fit an expanded set of evolutionary models to a large compilation of ancestor-descendant series of populations from the fossil record. In addition to the standard three models, we assess more complex models with punctuations and shifts from one evolutionary mode to another. As in previous studies, we find that stasis is common in the fossil record, as is a strict version of stasis that entails no real evolutionary changes. Incidence of directional evolution is relatively low (13%), but higher than in previous studies because our analytical approach can more sensitively detect noisy trends. Complex evolutionary models are often favored, overwhelmingly so for sequences comprising many samples. This finding is consistent with evolutionary dynamics that are, in reality, more complex than any of the models we consider. Furthermore, the timing of shifts in evolutionary dynamics varies among traits measured from the same series. Finally, we use our empirical collection of evolutionary sequences and a long and highly resolved proxy for global climate to inform simulations in which traits adaptively track temperature changes over time. When realistically calibrated, we find that this simple model can reproduce important aspects of our paleontological results. We conclude that observed paleontological patterns, including the prevalence of stasis, need not be inconsistent with adaptive evolution, even in the face of unstable physical environments.

Reducing Delay in Diagnosis: Multistage Recommendation Tracking.

PubMed

Wandtke, Ben; Gallagher, Sarah

2017-11-01

The purpose of this study was to determine whether a multistage tracking system could improve communication between health care providers, reducing the risk of delay in diagnosis related to inconsistent communication and tracking of radiology follow-up recommendations. Unconditional recommendations for imaging follow-up of all diagnostic imaging modalities excluding mammography (n = 589) were entered into a database and tracked through a multistage tracking system for 13 months. Tracking interventions were performed for patients for whom completion of recommended follow-up imaging could not be identified 1 month after the recommendation due date. Postintervention compliance with the follow-up recommendation required examination completion or clinical closure (i.e., biopsy, limited life expectancy or death, or subspecialist referral). Baseline radiology information system checks performed 1 month after the recommendation due date revealed timely completion of 43.1% of recommended imaging studies at our institution before intervention. Three separate tracking interventions were studied, showing effectiveness between 29.0% and 57.8%. The multistage tracking system increased the examination completion rate to 70.5% (a 52% increase) and reduced the rate of unknown follow-up compliance and the associated risk of delay in diagnosis to 13.9% (a 74% decrease). Examinations completed after tracking intervention generated revenue of 4.1 times greater than the labor cost. Performing sequential radiology recommendation tracking interventions can substantially reduce the rate of unknown follow-up compliance and add value to the health system. Unknown follow-up compliance is a risk factor for delay in diagnosis, a form of preventable medical error commonly identified in malpractice claims involving radiologists and office-based practitioners.

Evolutionary synthesis of simple stellar populations. Colours and indices

NASA Astrophysics Data System (ADS)

Kurth, O. M.; Fritze-v. Alvensleben, U.; Fricke, K. J.

1999-07-01

We construct evolutionary synthesis models for simple stellar populations using the evolutionary tracks from the Padova group (1993, 1994), theoretical colour calibrations from \\cite[Lejeune et al. (1997, 1998)]{lejeune} and fit functions for stellar atmospheric indices from \\cite[Worthey et al. (1994)]{worthey}. A Monte-Carlo technique allows us to obtain a smooth time evolution of both broad band colours in UBVRIK and a series of stellar absorption features for Single Burst Stellar Populations (SSPs). We present colours and indices for SSPs with ages from 1 \\ 10(9) yrs to 1.6 \\ 10(10) yrs and metallicities [M/H]=-2.3, -1.7, -0.7, -0.4, 0.0 and 0.4. Model colours and indices at an age of about a Hubble time are in good agreement with observed colours and indices of the Galactic and M 31 GCs.

Ultimate Realities: Deterministic and Evolutionary

PubMed Central

Moxley, Roy A

2007-01-01

References to ultimate reality commonly turn up in the behavioral literature as references to determinism. However, this determinism is often difficult to interpret. There are different kinds of determinisms as well as different kinds of ultimate realities for a behaviorist to consider. To clarify some of the issues involved, the views of ultimate realities are treated as falling along a continuum, with extreme views of complete indeterminism and complete determinism at either end and various mixes in between. Doing so brings into play evolutionary realities and the movement from indeterminism to determinism, as in Peirce's evolutionary cosmology. In addition, this framework helps to show how the views of determinism by B. F. Skinner and other behaviorists have shifted over time. PMID:22478489

9. COMPLETED ROLLING CAMERA CAR ON RAILROAD TRACK AND BRIDGE ...

Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

9. COMPLETED ROLLING CAMERA CAR ON RAILROAD TRACK AND BRIDGE LOOKING WEST, APRIL 26, 1948. (ORIGINAL PHOTOGRAPH IN POSSESSION OF DAVE WILLIS, SAN DIEGO, CALIFORNIA.) - Variable Angle Launcher Complex, Camera Car & Track, CA State Highway 39 at Morris Reservior, Azusa, Los Angeles County, CA

Track and track-side video survey technology development.

DOT National Transportation Integrated Search

2015-05-01

Researchers at HiDef/Createc have completed prototype development and testing of a novel track video surveying technology : called Track and Track-Side Video Survey (TTVS). TTVS is designed to capture clear video images of the track and track side : ...

Tracking the footsteps of an invasive plant pathogen: Intercontinental phylogeographic structure of the white-pine-blister-rust fungus, Cronartium ribicola

Treesearch

Bryce A. Richardson; Mee-Sook Kim; Ned B. Klopfenstein; Yuko Ota; Kwan Soo Woo; Richard C. Hamelin

2009-01-01

Presently, little is known about the worldwide genetic structure, diversity, or evolutionary relationships of the white-pineblister-rust fungus, Cronartium ribicola. A collaborative international effort is underway to determine the phylogeographic relationships among Asian, European, and North American sources of C. ribicola and...

The evolution of massive stars

NASA Technical Reports Server (NTRS)

1982-01-01

The hypotheses underlying theoretical studies of the evolution of massive model stars with and without mass loss are summarized. The evolutionary tracks followed by the models across theoretical Hertzsprung-Russell (HR) diagrams are compared with the observed distribution of B stars in an HR diagram. The pulsational properties of models of massive star are also described.

Pareto Design of State Feedback Tracking Control of a Biped Robot via Multiobjective PSO in Comparison with Sigma Method and Genetic Algorithms: Modified NSGAII and MATLAB's Toolbox

PubMed Central

Mahmoodabadi, M. J.; Taherkhorsandi, M.; Bagheri, A.

2014-01-01

An optimal robust state feedback tracking controller is introduced to control a biped robot. In the literature, the parameters of the controller are usually determined by a tedious trial and error process. To eliminate this process and design the parameters of the proposed controller, the multiobjective evolutionary algorithms, that is, the proposed method, modified NSGAII, Sigma method, and MATLAB's Toolbox MOGA, are employed in this study. Among the used evolutionary optimization algorithms to design the controller for biped robots, the proposed method operates better in the aspect of designing the controller since it provides ample opportunities for designers to choose the most appropriate point based upon the design criteria. Three points are chosen from the nondominated solutions of the obtained Pareto front based on two conflicting objective functions, that is, the normalized summation of angle errors and normalized summation of control effort. Obtained results elucidate the efficiency of the proposed controller in order to control a biped robot. PMID:24616619

More rapid climate change promotes evolutionary rescue through selection for increased dispersal distance.

PubMed

Boeye, Jeroen; Travis, Justin M J; Stoks, Robby; Bonte, Dries

2013-02-01

Species can either adapt to new conditions induced by climate change or shift their range in an attempt to track optimal environmental conditions. During current range shifts, species are simultaneously confronted with a second major anthropogenic disturbance, landscape fragmentation. Using individual-based models with a shifting climate window, we examine the effect of different rates of climate change on the evolution of dispersal distances through changes in the genetically determined dispersal kernel. Our results demonstrate that the rate of climate change is positively correlated to the evolved dispersal distances although too fast climate change causes the population to crash. When faced with realistic rates of climate change, greater dispersal distances evolve than those required for the population to keep track of the climate, thereby maximizing population size. Importantly, the greater dispersal distances that evolve when climate change is more rapid, induce evolutionary rescue by facilitating the population in crossing large gaps in the landscape. This could ensure population persistence in case of range shifting in fragmented landscapes. Furthermore, we highlight problems in using invasion speed as a proxy for potential range shifting abilities under climate change.

Genomic investigations of evolutionary dynamics and epistasis in microbial evolution experiments.

PubMed

Jerison, Elizabeth R; Desai, Michael M

2015-12-01

Microbial evolution experiments enable us to watch adaptation in real time, and to quantify the repeatability and predictability of evolution by comparing identical replicate populations. Further, we can resurrect ancestral types to examine changes over evolutionary time. Until recently, experimental evolution has been limited to measuring phenotypic changes, or to tracking a few genetic markers over time. However, recent advances in sequencing technology now make it possible to extensively sequence clones or whole-population samples from microbial evolution experiments. Here, we review recent work exploiting these techniques to understand the genomic basis of evolutionary change in experimental systems. We first focus on studies that analyze the dynamics of genome evolution in microbial systems. We then survey work that uses observations of sequence evolution to infer aspects of the underlying fitness landscape, concentrating on the epistatic interactions between mutations and the constraints these interactions impose on adaptation. Copyright © 2015 Elsevier Ltd. All rights reserved.

Evolution: like any other science it is predictable.

PubMed

Morris, Simon Conway

2010-01-12

Evolutionary biology rejoices in the diversity of life, but this comes at a cost: other than working in the common framework of neo-Darwinian evolution, specialists in, for example, diatoms and mammals have little to say to each other. Accordingly, their research tends to track the particularities and peculiarities of a given group and seldom enquires whether there are any wider or deeper sets of explanations. Here, I present evidence in support of the heterodox idea that evolution might look to a general theory that does more than serve as a tautology ('evolution explains evolution'). Specifically, I argue that far from its myriad of products being fortuitous and accidental, evolution is remarkably predictable. Thus, I urge a move away from the continuing obsession with Darwinian mechanisms, which are entirely uncontroversial. Rather, I emphasize why we should seek explanations for ubiquitous evolutionary convergence, as well as the emergence of complex integrated systems. At present, evolutionary theory seems to be akin to nineteenth-century physics, blissfully unaware of the imminent arrival of quantum mechanics and general relativity. Physics had its Newton, biology its Darwin: evolutionary biology now awaits its Einstein.

Evolution: like any other science it is predictable

PubMed Central

Conway Morris, Simon

2010-01-01

Evolutionary biology rejoices in the diversity of life, but this comes at a cost: other than working in the common framework of neo-Darwinian evolution, specialists in, for example, diatoms and mammals have little to say to each other. Accordingly, their research tends to track the particularities and peculiarities of a given group and seldom enquires whether there are any wider or deeper sets of explanations. Here, I present evidence in support of the heterodox idea that evolution might look to a general theory that does more than serve as a tautology (‘evolution explains evolution’). Specifically, I argue that far from its myriad of products being fortuitous and accidental, evolution is remarkably predictable. Thus, I urge a move away from the continuing obsession with Darwinian mechanisms, which are entirely uncontroversial. Rather, I emphasize why we should seek explanations for ubiquitous evolutionary convergence, as well as the emergence of complex integrated systems. At present, evolutionary theory seems to be akin to nineteenth-century physics, blissfully unaware of the imminent arrival of quantum mechanics and general relativity. Physics had its Newton, biology its Darwin: evolutionary biology now awaits its Einstein. PMID:20008391

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

Neugent, Kathryn F.; Massey, Philip; Skiff, Brian

Due to their transitionary nature, yellow supergiants (YSGs) provide a critical challenge for evolutionary modeling. Previous studies within M31 and the Small Magellanic Cloud show that the Geneva evolutionary models do a poor job at predicting the lifetimes of these short-lived stars. Here, we extend this study to the Large Magellanic Cloud (LMC) while also investigating the galaxy's red supergiant (RSG) content. This task is complicated by contamination by Galactic foreground stars that color and magnitude criteria alone cannot weed out. Therefore, we use proper-motions and the LMC's large systemic radial velocity ({approx}278 km s{sup -1}) to separate out thesemore » foreground dwarfs. After observing nearly 2000 stars, we identified 317 probable YSGs, 6 possible YSGs, and 505 probable RSGs. Foreground contamination of our YSG sample was {approx}80%, while that of the RSG sample was only 3%. By placing the YSGs on the Hertzsprung-Russell diagram and comparing them against the evolutionary tracks, we find that new Geneva evolutionary models do an exemplary job at predicting both the locations and the lifetimes of these transitory objects.« less

Masses and ages of Delta Scuti stars in eclipsing binary systems

NASA Astrophysics Data System (ADS)

Tsvetkov, Ts. G.; Petrova, Ts. C.

1993-05-01

By using data mainly from Frolov et al. (1982) for four Delta Scuti stars in eclipsing binary systems, AB Cas, Y Cam, RS Cha, and AI Hya, their physical parameters, distances, and radial pulsation modes are determined. The evolutionary track systems of Iben (1967), Paczynski (1970), and Maeder and Meynet (1988) are interpolated in order to estimate evolutionary masses Me and ages t of these variables. Their pulsation masses MQ are estimated from the fitting formulae of Faulkner (1977) and Fitch (1981). Our estimates of evolutionary masses M(e) and pulsation masses M(Q) are close to the masses M determined by Frolov et al. from the star binarity. The only exception is AB Cas, for which there is no agreement between certain star parameters. Another, independent approach is also applied to the stars RS Cha and AI Hya: by using their photometric indices b - y and c(1) from the catalog of Lopez de Coca et al. (1990) and appropriate photometric calibrations, other sets of physical parameters, distances, modes, ages, and evolutionary and pulsation masses of both variables are obtained.

Real Time Optima Tracking Using Harvesting Models of the Genetic Algorithm

NASA Technical Reports Server (NTRS)

Baskaran, Subbiah; Noever, D.

1999-01-01

Tracking optima in real time propulsion control, particularly for non-stationary optimization problems is a challenging task. Several approaches have been put forward for such a study including the numerical method called the genetic algorithm. In brief, this approach is built upon Darwinian-style competition between numerical alternatives displayed in the form of binary strings, or by analogy to 'pseudogenes'. Breeding of improved solution is an often cited parallel to natural selection in.evolutionary or soft computing. In this report we present our results of applying a novel model of a genetic algorithm for tracking optima in propulsion engineering and in real time control. We specialize the algorithm to mission profiling and planning optimizations, both to select reduced propulsion needs through trajectory planning and to explore time or fuel conservation strategies.

Testosterone abolishes implicit subordination in social anxiety.

PubMed

Terburg, David; Syal, Supriya; Rosenberger, Lisa A; Heany, Sarah J; Stein, Dan J; Honk, Jack van

2016-10-01

Neuro-evolutionary theories describe social anxiety as habitual subordinate tendencies acquired through a recursive cycle of social defeat and submissive reactions. If so, the steroid hormone testosterone might be of therapeutic value, as testosterone is a main force behind implicit dominance drive in many species including humans. We combined these two theories to investigate whether the tendency to submit to the dominance of others is an implicit mechanism in social anxiety (Study-1), and whether this can be relieved through testosterone administration (Study-2). Using interactive eye-tracking we demonstrate that socially anxious humans more rapidly avert gaze from subliminal angry eye contact (Study-1). We replicate this effect of implicit subordination in social anxiety in an independent sample, which is subsequently completely abolished after a single placebo-controlled sublingual testosterone administration (Study-2). These findings provide crucial evidence for hormonal and behavioral treatment strategies that specifically target mechanisms of dominance and subordination in social anxiety. Copyright © 2016 Elsevier Ltd. All rights reserved.

Radiation transfer of models of massive star formation. III. The evolutionary sequence

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

Zhang, Yichen; Tan, Jonathan C.; Hosokawa, Takashi, E-mail: yichen.zhang@yale.edu, E-mail: jt@astro.ufl.edu, E-mail: takashi.hosokawa@phys.s.u-tokyo.ac.jp

2014-06-20

We present radiation transfer simulations of evolutionary sequences of massive protostars forming from massive dense cores in environments of high mass surface densities, based on the Turbulent Core Model. The protostellar evolution is calculated with a multi-zone numerical model, with the accretion rate regulated by feedback from an evolving disk wind outflow cavity. The disk evolution is calculated assuming a fixed ratio of disk to protostellar mass, while the core envelope evolution assumes an inside-out collapse of the core with a fixed outer radius. In this framework, an evolutionary track is determined by three environmental initial conditions: the core massmore » M{sub c} , the mass surface density of the ambient clump Σ{sub cl}, and the ratio of the core's initial rotational to gravitational energy β {sub c}. Evolutionary sequences with various M{sub c} , Σ{sub cl}, and β {sub c} are constructed. We find that in a fiducial model with M{sub c} = 60 M {sub ☉}, Σ{sub cl} = 1 g cm{sup –2}, and β {sub c} = 0.02, the final mass of the protostar reaches at least ∼26 M {sub ☉}, making the final star formation efficiency ≳ 0.43. For each of the evolutionary tracks, radiation transfer simulations are performed at selected stages, with temperature profiles, spectral energy distributions (SEDs), and multiwavelength images produced. At a given stage, the envelope temperature depends strongly on Σ{sub cl}, with higher temperatures in a higher Σ{sub cl} core, but only weakly on M{sub c} . The SED and MIR images depend sensitively on the evolving outflow cavity, which gradually widens as the protostar grows. The fluxes at ≲ 100 μm increase dramatically, and the far-IR peaks move to shorter wavelengths. The influence of Σ{sub cl} and β {sub c} (which determines disk size) are discussed. We find that, despite scatter caused by different M{sub c} , Σ{sub cl}, β {sub c}, and inclinations, sources at a given evolutionary stage appear in similar regions of color-color diagrams, especially when using colors with fluxes at ≳ 70 μm, where scatter due to inclination is minimized, implying that such diagrams can be useful diagnostic tools for identifying the evolutionary stages of massive protostars. We discuss how intensity profiles along or perpendicular to the outflow axis are affected by environmental conditions and source evolution and can thus act as additional diagnostics of the massive star formation process.« less

Emergence of evolutionary cycles in size-structured food webs.

PubMed

Ritterskamp, Daniel; Bearup, Daniel; Blasius, Bernd

2016-11-07

The interplay of population dynamics and evolution within ecological communities has been of long-standing interest for ecologists and can give rise to evolutionary cycles, e.g. taxon cycles. Evolutionary cycling was intensely studied in small communities with asymmetric competition; the latter drives the evolutionary processes. Here we demonstrate that evolutionary cycling arises naturally in larger communities if trophic interactions are present, since these are intrinsically asymmetric. To investigate the evolutionary dynamics of a trophic community, we use an allometric food web model. We find that evolutionary cycles emerge naturally for a large parameter ranges. The origin of the evolutionary dynamics is an intrinsic asymmetry in the feeding kernel which creates an evolutionary ratchet, driving species towards larger bodysize. We reveal different kinds of cycles: single morph cycles, and coevolutionary and mixed cycling of complete food webs. The latter refers to the case where each trophic level can have different evolutionary dynamics. We discuss the generality of our findings and conclude that ongoing evolution in food webs may be more frequent than commonly believed. Copyright © 2016 Elsevier Ltd. All rights reserved.

A Globally Optimal Particle Tracking Technique for Stereo Imaging Velocimetry Experiments

NASA Technical Reports Server (NTRS)

McDowell, Mark

2008-01-01

An important phase of any Stereo Imaging Velocimetry experiment is particle tracking. Particle tracking seeks to identify and characterize the motion of individual particles entrained in a fluid or air experiment. We analyze a cylindrical chamber filled with water and seeded with density-matched particles. In every four-frame sequence, we identify a particle track by assigning a unique track label for each camera image. The conventional approach to particle tracking is to use an exhaustive tree-search method utilizing greedy algorithms to reduce search times. However, these types of algorithms are not optimal due to a cascade effect of incorrect decisions upon adjacent tracks. We examine the use of a guided evolutionary neural net with simulated annealing to arrive at a globally optimal assignment of tracks. The net is guided both by the minimization of the search space through the use of prior limiting assumptions about valid tracks and by a strategy which seeks to avoid high-energy intermediate states which can trap the net in a local minimum. A stochastic search algorithm is used in place of back-propagation of error to further reduce the chance of being trapped in an energy well. Global optimization is achieved by minimizing an objective function, which includes both track smoothness and particle-image utilization parameters. In this paper we describe our model and present our experimental results. We compare our results with a nonoptimizing, predictive tracker and obtain an average increase in valid track yield of 27 percent

Monash Chemical Yields Project (Monχey) Element production in low- and intermediate-mass stars

NASA Astrophysics Data System (ADS)

Doherty, Carolyn; Lattanzio, John; Angelou, George; Campbell, Simon W.; Church, Ross; Constantino, Thomas; Cristallo, Sergio; Gil-Pons, Pilar; Karakas, Amanda; Lugaro, Maria; Stancliffe, Richard

The Monχey project will provide a large and homogeneous set of stellar yields for the low- and intermediate- mass stars and has applications particularly to galactic chemical evolution modelling. We describe our detailed grid of stellar evolutionary models and corresponding nucleosynthetic yields for stars of initial mass 0.8 M⊙ up to the limit for core collapse supernova (CC-SN) ~ 10 M⊙. Our study covers a broad range of metallicities, ranging from the first, primordial stars (Z = 0) to those of super-solar metallicity (Z = 0.04). The models are evolved from the zero-age main-sequence until the end of the asymptotic giant branch (AGB) and the nucleosynthesis calculations include all elements from H to Bi. A major innovation of our work is the first complete grid of heavy element nucleosynthetic predictions for primordial AGB stars as well as the inclusion of extra-mixing processes (in this case thermohaline) during the red giant branch. We provide a broad overview of our results with implications for galactic chemical evolution as well as highlight interesting results such as heavy element production in dredge-out events of super-AGB stars. We briefly introduce our forthcoming web-based database which provides the evolutionary tracks, structural properties, internal/surface nucleosynthetic compositions and stellar yields. Our web interface includes user- driven plotting capabilities with output available in a range of formats. Our nucleosynthetic results will be available for further use in post processing calculations for dust production yields.

A field experiment demonstrating plant life-history evolution and its eco-evolutionary feedback to seed predator populations.

PubMed

Agrawal, Anurag A; Johnson, Marc T J; Hastings, Amy P; Maron, John L

2013-05-01

The extent to which evolutionary change occurs in a predictable manner under field conditions and how evolutionary changes feed back to influence ecological dynamics are fundamental, yet unresolved, questions. To address these issues, we established eight replicate populations of native common evening primrose (Oenothera biennis). Each population was planted with 18 genotypes in identical frequency. By tracking genotype frequencies with microsatellite DNA markers over the subsequent three years (up to three generations, ≈5,000 genotyped plants), we show rapid and consistent evolution of two heritable plant life-history traits (shorter life span and later flowering time). This rapid evolution was only partially the result of differential seed production; genotypic variation in seed germination also contributed to the observed evolutionary response. Since evening primrose genotypes exhibited heritable variation for resistance to insect herbivores, which was related to flowering time, we predicted that evolutionary changes in genotype frequencies would feed back to influence populations of a seed predator moth that specializes on O. biennis. By the conclusion of the experiment, variation in the genotypic composition among our eight replicate field populations was highly predictive of moth abundance. These results demonstrate how rapid evolution in field populations of a native plant can influence ecological interactions.

Evolutionary drivers of mast-seeding in a long-lived desert shrub

Treesearch

Susan E. Meyer; Burton K. Pendleton

2015-01-01

Patterns of reproductive output in blackbrush did not track current growing season precipitation, but instead were regulated by prior-year weather cues. The strength of the response to the masting cue depended on habitat quality, with higher mean reproductive output, shorter intervals between years of high seed production, and lower CVp at more favorable sites...

The Computational Complexity of RaceTrack

NASA Astrophysics Data System (ADS)

Holzer, Markus; McKenzie, Pierre

Martin Gardner in the early 1970's described the game of RaceTrack [M. Gardner, Mathematical games - Sim, Chomp and Race Track: new games for the intellect (and not for Lady Luck), Scientific American, 228(1):108-115, Jan. 1973]. Here we study the complexity of deciding whether a RaceTrack player has a winning strategy. We first prove that the complexity of RaceTrack reachability, i.e., whether the finish line can be reached or not, crucially depends on whether the car can touch the edge of the carriageway (racetrack): the non-touching variant is NL-complete while the touching variant is equivalent to the undirected grid graph reachability problem, a problem in L but not known to be L-hard. Then we show that single-player RaceTrack is NL-complete, regardless of whether driving on the track boundary is allowed or not, and that deciding the existence of a winning strategy in Gardner's original two-player game is P-complete. Hence RaceTrack is an example of a game that is interesting to play despite the fact that deciding the existence of a winning strategy is most likely not NP-hard.

Evolutionary history of Ebola virus.

PubMed

Li, Y H; Chen, S P

2014-06-01

Since Ebola virus was discovered in 1970s, the virus has persisted in Africa and sporadic fatal outbreaks in humans and non-human primates have been reported. However, the evolutionary history of Ebola virus remains unclear. In this study, 27 Ebola virus strains with complete glycoprotein genes, including five species (Zaire, Sudan, Reston, Tai Forest, Bundibugyo), were analysed. Here, we propose a hypothesis of the evolutionary history of Ebola virus which will be helpful to investigate the molecular evolution of these viruses.

Software Assists in Extensive Environmental Auditing

NASA Technical Reports Server (NTRS)

Callac, Christopher; Matherne, Charlie

2002-01-01

The Base Enivronmental Management System (BEMS) is a Web-based application program for managing and tracking audits by the Environmental Office of Stennis Space Center in conformity with standard 14001 of the International Organization for Standardization (ISO 14001). (This standard specifies requirements for an environmental-management system.) BEMS saves time by partly automating what were previously manual processes for creating audit checklists; recording and tracking audit results; issuing, tracking, and implementing corrective-action requests (CARs); tracking continuous improvements (CIs); and tracking audit results and statistics. BEMS consists on an administration module and an auditor module. As its name suggests, the administration module is used to administer the audit. It helps administrators to edit the list of audit questions; edit the list of audit locations; assign manditory questions to locations; track, approve, and edit CARs; and edit completed audits. The auditor module is used by auditors to perform audits and record audit results: It helps the auditors to create audit checklists, complete audits, view completed audits, create CARs, record and acknowledge CIs, and generate reports from audit results.

Software Assists in Extensive Environmental Auditing

NASA Technical Reports Server (NTRS)

Callac, Christopher; Matherne, Charlie

2003-01-01

The Base Environmental Management System (BEMS) is a Web-based application program for managing and tracking audits by the Environmental Office of Stennis Space Center in conformity with standard 14001 of the International Organization for Standardization (ISO 14001). (This standard specifies requirements for an environmental-management system.) BEMS saves time by partly automating what were previously manual processes for creating audit checklists; recording and tracking audit results; issuing, tracking, and implementing corrective-action requests (CARs); tracking continuous improvements (CIs); and tracking audit results and statistics. BEMS consists of an administration module and an auditor module. As its name suggests, the administration module is used to administer the audit. It helps administrators to edit the list of audit questions; edit the list of audit locations; assign mandatory questions to locations; track, approve, and edit CARs; and edit completed audits. The auditor module is used by auditors to perform audits and record audit results: it helps the auditors to create audit checklists, complete audits, view completed audits, create CARs, record and acknowledge CIs, and generate reports from audit results.

Software Assists in Extensive Environmental Auditing

NASA Technical Reports Server (NTRS)

Callac, Christopher; Matherne, Charlie; Selinsky, T.

2002-01-01

The Base Environmental Management System (BEMS) is a Web-based application program for managing and tracking audits by the Environmental Office of Stennis Space Center in conformity with standard 14001 of the International Organization for Standardization (ISO 14001). (This standard specifies requirements for an environmental-management system.) BEMS saves time by partly automating what were previously manual processes for creating audit checklists; recording and tracking audit results; issuing, tracking, and implementing corrective-action requests (CARs); tracking continuous improvements (CIs); and tracking audit results and statistics. BEMS consists of an administration module and an auditor module. As its name suggests, the administration module is used to administer the audit. It helps administrators to edit the list of audit questions; edit the list of audit locations; assign mandatory questions to locations; track, approve, and edit CARs; and edit completed audits. The auditor module is used by auditors to perform audits and record audit results: it helps the auditors to create audit checklists, complete audits, view completed audits, create CARs, record and acknowledge CIs, and generate reports from audit results.

From protostellar to pre-main-sequence evolution

NASA Astrophysics Data System (ADS)

D'Antona, F.

I summarize the status of pre-main-sequence evolutionary tracks starting from the first steps dating back to the concept of Hayashi track. Understanding of the dynamical protostellar phase in the vision of Palla & Stahler, who introduced the concept of the deuterium burning thermostat and of stellar birthline, provided for a long time a link between the dynamical and hydrostatic evolution. Disk accretion however changed considerably the view, but re-introducing some ambiguities which must still be solved. The limitations and uncertainties in the mass and age determination from models for young stellar objects are summarized, but the burning of light elements is still a powerful observational signature.

Multivalency of NDC80 in the outer kinetochore is essential to track shortening microtubules and generate forces

PubMed Central

2018-01-01

Presence of multiple copies of the microtubule-binding NDC80 complex is an evolutionary conserved feature of kinetochores, points of attachment of chromosomes to spindle microtubules. This may enable multivalent attachments to microtubules, with implications that remain unexplored. Using recombinant human kinetochore components, we show that while single NDC80 complexes do not track depolymerizing microtubules, reconstituted particles containing the NDC80 receptor CENP-T bound to three or more NDC80 complexes do so effectively, as expected for a kinetochore force coupler. To study multivalency systematically, we engineered modules allowing incremental addition of NDC80 complexes. The modules’ residence time on microtubules increased exponentially with the number of NDC80 complexes. Modules with two or more complexes tracked depolymerizing microtubules with increasing efficiencies, and stalled and rescued microtubule depolymerization in a force-dependent manner when conjugated to cargo. Our observations indicate that NDC80, rather than through biased diffusion, tracks depolymerizing microtubules by harnessing force generated during microtubule disassembly. PMID:29629870

EvoluCode: Evolutionary Barcodes as a Unifying Framework for Multilevel Evolutionary Data.

PubMed

Linard, Benjamin; Nguyen, Ngoc Hoan; Prosdocimi, Francisco; Poch, Olivier; Thompson, Julie D

2012-01-01

Evolutionary systems biology aims to uncover the general trends and principles governing the evolution of biological networks. An essential part of this process is the reconstruction and analysis of the evolutionary histories of these complex, dynamic networks. Unfortunately, the methodologies for representing and exploiting such complex evolutionary histories in large scale studies are currently limited. Here, we propose a new formalism, called EvoluCode (Evolutionary barCode), which allows the integration of different evolutionary parameters (eg, sequence conservation, orthology, synteny …) in a unifying format and facilitates the multilevel analysis and visualization of complex evolutionary histories at the genome scale. The advantages of the approach are demonstrated by constructing barcodes representing the evolution of the complete human proteome. Two large-scale studies are then described: (i) the mapping and visualization of the barcodes on the human chromosomes and (ii) automatic clustering of the barcodes to highlight protein subsets sharing similar evolutionary histories and their functional analysis. The methodologies developed here open the way to the efficient application of other data mining and knowledge extraction techniques in evolutionary systems biology studies. A database containing all EvoluCode data is available at: http://lbgi.igbmc.fr/barcodes.

More rapid climate change promotes evolutionary rescue through selection for increased dispersal distance

PubMed Central

Boeye, Jeroen; Travis, Justin M J; Stoks, Robby; Bonte, Dries

2013-01-01

Species can either adapt to new conditions induced by climate change or shift their range in an attempt to track optimal environmental conditions. During current range shifts, species are simultaneously confronted with a second major anthropogenic disturbance, landscape fragmentation. Using individual-based models with a shifting climate window, we examine the effect of different rates of climate change on the evolution of dispersal distances through changes in the genetically determined dispersal kernel. Our results demonstrate that the rate of climate change is positively correlated to the evolved dispersal distances although too fast climate change causes the population to crash. When faced with realistic rates of climate change, greater dispersal distances evolve than those required for the population to keep track of the climate, thereby maximizing population size. Importantly, the greater dispersal distances that evolve when climate change is more rapid, induce evolutionary rescue by facilitating the population in crossing large gaps in the landscape. This could ensure population persistence in case of range shifting in fragmented landscapes. Furthermore, we highlight problems in using invasion speed as a proxy for potential range shifting abilities under climate change. PMID:23467649

The Evolutionary History of Protein Domains Viewed by Species Phylogeny

PubMed Central

Yang, Song; Bourne, Philip E.

2009-01-01

Background Protein structural domains are evolutionary units whose relationships can be detected over long evolutionary distances. The evolutionary history of protein domains, including the origin of protein domains, the identification of domain loss, transfer, duplication and combination with other domains to form new proteins, and the formation of the entire protein domain repertoire, are of great interest. Methodology/Principal Findings A methodology is presented for providing a parsimonious domain history based on gain, loss, vertical and horizontal transfer derived from the complete genomic domain assignments of 1015 organisms across the tree of life. When mapped to species trees the evolutionary history of domains and domain combinations is revealed, and the general evolutionary trend of domain and combination is analyzed. Conclusions/Significance We show that this approach provides a powerful tool to study how new proteins and functions emerged and to study such processes as horizontal gene transfer among more distant species. PMID:20041107

Global priorities for conserving the evolutionary history of sharks, rays and chimaeras.

PubMed

Stein, R William; Mull, Christopher G; Kuhn, Tyler S; Aschliman, Neil C; Davidson, Lindsay N K; Joy, Jeffrey B; Smith, Gordon J; Dulvy, Nicholas K; Mooers, Arne O

2018-02-01

In an era of accelerated biodiversity loss and limited conservation resources, systematic prioritization of species and places is essential. In terrestrial vertebrates, evolutionary distinctness has been used to identify species and locations that embody the greatest share of evolutionary history. We estimate evolutionary distinctness for a large marine vertebrate radiation on a dated taxon-complete tree for all 1,192 chondrichthyan fishes (sharks, rays and chimaeras) by augmenting a new 610-species molecular phylogeny using taxonomic constraints. Chondrichthyans are by far the most evolutionarily distinct of all major radiations of jawed vertebrates-the average species embodies 26 million years of unique evolutionary history. With this metric, we identify 21 countries with the highest richness, endemism and evolutionary distinctness of threatened species as targets for conservation prioritization. On average, threatened chondrichthyans are more evolutionarily distinct-further motivating improved conservation, fisheries management and trade regulation to avoid significant pruning of the chondrichthyan tree of life.

Using Evolutionary Theory to Guide Mental Health Research.

PubMed

Durisko, Zachary; Mulsant, Benoit H; McKenzie, Kwame; Andrews, Paul W

2016-03-01

Evolutionary approaches to medicine can shed light on the origins and etiology of disease. Such an approach may be especially useful in psychiatry, which frequently addresses conditions with heterogeneous presentation and unknown causes. We review several previous applications of evolutionary theory that highlight the ways in which psychiatric conditions may persist despite and because of natural selection. One lesson from the evolutionary approach is that some conditions currently classified as disorders (because they cause distress and impairment) may actually be caused by functioning adaptations operating "normally" (as designed by natural selection). Such conditions suggest an alternative illness model that may generate alternative intervention strategies. Thus, the evolutionary approach suggests that psychiatry should sometimes think differently about distress and impairment. The complexity of the human brain, including normal functioning and potential for dysfunctions, has developed over evolutionary time and has been shaped by natural selection. Understanding the evolutionary origins of psychiatric conditions is therefore a crucial component to a complete understanding of etiology. © The Author(s) 2016.

Using Evolutionary Theory to Guide Mental Health Research

PubMed Central

Mulsant, Benoit H.; McKenzie, Kwame; Andrews, Paul W.

2016-01-01

Evolutionary approaches to medicine can shed light on the origins and etiology of disease. Such an approach may be especially useful in psychiatry, which frequently addresses conditions with heterogeneous presentation and unknown causes. We review several previous applications of evolutionary theory that highlight the ways in which psychiatric conditions may persist despite and because of natural selection. One lesson from the evolutionary approach is that some conditions currently classified as disorders (because they cause distress and impairment) may actually be caused by functioning adaptations operating “normally” (as designed by natural selection). Such conditions suggest an alternative illness model that may generate alternative intervention strategies. Thus, the evolutionary approach suggests that psychiatry should sometimes think differently about distress and impairment. The complexity of the human brain, including normal functioning and potential for dysfunctions, has developed over evolutionary time and has been shaped by natural selection. Understanding the evolutionary origins of psychiatric conditions is therefore a crucial component to a complete understanding of etiology. PMID:27254091

Evolutionary relevance facilitates visual information processing.

PubMed

Jackson, Russell E; Calvillo, Dusti P

2013-11-03

Visual search of the environment is a fundamental human behavior that perceptual load affects powerfully. Previously investigated means for overcoming the inhibitions of high perceptual load, however, generalize poorly to real-world human behavior. We hypothesized that humans would process evolutionarily relevant stimuli more efficiently than evolutionarily novel stimuli, and evolutionary relevance would mitigate the repercussions of high perceptual load during visual search. Animacy is a significant component to evolutionary relevance of visual stimuli because perceiving animate entities is time-sensitive in ways that pose significant evolutionary consequences. Participants completing a visual search task located evolutionarily relevant and animate objects fastest and with the least impact of high perceptual load. Evolutionarily novel and inanimate objects were located slowest and with the highest impact of perceptual load. Evolutionary relevance may importantly affect everyday visual information processing.

Absolute measures of the completeness of the fossil record

NASA Technical Reports Server (NTRS)

Foote, M.; Sepkoski, J. J. Jr; Sepkoski JJ, J. r. (Principal Investigator)

1999-01-01

Measuring the completeness of the fossil record is essential to understanding evolution over long timescales, particularly when comparing evolutionary patterns among biological groups with different preservational properties. Completeness measures have been presented for various groups based on gaps in the stratigraphic ranges of fossil taxa and on hypothetical lineages implied by estimated evolutionary trees. Here we present and compare quantitative, widely applicable absolute measures of completeness at two taxonomic levels for a broader sample of higher taxa of marine animals than has previously been available. We provide an estimate of the probability of genus preservation per stratigraphic interval, and determine the proportion of living families with some fossil record. The two completeness measures use very different data and calculations. The probability of genus preservation depends almost entirely on the Palaeozoic and Mesozoic records, whereas the proportion of living families with a fossil record is influenced largely by Cenozoic data. These measurements are nonetheless highly correlated, with outliers quite explicable, and we find that completeness is rather high for many animal groups.

Tracking modern human population history from linguistic and cranial phenotype

PubMed Central

Reyes-Centeno, Hugo; Harvati, Katerina; Jäger, Gerhard

2016-01-01

Languages and genes arguably follow parallel evolutionary trajectories, descending from a common source and subsequently differentiating. However, although common ancestry is established within language families, it remains controversial whether language preserves a deep historical signal. To address this question, we evaluate the association between linguistic and geographic distances across 265 language families, as well as between linguistic, geographic, and cranial distances among eleven populations from Africa, Asia, and Australia. We take advantage of differential population history signals reflected by human cranial anatomy, where temporal bone shape reliably tracks deep population history and neutral genetic changes, while facial shape is more strongly associated with recent environmental effects. We show that linguistic distances are strongly geographically patterned, even within widely dispersed groups. However, they are correlated predominantly with facial, rather than temporal bone, morphology, suggesting that variation in vocabulary likely tracks relatively recent events and possibly population contact. PMID:27833101

Measuring Fundamental Parameters of Substellar Objects. I. Surface Gravities

NASA Astrophysics Data System (ADS)

Mohanty, Subhanjoy; Basri, Gibor; Jayawardhana, Ray; Allard, France; Hauschildt, Peter; Ardila, David

2004-07-01

We present an analysis of high-resolution optical spectra for a sample of very young, mid- to late-M, low-mass stellar and substellar objects: 11 in the Upper Scorpius association, and two (GG Tau Ba and Bb) in the Taurus star-forming region. Effective temperatures and surface gravities are derived from a multiple-feature spectral analysis using TiO, Na I, and K I, through comparison with the latest synthetic spectra. We show that these spectral diagnostics complement each other, removing degeneracies with temperature and gravity in the behavior of each. In combination, they allow us to determine temperature to within 50 K and gravity to within 0.25 dex, in very cool young objects. Our high-resolution spectral analysis does not require extinction estimates. Moreover, it yields temperatures and gravities independent of theoretical evolutionary models (although our estimates do depend on the synthetic spectral modeling). We find that our gravities for most of the sample agree remarkably well with the isochrone predictions for the likely cluster ages. However, discrepancies appear in our coolest targets: these appear to have significantly lower gravity (by up to 0.75 dex) than our hotter objects, even though our entire sample covers a relatively narrow range in effective temperature (~300 K). This drop in gravity is also implied by intercomparisons of the data alone, without recourse to synthetic spectra. We consider, and argue against, dust opacity, cool stellar spots, or metallicity differences leading to the observed spectral effects; a real decline in gravity is strongly indicated. Such gravity variations are contrary to the predictions of the evolutionary tracks, causing improbably low ages to be inferred from the tracks for our coolest targets. Through a simple consideration of contraction timescales, we quantify the age errors introduced into the tracks through the particular choice of initial conditions and demonstrate that they can be significant for low-mass objects that are only a few megayears old. However, we also find that these errors appear insufficient to explain the magnitude of the age offsets in our lowest gravity targets. We venture that this apparent age offset may arise from evolutionary model uncertainties related to accretion, deuterium burning and/or convection effects. Finally, when combined with photometry and distance information, our technique for deriving surface gravities and effective temperatures provides a way of obtaining masses and radii for substellar objects independent of evolutionary models; radius and mass determinations are presented in Paper II.

Towards resolving the complete fern tree of life.

PubMed

Lehtonen, Samuli

2011-01-01

In the past two decades, molecular systematic studies have revolutionized our understanding of the evolutionary history of ferns. The availability of large molecular data sets together with efficient computer algorithms, now enables us to reconstruct evolutionary histories with previously unseen completeness. Here, the most comprehensive fern phylogeny to date, representing over one-fifth of the extant global fern diversity, is inferred based on four plastid genes. Parsimony and maximum-likelihood analyses provided a mostly congruent results and in general supported the prevailing view on the higher-level fern systematics. At a deep phylogenetic level, the position of horsetails depended on the optimality criteria chosen, with horsetails positioned as the sister group either of Marattiopsida-Polypodiopsida clade or of the Polypodiopsida. The analyses demonstrate the power of using a 'supermatrix' approach to resolve large-scale phylogenies and reveal questionable taxonomies. These results provide a valuable background for future research on fern systematics, ecology, biogeography and other evolutionary studies.

The first megatheropod tracks from the Lower Jurassic upper Elliot Formation, Karoo Basin, Lesotho

PubMed Central

Bordy, E. M.; Abrahams, M.; Knoll, F.; McPhee, B. W.

2017-01-01

A palaeosurface with one megatheropod trackway and several theropod tracks and trackways from the Lower Jurassic upper Elliot Formation (Stormberg Group, Karoo Supergroup) in western Lesotho is described. The majority of the theropod tracks are referable to either Eubrontes or Kayentapus based on their morphological characteristics. The larger megatheropod tracks are 57 cm long and have no Southern Hemisphere equivalent. Morphologically, they are more similar to the Early Jurassic Kayentapus, as well as the much younger Upper Cretaceous ichnogenus Irenesauripus, than to other contemporaneous ichnogenera in southern Africa. Herein they have been placed within the ichnogenus Kayentapus and described as a new ichnospecies (Kayentapus ambrokholohali). The tracks are preserved on ripple marked, very fine-grained sandstone of the Lower Jurassic upper Elliot Formation, and thus were made after the end-Triassic mass extinction event (ETE). This new megatheropod trackway site marks the first occurrence of very large carnivorous dinosaurs (estimated body length >8–9 meters) in the Early Jurassic of southern Gondwana, an evolutionary strategy that was repeatedly pursued and amplified in the following ~135 million years, until the next major biotic crisis at the end-Cretaceous. PMID:29069093

Near earth tracking/data exploration

NASA Technical Reports Server (NTRS)

Spearing, Robert

1990-01-01

The future challenges facing NASA's data acquisition program are examined, with emphasis on the near-earth exploration activity and the associated data systems. It is noted that the process that is being followed is an evolutionary one: new technologies are being gradually integrated into currently operating systems. For example, advanced handling is already being introduced into such programs as the Space Telescope and the Gamma Ray Source Observatory System.

Tracking the origins of Yakutian horses and the genetic basis for their fast adaptation to subarctic environments.

PubMed

Librado, Pablo; Der Sarkissian, Clio; Ermini, Luca; Schubert, Mikkel; Jónsson, Hákon; Albrechtsen, Anders; Fumagalli, Matteo; Yang, Melinda A; Gamba, Cristina; Seguin-Orlando, Andaine; Mortensen, Cecilie D; Petersen, Bent; Hoover, Cindi A; Lorente-Galdos, Belen; Nedoluzhko, Artem; Boulygina, Eugenia; Tsygankova, Svetlana; Neuditschko, Markus; Jagannathan, Vidhya; Thèves, Catherine; Alfarhan, Ahmed H; Alquraishi, Saleh A; Al-Rasheid, Khaled A S; Sicheritz-Ponten, Thomas; Popov, Ruslan; Grigoriev, Semyon; Alekseev, Anatoly N; Rubin, Edward M; McCue, Molly; Rieder, Stefan; Leeb, Tosso; Tikhonov, Alexei; Crubézy, Eric; Slatkin, Montgomery; Marques-Bonet, Tomas; Nielsen, Rasmus; Willerslev, Eske; Kantanen, Juha; Prokhortchouk, Egor; Orlando, Ludovic

2015-12-15

Yakutia, Sakha Republic, in the Siberian Far East, represents one of the coldest places on Earth, with winter record temperatures dropping below -70 °C. Nevertheless, Yakutian horses survive all year round in the open air due to striking phenotypic adaptations, including compact body conformations, extremely hairy winter coats, and acute seasonal differences in metabolic activities. The evolutionary origins of Yakutian horses and the genetic basis of their adaptations remain, however, contentious. Here, we present the complete genomes of nine present-day Yakutian horses and two ancient specimens dating from the early 19th century and ∼5,200 y ago. By comparing these genomes with the genomes of two Late Pleistocene, 27 domesticated, and three wild Przewalski's horses, we find that contemporary Yakutian horses do not descend from the native horses that populated the region until the mid-Holocene, but were most likely introduced following the migration of the Yakut people a few centuries ago. Thus, they represent one of the fastest cases of adaptation to the extreme temperatures of the Arctic. We find cis-regulatory mutations to have contributed more than nonsynonymous changes to their adaptation, likely due to the comparatively limited standing variation within gene bodies at the time the population was founded. Genes involved in hair development, body size, and metabolic and hormone signaling pathways represent an essential part of the Yakutian horse adaptive genetic toolkit. Finally, we find evidence for convergent evolution with native human populations and woolly mammoths, suggesting that only a few evolutionary strategies are compatible with survival in extremely cold environments.

Monash Chemical Yields Project (Monχey) - Element production in low- and intermediate-mass stars of metallicities Z = 0 to 0.04

NASA Astrophysics Data System (ADS)

Doherty, Carolyn Louise; Lattanzio, John; Angelou, George; Wattana Campbell, Simon; Church, Ross; Constantino, Thomas; Cristallo, Sergio; Gil-Pons, Pilar; Karakas, Amanda; Lugaro, Maria; Stancliffe, Richard James

2015-08-01

The Monχey project provides a large and homogeneous set of stellar yields for the low- and intermediate- mass stars and has applications particularly to galactic chemical evolution modelling.We present a detailed grid of stellar evolutionary models and corresponding nucleosynthetic yields for stars of initial mass 0.8 M⊙ up to the limit for core collapse supernova ≈ 10 M⊙. Our study covers a broad range of metallicities, ranging from the first, primordial stars (Z=0) to those of super-solar metallicity (Z=0.04). The models are evolved from the zero-age main-sequence until the end of the asymptotic giant branch (AGB) and the nucleosynthesis calculations include all elements from H to Bi.A major innovation of our work is the first complete grid of heavy element nucleosynthetic predictions for primordial AGB stars as well as the inclusion of extra-mixing processes (in this case thermohaline) during the red giant branch. We provide a broad overview of our results with implications for galactic chemical evolution as well as highlight interesting results such as heavy element production in dredge-out events of super-AGB stars.We briefly introduce our easy to use web-based database which provides the evolutionary tracks, structural properties, internal/surface nucleosynthetic compositions and stellar yields. Our web interface includes user- driven plotting capabilities with output available in a range of formats. Our nucleosynthetic results are available for further use in post processing calculations for dust production yields.

Age Spreads and the Temperature Dependence of Age Estimates in Upper Sco

NASA Astrophysics Data System (ADS)

Fang, Qiliang; Herczeg, Gregory J.; Rizzuto, Aaron

2017-06-01

Past estimates for the age of the Upper Sco Association are typically 11–13 Myr for intermediate-mass stars and 4–5 Myr for low-mass stars. In this study, we simulate populations of young stars to investigate whether this apparent dependence of estimated age on spectral type may be explained by the star formation history of the association. Solar and intermediate mass stars begin their pre-main sequence evolution on the Hayashi track, with fully convective interiors and cool photospheres. Intermediate-mass stars quickly heat up and transition onto the radiative Henyey track. As a consequence, for clusters in which star formation occurs on a timescale similar to that of the transition from a convective to a radiative interior, discrepancies in ages will arise when ages are calculated as a function of temperature instead of mass. Simple simulations of a cluster with constant star formation over several Myr may explain about half of the difference in inferred ages versus photospheric temperature; speculative constructions that consist of a constant star formation followed by a large supernova-driven burst could fully explain the differences, including those between F and G stars where evolutionary tracks may be more accurate. The age spreads of low-mass stars predicted from these prescriptions for star formation are consistent with the observed luminosity spread of Upper Sco. The conclusion that a lengthy star formation history will yield a temperature dependence in ages is expected from the basic physics of pre-main sequence evolution, and is qualitatively robust to the large uncertainties in pre-main sequence evolutionary models.

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

Fang Qiliang; Herczeg, Gregory J.; Rizzuto, Aaron

Past estimates for the age of the Upper Sco Association are typically 11–13 Myr for intermediate-mass stars and 4–5 Myr for low-mass stars. In this study, we simulate populations of young stars to investigate whether this apparent dependence of estimated age on spectral type may be explained by the star formation history of the association. Solar and intermediate mass stars begin their pre-main sequence evolution on the Hayashi track, with fully convective interiors and cool photospheres. Intermediate-mass stars quickly heat up and transition onto the radiative Henyey track. As a consequence, for clusters in which star formation occurs on amore » timescale similar to that of the transition from a convective to a radiative interior, discrepancies in ages will arise when ages are calculated as a function of temperature instead of mass. Simple simulations of a cluster with constant star formation over several Myr may explain about half of the difference in inferred ages versus photospheric temperature; speculative constructions that consist of a constant star formation followed by a large supernova-driven burst could fully explain the differences, including those between F and G stars where evolutionary tracks may be more accurate. The age spreads of low-mass stars predicted from these prescriptions for star formation are consistent with the observed luminosity spread of Upper Sco. The conclusion that a lengthy star formation history will yield a temperature dependence in ages is expected from the basic physics of pre-main sequence evolution, and is qualitatively robust to the large uncertainties in pre-main sequence evolutionary models.« less

Strong and consistent natural selection associated with armour reduction in sticklebacks.

PubMed

LE Rouzic, Arnaud; Østbye, Kjartan; Klepaker, Tom O; Hansen, Thomas F; Bernatchez, Louis; Schluter, Dolph; Vøllestad, L Asbjørn

2011-06-01

Measuring the strength of natural selection is tremendously important in evolutionary biology, but remains a challenging task. In this work, we analyse the characteristics of selection for a morphological change (lateral-plate reduction) in the threespine stickleback Gasterosteus aculeatus. Adaptation to freshwater, leading with the reduction or loss of the bony lateral armour, has occurred in parallel on numerous occasions in this species. Completely-plated and low-plated sticklebacks were introduced into a pond, and the phenotypic changes were tracked for 20 years. Fish from the last generation were genotyped for the Ectodysplasin-A (Eda) locus, the major gene involved in armour development. We found a strong fitness advantage for the freshwater-type fish (on average, 20% fitness advantage for the freshwater morph, and 92% for the freshwater genotype). The trend is best explained by assuming that this fitness advantage is maximum at the beginning of the invasion and decreases with time. Such fitness differences provide a quantifiable example of rapid selection-driven phenotypic evolution associated with environmental change in a natural population. © 2011 Blackwell Publishing Ltd.

Landscape Analysis of Global Health Tracks in United States Pediatric Residencies: Moving Toward Standards.

PubMed

Watts, Jennifer; Russ, Christiana; St Clair, Nicole E; Uwemedimo, Omolara Thomas

2018-03-28

The number of pediatric Global Health (GH) tracks has more than doubled in less than 10 years. The goal of this study was to describe the characteristics of the pediatric GH tracks to identify commonalities and differences in track structure, funding, and education. In addition, we also identified demographic, institutional, and residency-related factors that were significantly associated with educational offerings and logistical challenges. A cross-sectional survey was electronically administered to pediatric residency programs with GH tracks. Statistical analyses included frequencies to describe GH track characteristics. Fisher's exact tests were used to identify bivariate associations between track structure and funding with educational offerings and logistical challenges. Leaders of 32 pediatric GH tracks (67%) completed the survey. The majority of GH tracks were completed within the 3 years of residency (94%) and identified a GH track director (100%); however, tracks varied in size, enrollment methods, domestic and international partnerships, funding, and evaluations. Dedicated faculty time and GH track budget amounts were associated with more robust infrastructure pertaining to resident international electives, including funding and mentorship. Many tracks did not meet American Academy of Pediatrics recommended standards for clinical international rotations. Despite the presence of multiple similarities among pediatric GH tracks, there are large variations in track structure, education, and funding. The results from this study support the proposal of a formal definition and minimum standards for a GH track, which may provide a framework for quality, consistency, and comparison of GH tracks. Copyright © 2018. Published by Elsevier Inc.

The Role of Major Gas-rich Mergers on the Evolution of Galaxies from the Blue Cloud to the Red Sequence

NASA Astrophysics Data System (ADS)

Guo, Rui; Hao, Cai-Na; Xia, X. Y.; Mao, Shude; Shi, Yong

2016-07-01

With the aim of exploring the fast evolutionary path from the blue cloud of star-forming galaxies to the red sequence of quiescent galaxies in the local universe, we select a local advanced merging infrared luminous and ultraluminous galaxy (adv-merger (U)LIRGs) sample and perform careful dust extinction corrections to investigate their positions in the star formation rate-M *, u - r, and NUV - r color-mass diagrams. The sample consists of 89 (U)LIRGs at the late merger stage, obtained from cross-correlating the Infrared Astronomical Satellite Point Source Catalog Redshift Survey and 1 Jy ULIRGs samples with the Sloan Digital Sky Survey DR7 database. Our results show that 74 % +/- 5 % of adv-merger (U)LIRGs are localized above the 1σ line of the local star-forming galaxy main sequence. We also find that all adv-merger (U)LIRGs are more massive than and as blue as the blue cloud galaxies after corrections for Galactic and internal dust extinctions, with 95 % +/- 2 % and 81 % +/- 4 % of them outside the blue cloud on the u - r and NUV - r color-mass diagrams, respectively. These results, combined with the short timescale for exhausting the molecular gas reservoir in adv-merger (U)LIRGs (3× {10}7 to 3× {10}8 years), imply that the adv-merger (U)LIRGs are likely at the starting point of the fast evolutionary track previously proposed by several groups. While the number density of adv-merger (U)LIRGs is only ˜ 0.1 % of the blue cloud star-forming galaxies in the local universe, this evolutionary track may play a more important role at high redshift.

Fitness declines towards range limits and local adaptation to climate affect dispersal evolution during climate-induced range shifts.

PubMed

Hargreaves, A L; Bailey, S F; Laird, R A

2015-08-01

Dispersal ability will largely determine whether species track their climatic niches during climate change, a process especially important for populations at contracting (low-latitude/low-elevation) range limits that otherwise risk extinction. We investigate whether dispersal evolution at contracting range limits is facilitated by two processes that potentially enable edge populations to experience and adjust to the effects of climate deterioration before they cause extinction: (i) climate-induced fitness declines towards range limits and (ii) local adaptation to a shifting climate gradient. We simulate a species distributed continuously along a temperature gradient using a spatially explicit, individual-based model. We compare range-wide dispersal evolution during climate stability vs. directional climate change, with uniform fitness vs. fitness that declines towards range limits (RLs), and for a single climate genotype vs. multiple genotypes locally adapted to temperature. During climate stability, dispersal decreased towards RLs when fitness was uniform, but increased when fitness declined towards RLs, due to highly dispersive genotypes maintaining sink populations at RLs, increased kin selection in smaller populations, and an emergent fitness asymmetry that favoured dispersal in low-quality habitat. However, this initial dispersal advantage at low-fitness RLs did not facilitate climate tracking, as it was outweighed by an increased probability of extinction. Locally adapted genotypes benefited from staying close to their climate optima; this selected against dispersal under stable climates but for increased dispersal throughout shifting ranges, compared to cases without local adaptation. Dispersal increased at expanding RLs in most scenarios, but only increased at the range centre and contracting RLs given local adaptation to climate. © 2015 European Society For Evolutionary Biology. Journal of Evolutionary Biology © 2015 European Society For Evolutionary Biology.

Arginine deiminase pathway enzymes: evolutionary history in metamonads and other eukaryotes.

PubMed

Novák, Lukáš; Zubáčová, Zuzana; Karnkowska, Anna; Kolisko, Martin; Hroudová, Miluše; Stairs, Courtney W; Simpson, Alastair G B; Keeling, Patrick J; Roger, Andrew J; Čepička, Ivan; Hampl, Vladimír

2016-10-06

Multiple prokaryotic lineages use the arginine deiminase (ADI) pathway for anaerobic energy production by arginine degradation. The distribution of this pathway among eukaryotes has been thought to be very limited, with only two specialized groups living in low oxygen environments (Parabasalia and Diplomonadida) known to possess the complete set of all three enzymes. We have performed an extensive survey of available sequence data in order to map the distribution of these enzymes among eukaryotes and to reconstruct their phylogenies. We have found genes for the complete pathway in almost all examined representatives of Metamonada, the anaerobic protist group that includes parabasalids and diplomonads. Phylogenetic analyses indicate the presence of the complete pathway in the last common ancestor of metamonads and heterologous transformation experiments suggest its cytosolic localization in the metamonad ancestor. Outside Metamonada, the complete pathway occurs rarely, nevertheless, it was found in representatives of most major eukaryotic clades. Phylogenetic relationships of complete pathways are consistent with the presence of the Archaea-derived ADI pathway in the last common ancestor of all eukaryotes, although other evolutionary scenarios remain possible. The presence of the incomplete set of enzymes is relatively common among eukaryotes and it may be related to the fact that these enzymes are involved in other cellular processes, such as the ornithine-urea cycle. Single protein phylogenies suggest that the evolutionary history of all three enzymes has been shaped by frequent gene losses and horizontal transfers, which may sometimes be connected with their diverse roles in cellular metabolism.

Genetic evolution, plasticity, and bet-hedging as adaptive responses to temporally autocorrelated fluctuating selection: A quantitative genetic model.

PubMed

Tufto, Jarle

2015-08-01

Adaptive responses to autocorrelated environmental fluctuations through evolution in mean reaction norm elevation and slope and an independent component of the phenotypic variance are analyzed using a quantitative genetic model. Analytic approximations expressing the mutual dependencies between all three response modes are derived and solved for the joint evolutionary outcome. Both genetic evolution in reaction norm elevation and plasticity are favored by slow temporal fluctuations, with plasticity, in the absence of microenvironmental variability, being the dominant evolutionary outcome for reasonable parameter values. For fast fluctuations, tracking of the optimal phenotype through genetic evolution and plasticity is limited. If residual fluctuations in the optimal phenotype are large and stabilizing selection is strong, selection then acts to increase the phenotypic variance (bet-hedging adaptive). Otherwise, canalizing selection occurs. If the phenotypic variance increases with plasticity through the effect of microenvironmental variability, this shifts the joint evolutionary balance away from plasticity in favor of genetic evolution. If microenvironmental deviations experienced by each individual at the time of development and selection are correlated, however, more plasticity evolves. The adaptive significance of evolutionary fluctuations in plasticity and the phenotypic variance, transient evolution, and the validity of the analytic approximations are investigated using simulations. © 2015 The Author(s). Evolution © 2015 The Society for the Study of Evolution.

Evolutionary biochemistry: revealing the historical and physical causes of protein properties

PubMed Central

Harms, Michael J.; Thornton, Joseph W.

2014-01-01

The repertoire of proteins and nucleic acids in the living world is determined by evolution; their properties are determined by the laws of physics and chemistry. Explanations of these two kinds of causality — the purviews of evolutionary biology and biochemistry, respectively — are typically pursued in isolation, but many fundamental questions fall squarely at the interface of fields. Here we articulate the paradigm of evolutionary biochemistry, which aims to dissect the physical mechanisms and evolutionary processes by which biological molecules diversified and to reveal how their physical architecture facilitates and constrains their evolution. We show how an integration of evolution with biochemistry moves us towards a more complete understanding of why biological molecules have the properties that they do. PMID:23864121

Observation vs. theory: testing the synthetic IR colours of young very low mass stars/brown dwarfs using the evolutionary tracks

NASA Astrophysics Data System (ADS)

Tottle, Jonathan; Mohanty, Subhanjoy

2013-07-01

Our ability to accurately derive stellar properties from spectral energy distributions (SEDs) depends on how well they can be fit with atmospheric models. The AMES-Dusty synthetic spectra (Allard et al., 2001), which incorporate dust grains suspended in the stellar atmosphere, are commonly used to fit SEDs of very low mass stars (VLMS) and brown dwarfs (BDs). Recently, the same group has produced an updated model named BT-Settl (Allard et al., 2012) that allow these grains to gradually settle out of the atmosphere at cooler temperatures. Using these models it is now possible to produce the NIR colours across the main sequence from spectral types M to T. However, one significant area in which these Dusty and Settl models have not been thoroughly tested is in PMS VLMS/BDs. We use empirical IR colours of PMS M-dwarfs to show that both of these models show significant discrepancies with observations. We find that the synthetic spectra imply a temperature up to 500K cooler than expected for these objects from the theoretical evolutionary tracks for their estimated ages. We postulate that the problem lies mainly with the spectra; and if so, we conjecture that an incorrect H2O opacity may be to blame, aided by additional dust effects.

47 CFR 64.1320 - Payphone call tracking system audits.

Code of Federal Regulations, 2010 CFR

2010-10-01

... 47 Telecommunication 3 2010-10-01 2010-10-01 false Payphone call tracking system audits. 64.1320... call tracking system audits. (a) Unless it has entered into an alternative compensation arrangement... Completing Carrier must undergo an audit of its § 64.1310(a)(1) tracking system by an independent third party...

Sheehan Suicidality Tracking Scale (Sheehan-STS)

PubMed Central

2009-01-01

Objective: Accurate and prospective assessments of treatment-emergent suicidal thoughts and behaviors are essential to both clinical care and randomized clinical trials. The Sheehan Suicidality Tracking Scale is a prospective, patient self-report or clinician-administered rating scale that tracks both treatment-emergent suicidal ideation and behaviors. The Sheehan Suicidality Tracking Scale was incorporated into a multicenter, randomized, double-blind, placebo-controlled, and active comparator study examining the efficacy of an experimental corticotropin-releasing factor antagonist (BMS-562086) for the treatment of generalized anxiety disorder. Method: The Sheehan Suicidality Tracking Scale was administered to subjects at baseline, Week 2, Week 4, and Week 8 or early termination. Subjects completed theSheehan Suicidality Tracking Scale by self report. The Sheehan Suicidality Tracking Scale was designated as an exploratory outcome measure in the study protocol, and post-hoc analyses were performed to examine the performance of the Sheehan Suicidality Tracking Scale. Results: A total of 82 subjects completed the Sheehan Suicidality Tracking Scale during the course of the study. Altogether, these subjects provided 297 completed Sheehan Suicidality Tracking Scale ratings across the study time points. Sixty-one subjects (n=25 placebo, n=24 BMS-562086, and n=12 escitalopram) had a baseline and at least one post-baseline Sheehan Suicidality Tracking Scale measurement. The mean change from baseline at Week 8 in the Sheehan Suicidality Tracking Scale total score was -0.10, -0.02, and -0.06 for escitalopram, placebo, and BMS-562086 groups, respectively. The sensitivity of the Sheehan Suicidality Tracking Scale and HAM-D Item #3 (suicide) for identifying subjects with suicidal thoughts or behaviors was 100 percent and 63 percent, respectively. Conclusions: The Sheehan Suicidality Tracking Scale may be a sensitive psychometric tool to prospectively assess for treatment-emergent suicidal thoughts and behaviors. Despite the small sample size and low occurrence of suicidal ideation during the course of this clinical trial, the self-reported Sheehan Suicidality Tracking Scale demonstrated increased sensitivity over the rater administered HAM-D Item #3 in identifying suicide related ideations and behaviors. Further research in larger study samples as well as in other psychiatric disorders are needed. PMID:19724740

Evolutionary Dynamic Multiobjective Optimization Via Kalman Filter Prediction.

PubMed

Muruganantham, Arrchana; Tan, Kay Chen; Vadakkepat, Prahlad

2016-12-01

Evolutionary algorithms are effective in solving static multiobjective optimization problems resulting in the emergence of a number of state-of-the-art multiobjective evolutionary algorithms (MOEAs). Nevertheless, the interest in applying them to solve dynamic multiobjective optimization problems has only been tepid. Benchmark problems, appropriate performance metrics, as well as efficient algorithms are required to further the research in this field. One or more objectives may change with time in dynamic optimization problems. The optimization algorithm must be able to track the moving optima efficiently. A prediction model can learn the patterns from past experience and predict future changes. In this paper, a new dynamic MOEA using Kalman filter (KF) predictions in decision space is proposed to solve the aforementioned problems. The predictions help to guide the search toward the changed optima, thereby accelerating convergence. A scoring scheme is devised to hybridize the KF prediction with a random reinitialization method. Experimental results and performance comparisons with other state-of-the-art algorithms demonstrate that the proposed algorithm is capable of significantly improving the dynamic optimization performance.

Reconstructed ancestral enzymes reveal that negative selection drove the evolution of substrate specificity in ADP-dependent kinases.

PubMed

Castro-Fernandez, Víctor; Herrera-Morande, Alejandra; Zamora, Ricardo; Merino, Felipe; Gonzalez-Ordenes, Felipe; Padilla-Salinas, Felipe; Pereira, Humberto M; Brandão-Neto, Jose; Garratt, Richard C; Guixe, Victoria

2017-09-22

One central goal in molecular evolution is to pinpoint the mechanisms and evolutionary forces that cause an enzyme to change its substrate specificity; however, these processes remain largely unexplored. Using the glycolytic ADP-dependent kinases of archaea, including the orders Thermococcales , Methanosarcinales , and Methanococcales , as a model and employing an approach involving paleoenzymology, evolutionary statistics, and protein structural analysis, we could track changes in substrate specificity during ADP-dependent kinase evolution along with the structural determinants of these changes. To do so, we studied five key resurrected ancestral enzymes as well as their extant counterparts. We found that a major shift in function from a bifunctional ancestor that could phosphorylate either glucose or fructose 6-phosphate (fructose-6-P) as a substrate to a fructose 6-P-specific enzyme was started by a single amino acid substitution resulting in negative selection with a ground-state mode against glucose and a subsequent 1,600-fold change in specificity of the ancestral protein. This change rendered the residual phosphorylation of glucose a promiscuous and physiologically irrelevant activity, highlighting how promiscuity may be an evolutionary vestige of ancestral enzyme activities, which have been eliminated over time. We also could reconstruct the evolutionary history of substrate utilization by using an evolutionary model of discrete binary characters, indicating that substrate uses can be discretely lost or acquired during enzyme evolution. These findings exemplify how negative selection and subtle enzyme changes can lead to major evolutionary shifts in function, which can subsequently generate important adaptive advantages, for example, in improving glycolytic efficiency in Thermococcales . © 2017 by The American Society for Biochemistry and Molecular Biology, Inc.

Adaptive Tracking Control for Robots With an Interneural Computing Scheme.

PubMed

Tsai, Feng-Sheng; Hsu, Sheng-Yi; Shih, Mau-Hsiang

2018-04-01

Adaptive tracking control of mobile robots requires the ability to follow a trajectory generated by a moving target. The conventional analysis of adaptive tracking uses energy minimization to study the convergence and robustness of the tracking error when the mobile robot follows a desired trajectory. However, in the case that the moving target generates trajectories with uncertainties, a common Lyapunov-like function for energy minimization may be extremely difficult to determine. Here, to solve the adaptive tracking problem with uncertainties, we wish to implement an interneural computing scheme in the design of a mobile robot for behavior-based navigation. The behavior-based navigation adopts an adaptive plan of behavior patterns learning from the uncertainties of the environment. The characteristic feature of the interneural computing scheme is the use of neural path pruning with rewards and punishment interacting with the environment. On this basis, the mobile robot can be exploited to change its coupling weights in paths of neural connections systematically, which can then inhibit or enhance the effect of flow elimination in the dynamics of the evolutionary neural network. Such dynamical flow translation ultimately leads to robust sensory-to-motor transformations adapting to the uncertainties of the environment. A simulation result shows that the mobile robot with the interneural computing scheme can perform fault-tolerant behavior of tracking by maintaining suitable behavior patterns at high frequency levels.

Tinbergen's "four questions" provides a formal framework for a more complete understanding of prosocial biases in favour of attractive people.

PubMed

Stephen, Ian D; Burke, Darren; Sulikowski, Danielle

2017-01-01

We adopt Tinbergen's (1963) "four questions" approach to strengthen the criticism by Maestripieri et al. of the non-evolutionary accounts of favouritism toward attractive individuals, by showing which levels of explanation are lacking in these accounts. We also use this approach to propose ways in which the evolutionary account may be extended and strengthened.

Commentary: An Exciting Evolutionary Framework for New Bridges between Social-Emotional and Cognitive Development--A Reflection on Suor et al. (2017)

ERIC Educational Resources Information Center

Kochanska, Grazyna; Goffin, Kathryn C.

2017-01-01

Suor et al. (2017) present a compelling new evolutionary framework that offers an alternative interpretation of the well-established findings of cognitive deficits in children raised in harsh early environments. They argue that such findings do not convey a complete picture of those children's cognitive development, because children's cognition…

Spanning the Great Divide between Tenure-Track and Non-Tenure-Track Faculty

ERIC Educational Resources Information Center

Kezar, Adrianna

2012-01-01

In academia, there are two different worlds, one inhabited by tenure-track and the other by non-tenure-track faculty. In the first, people encourage faculty to become involved in a series of important reforms that increase student success, completion, and learning. In this first world, people envision faculty simultaneously increasing their…

Multi-Hamiltonian structure of Plebanski's second heavenly equation

NASA Astrophysics Data System (ADS)

Neyzi, F.; Nutku, Y.; Sheftel, M. B.

2005-09-01

We show that Plebanski's second heavenly equation, when written as a first-order nonlinear evolutionary system, admits multi-Hamiltonian structure. Therefore by Magri's theorem it is a completely integrable system. Thus it is an example of a completely integrable system in four dimensions.

Evolution and Christian Faith

NASA Astrophysics Data System (ADS)

Roughgarden, J. E.

2006-12-01

My recent book, Evolution and Christian Faith explores how evolutionary biology can be portrayed from the religious perspective of Christianity. The principal metaphors for evolutionary biology---differential success at breeding and random mutation, probably originate with the dawn of agriculture and clearly occur in the Bible. The central narrative of evolutionary biology can be presented using Biblical passages, providing an account of evolution that is inherently friendly to a Christian perspective. Still, evolutionary biology is far from complete, and problematic areas pertain to species in which the concept of an individual is poorly defined, and to species in which the expression of gender and sexuality depart from Darwin's sexual-selection templates. The present- day controversy in the US about teaching evolution in the schools provides an opportunity to engage the public about science education.

Open Reading Frame Phylogenetic Analysis on the Cloud

PubMed Central

2013-01-01

Phylogenetic analysis has become essential in researching the evolutionary relationships between viruses. These relationships are depicted on phylogenetic trees, in which viruses are grouped based on sequence similarity. Viral evolutionary relationships are identified from open reading frames rather than from complete sequences. Recently, cloud computing has become popular for developing internet-based bioinformatics tools. Biocloud is an efficient, scalable, and robust bioinformatics computing service. In this paper, we propose a cloud-based open reading frame phylogenetic analysis service. The proposed service integrates the Hadoop framework, virtualization technology, and phylogenetic analysis methods to provide a high-availability, large-scale bioservice. In a case study, we analyze the phylogenetic relationships among Norovirus. Evolutionary relationships are elucidated by aligning different open reading frame sequences. The proposed platform correctly identifies the evolutionary relationships between members of Norovirus. PMID:23671843

Tracking mtDNA heteroplasmy through multiple generations in the North Atlantic right whale (Eubalaena glacialis).

PubMed

McLeod, Brenna A; White, Bradley N

2010-01-01

Mitochondrial heteroplasmy has been identified in a variety of species and can result from either paternal leakage, whereby sperm mitochondria enter the ova during fertilization, or more commonly by the "survival" and proliferation of mutant variants within an organism. From an evolutionary perspective, this process represents the generation of new mitochondrial diversity within a species. Although this has been documented in some mammalian species, it has been reported from relatively few wild mammalian populations and in no wild nonhuman population has the transfer and segregation of mitochondrial heteroplasmy been tracked through multiple generations. We report on the first case of the identification and tracking of mitochondrial control region heteroplasmy through 3 generations in the North Atlantic right whale, Eubalaena glacialis. We also identify the full segregation to the mutant variant within a single generation and thus the development of a new haplotype (haplotype G) in a maternal lineage of this endangered species. Witnessed here is the generation of mitochondrial diversity in a genetically depauperate species.

Phylogenetic ctDNA analysis depicts early stage lung cancer evolution

PubMed Central

Abbosh, Christopher; Birkbak, Nicolai J.; Wilson, Gareth A.; Jamal-Hanjani, Mariam; Constantin, Tudor; Salari, Raheleh; Le Quesne, John; Moore, David A; Veeriah, Selvaraju; Rosenthal, Rachel; Marafioti, Teresa; Kirkizlar, Eser; Watkins, Thomas B K; McGranahan, Nicholas; Ward, Sophia; Martinson, Luke; Riley, Joan; Fraioli, Francesco; Al Bakir, Maise; Grönroos, Eva; Zambrana, Francisco; Endozo, Raymondo; Bi, Wenya Linda; Fennessy, Fiona M.; Sponer, Nicole; Johnson, Diana; Laycock, Joanne; Shafi, Seema; Czyzewska-Khan, Justyna; Rowan, Andrew; Chambers, Tim; Matthews, Nik; Turajlic, Samra; Hiley, Crispin; Lee, Siow Ming; Forster, Martin D.; Ahmad, Tanya; Falzon, Mary; Borg, Elaine; Lawrence, David; Hayward, Martin; Kolvekar, Shyam; Panagiotopoulos, Nikolaos; Janes, Sam M; Thakrar, Ricky; Ahmed, Asia; Blackhall, Fiona; Summers, Yvonne; Hafez, Dina; Naik, Ashwini; Ganguly, Apratim; Kareht, Stephanie; Shah, Rajesh; Joseph, Leena; Quinn, Anne Marie; Crosbie, Phil; Naidu, Babu; Middleton, Gary; Langman, Gerald; Trotter, Simon; Nicolson, Marianne; Remmen, Hardy; Kerr, Keith; Chetty, Mahendran; Gomersall, Lesley; Fennell, Dean; Nakas, Apostolos; Rathinam, Sridhar; Anand, Girija; Khan, Sajid; Russell, Peter; Ezhil, Veni; Ismail, Babikir; Irvin-sellers, Melanie; Prakash, Vineet; Lester, Jason; Kornaszewska, Malgorzata; Attanoos, Richard; Adams, Haydn; Davies, Helen; Oukrif, Dahmane; Akarca, Ayse U; Hartley, John A; Lowe, Helen L; Lock, Sara; Iles, Natasha; Bell, Harriet; Ngai, Yenting; Elgar, Greg; Szallasi, Zoltan; Schwarz, Roland F; Herrero, Javier; Stewart, Aengus; Quezada, Sergio A; Peggs, Karl S.; Van Loo, Peter; Dive, Caroline; Lin, Jimmy; Rabinowitz, Matthew; Aerts, Hugo JWL; Hackshaw, Allan; Shaw, Jacqui A; Zimmermann, Bernhard G.; Swanton, Charles

2017-01-01

Summary The early detection of relapse following primary surgery for non-small cell lung cancer and the characterization of emerging subclones seeding metastatic sites might offer new therapeutic approaches to limit tumor recurrence. The potential to non-invasively track tumor evolutionary dynamics in ctDNA of early-stage lung cancer is not established. Here we conduct a tumour-specific phylogenetic approach to ctDNA profiling in the first 100 TRACERx (TRAcking non-small cell lung Cancer Evolution through therapy (Rx)) study participants, including one patient co-recruited to the PEACE (Posthumous Evaluation of Advanced Cancer Environment) post-mortem study. We identify independent predictors of ctDNA release and perform tumor volume limit of detection analyses. Through blinded profiling of post-operative plasma, we observe evidence of adjuvant chemotherapy resistance and identify patients destined to experience recurrence of their lung cancer. Finally, we show that phylogenetic ctDNA profiling tracks the subclonal nature of lung cancer relapse and metastases, providing a new approach for ctDNA driven therapeutic studies PMID:28445469

The current status of REH theory. [Random Evolutionary Hits in biological molecular evolution

NASA Technical Reports Server (NTRS)

Holmquist, R.; Jukes, T. H.

1981-01-01

A response is made to the evaluation of Fitch (1980) of REH (random evolutionary hits) theory for the evolutionary divergence of proteins and nucleic acids. Correct calculations for the beta hemoglobin mRNAs of the human, mouse and rabbit in the absence and presence of selective constraints are summarized, and it is shown that the alternative evolutionary analysis of Fitch underestimates the total fixed mutations. It is further shown that the model used by Fitch to test for the completeness of the count of total base substitutions is in fact a variant of REH theory. Considerations of the variance inherent in evolutionary estimations are also presented which show the REH model to produce no more variance than other evolutionary models. In the reply, it is argued that, despite the objections raised, REH theory applied to proteins gives inaccurate estimates of total gene substitutions. It is further contended that REH theory developed for nucleic sequences suffers from problems relating to the frequency of nucleotide substitutions, the identity of the codons accepting silent and amino acid-changing substitutions, and estimate uncertainties.

Targeted sequencing for high-resolution evolutionary analyses following genome duplication in salmonid fish: Proof of concept for key components of the insulin-like growth factor axis.

PubMed

Lappin, Fiona M; Shaw, Rebecca L; Macqueen, Daniel J

2016-12-01

High-throughput sequencing has revolutionised comparative and evolutionary genome biology. It has now become relatively commonplace to generate multiple genomes and/or transcriptomes to characterize the evolution of large taxonomic groups of interest. Nevertheless, such efforts may be unsuited to some research questions or remain beyond the scope of some research groups. Here we show that targeted high-throughput sequencing offers a viable alternative to study genome evolution across a vertebrate family of great scientific interest. Specifically, we exploited sequence capture and Illumina sequencing to characterize the evolution of key components from the insulin-like growth (IGF) signalling axis of salmonid fish at unprecedented phylogenetic resolution. The IGF axis represents a central governor of vertebrate growth and its core components were expanded by whole genome duplication in the salmonid ancestor ~95Ma. Using RNA baits synthesised to genes encoding the complete family of IGF binding proteins (IGFBP) and an IGF hormone (IGF2), we captured, sequenced and assembled orthologous and paralogous exons from species representing all ten salmonid genera. This approach generated 299 novel sequences, most as complete or near-complete protein-coding sequences. Phylogenetic analyses confirmed congruent evolutionary histories for all nineteen recognized salmonid IGFBP family members and identified novel salmonid-specific IGF2 paralogues. Moreover, we reconstructed the evolution of duplicated IGF axis paralogues across a replete salmonid phylogeny, revealing complex historic selection regimes - both ancestral to salmonids and lineage-restricted - that frequently involved asymmetric paralogue divergence under positive and/or relaxed purifying selection. Our findings add to an emerging literature highlighting diverse applications for targeted sequencing in comparative-evolutionary genomics. We also set out a viable approach to obtain large sets of nuclear genes for any member of the salmonid family, which should enable insights into the evolutionary role of whole genome duplication before additional nuclear genome sequences become available. Copyright © 2016 The Authors. Published by Elsevier B.V. All rights reserved.

Reciprocity, Punishment, Institutions: The Streets to Social Collaboration -- New Theories on How Emerging Social Artifacts Control Our Lives in Society

NASA Astrophysics Data System (ADS)

Gerace, Giuliana

What mechanisms induce and support cooperation in social interaction? Traditional rational-choice perspective has resulted ineffective to keep track of complex real-world dynamics of cooperation. On the other hand, perspectives based on the justification of fairness preferences as internalized behavioural forces driving realistic cooperative interactions are notoriously incomplete and rather fuzzy with respect to their theoretical foundations. After considering recognized evolutionary accounts of the emergence and resilience of social standards, we endorse the view according to which the key to understanding evolutionary dynamics of social engagement is to be found in individual motivational attitudes to interaction. But, beyond any psychological implications, we suggest not exiting from the "logic of reciprocity" in considering the rationality of preferences for social interaction. Preliminary supporting experimental evidence is provided.

The Influence of School Tracking Systems on Educational Expectations: A Comparative Study of Austria and Italy

ERIC Educational Resources Information Center

Lee, Bommi

2014-01-01

School tracking is usually criticised as a mechanism for social and cultural reproduction. Evidence from the literature shows a significant effect of early tracking on social inequality. Some studies also show that early tracking has a negative effect on the probability of completing higher education. This study uses PISA 2009 data and the…

Tracking the origins of Yakutian horses and the genetic basis for their fast adaptation to subarctic environments

PubMed Central

Librado, Pablo; Der Sarkissian, Clio; Ermini, Luca; Jónsson, Hákon; Albrechtsen, Anders; Fumagalli, Matteo; Yang, Melinda A.; Gamba, Cristina; Seguin-Orlando, Andaine; Mortensen, Cecilie D.; Petersen, Bent; Hoover, Cindi A.; Lorente-Galdos, Belen; Nedoluzhko, Artem; Boulygina, Eugenia; Tsygankova, Svetlana; Neuditschko, Markus; Jagannathan, Vidhya; Thèves, Catherine; Alfarhan, Ahmed H.; Alquraishi, Saleh A.; Al-Rasheid, Khaled A. S.; Popov, Ruslan; Grigoriev, Semyon; Alekseev, Anatoly N.; Rubin, Edward M.; McCue, Molly; Rieder, Stefan; Leeb, Tosso; Tikhonov, Alexei; Crubézy, Eric; Slatkin, Montgomery; Marques-Bonet, Tomas; Nielsen, Rasmus; Willerslev, Eske; Kantanen, Juha; Prokhortchouk, Egor; Orlando, Ludovic

2015-01-01

Yakutia, Sakha Republic, in the Siberian Far East, represents one of the coldest places on Earth, with winter record temperatures dropping below −70 °C. Nevertheless, Yakutian horses survive all year round in the open air due to striking phenotypic adaptations, including compact body conformations, extremely hairy winter coats, and acute seasonal differences in metabolic activities. The evolutionary origins of Yakutian horses and the genetic basis of their adaptations remain, however, contentious. Here, we present the complete genomes of nine present-day Yakutian horses and two ancient specimens dating from the early 19th century and ∼5,200 y ago. By comparing these genomes with the genomes of two Late Pleistocene, 27 domesticated, and three wild Przewalski’s horses, we find that contemporary Yakutian horses do not descend from the native horses that populated the region until the mid-Holocene, but were most likely introduced following the migration of the Yakut people a few centuries ago. Thus, they represent one of the fastest cases of adaptation to the extreme temperatures of the Arctic. We find cis-regulatory mutations to have contributed more than nonsynonymous changes to their adaptation, likely due to the comparatively limited standing variation within gene bodies at the time the population was founded. Genes involved in hair development, body size, and metabolic and hormone signaling pathways represent an essential part of the Yakutian horse adaptive genetic toolkit. Finally, we find evidence for convergent evolution with native human populations and woolly mammoths, suggesting that only a few evolutionary strategies are compatible with survival in extremely cold environments. PMID:26598656

Lactobacillus delbrueckii ssp. lactis and ssp. bulgaricus: a chronicle of evolution in action.

PubMed

El Kafsi, Hela; Binesse, Johan; Loux, Valentin; Buratti, Julien; Boudebbouze, Samira; Dervyn, Rozenn; Kennedy, Sean; Galleron, Nathalie; Quinquis, Benoît; Batto, Jean-Michel; Moumen, Bouziane; Maguin, Emmanuelle; van de Guchte, Maarten

2014-05-28

Lactobacillus delbrueckii ssp. lactis and ssp. bulgaricus are lactic acid producing bacteria that are largely used in dairy industries, notably in cheese-making and yogurt production. An earlier in-depth study of the first completely sequenced ssp. bulgaricus genome revealed the characteristics of a genome in an active phase of rapid evolution, in what appears to be an adaptation to the milk environment. Here we examine for the first time if the same conclusions apply to the ssp. lactis, and discuss intra- and inter-subspecies genomic diversity in the context of evolutionary adaptation. Both L. delbrueckii ssp. show the signs of reductive evolution through the elimination of superfluous genes, thereby limiting their carbohydrate metabolic capacities and amino acid biosynthesis potential. In the ssp. lactis this reductive evolution has gone less far than in the ssp. bulgaricus. Consequently, the ssp. lactis retained more extended carbohydrate metabolizing capabilities than the ssp. bulgaricus but, due to high intra-subspecies diversity, very few carbohydrate substrates, if any, allow a reliable distinction of the two ssp. We further show that one of the most important traits, lactose fermentation, of one of the economically most important dairy bacteria, L. delbruecki ssp. bulgaricus, relies on horizontally acquired rather than deep ancestral genes. In this sense this bacterium may thus be regarded as a natural GMO avant la lettre. The dairy lactic acid producing bacteria L. delbrueckii ssp. lactis and ssp. bulgaricus appear to represent different points on the same evolutionary track of adaptation to the milk environment through the loss of superfluous functions and the acquisition of functions that allow an optimized utilization of milk resources, where the ssp. bulgaricus has progressed further away from the common ancestor.

A conceptual evolutionary aseismic decision support framework for hospitals

NASA Astrophysics Data System (ADS)

Hu, Yufeng; Dargush, Gary F.; Shao, Xiaoyun

2012-12-01

In this paper, aconceptual evolutionary framework for aseismic decision support for hospitalsthat attempts to integrate a range of engineering and sociotechnical models is presented. Genetic algorithms are applied to find the optimal decision sets. A case study is completed to demonstrate how the frameworkmay applytoa specific hospital.The simulations show that the proposed evolutionary decision support framework is able to discover robust policy sets in either uncertain or fixed environments. The framework also qualitatively identifies some of the characteristicbehavior of the critical care organization. Thus, by utilizing the proposedframework, the decision makers are able to make more informed decisions, especially toenhance the seismic safety of the hospitals.

Teaching Tree-Thinking to Undergraduate Biology Students.

PubMed

Meisel, Richard P

2010-07-27

Evolution is the unifying principle of all biology, and understanding how evolutionary relationships are represented is critical for a complete understanding of evolution. Phylogenetic trees are the most conventional tool for displaying evolutionary relationships, and "tree-thinking" has been coined as a term to describe the ability to conceptualize evolutionary relationships. Students often lack tree-thinking skills, and developing those skills should be a priority of biology curricula. Many common student misconceptions have been described, and a successful instructor needs a suite of tools for correcting those misconceptions. I review the literature on teaching tree-thinking to undergraduate students and suggest how this material can be presented within an inquiry-based framework.

Perceptual control models of pursuit manual tracking demonstrate individual specificity and parameter consistency.

PubMed

Parker, Maximilian G; Tyson, Sarah F; Weightman, Andrew P; Abbott, Bruce; Emsley, Richard; Mansell, Warren

2017-11-01

Computational models that simulate individuals' movements in pursuit-tracking tasks have been used to elucidate mechanisms of human motor control. Whilst there is evidence that individuals demonstrate idiosyncratic control-tracking strategies, it remains unclear whether models can be sensitive to these idiosyncrasies. Perceptual control theory (PCT) provides a unique model architecture with an internally set reference value parameter, and can be optimized to fit an individual's tracking behavior. The current study investigated whether PCT models could show temporal stability and individual specificity over time. Twenty adults completed three blocks of 15 1-min, pursuit-tracking trials. Two blocks (training and post-training) were completed in one session and the third was completed after 1 week (follow-up). The target moved in a one-dimensional, pseudorandom pattern. PCT models were optimized to the training data using a least-mean-squares algorithm, and validated with data from post-training and follow-up. We found significant inter-individual variability (partial η 2 : .464-.697) and intra-individual consistency (Cronbach's α: .880-.976) in parameter estimates. Polynomial regression revealed that all model parameters, including the reference value parameter, contribute to simulation accuracy. Participants' tracking performances were significantly more accurately simulated by models developed from their own tracking data than by models developed from other participants' data. We conclude that PCT models can be optimized to simulate the performance of an individual and that the test-retest reliability of individual models is a necessary criterion for evaluating computational models of human performance.

Accuracy of the NDI Wave Speech Research System

ERIC Educational Resources Information Center

Berry, Jeffrey J.

2011-01-01

Purpose: This work provides a quantitative assessment of the positional tracking accuracy of the NDI Wave Speech Research System. Method: Three experiments were completed: (a) static rigid-body tracking across different locations in the electromagnetic field volume, (b) dynamic rigid-body tracking across different locations within the…

Middle-Upper Triassic and Middle Jurassic tetrapod track assemblages of southern Tunisia, Sahara Platform

NASA Astrophysics Data System (ADS)

Niedźwiedzki, Grzegorz; Soussi, Mohamed; Boukhalfa, Kamel; Gierliński, Gerard D.

2017-05-01

Three tetrapod track assemblages from the early-middle Mesozoic of southern Tunisia are reported. The strata exposed at the Tejra 2 clay-pit near the Medenine and Rehach site, located in the vicinity of Kirchaou, contain the first tetrapod tracks found in the Triassic of Tunisia. The Middle Jurassic (early Aalenian) dinosaur tracks are reported from the Mestaoua plain near Tataouine. In the Middle Triassic outcrop of the Tejra 2 clay-pit, tridactyl tracks of small and medium-sized dinosauromorphs, were discovered. These tracks represent the oldest evidence of dinosaur-lineage elements in the Triassic deposits of Tunisia. Similar tracks have been described from the Middle Triassic of Argentina, France and Morocco. An isolated set of the manus and pes of a quadrupedal tetrapod discovered in Late Triassic Rehach tracksite is referred to a therapsid tracemaker. The Middle Jurassic deposits of the Mestaoua plain reveal small and large tridactyl theropod dinosaur tracks (Theropoda track indet. A-C). Based on comparison with the abundant record of Triassic tetrapod ichnofossils from Europe and North America, the ichnofauna described here indicates the presence of a therapsid-dinosauromorph ichnoassociation (without typical Chirotheriidae tracks) in the Middle and Late Triassic, which sheds light on the dispersal of the Middle-Upper Triassic tetrapod ichnofaunas in this part of Gondwana. The reported Middle Jurassic ichnofauna show close similarities to dinosaur track assemblages from the Lower and Middle Jurassic of northwestern Africa, North America, Europe and also southeastern Asia. Sedimentological and lithostratigraphic data of each new tracksite have been defined on published data and new observations. Taken together, these discoveries present a tantalizing window into the evolutionary history of tetrapods from the Triassic and Jurassic of southern Tunisia. Given the limited early Mesozoic tetrapod record from the region, these discoveries are of both temporal and geographic significance.

Heritability and social brood effects on personality in juvenile and adult life-history stages in a wild passerine.

PubMed

Winney, I S; Schroeder, J; Nakagawa, S; Hsu, Y-H; Simons, M J P; Sánchez-Tójar, A; Mannarelli, M-E; Burke, T

2018-01-01

How has evolution led to the variation in behavioural phenotypes (personalities) in a population? Knowledge of whether personality is heritable, and to what degree it is influenced by the social environment, is crucial to understanding its evolutionary significance, yet few estimates are available from natural populations. We tracked three behavioural traits during different life-history stages in a pedigreed population of wild house sparrows. Using a quantitative genetic approach, we demonstrated heritability in adult exploration, and in nestling activity after accounting for fixed effects, but not in adult boldness. We did not detect maternal effects on any traits, but we did detect a social brood effect on nestling activity. Boldness, exploration and nestling activity in this population did not form a behavioural syndrome, suggesting that selection could act independently on these behavioural traits in this species, although we found no consistent support for phenotypic selection on these traits. Our work shows that repeatable behaviours can vary in their heritability and that social context influences personality traits. Future efforts could separate whether personality traits differ in heritability because they have served specific functional roles in the evolution of the phenotype or because our concept of personality and the stability of behaviour needs to be revised. © 2017 European Society For Evolutionary Biology. Journal of Evolutionary Biology © 2017 European Society For Evolutionary Biology.

Evolutionary characterization of the West Nile Virus complete genome.

PubMed

Gray, R R; Veras, N M C; Santos, L A; Salemi, M

2010-07-01

The spatial dynamics of the West Nile Virus epidemic in North America are largely unknown. Previous studies that investigated the evolutionary history of the virus used sequence data from the structural genes (prM and E); however, these regions may lack phylogenetic information and obscure true evolutionary relationships. This study systematically evaluated the evolutionary patterns in the eleven genes of the WNV genome in order to determine which region(s) were most phylogenetically informative. We found that while the E region lacks resolution and can potentially result in misleading conclusions, the full NS3 or NS5 regions have strong phylogenetic signal. Furthermore, we show that geographic structure of WNV infection within the US is more pronounced than previously reported in studies that used the structural genes. We conclude that future evolutionary studies should focus on NS3 and NS5 in order to maximize the available sequences while retaining maximal interpretative power to infer temporal and geographic trends among WNV strains. Copyright 2010 Elsevier Inc. All rights reserved.

10 CFR 20.2207 - Reports of transactions involving nationally tracked sources.

Code of Federal Regulations, 2011 CFR

2011-01-01

... submit a National Source Tracking Transaction Report as specified in paragraphs (a) through (e) of this... complete and submit a National Source Tracking Transaction Report. The report must include the following... individual preparing the report; (3) The manufacturer, model, and serial number of the source; (4) The...

Genome-wide nucleosome map and cytosine methylation levels of an ancient human genome.

PubMed

Pedersen, Jakob Skou; Valen, Eivind; Velazquez, Amhed M Vargas; Parker, Brian J; Rasmussen, Morten; Lindgreen, Stinus; Lilje, Berit; Tobin, Desmond J; Kelly, Theresa K; Vang, Søren; Andersson, Robin; Jones, Peter A; Hoover, Cindi A; Tikhonov, Alexei; Prokhortchouk, Egor; Rubin, Edward M; Sandelin, Albin; Gilbert, M Thomas P; Krogh, Anders; Willerslev, Eske; Orlando, Ludovic

2014-03-01

Epigenetic information is available from contemporary organisms, but is difficult to track back in evolutionary time. Here, we show that genome-wide epigenetic information can be gathered directly from next-generation sequence reads of DNA isolated from ancient remains. Using the genome sequence data generated from hair shafts of a 4000-yr-old Paleo-Eskimo belonging to the Saqqaq culture, we generate the first ancient nucleosome map coupled with a genome-wide survey of cytosine methylation levels. The validity of both nucleosome map and methylation levels were confirmed by the recovery of the expected signals at promoter regions, exon/intron boundaries, and CTCF sites. The top-scoring nucleosome calls revealed distinct DNA positioning biases, attesting to nucleotide-level accuracy. The ancient methylation levels exhibited high conservation over time, clustering closely with modern hair tissues. Using ancient methylation information, we estimated the age at death of the Saqqaq individual and illustrate how epigenetic information can be used to infer ancient gene expression. Similar epigenetic signatures were found in other fossil material, such as 110,000- to 130,000-yr-old bones, supporting the contention that ancient epigenomic information can be reconstructed from a deep past. Our findings lay the foundation for extracting epigenomic information from ancient samples, allowing shifts in epialleles to be tracked through evolutionary time, as well as providing an original window into modern epigenomics.

Genome-wide nucleosome map and cytosine methylation levels of an ancient human genome

PubMed Central

Pedersen, Jakob Skou; Valen, Eivind; Velazquez, Amhed M. Vargas; Parker, Brian J.; Rasmussen, Morten; Lindgreen, Stinus; Lilje, Berit; Tobin, Desmond J.; Kelly, Theresa K.; Vang, Søren; Andersson, Robin; Jones, Peter A.; Hoover, Cindi A.; Tikhonov, Alexei; Prokhortchouk, Egor; Rubin, Edward M.; Sandelin, Albin; Gilbert, M. Thomas P.; Krogh, Anders; Willerslev, Eske; Orlando, Ludovic

2014-01-01

Epigenetic information is available from contemporary organisms, but is difficult to track back in evolutionary time. Here, we show that genome-wide epigenetic information can be gathered directly from next-generation sequence reads of DNA isolated from ancient remains. Using the genome sequence data generated from hair shafts of a 4000-yr-old Paleo-Eskimo belonging to the Saqqaq culture, we generate the first ancient nucleosome map coupled with a genome-wide survey of cytosine methylation levels. The validity of both nucleosome map and methylation levels were confirmed by the recovery of the expected signals at promoter regions, exon/intron boundaries, and CTCF sites. The top-scoring nucleosome calls revealed distinct DNA positioning biases, attesting to nucleotide-level accuracy. The ancient methylation levels exhibited high conservation over time, clustering closely with modern hair tissues. Using ancient methylation information, we estimated the age at death of the Saqqaq individual and illustrate how epigenetic information can be used to infer ancient gene expression. Similar epigenetic signatures were found in other fossil material, such as 110,000- to 130,000-yr-old bones, supporting the contention that ancient epigenomic information can be reconstructed from a deep past. Our findings lay the foundation for extracting epigenomic information from ancient samples, allowing shifts in epialleles to be tracked through evolutionary time, as well as providing an original window into modern epigenomics. PMID:24299735

Integrating Functional, Developmental and Evolutionary Biology into Biology Curricula

ERIC Educational Resources Information Center

Haave, Neil

2012-01-01

A complete understanding of life involves how organisms are able to function in their environment and how they arise. Understanding how organisms arise involves both their evolution and development. Thus to completely comprehend living things, biology must study their function, development and evolution. Previous proposals for standardized…

Assessing the potential to combine attitude tracking and health campaign evaluation surveys.

PubMed

Hollier, Lauren P; Pettigrew, Simone; Minto, Carolyn; Slevin, Terry; Strickland, Mark

2016-04-06

Issue addressed: Online surveys are becoming increasingly popular in health research because of the low cost and fast completion time. A large proportion of online survey costs are allocated to setup and administration expenses, which suggests that conducting fewer, longer surveys would be a cost-effective approach. The current study assessed whether the incorporation of a health campaign evaluation survey within a longitudinal attitudes and behaviours tracking survey produced different outcomes compared with the separate administration of the evaluation survey. Methods: Data were collected via an online panel, with 688 respondents completing the combined survey and 657 respondents completing the evaluation-only survey. Regression analyses were conducted to examine whether survey type was related to the campaign evaluation results. Results: Those who completed the combined survey perceived the campaign advertisement to be more personally relevant than those completing the evaluation-only survey. There were no differences in results relating to campaign awareness and reported behavioural change as a result of campaign exposure. Conclusions: There were minimal differences between results obtained from combining an attitude/behaviour tracking survey with a campaign evaluation survey. Any priming or order effects were limited to respondents' cognitive responses to the advertisement. So what?: The results suggest that health practitioners with limited resources available for tracking and evaluation research may be able to maximise outcomes by administering fewer, longer surveys.

OrthoMaM v8: a database of orthologous exons and coding sequences for comparative genomics in mammals.

PubMed

Douzery, Emmanuel J P; Scornavacca, Celine; Romiguier, Jonathan; Belkhir, Khalid; Galtier, Nicolas; Delsuc, Frédéric; Ranwez, Vincent

2014-07-01

Comparative genomic studies extensively rely on alignments of orthologous sequences. Yet, selecting, gathering, and aligning orthologous exons and protein-coding sequences (CDS) that are relevant for a given evolutionary analysis can be a difficult and time-consuming task. In this context, we developed OrthoMaM, a database of ORTHOlogous MAmmalian Markers describing the evolutionary dynamics of orthologous genes in mammalian genomes using a phylogenetic framework. Since its first release in 2007, OrthoMaM has regularly evolved, not only to include newly available genomes but also to incorporate up-to-date software in its analytic pipeline. This eighth release integrates the 40 complete mammalian genomes available in Ensembl v73 and provides alignments, phylogenies, evolutionary descriptor information, and functional annotations for 13,404 single-copy orthologous CDS and 6,953 long exons. The graphical interface allows to easily explore OrthoMaM to identify markers with specific characteristics (e.g., taxa availability, alignment size, %G+C, evolutionary rate, chromosome location). It hence provides an efficient solution to sample preprocessed markers adapted to user-specific needs. OrthoMaM has proven to be a valuable resource for researchers interested in mammalian phylogenomics, evolutionary genomics, and has served as a source of benchmark empirical data sets in several methodological studies. OrthoMaM is available for browsing, query and complete or filtered downloads at http://www.orthomam.univ-montp2.fr/. © The Author 2014. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

Using evolutionary computations to understand the design and evolution of gene and cell regulatory networks.

PubMed

Spirov, Alexander; Holloway, David

2013-07-15

This paper surveys modeling approaches for studying the evolution of gene regulatory networks (GRNs). Modeling of the design or 'wiring' of GRNs has become increasingly common in developmental and medical biology, as a means of quantifying gene-gene interactions, the response to perturbations, and the overall dynamic motifs of networks. Drawing from developments in GRN 'design' modeling, a number of groups are now using simulations to study how GRNs evolve, both for comparative genomics and to uncover general principles of evolutionary processes. Such work can generally be termed evolution in silico. Complementary to these biologically-focused approaches, a now well-established field of computer science is Evolutionary Computations (ECs), in which highly efficient optimization techniques are inspired from evolutionary principles. In surveying biological simulation approaches, we discuss the considerations that must be taken with respect to: (a) the precision and completeness of the data (e.g. are the simulations for very close matches to anatomical data, or are they for more general exploration of evolutionary principles); (b) the level of detail to model (we proceed from 'coarse-grained' evolution of simple gene-gene interactions to 'fine-grained' evolution at the DNA sequence level); (c) to what degree is it important to include the genome's cellular context; and (d) the efficiency of computation. With respect to the latter, we argue that developments in computer science EC offer the means to perform more complete simulation searches, and will lead to more comprehensive biological predictions. Copyright © 2013 Elsevier Inc. All rights reserved.

Philosophy and Sociology of Science Evolution and History

NASA Astrophysics Data System (ADS)

Rosen, Joe

The following sections are included: * Concrete Versus Abstract Theoretical Models * Introduction: concrete and abstract in kepler's contribution * Einstein's theory of gravitation and mach's principle * Unitary symmetry and the structure of hadrons * Conclusion * Dedication * Symmetry, Entropy and Complexity * Introduction * Symmetry Implies Abstraction and Loss of Information * Broken Symmetries - Imposed or Spontaneous * Symmetry, Order and Information * References * Cosmological Surrealism: More Than "Eternal Reality" Is Needed * Pythagoreanism in atomic, nuclear and particle physics * Introduction: Pythagoreanism as part of the Greek scientific world view — and the three questions I will tackle * Point 1: the impact of Gersonides and Crescas, two scientific anti-Aristotelian rebels * Point 2: Kepler's spheres to Bohr's orbits — Pythagoreanisms at last! * Point 3: Aristotle to Maupertuis, Emmy Noether, Schwinger * References * Paradigm Completion For Generalized Evolutionary Theory With Application To Epistemology * Evolution Fully Generalized * Entropy: Gravity as Model * Evolution and Entropy: Measures of Complexity * Extinctions and a Balanced Evolutionary Paradigm * The Evolution of Human Society - the Age of Information as example * High-Energy Physics and the World Wide Web * Twentieth Century Epistemology has Strong (de facto) Evolutionary Elements * The discoveries towards the beginning of the XXth Century * Summary and Conclusions * References * Evolutionary Epistemology and Invalidation * Introduction * Extinctions and A New Evolutionary Paradigm * Evolutionary Epistemology - Active Mutations * Evolutionary Epistemology: Invalidation as An Extinction * References

Tracking Viral Evolution during a Disease Outbreak: the Rapid and Complete Selective Sweep of a Circovirus in the Endangered Echo Parakeet

PubMed Central

Faulkes, Christopher G.; Greenwood, Andrew G.; Jones, Carl G.; Kaiser, Pete; Lyne, Owen D.; Black, Simon A.; Chowrimootoo, Aurelie; Groombridge, Jim J.

2012-01-01

Circoviruses are among the smallest and simplest of all viruses, but they are relatively poorly characterized. Here, we intensively sampled two sympatric parrot populations from Mauritius over a period of 11 years and screened for the circovirus Beak and feather disease virus (BFDV). During the sampling period, a severe outbreak of psittacine beak and feather disease, which is caused by BFDV, occurred in Echo parakeets. Consequently, this data set presents an ideal system for studying the evolution of a pathogen in a natural population and to understand the adaptive changes that cause outbreaks. Unexpectedly, we discovered that the outbreak was most likely caused by changes in functionally important regions of the normally conserved replication-associated protein gene and not the immunogenic capsid. Moreover, these mutations were completely fixed in the Echo parakeet host population very shortly after the outbreak. Several capsid alleles were linked to the replication-associated protein outbreak allele, suggesting that whereas the key changes occurred in the latter, the scope of the outbreak and the selective sweep may have been influenced by positive selection in the capsid. We found evidence for viral transmission between the two host populations though evidence for the invasive species as the source of the outbreak was equivocal. Finally, the high evolutionary rate that we estimated shows how rapidly new variation can arise in BFDV and is consistent with recent results from other small single-stranded DNA viruses. PMID:22345474

Thioredoxin and evolution

NASA Technical Reports Server (NTRS)

Buchanan, B. B.

1991-01-01

Comparisons of primary structure have revealed significant homology between the m type thioredoxins of chloroplasts and the thioredoxins from a variety of bacteria. Chloroplast thioredoxin f, by comparison, remains an enigma: certain residues are invariant with those of the other thioredoxins, but a phylogenetic relationship to bacterial or m thioredoxins seems distant. Knowledge of the evolutionary history of thioredoxin f is, nevertheless, of interest because of its role in photosynthesis. Therefore, we have attempted to gain information on the evolutionary history of chloroplast thioredoxin f, as well as m. Our goal was first to establish the utility of thioredoxin as a phylogenetic marker, and, if found suitable, to deduce the evolutionary histories of the chloroplast thioredoxins. To this end, we have constructed phylogenetic (minimal replacement) trees using computer analysis. The results show that the thioredoxins of bacteria and animals fall into distinct phylogenetic groups - the bacterial group resembling that derived from earlier 16s RNA analysis and the animal group showing a cluster consistent with known relationships. The chloroplast thioredoxins show a novel type of phylogenetic arrangement: one m type aligns with its counterpart of eukaryotic algae, cyanobacteria and other bacteria, whereas the second type (f type) tracks with animal thioredoxin. The results give new insight into the evolution of photosynthesis.

Chaos and the (un)predictability of evolution in a changing environment

PubMed Central

Rego-Costa, Artur; Débarre, Florence; Chevin, Luis-Miguel

2018-01-01

Among the factors that may reduce the predictability of evolution, chaos, characterized by a strong dependence on initial conditions, has received much less attention than randomness due to genetic drift or environmental stochasticity. It was recently shown that chaos in phenotypic evolution arises commonly under frequency-dependent selection caused by competitive interactions mediated by many traits. This result has been used to argue that chaos should often make evolutionary dynamics unpredictable. However, populations also evolve largely in response to external changing environments, and such environmental forcing is likely to influence the outcome of evolution in systems prone to chaos. We investigate how a changing environment causing oscillations of an optimal phenotype interacts with the internal dynamics of an eco-evolutionary system that would be chaotic in a constant environment. We show that strong environmental forcing can improve the predictability of evolution, by reducing the probability of chaos arising, and by dampening the magnitude of chaotic oscillations. In contrast, weak forcing can increase the probability of chaos, but it also causes evolutionary trajectories to track the environment more closely. Overall, our results indicate that, although chaos may occur in evolution, it does not necessarily undermine its predictability. PMID:29235104

Teaching Tree-Thinking to Undergraduate Biology Students

PubMed Central

2011-01-01

Evolution is the unifying principle of all biology, and understanding how evolutionary relationships are represented is critical for a complete understanding of evolution. Phylogenetic trees are the most conventional tool for displaying evolutionary relationships, and “tree-thinking” has been coined as a term to describe the ability to conceptualize evolutionary relationships. Students often lack tree-thinking skills, and developing those skills should be a priority of biology curricula. Many common student misconceptions have been described, and a successful instructor needs a suite of tools for correcting those misconceptions. I review the literature on teaching tree-thinking to undergraduate students and suggest how this material can be presented within an inquiry-based framework. PMID:21572571

Water pollutant fingerprinting tracks recent industrial transfer from coastal to inland China: A case study

PubMed Central

Zheng, Weiwei; Wang, Xia; Tian, Dajun; Jiang, Songhui; Andersen, Melvin E.; He, Genhsjeng; Crabbe, M. James C.; Zheng, Yuxin; Zhong, Yang; Qu, Weidong

2013-01-01

In recent years, China’s developed regions have transferred industries to undeveloped regions. Large numbers of unlicensed or unregistered enterprises are widespread in these undeveloped regions and they are subject to minimal regulation. Current methods for tracing industrial transfers in these areas, based on enterprise registration information or economic surveys, do not work. We have developed an analytical framework combining water fingerprinting and evolutionary analysis to trace the pollution transfer features between water sources. We collected samples in Eastern China (industrial export) and Central China (industrial acceptance) separately from two water systems. Based on the water pollutant fingerprints and evolutionary trees, we traced the pollution transfer associated with industrial transfer between the two areas. The results are consistent with four episodes of industrial transfers over the past decade. Our results also show likely types of the transferred industries - electronics, plastics, and biomedicines - that contribute to the water pollution transfer. PMID:23301152

First orbital solution and evolutionary state for the newly discovered eclipsing binaries USNO-B1.0 1091-0130715 and GSC-03449-0680

NASA Astrophysics Data System (ADS)

Elkhateeb, M. M.; Nouh, M. I.; Nelson, R. H.

2015-02-01

A first photometric study for the newly discovered systems USNO-B1.0 1091-0130715 and GSC-03449-0680 was carried out by means of recent a windows interface version of the Wilson and Devinney code based on model atmospheres by Kurucz (1993). The accepted models reveal some absolute parameters for both systems, which are used in deriving the spectral type of the system components and their evolutionary status. Distances to each systems and physical properties were estimated. Comparisons of the computed physical parameters with stellar models are discussed. The components of the system USNO-B1.0 1091-0130715 and the primary of the system GSC-03449-0680 are found to be on or near the ZAMS track, while the secondary of GSC-03449-0680 system found to be severely under luminous and too cool compared to its ZAMS mass.

Fuzzy Controller Design Using Evolutionary Techniques for Twin Rotor MIMO System: A Comparative Study.

PubMed

Hashim, H A; Abido, M A

2015-01-01

This paper presents a comparative study of fuzzy controller design for the twin rotor multi-input multioutput (MIMO) system (TRMS) considering most promising evolutionary techniques. These are gravitational search algorithm (GSA), particle swarm optimization (PSO), artificial bee colony (ABC), and differential evolution (DE). In this study, the gains of four fuzzy proportional derivative (PD) controllers for TRMS have been optimized using the considered techniques. The optimization techniques are developed to identify the optimal control parameters for system stability enhancement, to cancel high nonlinearities in the model, to reduce the coupling effect, and to drive TRMS pitch and yaw angles into the desired tracking trajectory efficiently and accurately. The most effective technique in terms of system response due to different disturbances has been investigated. In this work, it is observed that GSA is the most effective technique in terms of solution quality and convergence speed.

Water pollutant fingerprinting tracks recent industrial transfer from coastal to inland China: A case study

NASA Astrophysics Data System (ADS)

Zheng, Weiwei; Wang, Xia; Tian, Dajun; Jiang, Songhui; Andersen, Melvin E.; He, Genhsjeng; Crabbe, M. James C.; Zheng, Yuxin; Zhong, Yang; Qu, Weidong

2013-01-01

In recent years, China's developed regions have transferred industries to undeveloped regions. Large numbers of unlicensed or unregistered enterprises are widespread in these undeveloped regions and they are subject to minimal regulation. Current methods for tracing industrial transfers in these areas, based on enterprise registration information or economic surveys, do not work. We have developed an analytical framework combining water fingerprinting and evolutionary analysis to trace the pollution transfer features between water sources. We collected samples in Eastern China (industrial export) and Central China (industrial acceptance) separately from two water systems. Based on the water pollutant fingerprints and evolutionary trees, we traced the pollution transfer associated with industrial transfer between the two areas. The results are consistent with four episodes of industrial transfers over the past decade. Our results also show likely types of the transferred industries - electronics, plastics, and biomedicines - that contribute to the water pollution transfer.

Winners, Losers, Insiders, and Outsiders: Comparing Hierometer and Sociometer Theories of Self-Regard

PubMed Central

Mahadevan, Nikhila; Gregg, Aiden P.; Sedikides, Constantine; de Waal-Andrews, Wendy G.

2016-01-01

What evolutionary function does self-regard serve? Hierometer theory, introduced here, provides one answer: it helps individuals navigate status hierarchies, which feature zero-sum contests that can be lost as well as won. In particular, self-regard tracks social status to regulate behavioral assertiveness, augmenting or diminishing it to optimize performance in such contests. Hierometer theory also offers a conceptual counterpoint that helps resolve ambiguities in sociometer theory, which offers a complementary account of self-regard’s evolutionary function. In two large-scale cross-sectional studies, we operationalized theoretically relevant variables at three distinct levels of analysis, namely, social (relations: status, inclusion), psychological (self-regard: self-esteem, narcissism), and behavioral (strategy: assertiveness, affiliativeness). Correlational and mediational analyses consistently supported hierometer theory, but offered only mixed support for sociometer theory, including when controlling for confounding constructs (anxiety, depression). We interpret our results in terms of a broader agency-communion framework. PMID:27065896

Fuzzy Controller Design Using Evolutionary Techniques for Twin Rotor MIMO System: A Comparative Study

PubMed Central

Hashim, H. A.; Abido, M. A.

2015-01-01

This paper presents a comparative study of fuzzy controller design for the twin rotor multi-input multioutput (MIMO) system (TRMS) considering most promising evolutionary techniques. These are gravitational search algorithm (GSA), particle swarm optimization (PSO), artificial bee colony (ABC), and differential evolution (DE). In this study, the gains of four fuzzy proportional derivative (PD) controllers for TRMS have been optimized using the considered techniques. The optimization techniques are developed to identify the optimal control parameters for system stability enhancement, to cancel high nonlinearities in the model, to reduce the coupling effect, and to drive TRMS pitch and yaw angles into the desired tracking trajectory efficiently and accurately. The most effective technique in terms of system response due to different disturbances has been investigated. In this work, it is observed that GSA is the most effective technique in terms of solution quality and convergence speed. PMID:25960738

A study of the utility of convergent characters for phylogeny reconstruction: do ecomorphological characters track evolutionary history in Anolis lizards?

PubMed

Poe, Steven

2005-01-01

The reconstruction of phylogeny requires homologous similarities across species. Characters that have been shown to evolve quickly or convergently in some species are often considered to be poor phylogenetic markers. Here I evaluate the phylogenetic utility of a set of morphological characters that are correlated with ecology and have been shown to evolve convergently in Anolis lizards in the Greater Antilles. Results of randomization tests suggest that these "ecomorph" characters are adequate phylogenetic markers, both for Anolis in general and for the Greater Antillean species for which ecomorphological convergence was originally documented. Explanations for this result include the presence of ecomorphologically similar species within evolutionary radiations within islands, some monophyly of ecomorphs across islands, and the existence of several species that defy ecomorphological characterization but share phylogenetic similarity in some ecomorph characters.

Natural selection. IV. The Price equation.

PubMed

Frank, S A

2012-06-01

The Price equation partitions total evolutionary change into two components. The first component provides an abstract expression of natural selection. The second component subsumes all other evolutionary processes, including changes during transmission. The natural selection component is often used in applications. Those applications attract widespread interest for their simplicity of expression and ease of interpretation. Those same applications attract widespread criticism by dropping the second component of evolutionary change and by leaving unspecified the detailed assumptions needed for a complete study of dynamics. Controversies over approximation and dynamics have nothing to do with the Price equation itself, which is simply a mathematical equivalence relation for total evolutionary change expressed in an alternative form. Disagreements about approach have to do with the tension between the relative valuation of abstract versus concrete analyses. The Price equation's greatest value has been on the abstract side, particularly the invariance relations that illuminate the understanding of natural selection. Those abstract insights lay the foundation for applications in terms of kin selection, information theory interpretations of natural selection and partitions of causes by path analysis. I discuss recent critiques of the Price equation by Nowak and van Veelen. © 2012 The Authors. Journal of Evolutionary Biology © 2012 European Society For Evolutionary Biology.

Adaptive quaternion tracking with nonlinear extended state observer

NASA Astrophysics Data System (ADS)

Bai, Yu-liang; Wang, Xiao-gang; Xu, Jiang-tao; Cui, Nai-gang

2017-10-01

This paper addresses the problem of attitude tracking for spacecraft in the presence of uncertainties in moments of inertia and environmental disturbances. An adaptive quaternion tracking control is combined with a nonlinear extended state observer and the disturbances compensated for in each sampling period. The tracking controller is proved to asymptotically track a prescribed motion in the presence of these uncertainties. Simulations of a nano-spacecraft demonstrate a significant improvement in pointing accuracy and tracking error when compared to a conventional attitude controller. The proposed tracking control is completely deterministic, simple to implement, does not require knowledge of the uncertainties and does not suffer from chattering.

Functional Evolution of PLP-dependent Enzymes based on Active-Site Structural Similarities

PubMed Central

Catazaro, Jonathan; Caprez, Adam; Guru, Ashu; Swanson, David; Powers, Robert

2014-01-01

Families of distantly related proteins typically have very low sequence identity, which hinders evolutionary analysis and functional annotation. Slowly evolving features of proteins, such as an active site, are therefore valuable for annotating putative and distantly related proteins. To date, a complete evolutionary analysis of the functional relationship of an entire enzyme family based on active-site structural similarities has not yet been undertaken. Pyridoxal-5’-phosphate (PLP) dependent enzymes are primordial enzymes that diversified in the last universal ancestor. Using the Comparison of Protein Active Site Structures (CPASS) software and database, we show that the active site structures of PLP-dependent enzymes can be used to infer evolutionary relationships based on functional similarity. The enzymes successfully clustered together based on substrate specificity, function, and three-dimensional fold. This study demonstrates the value of using active site structures for functional evolutionary analysis and the effectiveness of CPASS. PMID:24920327

Functional evolution of PLP-dependent enzymes based on active-site structural similarities.

PubMed

Catazaro, Jonathan; Caprez, Adam; Guru, Ashu; Swanson, David; Powers, Robert

2014-10-01

Families of distantly related proteins typically have very low sequence identity, which hinders evolutionary analysis and functional annotation. Slowly evolving features of proteins, such as an active site, are therefore valuable for annotating putative and distantly related proteins. To date, a complete evolutionary analysis of the functional relationship of an entire enzyme family based on active-site structural similarities has not yet been undertaken. Pyridoxal-5'-phosphate (PLP) dependent enzymes are primordial enzymes that diversified in the last universal ancestor. Using the comparison of protein active site structures (CPASS) software and database, we show that the active site structures of PLP-dependent enzymes can be used to infer evolutionary relationships based on functional similarity. The enzymes successfully clustered together based on substrate specificity, function, and three-dimensional-fold. This study demonstrates the value of using active site structures for functional evolutionary analysis and the effectiveness of CPASS. © 2014 Wiley Periodicals, Inc.

Urbanisation and the loss of phylogenetic diversity in birds.

PubMed

Sol, Daniel; Bartomeus, Ignasi; González-Lagos, César; Pavoine, Sandrine

2017-06-01

Despite the recognised conservation value of phylogenetic diversity, little is known about how it is affected by the urbanisation process. Combining a complete avian phylogeny with surveys along urbanisation gradients from five continents, we show that highly urbanised environments supported on average 450 million fewer years of evolutionary history than the surrounding natural environments. This loss was primarily caused by species loss and could have been higher had not been partially compensated by the addition of urban exploiters and some exotic species. Highly urbanised environments also supported fewer evolutionary distinctive species, implying a disproportionate loss of evolutionary history. Compared with highly urbanised environments, changes in phylogenetic richness and evolutionary distinctiveness were less substantial in moderately urbanised environments. Protecting pristine environments is therefore essential for maintaining phylogenetic diversity, but moderate levels of urbanisation still preserve much of the original diversity. © 2017 John Wiley & Sons Ltd/CNRS.

Evolutionary conservation, diversity and specificity of LTR retrotransposons in flowering plants: insights from genome-wide analysis and multi-specific comparison

USDA-ARS?s Scientific Manuscript database

The availability of complete or nearly complete genome sequences from several plant species permits detailed discovery and cross-species comparison of transposable elements (TEs) at the whole genome level. We initially investigated 510 LTR-retrotransposon (LTR-RT) families that are comprised of 32,...

RE-Powering Tracking Matrix

EPA Pesticide Factsheets

The RE-Powering Renewable Energy project list tracks completed projects where renewable energy systems have been installed on contaminated lands, landfills, and mine sites.This resource is for informational purposes only and may not be comprehensive.

Monitoring the evolutionary aspect of the Gene Ontology to enhance predictability and usability.

PubMed

Park, Jong C; Kim, Tak-eun; Park, Jinah

2008-04-11

Much effort is currently made to develop the Gene Ontology (GO). Due to the dynamic nature of information it addresses, GO undergoes constant updates whose results are released at regular intervals as separate versions. Although there are a large number of computational tools to aid the development of GO, they are operating on a particular version of GO, making it difficult for GO curators to anticipate the full impact of particular changes along the time axis on a larger scale. We present a method for tapping into such an evolutionary aspect of GO, by making it possible to keep track of important temporal changes to any of the terms and relations of GO and by consequently making it possible to recognize associated trends. We have developed visualization methods for viewing the changes between two different versions of GO by constructing a colour-coded layered graph. The graph shows both versions of GO with highlights to those GO terms that are added, removed and modified between the two versions. Focusing on a specific GO term or terms of interest over a period, we demonstrate the utility of our system that can be used to make useful hypotheses about the cause of the evolution and to provide new insights into more complex changes. GO undergoes fast evolutionary changes. A snapshot of GO, as presented by each version of GO alone, overlooks such evolutionary aspects, and consequently limits the utilities of GO. The method that highlights the differences of consecutive versions or two different versions of an evolving ontology with colour-coding enhances the utility of GO for users as well as for developers. To the best of our knowledge, this is the first proposal to visualize the evolutionary aspect of GO.

Form of an evolutionary tradeoff affects eco-evolutionary dynamics in a predator-prey system.

PubMed

Kasada, Minoru; Yamamichi, Masato; Yoshida, Takehito

2014-11-11

Evolution on a time scale similar to ecological dynamics has been increasingly recognized for the last three decades. Selection mediated by ecological interactions can change heritable phenotypic variation (i.e., evolution), and evolution of traits, in turn, can affect ecological interactions. Hence, ecological and evolutionary dynamics can be tightly linked and important to predict future dynamics, but our understanding of eco-evolutionary dynamics is still in its infancy and there is a significant gap between theoretical predictions and empirical tests. Empirical studies have demonstrated that the presence of genetic variation can dramatically change ecological dynamics, whereas theoretical studies predict that eco-evolutionary dynamics depend on the details of the genetic variation, such as the form of a tradeoff among genotypes, which can be more important than the presence or absence of the genetic variation. Using a predator-prey (rotifer-algal) experimental system in laboratory microcosms, we studied how different forms of a tradeoff between prey defense and growth affect eco-evolutionary dynamics. Our experimental results show for the first time to our knowledge that different forms of the tradeoff produce remarkably divergent eco-evolutionary dynamics, including near fixation, near extinction, and coexistence of algal genotypes, with quantitatively different population dynamics. A mathematical model, parameterized from completely independent experiments, explains the observed dynamics. The results suggest that knowing the details of heritable trait variation and covariation within a population is essential for understanding how evolution and ecology will interact and what form of eco-evolutionary dynamics will result.

Using Wage Record Data To Track the Post-College Employment and Earnings of Community College Students.

ERIC Educational Resources Information Center

Friedlander, Jack

The Post-Education Employment Tracking System (PEETS), operated by the Chancellor's Office of the California Community Colleges (CCC) in cooperation with the State of California's Employment Development Department (EDD), is an automated system for tracking the post-college employment rates and earnings of community college program completers and…

Factors Affecting the Transition of Fifth Graders to the Academic Track in the Czech Republic

ERIC Educational Resources Information Center

Straková, Jana; Greger, David; Soukup, Petr

2016-01-01

The Czech education system is characterised by early tracking and high educational inequalities. The most controversial element of the system is the academic track, which is attended by students after the completion of primary school. The paper focuses on fifth graders' application process and their success in entrance examinations. The process is…

Phylogenetic ctDNA analysis depicts early-stage lung cancer evolution.

PubMed

Abbosh, Christopher; Birkbak, Nicolai J; Wilson, Gareth A; Jamal-Hanjani, Mariam; Constantin, Tudor; Salari, Raheleh; Le Quesne, John; Moore, David A; Veeriah, Selvaraju; Rosenthal, Rachel; Marafioti, Teresa; Kirkizlar, Eser; Watkins, Thomas B K; McGranahan, Nicholas; Ward, Sophia; Martinson, Luke; Riley, Joan; Fraioli, Francesco; Al Bakir, Maise; Grönroos, Eva; Zambrana, Francisco; Endozo, Raymondo; Bi, Wenya Linda; Fennessy, Fiona M; Sponer, Nicole; Johnson, Diana; Laycock, Joanne; Shafi, Seema; Czyzewska-Khan, Justyna; Rowan, Andrew; Chambers, Tim; Matthews, Nik; Turajlic, Samra; Hiley, Crispin; Lee, Siow Ming; Forster, Martin D; Ahmad, Tanya; Falzon, Mary; Borg, Elaine; Lawrence, David; Hayward, Martin; Kolvekar, Shyam; Panagiotopoulos, Nikolaos; Janes, Sam M; Thakrar, Ricky; Ahmed, Asia; Blackhall, Fiona; Summers, Yvonne; Hafez, Dina; Naik, Ashwini; Ganguly, Apratim; Kareht, Stephanie; Shah, Rajesh; Joseph, Leena; Marie Quinn, Anne; Crosbie, Phil A; Naidu, Babu; Middleton, Gary; Langman, Gerald; Trotter, Simon; Nicolson, Marianne; Remmen, Hardy; Kerr, Keith; Chetty, Mahendran; Gomersall, Lesley; Fennell, Dean A; Nakas, Apostolos; Rathinam, Sridhar; Anand, Girija; Khan, Sajid; Russell, Peter; Ezhil, Veni; Ismail, Babikir; Irvin-Sellers, Melanie; Prakash, Vineet; Lester, Jason F; Kornaszewska, Malgorzata; Attanoos, Richard; Adams, Haydn; Davies, Helen; Oukrif, Dahmane; Akarca, Ayse U; Hartley, John A; Lowe, Helen L; Lock, Sara; Iles, Natasha; Bell, Harriet; Ngai, Yenting; Elgar, Greg; Szallasi, Zoltan; Schwarz, Roland F; Herrero, Javier; Stewart, Aengus; Quezada, Sergio A; Peggs, Karl S; Van Loo, Peter; Dive, Caroline; Lin, C Jimmy; Rabinowitz, Matthew; Aerts, Hugo J W L; Hackshaw, Allan; Shaw, Jacqui A; Zimmermann, Bernhard G; Swanton, Charles

2017-04-26

The early detection of relapse following primary surgery for non-small-cell lung cancer and the characterization of emerging subclones, which seed metastatic sites, might offer new therapeutic approaches for limiting tumour recurrence. The ability to track the evolutionary dynamics of early-stage lung cancer non-invasively in circulating tumour DNA (ctDNA) has not yet been demonstrated. Here we use a tumour-specific phylogenetic approach to profile the ctDNA of the first 100 TRACERx (Tracking Non-Small-Cell Lung Cancer Evolution Through Therapy (Rx)) study participants, including one patient who was also recruited to the PEACE (Posthumous Evaluation of Advanced Cancer Environment) post-mortem study. We identify independent predictors of ctDNA release and analyse the tumour-volume detection limit. Through blinded profiling of postoperative plasma, we observe evidence of adjuvant chemotherapy resistance and identify patients who are very likely to experience recurrence of their lung cancer. Finally, we show that phylogenetic ctDNA profiling tracks the subclonal nature of lung cancer relapse and metastasis, providing a new approach for ctDNA-driven therapeutic studies.

Evolutionary game theory and multiple chemical sensitivity.

PubMed

Newlin, D B

1999-01-01

Newlin's [Newlin D.B. Evolutionary game theory of tolerance and sensitization in substance abuse. Paper presented to the Research Society on Alcoholism, Hilton Head, SC, 1998] evolutionary game theory of addictive behavior specifies how evolutionarily stable strategies for survival and reproduction may lead to addiction. The game theory of multiple chemical sensitivity (MCS) assumes that: (1) the MCS patient responds to low-level toxicants as stressors or as direct threats to their survival and reproductive fitness, (2) this activates the cortico-mesolimbic dopamine system, (3) this system is a survival motivation center--not a 'reward center', (4) the subject emits a counter-response that is in the same direction as the naive response to the chemicals, (5) previously neutral stimuli associated with chemicals also trigger conditioned responses that mimic those to the chemicals, (6) these counter-responses further activate the dopaminergic survival motivation system, and (7) this produces a positive feedback loop that leads to strong neural sensitization in these structures and in behavior controlled by this system, despite a small initial response. Psychologically, the MCS patient with a sensitized cortico-mesolimbic dopamine system is behaving as though his/her survival is directly threatened by these chemicals. Non-MCS subjects have counter-responses opposite in direction to those of the chemicals and show tolerance. An autoshaping/sign-tracking model of this game is discussed. This evolutionary game makes several specific, testable predictions about differences between MCS subjects, non-MCS controls, and substance abusers in laboratory experiments, and between sensitized and nonsensitized animals.

Similar patterns of frequency-dependent selection on animal personalities emerge in three species of social spiders.

PubMed

Lichtenstein, J L L; Pruitt, J N

2015-06-01

Frequency-dependent selection is thought to be a major contributor to the maintenance of phenotypic variation. We tested for frequency-dependent selection on contrasting behavioural strategies, termed here 'personalities', in three species of social spiders, each thought to represent an independent evolutionary origin of sociality. The evolution of sociality in the spider genus Anelosimus is consistently met with the emergence of two temporally stable discrete personality types: an 'aggressive' or 'docile' form. We assessed how the foraging success of each phenotype changes as a function of its representation within a colony. We did this by creating experimental colonies of various compositions (six aggressives, three aggressives and three dociles, one aggressive and five dociles, six dociles), maintaining them in a common garden for 3 weeks, and tracking the mass gained by individuals of either phenotype. We found that both the docile and aggressive phenotypes experienced their greatest mass gain in mixed colonies of mostly docile individuals. However, the performance of both phenotypes decreased as the frequency of the aggressive phenotype increased. Nearly identical patterns of phenotype-specific frequency dependence were recovered in all three species. Naturally occurring colonies of these spiders exhibit mixtures dominated by the docile phenotype, suggesting that these spiders may have evolved mechanisms to maintain the compositions that maximize the success of the colony without compromising the expected reproductive output of either phenotype. © 2015 European Society For Evolutionary Biology. Journal of Evolutionary Biology © 2015 European Society For Evolutionary Biology.

Controlling High-Resolution LROC NAC Polar Mosaics to LOLA Track Data

NASA Astrophysics Data System (ADS)

Archinal, B.; Lee, E.; Weller, L.; Richie, J.; Edmundson, K.; Laura, J.; Robinson, M.; Speyerer, E.; Boyd, A.; Bowman-Cisneros, E.; Wagner, R.; Nefian, A.

2016-11-01

We describe our progress on completing 1 m resolution geodetically controlled LROC NAC illumination mosaics of both lunar poles out to 85 degrees latitude, constrained using matching to LOLA track data.

Tracing evolutionary relicts of positive selection on eight malaria-related immune genes in mammals.

PubMed

Huang, Bing-Hong; Liao, Pei-Chun

2015-07-01

Plasmodium-induced malaria widely infects primates and other mammals. Multiple past studies have revealed that positive selection could be the main evolutionary force triggering the genetic diversity of anti-malaria resistance-associated genes in human or primates. However, researchers focused most of their attention on the infra-generic and intra-specific genome evolution rather than analyzing the complete evolutionary history of mammals. Here we extend previous research by testing the evolutionary link of natural selection on eight candidate genes associated with malaria resistance in mammals. Three of the eight genes were detected to be affected by recombination, including TNF-α, iNOS and DARC. Positive selection was detected in the rest five immunogenes multiple times in different ancestral lineages of extant species throughout the mammalian evolution. Signals of positive selection were exposed in four malaria-related immunogenes in primates: CCL2, IL-10, HO1 and CD36. However, selection signals of G6PD have only been detected in non-primate eutherians. Significantly higher evolutionary rates and more radical amino acid replacement were also detected in primate CD36, suggesting its functional divergence from other eutherians. Prevalent positive selection throughout the evolutionary trajectory of mammalian malaria-related genes supports the arms race evolutionary hypothesis of host genetic response of mammalian immunogenes to infectious pathogens. © The Author(s) 2014 Reprints and permissions: sagepub.co.uk/journalsPermissions.nav.

Dual Causality and the Autonomy of Biology.

PubMed

Bock, Walter J

2017-03-01

Ernst Mayr's concept of dual causality in biology with the two forms of causes (proximate and ultimate) continues to provide an essential foundation for the philosophy of biology. They are equivalent to functional (=proximate) and evolutionary (=ultimate) causes with both required for full biological explanations. The natural sciences can be classified into nomological, historical nomological and historical dual causality, the last including only biology. Because evolutionary causality is unique to biology and must be included for all complete biological explanations, biology is autonomous from the physical sciences.

Youth Attitude Tracking Study; Fall 1979.

DTIC Science & Technology

1980-03-01

II - KEY RESULTS BY TRACKING AREA 41 2.1 Positive Propensity by Tracking Area 43 2.2 Academic Achievement and Derived Quality Index 55 2.3 Recalled...Fall 1979 wave, a total of 5,187 interviews were completed. 40) Page 3 The survey employed telephone interviewing. Respondents were selected on the...area and allows computation of total U.S. estimates. The 26 tracking areas are as follows: New York City •Albany/Buf falo H larr isburg Washington

Radar signature generation for feature-aided tracking research

NASA Astrophysics Data System (ADS)

Piatt, Teri L.; Sherwood, John U.; Musick, Stanton H.

2005-05-01

Accurately associating sensor kinematic reports to known tracks, new tracks, or clutter is one of the greatest obstacles to effective track estimation. Feature-aiding is one technology that is emerging to address this problem, and it is expected that adding target features will aid report association by enhancing track accuracy and lengthening track life. The Sensor's Directorate of the Air Force Research Laboratory is sponsoring a challenge problem called Feature-Aided Tracking of Stop-move Objects (FATSO). The long-range goal of this research is to provide a full suite of public data and software to encourage researchers from government, industry, and academia to participate in radar-based feature-aided tracking research. The FATSO program is currently releasing a vehicle database coupled to a radar signature generator. The completed FATSO system will incorporate this database/generator into a Monte Carlo simulation environment for evaluating multiplatform/multitarget tracking scenarios. The currently released data and software contains the following: eight target models, including a tank, ammo hauler, and self-propelled artillery vehicles; and a radar signature generator capable of producing SAR and HRR signatures of all eight modeled targets in almost any configuration or articulation. In addition, the signature generator creates Z-buffer data, label map data, and radar cross-section prediction and allows the user to add noise to an image while varying sensor-target geometry (roll, pitch, yaw, squint). Future capabilities of this signature generator, such as scene models and EO signatures as well as details of the complete FATSO testbed, are outlined.

Netgram: Visualizing Communities in Evolving Networks

PubMed Central

Mall, Raghvendra; Langone, Rocco; Suykens, Johan A. K.

2015-01-01

Real-world complex networks are dynamic in nature and change over time. The change is usually observed in the interactions within the network over time. Complex networks exhibit community like structures. A key feature of the dynamics of complex networks is the evolution of communities over time. Several methods have been proposed to detect and track the evolution of these groups over time. However, there is no generic tool which visualizes all the aspects of group evolution in dynamic networks including birth, death, splitting, merging, expansion, shrinkage and continuation of groups. In this paper, we propose Netgram: a tool for visualizing evolution of communities in time-evolving graphs. Netgram maintains evolution of communities over 2 consecutive time-stamps in tables which are used to create a query database using the sql outer-join operation. It uses a line-based visualization technique which adheres to certain design principles and aesthetic guidelines. Netgram uses a greedy solution to order the initial community information provided by the evolutionary clustering technique such that we have fewer line cross-overs in the visualization. This makes it easier to track the progress of individual communities in time evolving graphs. Netgram is a generic toolkit which can be used with any evolutionary community detection algorithm as illustrated in our experiments. We use Netgram for visualization of topic evolution in the NIPS conference over a period of 11 years and observe the emergence and merging of several disciplines in the field of information processing systems. PMID:26356538

Quantitative assessment of the importance of phenotypic plasticity in adaptation to climate change in wild bird populations.

PubMed

Vedder, Oscar; Bouwhuis, Sandra; Sheldon, Ben C

2013-07-01

Predictions about the fate of species or populations under climate change scenarios typically neglect adaptive evolution and phenotypic plasticity, the two major mechanisms by which organisms can adapt to changing local conditions. As a consequence, we have little understanding of the scope for organisms to track changing environments by in situ adaptation. Here, we use a detailed individual-specific long-term population study of great tits (Parus major) breeding in Wytham Woods, Oxford, UK to parameterise a mechanistic model and thus directly estimate the rate of environmental change to which in situ adaptation is possible. Using the effect of changes in early spring temperature on temporal synchrony between birds and a critical food resource, we focus in particular on the contribution of phenotypic plasticity to population persistence. Despite using conservative estimates for evolutionary and reproductive potential, our results suggest little risk of population extinction under projected local temperature change; however, this conclusion relies heavily on the extent to which phenotypic plasticity tracks the changing environment. Extrapolating the model to a broad range of life histories in birds suggests that the importance of phenotypic plasticity for adjustment to projected rates of temperature change increases with slower life histories, owing to lower evolutionary potential. Understanding the determinants and constraints on phenotypic plasticity in natural populations is thus crucial for characterising the risks that rapidly changing environments pose for the persistence of such populations.

Evolutionary model selection and parameter estimation for protein-protein interaction network based on differential evolution algorithm

PubMed Central

Huang, Lei; Liao, Li; Wu, Cathy H.

2016-01-01

Revealing the underlying evolutionary mechanism plays an important role in understanding protein interaction networks in the cell. While many evolutionary models have been proposed, the problem about applying these models to real network data, especially for differentiating which model can better describe evolutionary process for the observed network urgently remains as a challenge. The traditional way is to use a model with presumed parameters to generate a network, and then evaluate the fitness by summary statistics, which however cannot capture the complete network structures information and estimate parameter distribution. In this work we developed a novel method based on Approximate Bayesian Computation and modified Differential Evolution (ABC-DEP) that is capable of conducting model selection and parameter estimation simultaneously and detecting the underlying evolutionary mechanisms more accurately. We tested our method for its power in differentiating models and estimating parameters on the simulated data and found significant improvement in performance benchmark, as compared with a previous method. We further applied our method to real data of protein interaction networks in human and yeast. Our results show Duplication Attachment model as the predominant evolutionary mechanism for human PPI networks and Scale-Free model as the predominant mechanism for yeast PPI networks. PMID:26357273

Lesion registration for longitudinal disease tracking in an imaging informatics-based multiple sclerosis eFolder

NASA Astrophysics Data System (ADS)

Ma, Kevin; Liu, Joseph; Zhang, Xuejun; Lerner, Alex; Shiroishi, Mark; Amezcua, Lilyana; Liu, Brent

2016-03-01

We have designed and developed a multiple sclerosis eFolder system for patient data storage, image viewing, and automatic lesion quantification results stored in DICOM-SR format. The web-based system aims to be integrated in DICOM-compliant clinical and research environments to aid clinicians in patient treatments and data analysis. The system needs to quantify lesion volumes, identify and register lesion locations to track shifts in volume and quantity of lesions in a longitudinal study. In order to perform lesion registration, we have developed a brain warping and normalizing methodology using Statistical Parametric Mapping (SPM) MATLAB toolkit for brain MRI. Patients' brain MR images are processed via SPM's normalization processes, and the brain images are analyzed and warped according to the tissue probability map. Lesion identification and contouring are completed by neuroradiologists, and lesion volume quantification is completed by the eFolder's CAD program. Lesion comparison results in longitudinal studies show key growth and active regions. The results display successful lesion registration and tracking over a longitudinal study. Lesion change results are graphically represented in the web-based user interface, and users are able to correlate patient progress and changes in the MRI images. The completed lesion and disease tracking tool would enable the eFolder to provide complete patient profiles, improve the efficiency of patient care, and perform comprehensive data analysis through an integrated imaging informatics system.

A complete mitochondrial genome sequence of the wild two-humped camel (Camelus bactrianus ferus): an evolutionary history of camelidae

PubMed Central

Cui, Peng; Ji, Rimutu; Ding, Feng; Qi, Dan; Gao, Hongwei; Meng, He; Yu, Jun; Hu, Songnian; Zhang, Heping

2007-01-01

Background The family Camelidae that evolved in North America during the Eocene survived with two distinct tribes, Camelini and Lamini. To investigate the evolutionary relationship between them and to further understand the evolutionary history of this family, we determined the complete mitochondrial genome sequence of the wild two-humped camel (Camelus bactrianus ferus), the only wild survivor of the Old World camel. Results The mitochondrial genome sequence (16,680 bp) from C. bactrianus ferus contains 13 protein-coding, two rRNA, and 22 tRNA genes as well as a typical control region; this basic structure is shared by all metazoan mitochondrial genomes. Its protein-coding region exhibits codon usage common to all mammals and possesses the three cryptic stop codons shared by all vertebrates. C. bactrianus ferus together with the rest of mammalian species do not share a triplet nucleotide insertion (GCC) that encodes a proline residue found only in the nd1 gene of the New World camelid Lama pacos. This lineage-specific insertion in the L. pacos mtDNA occurred after the split between the Old and New World camelids suggests that it may have functional implication since a proline insertion in a protein backbone usually alters protein conformation significantly, and nd1 gene has not been seen as polymorphic as the rest of ND family genes among camelids. Our phylogenetic study based on complete mitochondrial genomes excluding the control region suggested that the divergence of the two tribes may occur in the early Miocene; it is much earlier than what was deduced from the fossil record (11 million years). An evolutionary history reconstructed for the family Camelidae based on cytb sequences suggested that the split of bactrian camel and dromedary may have occurred in North America before the tribe Camelini migrated from North America to Asia. Conclusion Molecular clock analysis of complete mitochondrial genomes from C. bactrianus ferus and L. pacos suggested that the two tribes diverged from their common ancestor about 25 million years ago, much earlier than what was predicted based on fossil records. PMID:17640355

A new 3D tracking method for cell mechanics investigation exploiting the capabilities of digital holography in microscopy

NASA Astrophysics Data System (ADS)

Miccio, L.; Memmolo, P.; Merola, F.; Fusco, S.; Netti, P. A.; Ferraro, P.

2014-03-01

A method for 3D tracking has been developed exploiting Digital Holography features in Microscopy (DHM). In the framework of self-consistent platform for manipulation and measurement of biological specimen we use DHM for quantitative and completely label free analysis of samples with low amplitude contrast. Tracking capability extend the potentiality of DHM allowing to monitor the motion of appropriate probes and correlate it with sample properties. Complete 3D tracking has been obtained for the probes avoiding the amplitude refocusing in traditional tracking processes. Moreover, in biology and biomedical research fields one of the main topic is the understanding of morphology and mechanics of cells and microorganisms. Biological samples present low amplitude contrast that limits the information that can be retrieved through optical bright-field microscope measurements. The main effect on light propagating in such objects is in phase. This is known as phase-retardation or phase-shift. DHM is an innovative and alternative approach in microscopy, it's a good candidate for no-invasive and complete specimen analysis because its main characteristic is the possibility to discern between intensity and phase information performing quantitative mapping of the Optical Path Length. In this paper, the flexibility of DH is employed to analyze cell mechanics of unstained cells subjected to appropriate stimuli. DHM is used to measure all the parameters useful to understand the deformations induced by external and controlled stresses on in-vitro cells. Our configuration allows 3D tracking of micro-particles and, simultaneously, furnish quantitative phase-contrast maps. Experimental results are presented and discussed for in vitro cells.

Cortical Tracking of Global and Local Variations of Speech Rhythm during Connected Natural Speech Perception.

PubMed

Alexandrou, Anna Maria; Saarinen, Timo; Kujala, Jan; Salmelin, Riitta

2018-06-19

During natural speech perception, listeners must track the global speaking rate, that is, the overall rate of incoming linguistic information, as well as transient, local speaking rate variations occurring within the global speaking rate. Here, we address the hypothesis that this tracking mechanism is achieved through coupling of cortical signals to the amplitude envelope of the perceived acoustic speech signals. Cortical signals were recorded with magnetoencephalography (MEG) while participants perceived spontaneously produced speech stimuli at three global speaking rates (slow, normal/habitual, and fast). Inherently to spontaneously produced speech, these stimuli also featured local variations in speaking rate. The coupling between cortical and acoustic speech signals was evaluated using audio-MEG coherence. Modulations in audio-MEG coherence spatially differentiated between tracking of global speaking rate, highlighting the temporal cortex bilaterally and the right parietal cortex, and sensitivity to local speaking rate variations, emphasizing the left parietal cortex. Cortical tuning to the temporal structure of natural connected speech thus seems to require the joint contribution of both auditory and parietal regions. These findings suggest that cortical tuning to speech rhythm operates on two functionally distinct levels: one encoding the global rhythmic structure of speech and the other associated with online, rapidly evolving temporal predictions. Thus, it may be proposed that speech perception is shaped by evolutionary tuning, a preference for certain speaking rates, and predictive tuning, associated with cortical tracking of the constantly changing rate of linguistic information in a speech stream.

Morphological homoplasy, life history evolution, and historical biogeography of plethodontid salamanders inferred from complete mitochondrial genomes

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

Mueller, Rachel Lockridge; Macey, J. Robert; Jaekel, Martin

2004-08-01

The evolutionary history of the largest salamander family (Plethodontidae) is characterized by extreme morphological homoplasy. Analysis of the mechanisms generating such homoplasy requires an independent, molecular phylogeny. To this end, we sequenced 24 complete mitochondrial genomes (22 plethodontids and two outgroup taxa), added data for three species from GenBank, and performed partitioned and unpartitioned Bayesian, ML, and MP phylogenetic analyses. We explored four dataset partitioning strategies to account for evolutionary process heterogeneity among genes and codon positions, all of which yielded increased model likelihoods and decreased numbers of supported nodes in the topologies (PP > 0.95) relative to the unpartitionedmore » analysis. Our phylogenetic analyses yielded congruent trees that contrast with the traditional morphology-based taxonomy; the monophyly of three out of four major groups is rejected. Reanalysis of current hypotheses in light of these new evolutionary relationships suggests that (1) a larval life history stage re-evolved from a direct-developing ancestor multiple times, (2) there is no phylogenetic support for the ''Out of Appalachia'' hypothesis of plethodontid origins, and (3) novel scenarios must be reconstructed for the convergent evolution of projectile tongues, reduction in toe number, and specialization for defensive tail loss. Some of these novel scenarios imply morphological transformation series that proceed in the opposite direction than was previously thought. In addition, they suggest surprising evolutionary lability in traits previously interpreted to be conservative.« less

Star tracking method based on multiexposure imaging for intensified star trackers.

PubMed

Yu, Wenbo; Jiang, Jie; Zhang, Guangjun

2017-07-20

The requirements for the dynamic performance of star trackers are rapidly increasing with the development of space exploration technologies. However, insufficient knowledge of the angular acceleration has largely decreased the performance of the existing star tracking methods, and star trackers may even fail to track under highly dynamic conditions. This study proposes a star tracking method based on multiexposure imaging for intensified star trackers. The accurate estimation model of the complete motion parameters, including the angular velocity and angular acceleration, is established according to the working characteristic of multiexposure imaging. The estimation of the complete motion parameters is utilized to generate the predictive star image accurately. Therefore, the correct matching and tracking between stars in the real and predictive star images can be reliably accomplished under highly dynamic conditions. Simulations with specific dynamic conditions are conducted to verify the feasibility and effectiveness of the proposed method. Experiments with real starry night sky observation are also conducted for further verification. Simulations and experiments demonstrate that the proposed method is effective and shows excellent performance under highly dynamic conditions.

The Athletic Skills Track: Age- and gender-related normative values of a motor skills test for 4- to 12-year-old children.

PubMed

Hoeboer, J J A A M; Ongena, G; Krijger-Hombergen, M; Stolk, E; Savelsbergh, G J P; de Vries, S I

2018-02-07

The aim of the presented study is to provide age- and gender-related normative values and MQ values for a motor skills test, the Athletic Skills Track, among 4- to 12-year-old children. Cross-sectional. In 2016, a total of 7977 Dutch children, 4036 boys (mean age 8.6 years, SD 2.1) and 3941 girls (mean age 8.6 years, SD 2.1), performed an age-related version of the Athletic Skills Track (AST). The AST is a track consisting of 5-7 fundamental movement skill tasks that should be completed as fast as possible. The children performed the test during a regular physical education (PE) lesson under the supervision of their own PE teacher. For each version of the AST (AST-1: n=917; AST-2: n=3947; AST-3: n=3213) age- and gender-related reference centiles were derived from the gathered data using the Lambda, Mu, Sigma (LMS) method. All children completed the AST within 60s (mean 29.6s, SD 7.7). An independent samples t-test showed that boys were significantly faster in completing the track than girls, except for the 4-year-old boys. Therefore, age- and gender-related reference centiles were derived. The reference curves demonstrate an almost linear decrease in time to complete AST-1 and AST-2 with increasing age. The present study provides age- and gender-related normative values and MQ values for the AST among 4- to 12-year-old Dutch children. With these normative values PE teachers can interpret children's performance on the AST. Copyright © 2018 Sports Medicine Australia. Published by Elsevier Ltd. All rights reserved.

Mass loss in M67 giants - Evidence from isochrone fitting

NASA Technical Reports Server (NTRS)

Tripicco, Michael J.; Dorman, Ben; Bell, R. A.

1993-01-01

A comparison between the color-magnitude diagram of M67 and a new set of theoretical evolutionary models which include all phases from the unevolved main-sequence through core-helium burning and onto the AGB is presented. The present 5-Gyr solar abundance isochrone is found to yield an excellent fit to the whole of the M67 color-magnitude diagram. A differential technique that compares the gap in color between clump giants and normal red giants, on one hand, with the temperature gap between core He-burning tracks and first-ascent RGB tracks, on the other, strongly indicates that the clump giants in M67 have masses of 0.70 solar mass or less. The extremely large amount of mass loss that is deduced is well in excess of that found for globular cluster stars. Possible resolutions of this problem are that degree of mass loss increases with total stellar mass, or with metallicity.

Successful despite poor flight performance: range expansion is associated with enhanced exploratory behaviour and fast development.

PubMed

Reim, Elisabeth; Blesinger, Simone; Förster, Lisa; Fischer, Klaus

2018-05-29

Anthropogenic interference forces species to respond to changing environmental conditions. One possible response is dispersal and concomitant range shifts, allowing individuals to escape unfavourable conditions or to track the shifting climate niche. Range expansions depend on both dispersal capacity and the ability to establish populations beyond the former range. We here compare well-established core populations with recently established edge populations in the currently northward expanding butterfly Lycaena tityrus. Edge populations were characterized by shorter development times and smaller size, a higher sensitivity to high temperature and an enhanced exploratory behaviour. The differences between core and edge populations found suggest adaptation to local climates and an enhanced dispersal ability in edge populations. In particular, enhanced exploratory behaviour may be advantageous in all steps of the dispersal process and may have facilitated the current range expansion. This study describes differences associated with a current range expansion, knowledge which might be useful for a better understanding of species responses to environmental change. We further report on variation between males and females in morphology and flight behaviour, with males showing a longer flight endurance and more pronounced exploratory behaviour than females. © 2018 European Society For Evolutionary Biology. Journal of Evolutionary Biology © 2018 European Society For Evolutionary Biology.

Versatility and Invariance in the Evolution of Homologous Heteromeric Interfaces

PubMed Central

Andreani, Jessica; Faure, Guilhem; Guerois, Raphaël

2012-01-01

Evolutionary pressures act on protein complex interfaces so that they preserve their complementarity. Nonetheless, the elementary interactions which compose the interface are highly versatile throughout evolution. Understanding and characterizing interface plasticity across evolution is a fundamental issue which could provide new insights into protein-protein interaction prediction. Using a database of 1,024 couples of close and remote heteromeric structural interologs, we studied protein-protein interactions from a structural and evolutionary point of view. We systematically and quantitatively analyzed the conservation of different types of interface contacts. Our study highlights astonishing plasticity regarding polar contacts at complex interfaces. It also reveals that up to a quarter of the residues switch out of the interface when comparing two homologous complexes. Despite such versatility, we identify two important interface descriptors which correlate with an increased conservation in the evolution of interfaces: apolar patches and contacts surrounding anchor residues. These observations hold true even when restricting the dataset to transiently formed complexes. We show that a combination of six features related either to sequence or to geometric properties of interfaces can be used to rank positions likely to share similar contacts between two interologs. Altogether, our analysis provides important tracks for extracting meaningful information from multiple sequence alignments of conserved binding partners and for discriminating near-native interfaces using evolutionary information. PMID:22952442

MESA models of the evolutionary state of the interacting binary epsilon Aurigae

NASA Astrophysics Data System (ADS)

Gibson, Justus L.; Stencel, Robert E.

2018-06-01

Using MESA code (Modules for Experiments in Stellar Astrophysics, version 9575), an evaluation was made of the evolutionary state of the epsilon Aurigae binary system (HD 31964, F0Iap + disc). We sought to satisfy several observational constraints: (1) requiring evolutionary tracks to pass close to the current temperature and luminosity of the primary star; (2) obtaining a period near the observed value of 27.1 years; (3) matching a mass function of 3.0; (4) concurrent Roche lobe overflow and mass transfer; (5) an isotopic ratio 12C/13C = 5 and, (6) matching the interferometrically determined angular diameter. A MESA model starting with binary masses of 9.85 + 4.5 M⊙, with a 100 d initial period, produces a 1.2 + 10.6 M⊙ result having a 547 d period, and a single digit 12C/13C ratio. These values were reached near an age of 20 Myr, when the donor star comes close to the observed luminosity and temperature for epsilon Aurigae A, as a post-RGB/pre-AGB star. Contemporaneously, the accretor then appears as an upper main-sequence, early B-type star. This benchmark model can provide a basis for further exploration of this interacting binary, and other long-period binary stars.

Massive stars in advanced evolutionary stages, and the progenitor of GW150914

NASA Astrophysics Data System (ADS)

Hamann, Wolf-Rainer; Oskinova, Lidia; Todt, Helge; Sander, Andreas; Hainich, Rainer; Shenar, Tomer; Ramachandran, Varsha

2017-11-01

The recent discovery of a gravitational wave from the merging of two black holes of about 30 solar masses each challenges our incomplete understanding of massive stars and their evolution. Critical ingredients comprise mass-loss, rotation, magnetic fields, internal mixing, and mass transfer in close binary systems. The imperfect knowledge of these factors implies large uncertainties for models of stellar populations and their feedback. In this contribution we summarize our empirical studies of Wolf-Rayet populations at different metallicities by means of modern non-LTE stellar atmosphere models, and confront these results with the predictions of stellar evolution models. At the metallicity of our Galaxy, stellar winds are probably too strong to leave remnant masses as high as ~30 M⊙, but given the still poor agreement between evolutionary tracks and observation even this conclusion is debatable. At the low metallicity of the Small Magellanic Cloud, all WN stars which are (at least now) single are consistent with evolving quasi-homogeneously. O and B-type stars, in contrast, seem to comply with standard evolutionary models without strong internal mixing. Close binaries which avoided early merging could evolve quasi-homogeneously and lead to close compact remnants of relatively high masses that merge within a Hubble time.

Chaos and the (un)predictability of evolution in a changing environment.

PubMed

Rego-Costa, Artur; Débarre, Florence; Chevin, Luis-Miguel

2018-02-01

Among the factors that may reduce the predictability of evolution, chaos, characterized by a strong dependence on initial conditions, has received much less attention than randomness due to genetic drift or environmental stochasticity. It was recently shown that chaos in phenotypic evolution arises commonly under frequency-dependent selection caused by competitive interactions mediated by many traits. This result has been used to argue that chaos should often make evolutionary dynamics unpredictable. However, populations also evolve largely in response to external changing environments, and such environmental forcing is likely to influence the outcome of evolution in systems prone to chaos. We investigate how a changing environment causing oscillations of an optimal phenotype interacts with the internal dynamics of an eco-evolutionary system that would be chaotic in a constant environment. We show that strong environmental forcing can improve the predictability of evolution by reducing the probability of chaos arising, and by dampening the magnitude of chaotic oscillations. In contrast, weak forcing can increase the probability of chaos, but it also causes evolutionary trajectories to track the environment more closely. Overall, our results indicate that, although chaos may occur in evolution, it does not necessarily undermine its predictability. © 2017 The Author(s). Evolution © 2017 The Society for the Study of Evolution.

The evolution of scarab beetles tracks the sequential rise of angiosperms and mammals

PubMed Central

Ahrens, Dirk; Schwarzer, Julia; Vogler, Alfried P.

2014-01-01

Extant terrestrial biodiversity arguably is driven by the evolutionary success of angiosperm plants, but the evolutionary mechanisms and timescales of angiosperm-dependent radiations remain poorly understood. The Scarabaeoidea is a diverse lineage of predominantly plant- and dung-feeding beetles. Here, we present a phylogenetic analysis of Scarabaeoidea based on four DNA markers for a taxonomically comprehensive set of specimens and link it to recently described fossil evidence. The phylogeny strongly supports multiple origins of coprophagy, phytophagy and anthophagy. The ingroup-based fossil calibration of the tree widely confirmed a Jurassic origin of the Scarabaeoidea crown group. The crown groups of phytophagous lineages began to radiate first (Pleurostict scarabs: 108 Ma; Glaphyridae between 101 Ma), followed by the later diversification of coprophagous lineages (crown-group age Scarabaeinae: 76 Ma; Aphodiinae: 50 Ma). Pollen feeding arose even later, at maximally 62 Ma in the oldest anthophagous lineage. The clear time lag between the origins of herbivores and coprophages suggests an evolutionary path driven by the angiosperms that first favoured the herbivore fauna (mammals and insects) followed by the secondary radiation of the dung feeders. This finding makes it less likely that extant dung beetle lineages initially fed on dinosaur excrements, as often hypothesized. PMID:25100705

Reconciling the Tension between the Tenure and Biological Clocks to Increase the Recruitment and Retention of Women in Academia

ERIC Educational Resources Information Center

Clark, Catherine D.; Hill, Janeen M.

2010-01-01

Most women entering tenure-track positions in the sciences do so in their late twenties or early thirties after completing a graduate degree and post-doctoral training. Tenure-track positions usually span a six or seven year probationary period during which time institutions expect unlimited commitment from the tenure-track candidates to their…

Evolution and Vaccination of Influenza Virus.

PubMed

Lam, Ham Ching; Bi, Xuan; Sreevatsan, Srinand; Boley, Daniel

2017-08-01

In this study, we present an application paradigm in which an unsupervised machine learning approach is applied to the high-dimensional influenza genetic sequences to investigate whether vaccine is a driving force to the evolution of influenza virus. We first used a visualization approach to visualize the evolutionary paths of vaccine-controlled and non-vaccine-controlled influenza viruses in a low-dimensional space. We then quantified the evolutionary differences between their evolutionary trajectories through the use of within- and between-scatter matrices computation to provide the statistical confidence to support the visualization results. We used the influenza surface Hemagglutinin (HA) gene for this study as the HA gene is the major target of the immune system. The visualization is achieved without using any clustering methods or prior information about the influenza sequences. Our results clearly showed that the evolutionary trajectories between vaccine-controlled and non-vaccine-controlled influenza viruses are different and vaccine as an evolution driving force cannot be completely eliminated.

Evolutionary Design and Simulation of a Tube Crawling Inspection Robot

NASA Technical Reports Server (NTRS)

Craft, Michael; Howsman, Tom; ONeil, Daniel; Howell, Joe T. (Technical Monitor)

2002-01-01

The Space Robotics Assembly Team Simulation (SpaceRATS) is an expansive concept that will hopefully lead to a space flight demonstration of a robotic team cooperatively assembling a system from its constitutive parts. A primary objective of the SpaceRATS project is to develop a generalized evolutionary design approach for multiple classes of robots. The portion of the overall SpaceRats program associated with the evolutionary design and simulation of an inspection robot's morphology is the subject of this paper. The vast majority of this effort has concentrated on the use and modification of Darwin2K, a robotic design and simulation software package, to analyze the design of a tube crawling robot. This robot is designed for carrying out inspection duties in relatively inaccessible locations within a liquid rocket engine similar to the SSME. A preliminary design of the tube crawler robot was completed, and the mechanical dynamics of the system were simulated. An evolutionary approach to optimizing a few parameters of the system was utilized, resulting in a more optimum design.

Are there laws of genome evolution?

PubMed

Koonin, Eugene V

2011-08-01

Research in quantitative evolutionary genomics and systems biology led to the discovery of several universal regularities connecting genomic and molecular phenomic variables. These universals include the log-normal distribution of the evolutionary rates of orthologous genes; the power law-like distributions of paralogous family size and node degree in various biological networks; the negative correlation between a gene's sequence evolution rate and expression level; and differential scaling of functional classes of genes with genome size. The universals of genome evolution can be accounted for by simple mathematical models similar to those used in statistical physics, such as the birth-death-innovation model. These models do not explicitly incorporate selection; therefore, the observed universal regularities do not appear to be shaped by selection but rather are emergent properties of gene ensembles. Although a complete physical theory of evolutionary biology is inconceivable, the universals of genome evolution might qualify as "laws of evolutionary genomics" in the same sense "law" is understood in modern physics.

Joy and happiness: a simultaneous and evolutionary concept analysis.

PubMed

Cottrell, Laura

2016-07-01

To report a simultaneous and evolutionary analysis of the concepts of joy and long-term happiness. Joy and happiness are underrepresented in the nursing literature, though negative concepts are well represented. When mentioned in the literature, neither joy nor happiness is adequately defined, explained, or clearly understood. To promote further investigation of these concepts in nursing and to explore their relationship with health and healing, conceptual clarity is an essential first step. Concept analysis. The following databases were searched, without time restrictions, for articles in English: Academic Search Complete, Anthropology Plus; ATLA Religious Database with ATLASerials; Cumulative Index of Nursing and Allied Health Literature (CINAHL); Education Research Complete; Humanities International Complete; Psych EXTRA; and SocINDEX with Full Text. The final sample size consists of 61 articles and one book, published between 1978-2014. An adapted combination of Rodgers' Evolutionary Model and Haase et al.'s Simultaneous Concept Analysis (SCA) method. Though both are positive concepts, joy and happiness have significant differences. Attributes of joy describe a spontaneous, sudden and transient concept associated with connection, awareness, and freedom. Attributes of happiness describe a pursued, long-lasting, stable mental state associated with virtue and self-control. Further exploration of joy and happiness is necessary to ascertain their relationship with health and their value to nursing practice and theory development. Nurses are encouraged to consider the value of positive concepts to all areas of nursing. © 2016 John Wiley & Sons Ltd.

ACC Effectiveness Review, 1999-2002.

ERIC Educational Resources Information Center

Wallace, Roslyn, Ed.

2002-01-01

These newsletters on Institutional Effectiveness (IE) at Austin Community College (ACC) in Texas include the following articles: (1) "The 'Fast Track'...Students Say It Works!" (2) "Are Students Successfully Completing Distance Learning Courses at ACC?" (3) "Tracking Transfers"; (4) "Math Pilot: Study Skills…

Adaptive block online learning target tracking based on super pixel segmentation

NASA Astrophysics Data System (ADS)

Cheng, Yue; Li, Jianzeng

2018-04-01

Video target tracking technology under the unremitting exploration of predecessors has made big progress, but there are still lots of problems not solved. This paper proposed a new algorithm of target tracking based on image segmentation technology. Firstly we divide the selected region using simple linear iterative clustering (SLIC) algorithm, after that, we block the area with the improved density-based spatial clustering of applications with noise (DBSCAN) clustering algorithm. Each sub-block independently trained classifier and tracked, then the algorithm ignore the failed tracking sub-block while reintegrate the rest of the sub-blocks into tracking box to complete the target tracking. The experimental results show that our algorithm can work effectively under occlusion interference, rotation change, scale change and many other problems in target tracking compared with the current mainstream algorithms.

Evolution of Modern Birds Revealed by Mitogenomics: Timing the Radiation and Origin of Major Orders

PubMed Central

Pacheco, M. Andreína; Battistuzzi, Fabia U.; Lentino, Miguel; Aguilar, Roberto F.; Kumar, Sudhir; Escalante, Ananias A.

2011-01-01

Mitochondrial (mt) genes and genomes are among the major sources of data for evolutionary studies in birds. This places mitogenomic studies in birds at the core of intense debates in avian evolutionary biology. Indeed, complete mt genomes are actively been used to unveil the phylogenetic relationships among major orders, whereas single genes (e.g., cytochrome c oxidase I [COX1]) are considered standard for species identification and defining species boundaries (DNA barcoding). In this investigation, we study the time of origin and evolutionary relationships among Neoaves orders using complete mt genomes. First, we were able to solve polytomies previously observed at the deep nodes of the Neoaves phylogeny by analyzing 80 mt genomes, including 17 new sequences reported in this investigation. As an example, we found evidence indicating that columbiforms and charadriforms are sister groups. Overall, our analyses indicate that by improving the taxonomic sampling, complete mt genomes can solve the evolutionary relationships among major bird groups. Second, we used our phylogenetic hypotheses to estimate the time of origin of major avian orders as a way to test if their diversification took place prior to the Cretaceous/Tertiary (K/T) boundary. Such timetrees were estimated using several molecular dating approaches and conservative calibration points. Whereas we found time estimates slightly younger than those reported by others, most of the major orders originated prior to the K/T boundary. Finally, we used our timetrees to estimate the rate of evolution of each mt gene. We found great variation on the mutation rates among mt genes and within different bird groups. COX1 was the gene with less variation among Neoaves orders and the one with the least amount of rate heterogeneity across lineages. Such findings support the choice of COX 1 among mt genes as target for developing DNA barcoding approaches in birds. PMID:21242529

Orbits of Four Very Massive Binaries in the R136 Cluster

NASA Astrophysics Data System (ADS)

Penny, L. R.; Massey, P.; Vukovich, J.

2001-12-01

We present radial velocity and photometry for four early-type, massive double-lined spectroscopic binaries in the R136 cluster. Three of these systems are eclipsing, allowing orbital inclinations to be determined. One of these systems, R136-38 (O3 V + O6 V), has one of the highest masses ever measured, 57 Modot, for the primary. Comparison of our masses with those derived from standard evolutionary tracks shows excellent agreement. We also identify five other light variables in the R136 cluster worthy of follow-up study.

[Nonuniformity in the evolutionary rate in the virilis: II. group of Drosophilas: application of the method of Tajima's test].

PubMed

Kulikov, A M; Lazebnyĭ, O E; Chekunova, A I; Mitrofanov, V G

2010-01-01

The steadiness of the molecular clock was estimated in 11 Drosophila species of the virilis group by sequences of five genes by applying Tajima's Simple Method. The main characteristic of this method is the independence of its phylogenetic constructions. The obtained results have completely confirmed the conclusions drawn relying on the application of the two-cluster test and the Takezaki branch-length test. In addition, the deviation of the molecular clock has found confirmation in D. virilis evolutionary lineages.

Evolutionary trends and functional anatomy of the human expanded autophagy network

PubMed Central

Till, Andreas; Saito, Rintaro; Merkurjev, Daria; Liu, Jing-Jing; Syed, Gulam Hussain; Kolnik, Martin; Siddiqui, Aleem; Glas, Martin; Scheffler, Björn; Ideker, Trey; Subramani, Suresh

2015-01-01

All eukaryotic cells utilize autophagy for protein and organelle turnover, thus assuring subcellular quality control, homeostasis, and survival. In order to address recent advances in identification of human autophagy associated genes, and to describe autophagy on a system-wide level, we established an autophagy-centered gene interaction network by merging various primary data sets and by retrieving respective interaction data. The resulting network (‘AXAN’) was analyzed with respect to subnetworks, e.g. the prime gene subnetwork (including the core machinery, signaling pathways and autophagy receptors) and the transcription subnetwork. To describe aspects of evolution within this network, we assessed the presence of protein orthologs across 99 eukaryotic model organisms. We visualized evolutionary trends for prime gene categories and evolutionary tracks for selected AXAN genes. This analysis confirms the eukaryotic origin of autophagy core genes while it points to a diverse evolutionary history of autophagy receptors. Next, we used module identification to describe the functional anatomy of the network at the level of pathway modules. In addition to obvious pathways (e.g., lysosomal degradation, insulin signaling) our data unveil the existence of context-related modules such as Rho GTPase signaling. Last, we used a tripartite, image-based RNAi – screen to test candidate genes predicted to play a role in regulation of autophagy. We verified the Rho GTPase, CDC42, as a novel regulator of autophagy-related signaling. This study emphasizes the applicability of system-wide approaches to gain novel insights into a complex biological process and to describe the human autophagy pathway at a hitherto unprecedented level of detail. PMID:26103419

Leveraging Information Technology. Track IV: Support Services.

ERIC Educational Resources Information Center

CAUSE, Boulder, CO.

Seven papers from the 1987 CAUSE conference's Track IV, Support Services, are presented. They include: "Application Development Center" (John F. Leydon); "College Information Management System: The Design and Implementation of a Completely Integrated Office Automation and Student Information System" (Karen L. Miselis);…

Complex dynamics of selection and cellular memory in adaptation to a changing environment

NASA Astrophysics Data System (ADS)

Kussell, Edo; Lin, Wei-Hsiang

We study a synthetic evolutionary system in bacteria in which an antibiotic resistance gene is controlled by a stochastic on/off switching promoter. At the population level, this system displays all the basic ingredients for evolutionary selection, including diversity, fitness differences, and heritability. At the single cell level, physiological processes can modulate the ability of selection to act. We expose the stochastic switching strains to pulses of antibiotics of different durations in periodically changing environments using microfluidics. Small populations are tracked over a large number of periods at single cell resolution, allowing the visualization and quantification of selective sweeps and counter-sweeps at the population level, as well as detailed single cell analysis. A simple model is introduced to predict long-term population growth rates from single cell measurements, and reveals unexpected aspects of population dynamics, including cellular memory that acts on a fast timescale to modulate growth rates. This work is supported by NIH Grant No. R01-GM097356.

Birth of the first ESS: George Price, John Maynard Smith, and the discovery of the lost "Antlers" paper.

PubMed

Harman, Oren

2011-01-15

The application of game theory to evolutionary problems is so commonplace today, that few stop to consider how it all began. John Maynard Smith and George R. Price's 1973 Nature article, "The Logic of Animal Conflict," is often referred to as the first description in the literature of the concept of an evolutionary stable strategy (ESS), but what was the "behind the scenes" of the writing of that seminal paper? This article tracks the little known story of the curious American polymath, George Price. As will be shown, it was an earlier paper, the lost "Antlers, Intraspecific Combat, and Altruism," sent by Price to Nature in August 1968 (Unpublished), and refereed by Maynard Smith, which instigated the birth of the first ESS. Recently, the "Antlers" paper has been re-discovered by the author, shedding new light, together with letters and journals from the personal papers of George Price and John Maynard Smith, on their historical paper. © 2010 Wiley-Liss, Inc.

Identifying irregularly shaped crime hot-spots using a multiobjective evolutionary algorithm

NASA Astrophysics Data System (ADS)

Wu, Xiaolan; Grubesic, Tony H.

2010-12-01

Spatial cluster detection techniques are widely used in criminology, geography, epidemiology, and other fields. In particular, spatial scan statistics are popular and efficient techniques for detecting areas of elevated crime or disease events. The majority of spatial scan approaches attempt to delineate geographic zones by evaluating the significance of clusters using likelihood ratio statistics tested with the Poisson distribution. While this can be effective, many scan statistics give preference to circular clusters, diminishing their ability to identify elongated and/or irregular shaped clusters. Although adjusting the shape of the scan window can mitigate some of these problems, both the significance of irregular clusters and their spatial structure must be accounted for in a meaningful way. This paper utilizes a multiobjective evolutionary algorithm to find clusters with maximum significance while quantitatively tracking their geographic structure. Crime data for the city of Cincinnati are utilized to demonstrate the advantages of the new approach and highlight its benefits versus more traditional scan statistics.

Relationship between diet and helminths in Gallotia caesaris (Sauria: Lacertidae).

PubMed

Martin, J E; Llorente, G A; Roca, V; Carretero, M A; Montori, A; Santos, X; Romeu, R

2005-01-01

Diet and helminth fauna were analysed in Gallotia caesaris, a small lacertid lizard endemic to El Hierro (Canary Islands, Spain) in order to study the evolutionary and functional relationships between the two traits. This species is omnivorous but consumed a high proportion (82.13%) of plant matter including not only seeds but also leaves and other vegetative parts. Helminth fauna included many helminth species typical of herbivorous reptiles. Both herbivory and helminth presence were higher than expected for a lizard of its size. Comparison with other lacertids suggests that both traits result from an adaptation to insular conditions but that some "evolutionary time" to develop them is needed. Canarian Gallotia lizards, a separate lineage evolving for a long time in insularity, constitutes the most advanced lacertid group in this way. Nevertheless, results for G. caesaris indicate that helminth fauna also changes seasonally tracking variation in diet (and herbivory) throughout the year, which suggests a dynamic interaction between diet and helminth parasites.

ThermalTracker Software

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

The software processes recorded thermal video and detects the flight tracks of birds and bats that passed through the camera's field of view. The output is a set of images that show complete flight tracks for any detections, with the direction of travel indicated and the thermal image of the animal delineated. A report of the descriptive features of each detected track is also output in the form of a comma-separated value text file.

Vision-based measurement for rotational speed by improving Lucas-Kanade template tracking algorithm.

PubMed

Guo, Jie; Zhu, Chang'an; Lu, Siliang; Zhang, Dashan; Zhang, Chunyu

2016-09-01

Rotational angle and speed are important parameters for condition monitoring and fault diagnosis of rotating machineries, and their measurement is useful in precision machining and early warning of faults. In this study, a novel vision-based measurement algorithm is proposed to complete this task. A high-speed camera is first used to capture the video of the rotational object. To extract the rotational angle, the template-based Lucas-Kanade algorithm is introduced to complete motion tracking by aligning the template image in the video sequence. Given the special case of nonplanar surface of the cylinder object, a nonlinear transformation is designed for modeling the rotation tracking. In spite of the unconventional and complex form, the transformation can realize angle extraction concisely with only one parameter. A simulation is then conducted to verify the tracking effect, and a practical tracking strategy is further proposed to track consecutively the video sequence. Based on the proposed algorithm, instantaneous rotational speed (IRS) can be measured accurately and efficiently. Finally, the effectiveness of the proposed algorithm is verified on a brushless direct current motor test rig through the comparison with results obtained by the microphone. Experimental results demonstrate that the proposed algorithm can extract accurately rotational angles and can measure IRS with the advantage of noncontact and effectiveness.

Research on target tracking in coal mine based on optical flow method

NASA Astrophysics Data System (ADS)

Xue, Hongye; Xiao, Qingwei

2015-03-01

To recognize, track and count the bolting machine in coal mine video images, a real-time target tracking method based on the Lucas-Kanade sparse optical flow is proposed in this paper. In the method, we judge whether the moving target deviate from its trajectory, predicate and correct the position of the moving target. The method solves the problem of failure to track the target or lose the target because of the weak light, uneven illumination and blocking. Using the VC++ platform and Opencv lib we complete the recognition and tracking. The validity of the method is verified by the result of the experiment.

Eye-tracking-based assessment of cognitive function in low-resource settings.

PubMed

Forssman, Linda; Ashorn, Per; Ashorn, Ulla; Maleta, Kenneth; Matchado, Andrew; Kortekangas, Emma; Leppänen, Jukka M

2017-04-01

Early development of neurocognitive functions in infants can be compromised by poverty, malnutrition and lack of adequate stimulation. Optimal management of neurodevelopmental problems in infants requires assessment tools that can be used early in life, and are objective and applicable across economic, cultural and educational settings. The present study examined the feasibility of infrared eye tracking as a novel and highly automated technique for assessing visual-orienting and sequence-learning abilities as well as attention to facial expressions in young (9-month-old) infants. Techniques piloted in a high-resource laboratory setting in Finland (N=39) were subsequently field-tested in a community health centre in rural Malawi (N=40). Parents' perception of the acceptability of the method (Finland 95%, Malawi 92%) and percentages of infants completing the whole eye-tracking test (Finland 95%, Malawi 90%) were high, and percentages of valid test trials (Finland 69-85%, Malawi 68-73%) satisfactory at both sites. Test completion rates were slightly higher for eye tracking (90%) than traditional observational tests (87%) in Malawi. The predicted response pattern indicative of specific cognitive function was replicated in Malawi, but Malawian infants exhibited lower response rates and slower processing speed across tasks. High test completion rates and the replication of the predicted test patterns in a novel environment in Malawi support the feasibility of eye tracking as a technique for assessing infant development in low-resource setting. Further research is needed to the test-retest stability and predictive validity of the eye-tracking scores in low-income settings. Published by the BMJ Publishing Group Limited. For permission to use (where not already granted under a licence) please go to http://www.bmj.com/company/products-services/rights-and-licensing/.

The planetary nebulae populations in five galaxies: abundance patterns and evolution

NASA Astrophysics Data System (ADS)

Stasińska, G.; Richer, M. G.; McCall, M. L.

1998-08-01

We have collected photometric and spectroscopic data on planetary nebulae (PNe) in 5 galaxies: the Milky Way (bulge), M 31 (bulge), M 32, the LMC and the SMC. We have computed the abundances of O, Ne and N and compared them from one galaxy to another. In each Galaxy, the distribution of oxygen abundances has a large dispersion. The average O/H ratio is larger in the M 31 and the Galactic bulge PNe than in those in the Magellanic Clouds. In a given galaxy, it is also larger for PNe with [O III] luminosities greater than 100 L_⊙, which are likely to probe more recent epochs in the galaxy history. We find that the M 31 and the Galactic bulge PNe extend the very tight Ne/H-O/H correlation observed in the Galactic disk and Magellanic Clouds PNe towards higher metallicities. We note that the anticorrelation between N/O and O/H that was known to occur in the Magellanic Clouds and in the disk PNe is also marginally found in the PNe of the Galactic bulge. Furthermore, we find that high N/O ratios are higher for less luminous PNe. In M 32, all PNe have a large N/O ratio, indicating that the stellar nitrogen abundance is enhanced in this galaxy. We have also compared the PN evolution in the different galactic systems by constructing diagrams that are independent of abundances, and have found strikingly different behaviours of the various samples. In order to help in the interpretation of these data, we have constructed a grid of expanding, PN photoionization models in which the central stars evolve according to the evolutionary tracks of Bl{öcker (1995). These models show that the apparent spectroscopic properties of PNe are extremely dependent, not only on the central stars, but also on the masses and expansion velocities of the nebular envelopes. The main conclusion of the confrontation of the observed samples with the model grids is that the PN populations are indeed not the same in the various parent galaxies. Both stars and nebulae are different. In particular, the central stars of the Magellanic Clouds PNe are shown to evolve differently from the hydrogen burning stellar evolutionary models of Bl{öcker (1995). In the Galactic bulge, on the other hand, the behaviour of the observed PNe is roughly compatible with the theoretical stellar evolutionary tracks. The case of M 31 is not quite clear, and additional observations are necessary. It seems that the central star mass distribution is narrower for the M 31 PNe than for the Galactic bulge PNe. We show that spectroscopy of complete samples of PNe down to a factor 100 below the maximum luminosity would help to better characterize the PN central star mass distribution. Tables 1 and 2 are only available in electronic form at the CDS via anonymous ftp to cdsarc.u-strasbg.fr (130.79.128.5) or via http: //cdsweb.u-strasbg.fr/Abstract.html

Evolutionary distinctiveness of fatty acid and polyketide synthesis in eukaryotes

PubMed Central

Kohli, Gurjeet S; John, Uwe; Van Dolah, Frances M; Murray, Shauna A

2016-01-01

Fatty acids, which are essential cell membrane constituents and fuel storage molecules, are thought to share a common evolutionary origin with polyketide toxins in eukaryotes. While fatty acids are primary metabolic products, polyketide toxins are secondary metabolites that are involved in ecologically relevant processes, such as chemical defence, and produce the adverse effects of harmful algal blooms. Selection pressures on such compounds may be different, resulting in differing evolutionary histories. Surprisingly, some studies of dinoflagellates have suggested that the same enzymes may catalyse these processes. Here we show the presence and evolutionary distinctiveness of genes encoding six key enzymes essential for fatty acid production in 13 eukaryotic lineages for which no previous sequence data were available (alveolates: dinoflagellates, Vitrella, Chromera; stramenopiles: bolidophytes, chrysophytes, pelagophytes, raphidophytes, dictyochophytes, pinguiophytes, xanthophytes; Rhizaria: chlorarachniophytes, haplosporida; euglenids) and 8 other lineages (apicomplexans, bacillariophytes, synurophytes, cryptophytes, haptophytes, chlorophyceans, prasinophytes, trebouxiophytes). The phylogeny of fatty acid synthase genes reflects the evolutionary history of the organism, indicating selection to maintain conserved functionality. In contrast, polyketide synthase gene families are highly expanded in dinoflagellates and haptophytes, suggesting relaxed constraints in their evolutionary history, while completely absent from some protist lineages. This demonstrates a vast potential for the production of bioactive polyketide compounds in some lineages of microbial eukaryotes, indicating that the evolution of these compounds may have played an important role in their ecological success. PMID:26784357

From Fault-Diagnosis and Performance Recovery of a Controlled System to Chaotic Secure Communication

NASA Astrophysics Data System (ADS)

Hsu, Wen-Teng; Tsai, Jason Sheng-Hong; Guo, Fang-Cheng; Guo, Shu-Mei; Shieh, Leang-San

Chaotic systems are often applied to encryption on secure communication, but they may not provide high-degree security. In order to improve the security of communication, chaotic systems may need to add other secure signals, but this may cause the system to diverge. In this paper, we redesign a communication scheme that could create secure communication with additional secure signals, and the proposed scheme could keep system convergence. First, we introduce the universal state-space adaptive observer-based fault diagnosis/estimator and the high-performance tracker for the sampled-data linear time-varying system with unanticipated decay factors in actuators/system states. Besides, robustness, convergence in the mean, and tracking ability are given in this paper. A residual generation scheme and a mechanism for auto-tuning switched gain is also presented, so that the introduced methodology is applicable for the fault detection and diagnosis (FDD) for actuator and state faults to yield a high tracking performance recovery. The evolutionary programming-based adaptive observer is then applied to the problem of secure communication. Whenever the tracker induces a large control input which might not conform to the input constraint of some physical systems, the proposed modified linear quadratic optimal tracker (LQT) can effectively restrict the control input within the specified constraint interval, under the acceptable tracking performance. The effectiveness of the proposed design methodology is illustrated through tracking control simulation examples.

Evolutionary trends in arvicolids and the endemic murid Mikrotia - New data and a critical overview

NASA Astrophysics Data System (ADS)

Maul, Lutz C.; Masini, Federico; Parfitt, Simon A.; Rekovets, Leonid; Savorelli, Andrea

2014-07-01

The study of evolutionary rates dates back to the work of Simpson and Haldane in the 1940s. Small mammals, especially Plio-Pleistocene arvicolids (voles and lemmings), are particularly suited for such studies because they have an unusually complete fossil record and exhibit significant evolutionary change through time. In recent decades, arvicolids have been the focus of intensive research devoted to the tempo and mode of evolutionary change and the identification of trends in dental evolution that can be used to correlate and date fossil sites. These studies have raised interesting questions about whether voles and lemmings had unique evolutionary trajectories, or show convergent evolutionary patterns with other hypsodont rodents. Here we review evolutionary patterns in selected arvicolid lineages and endemic Messinian murids (Mikrotia spp.) and discuss reasons for convergence in dental morphology in these two groups of hypsodont rodents. The results substantiate previously detected patterns, but the larger dataset shows that some trends are less regular than previous studies have suggested. With the exception of a pervasive and sustained trend towards increased hypsodonty, our results show that other features do not follow consistent patterns in all lineages, exhibiting a mosaic pattern comprising stasis, variable rate evolution and gradual unidirectional change through time. Evidence for higher evolutionary rates is found in lineages apparently undergoing adaptations to new ecological niches. In the case of Mikrotia, Microtus voles and the water vole (Mimomys-Arvicola) lineage, a shift to a fossorial lifestyle appears to have been an important driving force in their evolution. For other characters, different causes can be invoked; for example a shift to a semi-aquatic lifestyle may be responsible for the trend towards increasing size in Arvicola. Biochronological application of the data should take into account the complexity and biases of the data.

Are there ergodic limits to evolution? Ergodic exploration of genome space and convergence

PubMed Central

McLeish, Tom C. B.

2015-01-01

We examine the analogy between evolutionary dynamics and statistical mechanics to include the fundamental question of ergodicity—the representative exploration of the space of possible states (in the case of evolution this is genome space). Several properties of evolutionary dynamics are identified that allow a generalization of the ergodic dynamics, familiar in dynamical systems theory, to evolution. Two classes of evolved biological structure then arise, differentiated by the qualitative duration of their evolutionary time scales. The first class has an ergodicity time scale (the time required for representative genome exploration) longer than available evolutionary time, and has incompletely explored the genotypic and phenotypic space of its possibilities. This case generates no expectation of convergence to an optimal phenotype or possibility of its prediction. The second, more interesting, class exhibits an evolutionary form of ergodicity—essentially all of the structural space within the constraints of slower evolutionary variables have been sampled; the ergodicity time scale for the system evolution is less than the evolutionary time. In this case, some convergence towards similar optima may be expected for equivalent systems in different species where both possess ergodic evolutionary dynamics. When the fitness maximum is set by physical, rather than co-evolved, constraints, it is additionally possible to make predictions of some properties of the evolved structures and systems. We propose four structures that emerge from evolution within genotypes whose fitness is induced from their phenotypes. Together, these result in an exponential speeding up of evolution, when compared with complete exploration of genomic space. We illustrate a possible case of application and a prediction of convergence together with attaining a physical fitness optimum in the case of invertebrate compound eye resolution. PMID:26640648

Are there ergodic limits to evolution? Ergodic exploration of genome space and convergence.

PubMed

McLeish, Tom C B

2015-12-06

We examine the analogy between evolutionary dynamics and statistical mechanics to include the fundamental question of ergodicity-the representative exploration of the space of possible states (in the case of evolution this is genome space). Several properties of evolutionary dynamics are identified that allow a generalization of the ergodic dynamics, familiar in dynamical systems theory, to evolution. Two classes of evolved biological structure then arise, differentiated by the qualitative duration of their evolutionary time scales. The first class has an ergodicity time scale (the time required for representative genome exploration) longer than available evolutionary time, and has incompletely explored the genotypic and phenotypic space of its possibilities. This case generates no expectation of convergence to an optimal phenotype or possibility of its prediction. The second, more interesting, class exhibits an evolutionary form of ergodicity-essentially all of the structural space within the constraints of slower evolutionary variables have been sampled; the ergodicity time scale for the system evolution is less than the evolutionary time. In this case, some convergence towards similar optima may be expected for equivalent systems in different species where both possess ergodic evolutionary dynamics. When the fitness maximum is set by physical, rather than co-evolved, constraints, it is additionally possible to make predictions of some properties of the evolved structures and systems. We propose four structures that emerge from evolution within genotypes whose fitness is induced from their phenotypes. Together, these result in an exponential speeding up of evolution, when compared with complete exploration of genomic space. We illustrate a possible case of application and a prediction of convergence together with attaining a physical fitness optimum in the case of invertebrate compound eye resolution.

User acceptance of location-tracking technologies in health research: Implications for study design and data quality.

PubMed

Hardy, Jean; Veinot, Tiffany C; Yan, Xiang; Berrocal, Veronica J; Clarke, Philippa; Goodspeed, Robert; Gomez-Lopez, Iris N; Romero, Daniel; Vydiswaran, V G Vinod

2018-03-01

Research regarding place and health has undergone a revolution due to the availability of consumer-focused location-tracking devices that reveal fine-grained details of human mobility. Such research requires that participants accept such devices enough to use them in their daily lives. There is a need for a theoretically grounded understanding of acceptance of different location-tracking technology options, and its research implications. Guided by an extended Unified Theory of Acceptance and Use of Technology (UTAUT), we conducted a 28-day field study comparing 21 chronically ill people's acceptance of two leading, consumer-focused location-tracking technologies deployed for research purposes: (1) a location-enabled smartphone, and (2) a GPS watch/activity tracker. Participants used both, and completed two surveys and qualitative interviews. Findings revealed that all participants exerted effort to facilitate data capture, such as by incorporating devices into daily routines and developing workarounds to keep devices functioning. Nevertheless, the smartphone was perceived to be significantly easier and posed fewer usability challenges for participants than the watch. Older participants found the watch significantly more difficult to use. For both devices, effort expectancy was significantly associated with future willingness to participate in research although prosocial motivations overcame some concerns. Social influence, performance expectancy and use behavior were significantly associated with intentions to use the devices in participants' personal lives. Data gathered via the smartphone was significantly more complete than data gathered via the watch, primarily due to usability challenges. To make longer-term participation in location tracking research a reality, and to achieve complete data capture, researchers must minimize the effort involved in participation; this requires usable devices. For long-term location-tracking studies using similar devices, findings indicate that only smartphone-based tracking is up to the challenge. Copyright © 2018 Elsevier Inc. All rights reserved.

KSC-00pp1031

NASA Image and Video Library

2000-07-27

Railroad track repairs have been completed at Kennedy Space Center. This section of track is located on KSC property, just north of the NASA Causeway in the KSC Industrial Area. The repairs were required following the minor derailment of two solid rocket booster segment cars on July 18

KSC-00pp1032

NASA Image and Video Library

2000-07-27

Railroad track repairs have been completed at Kennedy Space Center. This section of track is located on KSC property, just north of the NASA Causeway in the KSC Industrial Area. The repairs were required following the minor derailment of two solid rocket booster segment cars on July 18

KSC00pp1031

NASA Image and Video Library

2000-07-27

Railroad track repairs have been completed at Kennedy Space Center. This section of track is located on KSC property, just north of the NASA Causeway in the KSC Industrial Area. The repairs were required following the minor derailment of two solid rocket booster segment cars on July 18

KSC00pp1032

NASA Image and Video Library

2000-07-27

Railroad track repairs have been completed at Kennedy Space Center. This section of track is located on KSC property, just north of the NASA Causeway in the KSC Industrial Area. The repairs were required following the minor derailment of two solid rocket booster segment cars on July 18

Tracking and data system support for the Mariner Mars 1971 mission. Volume 3: Orbit insertion through end of primary mission

NASA Technical Reports Server (NTRS)

Barnum, P. W.; Renzetti, N. A.; Textor, G. P.; Kelly, L. B.

1973-01-01

The Tracking and Data System (TDS) Support for the Mariner Mars 1971 Mission final report contains the deep space tracking and data acquisition activities in support of orbital operations. During this period a major NASA objective was accomplished: completion of the 180th revolution and 90th day of data gathering with the spacecraft about the planet Mars. Included are presentations of the TDS flight support pass chronology data for each of the Deep Space Stations used, and performance evaluation for the Deep Space Network Telemetry, Tracking, Command, and Monitor Systems. With the loss of Mariner 8 at launch, Mariner 9 assumed the mission plan of Mariner 8, which included the TV mapping cycles and a 12-hr orbital period. The mission plan was modified as a result of a severe dust storm on the surface of Mars, which delayed the start of the TV mapping cycles. Thus, the end of primary mission date was extended to complete the TV mapping cycles.

What interests them in the pictures?--differences in eye-tracking between rhesus monkeys and humans.

PubMed

Hu, Ying-Zhou; Jiang, Hui-Hui; Liu, Ci-Rong; Wang, Jian-Hong; Yu, Cheng-Yang; Carlson, Synnöve; Yang, Shang-Chuan; Saarinen, Veli-Matti; Rizak, Joshua D; Tian, Xiao-Guang; Tan, Hen; Chen, Zhu-Yue; Ma, Yuan-Ye; Hu, Xin-Tian

2013-10-01

Studies estimating eye movements have demonstrated that non-human primates have fixation patterns similar to humans at the first sight of a picture. In the current study, three sets of pictures containing monkeys, humans or both were presented to rhesus monkeys and humans. The eye movements on these pictures by the two species were recorded using a Tobii eye-tracking system. We found that monkeys paid more attention to the head and body in pictures containing monkeys, whereas both monkeys and humans paid more attention to the head in pictures containing humans. The humans always concentrated on the eyes and head in all the pictures, indicating the social role of facial cues in society. Although humans paid more attention to the hands than monkeys, both monkeys and humans were interested in the hands and what was being done with them in the pictures. This may suggest the importance and necessity of hands for survival. Finally, monkeys scored lower in eye-tracking when fixating on the pictures, as if they were less interested in looking at the screen than humans. The locations of fixation in monkeys may provide insight into the role of eye movements in an evolutionary context.

Genomic Diversity and Evolution of the Lyssaviruses

PubMed Central

Delmas, Olivier; Holmes, Edward C.; Talbi, Chiraz; Larrous, Florence; Dacheux, Laurent; Bouchier, Christiane; Bourhy, Hervé

2008-01-01

Lyssaviruses are RNA viruses with single-strand, negative-sense genomes responsible for rabies-like diseases in mammals. To date, genomic and evolutionary studies have most often utilized partial genome sequences, particularly of the nucleoprotein and glycoprotein genes, with little consideration of genome-scale evolution. Herein, we report the first genomic and evolutionary analysis using complete genome sequences of all recognised lyssavirus genotypes, including 14 new complete genomes of field isolates from 6 genotypes and one genotype that is completely sequenced for the first time. In doing so we significantly increase the extent of genome sequence data available for these important viruses. Our analysis of these genome sequence data reveals that all lyssaviruses have the same genomic organization. A phylogenetic analysis reveals strong geographical structuring, with the greatest genetic diversity in Africa, and an independent origin for the two known genotypes that infect European bats. We also suggest that multiple genotypes may exist within the diversity of viruses currently classified as ‘Lagos Bat’. In sum, we show that rigorous phylogenetic techniques based on full length genome sequence provide the best discriminatory power for genotype classification within the lyssaviruses. PMID:18446239

Meiosis completion and various sperm responses lead to unisexual and sexual reproduction modes in one clone of polyploid Carassius gibelio.

PubMed

Zhang, Jun; Sun, Min; Zhou, Li; Li, Zhi; Liu, Zhen; Li, Xi-Yin; Liu, Xiao-Li; Liu, Wei; Gui, Jian-Fang

2015-06-04

Unisexual polyploid vertebrates are commonly known to reproduce by gynogenesis, parthenogenesis, or hybridogenesis. One clone of polyploid Carassius gibelio has been revealed to possess multiple modes of unisexual gynogenesis and sexual reproduction, but the cytological and developmental mechanisms have remained unknown. In this study, normal meiosis completion was firstly confirmed by spindle co-localization of β-tubulin and Spindlin. Moreover, three types of various nuclear events and development behaviors were revealed by DAPI staining and BrdU-incorporated immunofluorescence detection during the first mitosis in the fertilized eggs by three kinds of different sperms. They include normal sexual reproduction in response to sperm from the same clone male, typical unisexual gynogenesis in response to sperm from the male of another species Cyprinus carpio, and an unusual hybrid-similar development mode in response to sperm from another different clone male. Based on these findings, we have discussed cytological and developmental mechanisms on multiple reproduction modes in the polyploid fish, and highlighted evolutionary significance of meiosis completion and evolutionary consequences of reproduction mode diversity in polyploid vertebrates.

Meiosis completion and various sperm responses lead to unisexual and sexual reproduction modes in one clone of polyploid Carassius gibelio

PubMed Central

Zhang, Jun; Sun, Min; Zhou, Li; Li, Zhi; Liu, Zhen; Li, Xi-Yin; Liu, Xiao-Li; Liu, Wei; Gui, Jian-Fang

2015-01-01

Unisexual polyploid vertebrates are commonly known to reproduce by gynogenesis, parthenogenesis, or hybridogenesis. One clone of polyploid Carassius gibelio has been revealed to possess multiple modes of unisexual gynogenesis and sexual reproduction, but the cytological and developmental mechanisms have remained unknown. In this study, normal meiosis completion was firstly confirmed by spindle co-localization of β-tubulin and Spindlin. Moreover, three types of various nuclear events and development behaviors were revealed by DAPI staining and BrdU-incorporated immunofluorescence detection during the first mitosis in the fertilized eggs by three kinds of different sperms. They include normal sexual reproduction in response to sperm from the same clone male, typical unisexual gynogenesis in response to sperm from the male of another species Cyprinus carpio, and an unusual hybrid-similar development mode in response to sperm from another different clone male. Based on these findings, we have discussed cytological and developmental mechanisms on multiple reproduction modes in the polyploid fish, and highlighted evolutionary significance of meiosis completion and evolutionary consequences of reproduction mode diversity in polyploid vertebrates. PMID:26042995

Mechanisms of Evolution in High-Consequence Drug Resistance Plasmids.

PubMed

He, Susu; Chandler, Michael; Varani, Alessandro M; Hickman, Alison B; Dekker, John P; Dyda, Fred

2016-12-06

The dissemination of resistance among bacteria has been facilitated by the fact that resistance genes are usually located on a diverse and evolving set of transmissible plasmids. However, the mechanisms generating diversity and enabling adaptation within highly successful resistance plasmids have remained obscure, despite their profound clinical significance. To understand these mechanisms, we have performed a detailed analysis of the mobilome (the entire mobile genetic element content) of a set of previously sequenced carbapenemase-producing Enterobacteriaceae (CPE) from the National Institutes of Health Clinical Center. This analysis revealed that plasmid reorganizations occurring in the natural context of colonization of human hosts were overwhelmingly driven by genetic rearrangements carried out by replicative transposons working in concert with the process of homologous recombination. A more complete understanding of the molecular mechanisms and evolutionary forces driving rearrangements in resistance plasmids may lead to fundamentally new strategies to address the problem of antibiotic resistance. The spread of antibiotic resistance among Gram-negative bacteria is a serious public health threat, as it can critically limit the types of drugs that can be used to treat infected patients. In particular, carbapenem-resistant members of the Enterobacteriaceae family are responsible for a significant and growing burden of morbidity and mortality. Here, we report on the mechanisms underlying the evolution of several plasmids carried by previously sequenced clinical Enterobacteriaceae isolates from the National Institutes of Health Clinical Center (NIH CC). Our ability to track genetic rearrangements that occurred within resistance plasmids was dependent on accurate annotation of the mobile genetic elements within the plasmids, which was greatly aided by access to long-read DNA sequencing data and knowledge of their mechanisms. Mobile genetic elements such as transposons and integrons have been strongly associated with the rapid spread of genes responsible for antibiotic resistance. Understanding the consequences of their actions allowed us to establish unambiguous evolutionary relationships between plasmids in the analysis set. Copyright © 2016 He et al.

Interest in and perceived barriers to flexible-track residencies in general surgery: a national survey of residents and program directors.

PubMed

Abbett, Sarah K; Hevelone, Nathanael D; Breen, Elizabeth M; Lipsitz, Stuart R; Peyre, Sarah E; Ashley, Stanley W; Smink, Douglas S

2011-01-01

The American Board of Surgery now permits general surgery residents to complete their clinical training over a 6-year period. Despite this new policy, the level of interest in flexible scheduling remains undefined. We sought to determine why residents and program directors (PDs) are interested in flexible tracks and to understand implementation barriers. National survey. All United States general surgery residency programs that participate in the Association of Program Directors in Surgery listserv. PDs and categorical general surgery residents in the United States. Attitudes about flexible tracks in surgery training. A flexible track was defined as a schedule that allows residents to pursue nonclinical time during residency with resulting delay in residency completion. Of the 748 residents and 81 PDs who responded, 505 residents and 45 PDs were supportive of flexible tracks (68% vs 56%, p = 0.03). Residents and PDs both were interested in flexible tracks to pursue research (86% vs 82%, p = 0.47) and child bearing (69% vs 58%, p = 0.13), but residents were more interested in pursuing international work (74% vs 53%, p = 0.004) and child rearing (63% vs 44%, p = 0.02). Although 71% of residents believe that flexible-track residents would not be respected as the equal of other residents, only 17% of PDs indicated they would not respect flexible-track residents (p < 0.001). Most residents and PDs support flexible tracks, although they differ in their motivation and perceived barriers. This finding lends support to the new policy of the American Board of Surgery. Copyright © 2011 Association of Program Directors in Surgery. Published by Elsevier Inc. All rights reserved.

IDEA: Interactive Display for Evolutionary Analyses.

PubMed

Egan, Amy; Mahurkar, Anup; Crabtree, Jonathan; Badger, Jonathan H; Carlton, Jane M; Silva, Joana C

2008-12-08

The availability of complete genomic sequences for hundreds of organisms promises to make obtaining genome-wide estimates of substitution rates, selective constraints and other molecular evolution variables of interest an increasingly important approach to addressing broad evolutionary questions. Two of the programs most widely used for this purpose are codeml and baseml, parts of the PAML (Phylogenetic Analysis by Maximum Likelihood) suite. A significant drawback of these programs is their lack of a graphical user interface, which can limit their user base and considerably reduce their efficiency. We have developed IDEA (Interactive Display for Evolutionary Analyses), an intuitive graphical input and output interface which interacts with PHYLIP for phylogeny reconstruction and with codeml and baseml for molecular evolution analyses. IDEA's graphical input and visualization interfaces eliminate the need to edit and parse text input and output files, reducing the likelihood of errors and improving processing time. Further, its interactive output display gives the user immediate access to results. Finally, IDEA can process data in parallel on a local machine or computing grid, allowing genome-wide analyses to be completed quickly. IDEA provides a graphical user interface that allows the user to follow a codeml or baseml analysis from parameter input through to the exploration of results. Novel options streamline the analysis process, and post-analysis visualization of phylogenies, evolutionary rates and selective constraint along protein sequences simplifies the interpretation of results. The integration of these functions into a single tool eliminates the need for lengthy data handling and parsing, significantly expediting access to global patterns in the data.

IDEA: Interactive Display for Evolutionary Analyses

PubMed Central

Egan, Amy; Mahurkar, Anup; Crabtree, Jonathan; Badger, Jonathan H; Carlton, Jane M; Silva, Joana C

2008-01-01

Background The availability of complete genomic sequences for hundreds of organisms promises to make obtaining genome-wide estimates of substitution rates, selective constraints and other molecular evolution variables of interest an increasingly important approach to addressing broad evolutionary questions. Two of the programs most widely used for this purpose are codeml and baseml, parts of the PAML (Phylogenetic Analysis by Maximum Likelihood) suite. A significant drawback of these programs is their lack of a graphical user interface, which can limit their user base and considerably reduce their efficiency. Results We have developed IDEA (Interactive Display for Evolutionary Analyses), an intuitive graphical input and output interface which interacts with PHYLIP for phylogeny reconstruction and with codeml and baseml for molecular evolution analyses. IDEA's graphical input and visualization interfaces eliminate the need to edit and parse text input and output files, reducing the likelihood of errors and improving processing time. Further, its interactive output display gives the user immediate access to results. Finally, IDEA can process data in parallel on a local machine or computing grid, allowing genome-wide analyses to be completed quickly. Conclusion IDEA provides a graphical user interface that allows the user to follow a codeml or baseml analysis from parameter input through to the exploration of results. Novel options streamline the analysis process, and post-analysis visualization of phylogenies, evolutionary rates and selective constraint along protein sequences simplifies the interpretation of results. The integration of these functions into a single tool eliminates the need for lengthy data handling and parsing, significantly expediting access to global patterns in the data. PMID:19061522

The genome sequence of the emerging common midwife toad virus identifies an evolutionary intermediate within ranaviruses.

PubMed

Mavian, Carla; López-Bueno, Alberto; Balseiro, Ana; Casais, Rosa; Alcamí, Antonio; Alejo, Alí

2012-04-01

Worldwide amphibian population declines have been ascribed to global warming, increasing pollution levels, and other factors directly related to human activities. These factors may additionally be favoring the emergence of novel pathogens. In this report, we have determined the complete genome sequence of the emerging common midwife toad ranavirus (CMTV), which has caused fatal disease in several amphibian species across Europe. Phylogenetic and gene content analyses of the first complete genomic sequence from a ranavirus isolated in Europe show that CMTV is an amphibian-like ranavirus (ALRV). However, the CMTV genome structure is novel and represents an intermediate evolutionary stage between the two previously described ALRV groups. We find that CMTV clusters with several other ranaviruses isolated from different hosts and locations which might also be included in this novel ranavirus group. This work sheds light on the phylogenetic relationships within this complex group of emerging, disease-causing viruses.

THE RED SUPERGIANT CONTENT OF M31

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

Massey, Philip; Evans, Kate Anne, E-mail: kevans@caltech.edu, E-mail: phil.massey@lowell.edu

2016-08-01

We investigate the red supergiant (RSG) population of M31, obtaining the radial velocities of 255 stars. These data substantiate membership of our photometrically selected sample, demonstrating that Galactic foreground stars and extragalactic RSGs can be distinguished on the basis of B V , V R two-color diagrams. In addition, we use these spectra to measure effective temperatures and assign spectral types, deriving physical properties for 192 RSGs. Comparison with the solar metallicity Geneva evolutionary tracks indicates astonishingly good agreement. The most luminous RSGs in M31 are likely evolved from 25–30 M {sub ⊙} stars, while the vast majority evolved frommore » stars with initial masses of 20 M {sub ⊙} or less. There is an interesting bifurcation in the distribution of RSGs with effective temperatures that increases with higher luminosities, with one sequence consisting of early K-type supergiants, and with the other consisting of M-type supergiants that become later (cooler) with increasing luminosities. This separation is only partially reflected in the evolutionary tracks, although that might be due to the mis-match in metallicities between the solar Geneva models and the higher-than-solar metallicity of M31. As the luminosities increase the median spectral type also increases; i.e., the higher mass RSGs spend more time at cooler temperatures than do those of lower luminosities, a result which is new to this study. Finally we discuss what would be needed observationally to successfully build a luminosity function that could be used to constrain the mass-loss rates of RSGs as our Geneva colleagues have suggested.« less

An evolutionary morphological approach for software development cost estimation.

PubMed

Araújo, Ricardo de A; Oliveira, Adriano L I; Soares, Sergio; Meira, Silvio

2012-08-01

In this work we present an evolutionary morphological approach to solve the software development cost estimation (SDCE) problem. The proposed approach consists of a hybrid artificial neuron based on framework of mathematical morphology (MM) with algebraic foundations in the complete lattice theory (CLT), referred to as dilation-erosion perceptron (DEP). Also, we present an evolutionary learning process, called DEP(MGA), using a modified genetic algorithm (MGA) to design the DEP model, because a drawback arises from the gradient estimation of morphological operators in the classical learning process of the DEP, since they are not differentiable in the usual way. Furthermore, an experimental analysis is conducted with the proposed model using five complex SDCE problems and three well-known performance metrics, demonstrating good performance of the DEP model to solve SDCE problems. Copyright © 2012 Elsevier Ltd. All rights reserved.

Going wild: what a global small-animal tracking system could do for experimental biologists.

PubMed

Wikelski, Martin; Kays, Roland W; Kasdin, N Jeremy; Thorup, Kasper; Smith, James A; Swenson, George W

2007-01-01

Tracking animals over large temporal and spatial scales has revealed invaluable and spectacular biological information, particularly when the paths and fates of individuals can be monitored on a global scale. However, only large animals (greater than approximately 300 g) currently can be followed globally because of power and size constraints on the tracking devices. And yet the vast majority of animals is small. Tracking small animals is important because they are often part of evolutionary and ecological experiments, they provide important ecosystem services and they are of conservation concern or pose harm to human health. Here, we propose a small-animal satellite tracking system that would enable the global monitoring of animals down to the size of the smallest birds, mammals (bats), marine life and eventually large insects. To create the scientific framework necessary for such a global project, we formed the ICARUS initiative (www.IcarusInitiative.org), the International Cooperation for Animal Research Using Space. ICARUS also highlights how small-animal tracking could address some of the ;Grand Challenges in Environmental Sciences' identified by the US National Academy of Sciences, such as the spread of infectious diseases or the relationship between biological diversity and ecosystem functioning. Small-animal tracking would allow the quantitative assessment of dispersal and migration in natural populations and thus help solve enigmas regarding population dynamics, extinctions and invasions. Experimental biologists may find a global small-animal tracking system helpful in testing, validating and expanding laboratory-derived discoveries in wild, natural populations. We suggest that the relatively modest investment into a global small-animal tracking system will pay off by providing unprecedented insights into both basic and applied nature. Tracking small animals over large spatial and temporal scales could prove to be one of the most powerful techniques of the early 21st century, offering potential solutions to a wide range of biological and societal questions that date back two millennia to the Greek philosopher Aristotle's enigma about songbird migration. Several of the more recent Grand Challenges in Environmental Sciences, such as the regulation and functional consequences of biological diversity or the surveillance of the population ecology of zoonotic hosts, pathogens or vectors, could also be addressed by a global small-animal tracking system. Our discussion is intended to contribute to an emerging groundswell of scientific support to make such a new technological system happen.

Clustering of Pan- and Core-genome of Lactobacillus provides Novel Evolutionary Insights for Differentiation.

PubMed

Inglin, Raffael C; Meile, Leo; Stevens, Marc J A

2018-04-24

Bacterial taxonomy aims to classify bacteria based on true evolutionary events and relies on a polyphasic approach that includes phenotypic, genotypic and chemotaxonomic analyses. Until now, complete genomes are largely ignored in taxonomy. The genus Lactobacillus consists of 173 species and many genomes are available to study taxonomy and evolutionary events. We analyzed and clustered 98 completely sequenced genomes of the genus Lactobacillus and 234 draft genomes of 5 different Lactobacillus species, i.e. L. reuteri, L. delbrueckii, L. plantarum, L. rhamnosus and L. helveticus. The core-genome of the genus Lactobacillus contains 266 genes and the pan-genome 20'800 genes. Clustering of the Lactobacillus pan- and core-genome resulted in two highly similar trees. This shows that evolutionary history is traceable in the core-genome and that clustering of the core-genome is sufficient to explore relationships. Clustering of core- and pan-genomes at species' level resulted in similar trees as well. Detailed analyses of the core-genomes showed that the functional class "genetic information processing" is conserved in the core-genome but that "signaling and cellular processes" is not. The latter class encodes functions that are involved in environmental interactions. Evolution of lactobacilli seems therefore directed by the environment. The type species L. delbrueckii was analyzed in detail and its pan-genome based tree contained two major clades whose members contained different genes yet identical functions. In addition, evidence for horizontal gene transfer between strains of L. delbrueckii, L. plantarum, and L. rhamnosus, and between species of the genus Lactobacillus is presented. Our data provide evidence for evolution of some lactobacilli according to a parapatric-like model for species differentiation. Core-genome trees are useful to detect evolutionary relationships in lactobacilli and might be useful in taxonomic analyses. Lactobacillus' evolution is directed by the environment and HGT.

Designing a model of patient tracking system for natural disaster in Iran

PubMed Central

Tavakoli, Nahid; Yarmohammadian, Mohammad H.; Safdari, Reza; Keyvanara, Mahmoud

2017-01-01

CONTEXT: Disaster patient tracking consists of identifying and registering patients, recording data on their medical conditions, settings priorities for evacuation of scene, locating the patients from scene to health care centers and then till completion of treatment and discharge. AIM: The aim of this study was to design a model of patient tracking system for natural disaster in Iran. MATERIALS AND METHODS: This applied study was conducted in two steps in 2016. First, data on disaster patient tracking systems used in selected countries were collected from library-printed and electronic references and then compared. Next, a preliminary model of disaster patient tracking system was provided using these systems and validated by Delphi technique and focus group. The data of the first step were analyzed by content analysis and those of the second step by descriptive statistics. RESULTS: Analysis of the comments of key information persons in three Delphi rounds, consisting of national experts, yielded three themes, i.e., content, function, and technology, ten subthemes, and 127 components, with consensus rate of over 75%, to provide a disaster patient tracking system for Iran. CONCLUSION: In Iran, there is no comprehensive process to manage the data on disaster patients. Offering a patient tracking system can be considered a humanitarian and effective measure to promote the process of identifying, caring for, evacuating, and transferring patients as well as documenting and following up their medical and location conditions from scene till completion of the treatment. PMID:28852666

Reverse Evolution of Armor Plates in the Threespine Stickleback

USGS Publications Warehouse

Kitano, J.; Bolnick, D.I.; Beauchamp, D.A.; Mazur, M.M.; Mori, S.; Nakano, T.; Peichel, C.L.

2008-01-01

Faced with sudden environmental changes, animals must either adapt to novel environments or go extinct. Thus, study of the mechanisms underlying rapid adaptation is crucial not??only for the understanding of natural evolutionary processes but also for the understanding of human-induced evolutionary change, which is an increasingly important problem [1-8]. In the present study, we demonstrate that the frequency of completely plated threespine stickleback fish (Gasterosteus aculeatus) has increased in an urban freshwater lake (Lake Washington, Seattle, Washington) within the last 40 years. This is a dramatic example of "reverse evolution," [9] because the general evolutionary trajectory is toward armor-plate reduction in freshwater sticklebacks [10]. On the basis of our genetic studies and simulations, we propose that the most likely cause of reverse evolution is increased selection for the completely plated morph, which we suggest could result from higher levels of trout predation after a sudden increase in water transparency during the early 1970s. Rapid evolution was facilitated by the existence of standing allelic variation in Ectodysplasin (Eda), the gene that underlies the major plate-morph locus [11]. The Lake Washington stickleback thus provides a novel example of reverse evolution, which is probably caused by a change in allele frequency at the major plate locus in response to a changing predation regime. ?? 2008 Elsevier Ltd. All rights reserved.

The evolutionary history of Saccharomyces species inferred from completed mitochondrial genomes and revision in the ‘yeast mitochondrial genetic code’

PubMed Central

Szabóová, Dana; Bielik, Peter; Poláková, Silvia; Šoltys, Katarína; Jatzová, Katarína; Szemes, Tomáš

2017-01-01

Abstract The yeast Saccharomyces are widely used to test ecological and evolutionary hypotheses. A large number of nuclear genomic DNA sequences are available, but mitochondrial genomic data are insufficient. We completed mitochondrial DNA (mtDNA) sequencing from Illumina MiSeq reads for all Saccharomyces species. All are circularly mapped molecules decreasing in size with phylogenetic distance from Saccharomyces cerevisiae but with similar gene content including regulatory and selfish elements like origins of replication, introns, free-standing open reading frames or GC clusters. Their most profound feature is species-specific alteration in gene order. The genetic code slightly differs from well-established yeast mitochondrial code as GUG is used rarely as the translation start and CGA and CGC code for arginine. The multilocus phylogeny, inferred from mtDNA, does not correlate with the trees derived from nuclear genes. mtDNA data demonstrate that Saccharomyces cariocanus should be assigned as a separate species and Saccharomyces bayanus CBS 380T should not be considered as a distinct species due to mtDNA nearly identical to Saccharomyces uvarum mtDNA. Apparently, comparison of mtDNAs should not be neglected in genomic studies as it is an important tool to understand the origin and evolutionary history of some yeast species. PMID:28992063

Application of time series discretization using evolutionary programming for classification of precancerous cervical lesions.

PubMed

Acosta-Mesa, Héctor-Gabriel; Rechy-Ramírez, Fernando; Mezura-Montes, Efrén; Cruz-Ramírez, Nicandro; Hernández Jiménez, Rodolfo

2014-06-01

In this work, we present a novel application of time series discretization using evolutionary programming for the classification of precancerous cervical lesions. The approach optimizes the number of intervals in which the length and amplitude of the time series should be compressed, preserving the important information for classification purposes. Using evolutionary programming, the search for a good discretization scheme is guided by a cost function which considers three criteria: the entropy regarding the classification, the complexity measured as the number of different strings needed to represent the complete data set, and the compression rate assessed as the length of the discrete representation. This discretization approach is evaluated using a time series data based on temporal patterns observed during a classical test used in cervical cancer detection; the classification accuracy reached by our method is compared with the well-known times series discretization algorithm SAX and the dimensionality reduction method PCA. Statistical analysis of the classification accuracy shows that the discrete representation is as efficient as the complete raw representation for the present application, reducing the dimensionality of the time series length by 97%. This representation is also very competitive in terms of classification accuracy when compared with similar approaches. Copyright © 2014 Elsevier Inc. All rights reserved.

Research on the aircraft level measurement by laser tracker

NASA Astrophysics Data System (ADS)

Ye, Xiaowen; Tang, Wuzhong; Cao, Chun

2014-09-01

The measuring principle of laser tracking system was introduced. The aircraft level measurement was completed by establish the measurement datum mark, select public sites, set up the aircraft coordinate system and transfer stations. Laser tracking measurement technology improved the work efficiency and ensured the installation precision of key components.

49 CFR 214.315 - Supervision and communication.

Code of Federal Regulations, 2010 CFR

2010-10-01

... procedures to be followed. (b) A job briefing for on-track safety shall be deemed complete only after the... ADMINISTRATION, DEPARTMENT OF TRANSPORTATION RAILROAD WORKPLACE SAFETY Roadway Worker Protection § 214.315... employee to foul a track, the employer shall provide the employee with a job briefing that includes...

49 CFR 235.10 - Contents of applications.

Code of Federal Regulations, 2012 CFR

2012-10-01

... corporate name of each applicant; (2) The manner in which applicant is involved; (3) The location of the project, giving name of operating division and nearest station; (4) The track or tracks involved; (5) A complete description of proposed changes as they would affect the existing facilities or of the section...

49 CFR 235.10 - Contents of applications.

Code of Federal Regulations, 2013 CFR

2013-10-01

... corporate name of each applicant; (2) The manner in which applicant is involved; (3) The location of the project, giving name of operating division and nearest station; (4) The track or tracks involved; (5) A complete description of proposed changes as they would affect the existing facilities or of the section...

49 CFR 235.10 - Contents of applications.

Code of Federal Regulations, 2010 CFR

2010-10-01

... corporate name of each applicant; (2) The manner in which applicant is involved; (3) The location of the project, giving name of operating division and nearest station; (4) The track or tracks involved; (5) A complete description of proposed changes as they would affect the existing facilities or of the section...

49 CFR 235.10 - Contents of applications.

Code of Federal Regulations, 2014 CFR

2014-10-01

... corporate name of each applicant; (2) The manner in which applicant is involved; (3) The location of the project, giving name of operating division and nearest station; (4) The track or tracks involved; (5) A complete description of proposed changes as they would affect the existing facilities or of the section...

49 CFR 235.10 - Contents of applications.

Code of Federal Regulations, 2011 CFR

2011-10-01

... corporate name of each applicant; (2) The manner in which applicant is involved; (3) The location of the project, giving name of operating division and nearest station; (4) The track or tracks involved; (5) A complete description of proposed changes as they would affect the existing facilities or of the section...

Vehicle track segmentation using higher order random fields

DOE PAGES

Quach, Tu -Thach

2017-01-09

Here, we present an approach to segment vehicle tracks in coherent change detection images, a product of combining two synthetic aperture radar images taken at different times. The approach uses multiscale higher order random field models to capture track statistics, such as curvatures and their parallel nature, that are not currently utilized in existing methods. These statistics are encoded as 3-by-3 patterns at different scales. The model can complete disconnected tracks often caused by sensor noise and various environmental effects. Coupling the model with a simple classifier, our approach is effective at segmenting salient tracks. We improve the F-measure onmore » a standard vehicle track data set to 0.963, up from 0.897 obtained by the current state-of-the-art method.« less

Vehicle track segmentation using higher order random fields

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

Quach, Tu -Thach

Here, we present an approach to segment vehicle tracks in coherent change detection images, a product of combining two synthetic aperture radar images taken at different times. The approach uses multiscale higher order random field models to capture track statistics, such as curvatures and their parallel nature, that are not currently utilized in existing methods. These statistics are encoded as 3-by-3 patterns at different scales. The model can complete disconnected tracks often caused by sensor noise and various environmental effects. Coupling the model with a simple classifier, our approach is effective at segmenting salient tracks. We improve the F-measure onmore » a standard vehicle track data set to 0.963, up from 0.897 obtained by the current state-of-the-art method.« less

Evolutionary Inference across Eukaryotes Identifies Specific Pressures Favoring Mitochondrial Gene Retention.

PubMed

Johnston, Iain G; Williams, Ben P

2016-02-24

Since their endosymbiotic origin, mitochondria have lost most of their genes. Although many selective mechanisms underlying the evolution of mitochondrial genomes have been proposed, a data-driven exploration of these hypotheses is lacking, and a quantitatively supported consensus remains absent. We developed HyperTraPS, a methodology coupling stochastic modeling with Bayesian inference, to identify the ordering of evolutionary events and suggest their causes. Using 2015 complete mitochondrial genomes, we inferred evolutionary trajectories of mtDNA gene loss across the eukaryotic tree of life. We find that proteins comprising the structural cores of the electron transport chain are preferentially encoded within mitochondrial genomes across eukaryotes. A combination of high GC content and high protein hydrophobicity is required to explain patterns of mtDNA gene retention; a model that accounts for these selective pressures can also predict the success of artificial gene transfer experiments in vivo. This work provides a general method for data-driven inference of the ordering of evolutionary and progressive events, here identifying the distinct features shaping mitochondrial genomes of present-day species. Copyright © 2016 Elsevier Inc. All rights reserved.

Evolutionary History of the Nesophontidae, the Last Unplaced Recent Mammal Family.

PubMed

Brace, Selina; Thomas, Jessica A; Dalén, Love; Burger, Joachim; MacPhee, Ross D E; Barnes, Ian; Turvey, Samuel T

2016-12-01

The mammalian evolutionary tree has lost several major clades through recent human-caused extinctions. This process of historical biodiversity loss has particularly affected tropical island regions such as the Caribbean, an area of great evolutionary diversification but poor molecular preservation. The most enigmatic of the recently extinct endemic Caribbean mammals are the Nesophontidae, a family of morphologically plesiomorphic lipotyphlan insectivores with no consensus on their evolutionary affinities, and which constitute the only major recent mammal clade to lack any molecular information on their phylogenetic placement. Here, we use a palaeogenomic approach to place Nesophontidae within the phylogeny of recent Lipotyphla. We recovered the near-complete mitochondrial genome and sequences for 17 nuclear genes from a ∼750-year-old Hispaniolan Nesophontes specimen, and identify a divergence from their closest living relatives, the Solenodontidae, more than 40 million years ago. Nesophontidae is thus an older distinct lineage than many extant mammalian orders, highlighting not only the role of island systems as "museums" of diversity that preserve ancient lineages, but also the major human-caused loss of evolutionary history. © The Author 2016. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

Complete mitochondrial genome sequences of three bats species and whole genome mitochondrial analyses reveal patterns of codon bias and lend support to a basal split in Chiroptera.

PubMed

Meganathan, P R; Pagan, Heidi J T; McCulloch, Eve S; Stevens, Richard D; Ray, David A

2012-01-15

Order Chiroptera is a unique group of mammals whose members have attained self-powered flight as their main mode of locomotion. Much speculation persists regarding bat evolution; however, lack of sufficient molecular data hampers evolutionary and conservation studies. Of ~1200 species, complete mitochondrial genome sequences are available for only eleven. Additional sequences should be generated if we are to resolve many questions concerning these fascinating mammals. Herein, we describe the complete mitochondrial genomes of three bats: Corynorhinus rafinesquii, Lasiurus borealis and Artibeus lituratus. We also compare the currently available mitochondrial genomes and analyze codon usage in Chiroptera. C. rafinesquii, L. borealis and A. lituratus mitochondrial genomes are 16438 bp, 17048 bp and 16709 bp, respectively. Genome organization and gene arrangements are similar to other bats. Phylogenetic analyses using complete mitochondrial genome sequences support previously established phylogenetic relationships and suggest utility in future studies focusing on the evolutionary aspects of these species. Comprehensive analyses of available bat mitochondrial genomes reveal distinct nucleotide patterns and synonymous codon preferences corresponding to different chiropteran families. These patterns suggest that mutational and selection forces are acting to different extents within Chiroptera and shape their mitochondrial genomes. Copyright © 2011 Elsevier B.V. All rights reserved.

Genome biogeography reveals the intraspecific spread of adaptive mutations for a complex trait.

PubMed

Olofsson, Jill K; Bianconi, Matheus; Besnard, Guillaume; Dunning, Luke T; Lundgren, Marjorie R; Holota, Helene; Vorontsova, Maria S; Hidalgo, Oriane; Leitch, Ilia J; Nosil, Patrik; Osborne, Colin P; Christin, Pascal-Antoine

2016-12-01

Physiological novelties are often studied at macro-evolutionary scales such that their micro-evolutionary origins remain poorly understood. Here, we test the hypothesis that key components of a complex trait can evolve in isolation and later be combined by gene flow. We use C 4 photosynthesis as a study system, a derived physiology that increases plant productivity in warm, dry conditions. The grass Alloteropsis semialata includes C 4 and non-C 4 genotypes, with some populations using laterally acquired C 4 -adaptive loci, providing an outstanding system to track the spread of novel adaptive mutations. Using genome data from C 4 and non-C 4 A. semialata individuals spanning the species' range, we infer and date past migrations of different parts of the genome. Our results show that photosynthetic types initially diverged in isolated populations, where key C 4 components were acquired. However, rare but recurrent subsequent gene flow allowed the spread of adaptive loci across genetic pools. Indeed, laterally acquired genes for key C 4 functions were rapidly passed between populations with otherwise distinct genomic backgrounds. Thus, our intraspecific study of C 4 -related genomic variation indicates that components of adaptive traits can evolve separately and later be combined through secondary gene flow, leading to the assembly and optimization of evolutionary innovations. © 2016 The Authors. Molecular Ecology Published by John Wiley & Sons Ltd.

Probabilistic modeling of the evolution of gene synteny within reconciled phylogenies

PubMed Central

2015-01-01

Background Most models of genome evolution concern either genetic sequences, gene content or gene order. They sometimes integrate two of the three levels, but rarely the three of them. Probabilistic models of gene order evolution usually have to assume constant gene content or adopt a presence/absence coding of gene neighborhoods which is blind to complex events modifying gene content. Results We propose a probabilistic evolutionary model for gene neighborhoods, allowing genes to be inserted, duplicated or lost. It uses reconciled phylogenies, which integrate sequence and gene content evolution. We are then able to optimize parameters such as phylogeny branch lengths, or probabilistic laws depicting the diversity of susceptibility of syntenic regions to rearrangements. We reconstruct a structure for ancestral genomes by optimizing a likelihood, keeping track of all evolutionary events at the level of gene content and gene synteny. Ancestral syntenies are associated with a probability of presence. We implemented the model with the restriction that at most one gene duplication separates two gene speciations in reconciled gene trees. We reconstruct ancestral syntenies on a set of 12 drosophila genomes, and compare the evolutionary rates along the branches and along the sites. We compare with a parsimony method and find a significant number of results not supported by the posterior probability. The model is implemented in the Bio++ library. It thus benefits from and enriches the classical models and methods for molecular evolution. PMID:26452018

Evolutionary dynamics and genetic diversity from three genes of Anguillid rhabdovirus.

PubMed

Bellec, Laure; Cabon, Joelle; Bergmann, Sven; de Boisséson, Claire; Engelsma, Marc; Haenen, Olga; Morin, Thierry; Olesen, Niels Jørgen; Schuetze, Heike; Toffan, Anna; Way, Keith; Bigarré, Laurent

2014-11-01

Wild freshwater eel populations have dramatically declined in recent past decades in Europe and America, partially through the impact of several factors including the wide spread of infectious diseases. The anguillid rhabdoviruses eel virus European X (EVEX) and eel virus American (EVA) potentially play a role in this decline, even if their real contribution is still unclear. In this study, we investigate the evolutionary dynamics and genetic diversity of anguiillid rhabdoviruses by analysing sequences from the glycoprotein, nucleoprotein and phosphoprotein (P) genes of 57 viral strains collected from seven countries over 40 years using maximum-likelihood and Bayesian approaches. Phylogenetic trees from the three genes are congruent and allow two monophyletic groups, European and American, to be clearly distinguished. Results of nucleotide substitution rates per site per year indicate that the P gene is expected to evolve most rapidly. The nucleotide diversity observed is low (2-3 %) for the three genes, with a significantly higher variability within the P gene, which encodes multiple proteins from a single genomic RNA sequence, particularly a small C protein. This putative C protein is a potential molecular marker suitable for characterization of distinct genotypes within anguillid rhabdoviruses. This study provides, to our knowledge, the first molecular characterization of EVA, brings new insights to the evolutionary dynamics of two genotypes of Anguillid rhabdovirus, and is a baseline for further investigations on the tracking of its spread.

The pollination niche and its role in the diversification and maintenance of the southern African flora

PubMed Central

Johnson, Steven D.

2010-01-01

The flora of southern Africa has exceptional species richness and endemism, making it an ideal system for studying the patterns and processes of evolutionary diversification. Using a wealth of recent case studies, I examine the evidence for pollinator-driven diversification in this flora. Pollination systems, which represent available niches for ecological diversification, are characterized in southern Africa by a high level of ecological and evolutionary specialization on the part of plants, and, in some cases, by pollinators as well. These systems are asymmetric, with entire plant guilds commonly specialized for a particular pollinator species or functional type, resulting in obvious convergent floral evolution among guild members. Identified modes of plant lineage diversification involving adaptation to pollinators in these guilds include (i) shifts between pollination systems, (ii) divergent use of the same pollinator, (iii) coevolution, (iv) trait tracking, and (v) floral mimicry of different model species. Microevolutionary studies confirm that pollinator shifts can be precipitated when a plant species encounters a novel pollinator fauna on its range margin, and macroevolutionary studies confirm frequent pollinator shifts associated with lineage diversification. As Darwin first noted, evolutionary specialization for particular pollinators, when resulting in ecological dependency, may increase the risk of plant extinction. I thus also consider the evidence that disturbance provokes pollination failure in some southern African plants with specialized pollination systems. PMID:20047876

The pollination niche and its role in the diversification and maintenance of the southern African flora.

PubMed

Johnson, Steven D

2010-02-12

The flora of southern Africa has exceptional species richness and endemism, making it an ideal system for studying the patterns and processes of evolutionary diversification. Using a wealth of recent case studies, I examine the evidence for pollinator-driven diversification in this flora. Pollination systems, which represent available niches for ecological diversification, are characterized in southern Africa by a high level of ecological and evolutionary specialization on the part of plants, and, in some cases, by pollinators as well. These systems are asymmetric, with entire plant guilds commonly specialized for a particular pollinator species or functional type, resulting in obvious convergent floral evolution among guild members. Identified modes of plant lineage diversification involving adaptation to pollinators in these guilds include (i) shifts between pollination systems, (ii) divergent use of the same pollinator, (iii) coevolution, (iv) trait tracking, and (v) floral mimicry of different model species. Microevolutionary studies confirm that pollinator shifts can be precipitated when a plant species encounters a novel pollinator fauna on its range margin, and macroevolutionary studies confirm frequent pollinator shifts associated with lineage diversification. As Darwin first noted, evolutionary specialization for particular pollinators, when resulting in ecological dependency, may increase the risk of plant extinction. I thus also consider the evidence that disturbance provokes pollination failure in some southern African plants with specialized pollination systems.

Consequences of interspecific variation in defenses and herbivore host choice for the ecology and evolution of Inga, a speciose rainforest tree.

PubMed

Coley, Phyllis D; Endara, María-José; Kursar, Thomas A

2018-06-01

We summarize work on a speciose Neotropical tree genus, Inga (Fabaceae), examining how interspecific variation in anti-herbivore defenses may have evolved, how defenses shape host choice by herbivores and how they might regulate community composition and influence species radiations. Defenses of expanding leaves include secondary metabolites, extrafloral nectaries, rapid leaf expansion, trichomes, and synchrony and timing of leaf production. These six classes of defenses are orthogonal, supporting independent evolutionary trajectories. Moreover, only trichomes show a phylogenetic signature, suggesting evolutionary lability in nearly all defenses. The interspecific diversity in secondary metabolite profiles does not arise from the evolution of novel compounds, but from novel combinations of common compounds, presumably due to changes in gene regulation. Herbivore host choice is determined by plant defensive traits, not host phylogeny. Neighboring plants escape each other's pests if their defenses differ enough, thereby enforcing the high local diversity typical of tropical forests. Related herbivores feed on hosts with similar defenses, implying that there are phylogenetic constraints placed on the herbivore traits that are associated with host use. Divergence in defensive traits among Inga appears to be driven by herbivore pressure. However, the lack of congruence between herbivore and host phylogeny suggests that herbivores are tracking defenses, choosing hosts based on traits for which they already have adaptations. There is, therefore, an asymmetry in the host-herbivore evolutionary arms race.

phyloXML: XML for evolutionary biology and comparative genomics

PubMed Central

Han, Mira V; Zmasek, Christian M

2009-01-01

Background Evolutionary trees are central to a wide range of biological studies. In many of these studies, tree nodes and branches need to be associated (or annotated) with various attributes. For example, in studies concerned with organismal relationships, tree nodes are associated with taxonomic names, whereas tree branches have lengths and oftentimes support values. Gene trees used in comparative genomics or phylogenomics are usually annotated with taxonomic information, genome-related data, such as gene names and functional annotations, as well as events such as gene duplications, speciations, or exon shufflings, combined with information related to the evolutionary tree itself. The data standards currently used for evolutionary trees have limited capacities to incorporate such annotations of different data types. Results We developed a XML language, named phyloXML, for describing evolutionary trees, as well as various associated data items. PhyloXML provides elements for commonly used items, such as branch lengths, support values, taxonomic names, and gene names and identifiers. By using "property" elements, phyloXML can be adapted to novel and unforeseen use cases. We also developed various software tools for reading, writing, conversion, and visualization of phyloXML formatted data. Conclusion PhyloXML is an XML language defined by a complete schema in XSD that allows storing and exchanging the structures of evolutionary trees as well as associated data. More information about phyloXML itself, the XSD schema, as well as tools implementing and supporting phyloXML, is available at . PMID:19860910

Distinct retroelement classes define evolutionary breakpoints demarcating sites of evolutionary novelty

PubMed Central

Longo, Mark S; Carone, Dawn M; Green, Eric D; O'Neill, Michael J; O'Neill, Rachel J

2009-01-01

Background Large-scale genome rearrangements brought about by chromosome breaks underlie numerous inherited diseases, initiate or promote many cancers and are also associated with karyotype diversification during species evolution. Recent research has shown that these breakpoints are nonrandomly distributed throughout the mammalian genome and many, termed "evolutionary breakpoints" (EB), are specific genomic locations that are "reused" during karyotypic evolution. When the phylogenetic trajectory of orthologous chromosome segments is considered, many of these EB are coincident with ancient centromere activity as well as new centromere formation. While EB have been characterized as repeat-rich regions, it has not been determined whether specific sequences have been retained during evolution that would indicate previous centromere activity or a propensity for new centromere formation. Likewise, the conservation of specific sequence motifs or classes at EBs among divergent mammalian taxa has not been determined. Results To define conserved sequence features of EBs associated with centromere evolution, we performed comparative sequence analysis of more than 4.8 Mb within the tammar wallaby, Macropus eugenii, derived from centromeric regions (CEN), euchromatic regions (EU), and an evolutionary breakpoint (EB) that has undergone convergent breakpoint reuse and past centromere activity in marsupials. We found a dramatic enrichment for long interspersed nucleotide elements (LINE1s) and endogenous retroviruses (ERVs) and a depletion of short interspersed nucleotide elements (SINEs) shared between CEN and EBs. We analyzed the orthologous human EB (14q32.33), known to be associated with translocations in many cancers including multiple myelomas and plasma cell leukemias, and found a conserved distribution of similar repetitive elements. Conclusion Our data indicate that EBs tracked within the class Mammalia harbor sequence features retained since the divergence of marsupials and eutherians that may have predisposed these genomic regions to large-scale chromosomal instability. PMID:19630942

Radiation-driven winds of hot stars. V - Wind models for central stars of planetary nebulae

NASA Technical Reports Server (NTRS)

Pauldrach, A.; Puls, J.; Kudritzki, R. P.; Mendez, R. H.; Heap, S. R.

1988-01-01

Wind models using the recent improvements of radiation driven wind theory by Pauldrach et al. (1986) and Pauldrach (1987) are presented for central stars of planetary nebulae. The models are computed along evolutionary tracks evolving with different stellar mass from the Asymptotic Giant Branch. We show that the calculated terminal wind velocities are in agreement with the observations and allow in principle an independent determination of stellar masses and radii. The computed mass-loss rates are in qualitative agreement with the occurrence of spectroscopic stellar wind features as a function of stellar effective temperature and gravity.

Darwin and the uses of extinction.

PubMed

Beer, Gillian

2009-01-01

We currently view extinction with dismay and even horror, but Darwin saw extinction as ordinary and as necessary to evolutionary change. Still, the degree to which extinction is fundamental to his theory is rarely discussed. This essay examines Darwin's linking of the idea of "improvement" with that of natural selection and tracks a cluster of reasons for our changed valuation of extinction now. Those reasons demonstrate how scientific information and ideological preferences have reshaped the concept. The essay challenges the reader to assess some current assumptions about extinction and concludes by considering the shift in Darwin's own understanding from the "Origin" to the late "Autobiography".

Forecasting Ecological Genomics: High-Tech Animal Instrumentation Meets High-Throughput Sequencing

PubMed Central

Shafer, Aaron B. A.; Northrup, Joseph M.; Wikelski, Martin; Wittemyer, George; Wolf, Jochen B. W.

2016-01-01

Recent advancements in animal tracking technology and high-throughput sequencing are rapidly changing the questions and scope of research in the biological sciences. The integration of genomic data with high-tech animal instrumentation comes as a natural progression of traditional work in ecological genetics, and we provide a framework for linking the separate data streams from these technologies. Such a merger will elucidate the genetic basis of adaptive behaviors like migration and hibernation and advance our understanding of fundamental ecological and evolutionary processes such as pathogen transmission, population responses to environmental change, and communication in natural populations. PMID:26745372

Cosmic growth and expansion conjoined

NASA Astrophysics Data System (ADS)

Linder, Eric V.

2017-01-01

Cosmological measurements of both the expansion history and growth history have matured, and the two together provide an important test of general relativity. We consider their joint evolutionary track, showing that this has advantages in distinguishing cosmologies relative to considering them individually or at isolated redshifts. In particular, the joint comparison relaxes the shape degeneracy that makes fσ8(z) curves difficult to separate from the overall growth amplitude. The conjoined method further helps visualization of which combinations of redshift ranges provide the clearest discrimination. We examine standard dark energy cosmologies, modified gravity, and "stuttering" growth, each showing distinct signatures.

Effects of a nurse-managed program on hepatitis A and B vaccine completion among homeless adults.

PubMed

Nyamathi, Adeline; Liu, Yihang; Marfisee, Mary; Shoptaw, Steven; Gregerson, Paul; Saab, Sammy; Leake, Barbara; Tyler, Darlene; Gelberg, Lillian

2009-01-01

Hepatitis B virus (HBV) infection constitutes a major health problem for homeless persons. Ability to complete an HBV vaccination series is complicated by the need to prioritize competing needs, such as addiction issues, safe places to sleep, and food, over health concerns. The objectives of this study were to evaluate the effectiveness of a nurse-case-managed intervention compared with that of two standard programs on completion of the combined hepatitis A virus (HAV) and HBV vaccine series among homeless adults and to assess sociodemographic factors and risk behaviors related to the vaccine completion. A randomized, three-group, prospective, quasi-experimental design was conducted with 865 homeless adults residing in homeless shelters, drug rehabilitation sites, and outdoor areas in the Skid Row area of Los Angeles. The programs included (a) nurse-case-managed sessions plus targeted hepatitis education, incentives, and tracking (NCMIT); (b) standard targeted hepatitis education plus incentives and tracking (SIT); and (c) standard targeted hepatitis education and incentives only (SI). Sixty-eight percent of the NCMIT participants completed the three-series vaccine at 6 months, compared with 61% of SIT participants and 54% of SI participants. NCMIT participants had almost 2 times greater odds of completing vaccination than those of participants in the SI program. Completers were more likely to be older, to be female, to report fair or poor health, and not to have participated in a self-help drug treatment program. Newly homeless White adults were significantly less likely than were African Americans to complete the vaccine series. The use of vaccination programs incorporating nurse case management and tracking is critical in supporting adherence to completion of a 6-month HAV/HBV vaccine. The finding that White homeless persons were the least likely to complete the vaccine series suggests that programs tailored to address their unique cultural issues are needed.

Faculty career tracks at U.S. medical schools.

PubMed

Coleman, Michelle M; Richard, George V

2011-08-01

To describe faculty career tracks at U.S. MD-granting schools and explore which institutional characteristics are associated with the career tracks. Between 2008 and 2009, the authors sought the faculty policies of 129 accredited MD-granting U.S. medical schools, through online searching and requests to faculty affairs representatives. An inventory of tenured and nontenured career tracks was conducted in the areas of teaching, research, and clinical care. Career track data were analyzed according to institutional characteristics. Complete data were collected from 98 schools (76%). On average, schools offered 3.6 career tracks to all faculty (range 1-8). Of the 353 career tracks identified, 210 were nontenured. Overall, schools offered more research tracks than education or clinical tracks. Of the 79 schools with clearly defined career tracks, 78 offered at least one clinical track; 34 offered at least one education track. Approximately 25% of the clinical tracks were tenured; 41% of the education tracks were tenured. Of the 98 schools, 61% used modified titles for faculty pursuing nontenure tracks. Schools that offered more career tracks were more likely to use modified titles for their nontenured clinical and research faculty. Schools with a smaller faculty size offered a greater number of clinical tracks, whereas community-based schools offered fewer clinical tracks. Research-intensive schools provided significantly more tenured clinical tracks. There is great variation in faculty tracks and policies across institutions. This research may help institutions craft their own faculty policies and help students, residents, and faculty in making career decisions.

Preventive evolutionary medicine of cancers.

PubMed

Hochberg, Michael E; Thomas, Frédéric; Assenat, Eric; Hibner, Urszula

2013-01-01

Evolutionary theory predicts that once an individual reaches an age of sufficiently low Darwinian fitness, (s)he will have reduced chances of keeping cancerous lesions in check. While we clearly need to better understand the emergence of precursor states and early malignancies as well as their mitigation by the microenvironment and tissue architecture, we argue that lifestyle changes and preventive therapies based in an evolutionary framework, applied to identified high-risk populations before incipient neoplasms become clinically detectable and chemoresistant lineages emerge, are currently the most reliable way to control or eliminate early tumours. Specifically, the relatively low levels of (epi)genetic heterogeneity characteristic of many if not most incipient lesions will mean a relatively limited set of possible adaptive traits and associated costs compared to more advanced cancers, and thus a more complete and predictable understanding of treatment options and outcomes. We propose a conceptual model for preventive treatments and discuss the many associated challenges.

Two-phase vesicles: a study on evolutionary and stationary models.

PubMed

Sahebifard, MohammadMahdi; Shahidi, Alireza; Ziaei-Rad, Saeed

2017-05-01

In the current article, the dynamic evolution of two-phase vesicles is presented as an extension to a previous stationary model and based on an equilibrium of local forces. In the simplified model, ignoring the effects of membrane inertia, a dynamic equilibrium between the membrane bending potential and local fluid friction is considered in each phase. The equilibrium equations at the domain borders are completed by extended introduction of membrane section reactions. We show that in some cases, the results of stationary and evolutionary models are in agreement with each other and also with experimental observations, while in others the two models differ markedly. The value of our approach is that we can account for unresponsive points of uncertainty using our equations with the local velocity of the lipid membranes and calculating the intermediate states (shapes) in the consequent evolutionary, or response, path.

Tracking and Motion Analysis of Crack Propagations in Crystals for Molecular Dynamics

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

Tsap, L V; Duchaineau, M; Goldgof, D B

2001-05-14

This paper presents a quantitative analysis for a discovery in molecular dynamics. Recent simulations have shown that velocities of crack propagations in crystals under certain conditions can become supersonic, which is contrary to classical physics. In this research, they present a framework for tracking and motion analysis of crack propagations in crystals. It includes line segment extraction based on Canny edge maps, feature selection based on physical properties, and subsequent tracking of primary and secondary wavefronts. This tracking is completely automated; it runs in real time on three 834-image sequences using forty 250 MHZ processors. Results supporting physical observations aremore » presented in terms of both feature tracking and velocity analysis.« less

Integrated Eye Tracking and Neural Monitoring for Enhanced Assessment of Mild TBI

DTIC Science & Technology

2016-04-01

and we anticipate the initiation of the neuroimaging portion of the study early in Year 3. The fMRI task has been completed and is in beta testing...neurocognitive test battery, and self-report measures of cognitive efficacy. We will also include functional magnetic resonance imagining ( fMRI ) and... fMRI and DTI will provide an objective basis for cross-validating the EEG and eye tracking system. Both the EEG and eye tracking data will be

A Suggested Automated Branch Program for Foreign Languages.

ERIC Educational Resources Information Center

Barrutia, Richard

1964-01-01

Completely automated and operated by student feedback, this program teaches and tests foreign language recognition and retention, gives repeated audiolingual practice on model structures, and allows the student to tailor the program to his individual needs. The program is recorded on four tape tracks (track 1 for the most correct answer, etc.).…

Using Dual Eye-Tracking Measures to Differentiate between Collaboration on Procedural and Conceptual Learning Activities

ERIC Educational Resources Information Center

Belenky, Daniel; Ringenberg, Michael; Olsen, Jennifer; Aleven, Vincent; Rummel, Nikol

2013-01-01

Dual eye-tracking measures enable novel ways to test predictions about collaborative learning. For example, the research project we are engaging in uses measures of gaze recurrence to help understand how collaboration may differ when students are completing various learning activities focused on different learning objectives. Specifically, we…

Why Graduate Students Reject the Fast Track

ERIC Educational Resources Information Center

Mason, Mary Ann; Goulden, Marc; Frasch, Karie

2009-01-01

The authors recently completed an unparalleled survey, with more than eight thousand doctoral student respondents across the University of California system, and what they heard is worrisome: major research universities may be losing some of the most talented tenure-track academics before they even arrive. In the eyes of many doctoral students,…

Global evolutionary isolation measures can capture key local conservation species in Nearctic and Neotropical bird communities

PubMed Central

Redding, David W.; Mooers, Arne O.; Şekercioğlu, Çağan H.; Collen, Ben

2015-01-01

Understanding how to prioritize among the most deserving imperilled species has been a focus of biodiversity science for the past three decades. Though global metrics that integrate evolutionary history and likelihood of loss have been successfully implemented, conservation is typically carried out at sub-global scales on communities of species rather than among members of complete taxonomic assemblages. Whether and how global measures map to a local scale has received little scrutiny. At a local scale, conservation-relevant assemblages of species are likely to be made up of relatively few species spread across a large phylogenetic tree, and as a consequence there are potentially relatively large amounts of evolutionary history at stake. We ask to what extent global metrics of evolutionary history are useful for conservation priority setting at the community level by evaluating the extent to which three global measures of evolutionary isolation (evolutionary distinctiveness (ED), average pairwise distance (APD) and the pendant edge or unique phylogenetic diversity (PD) contribution) capture community-level phylogenetic and trait diversity for a large sample of Neotropical and Nearctic bird communities. We find that prioritizing the most ED species globally safeguards more than twice the total PD of local communities on average, but that this does not translate into increased local trait diversity. By contrast, global APD is strongly related to the APD of those same species at the community level, and prioritizing these species also safeguards local PD and trait diversity. The next step for biologists is to understand the variation in the concordance of global and local level scores and what this means for conservation priorities: we need more directed research on the use of different measures of evolutionary isolation to determine which might best capture desirable aspects of biodiversity. PMID:25561674

Evolution of microbes and viruses: a paradigm shift in evolutionary biology?

PubMed Central

Koonin, Eugene V.; Wolf, Yuri I.

2012-01-01

When Charles Darwin formulated the central principles of evolutionary biology in the Origin of Species in 1859 and the architects of the Modern Synthesis integrated these principles with population genetics almost a century later, the principal if not the sole objects of evolutionary biology were multicellular eukaryotes, primarily animals and plants. Before the advent of efficient gene sequencing, all attempts to extend evolutionary studies to bacteria have been futile. Sequencing of the rRNA genes in thousands of microbes allowed the construction of the three- domain “ribosomal Tree of Life” that was widely thought to have resolved the evolutionary relationships between the cellular life forms. However, subsequent massive sequencing of numerous, complete microbial genomes revealed novel evolutionary phenomena, the most fundamental of these being: (1) pervasive horizontal gene transfer (HGT), in large part mediated by viruses and plasmids, that shapes the genomes of archaea and bacteria and call for a radical revision (if not abandonment) of the Tree of Life concept, (2) Lamarckian-type inheritance that appears to be critical for antivirus defense and other forms of adaptation in prokaryotes, and (3) evolution of evolvability, i.e., dedicated mechanisms for evolution such as vehicles for HGT and stress-induced mutagenesis systems. In the non-cellular part of the microbial world, phylogenomics and metagenomics of viruses and related selfish genetic elements revealed enormous genetic and molecular diversity and extremely high abundance of viruses that come across as the dominant biological entities on earth. Furthermore, the perennial arms race between viruses and their hosts is one of the defining factors of evolution. Thus, microbial phylogenomics adds new dimensions to the fundamental picture of evolution even as the principle of descent with modification discovered by Darwin and the laws of population genetics remain at the core of evolutionary biology. PMID:22993722

Tunicate mitogenomics and phylogenetics: peculiarities of the Herdmania momus mitochondrial genome and support for the new chordate phylogeny

PubMed Central

2009-01-01

Background Tunicates represent a key metazoan group as the sister-group of vertebrates within chordates. The six complete mitochondrial genomes available so far for tunicates have revealed distinctive features. Extensive gene rearrangements and particularly high evolutionary rates have been evidenced with regard to other chordates. This peculiar evolutionary dynamics has hampered the reconstruction of tunicate phylogenetic relationships within chordates based on mitogenomic data. Results In order to further understand the atypical evolutionary dynamics of the mitochondrial genome of tunicates, we determined the complete sequence of the solitary ascidian Herdmania momus. This genome from a stolidobranch ascidian presents the typical tunicate gene content with 13 protein-coding genes, 2 rRNAs and 24 tRNAs which are all encoded on the same strand. However, it also presents a novel gene arrangement, highlighting the extreme plasticity of gene order observed in tunicate mitochondrial genomes. Probabilistic phylogenetic inferences were conducted on the concatenation of the 13 mitochondrial protein-coding genes from representatives of major metazoan phyla. We show that whereas standard homogeneous amino acid models support an artefactual sister position of tunicates relative to all other bilaterians, the CAT and CAT+BP site- and time-heterogeneous mixture models place tunicates as the sister-group of vertebrates within monophyletic chordates. Moreover, the reference phylogeny indicates that tunicate mitochondrial genomes have experienced a drastic acceleration in their evolutionary rate that equally affects protein-coding and ribosomal-RNA genes. Conclusion This is the first mitogenomic study supporting the new chordate phylogeny revealed by recent phylogenomic analyses. It illustrates the beneficial effects of an increased taxon sampling coupled with the use of more realistic amino acid substitution models for the reconstruction of animal phylogeny. PMID:19922605

Tunicate mitogenomics and phylogenetics: peculiarities of the Herdmania momus mitochondrial genome and support for the new chordate phylogeny.

PubMed

Singh, Tiratha Raj; Tsagkogeorga, Georgia; Delsuc, Frédéric; Blanquart, Samuel; Shenkar, Noa; Loya, Yossi; Douzery, Emmanuel Jp; Huchon, Dorothée

2009-11-17

Tunicates represent a key metazoan group as the sister-group of vertebrates within chordates. The six complete mitochondrial genomes available so far for tunicates have revealed distinctive features. Extensive gene rearrangements and particularly high evolutionary rates have been evidenced with regard to other chordates. This peculiar evolutionary dynamics has hampered the reconstruction of tunicate phylogenetic relationships within chordates based on mitogenomic data. In order to further understand the atypical evolutionary dynamics of the mitochondrial genome of tunicates, we determined the complete sequence of the solitary ascidian Herdmania momus. This genome from a stolidobranch ascidian presents the typical tunicate gene content with 13 protein-coding genes, 2 rRNAs and 24 tRNAs which are all encoded on the same strand. However, it also presents a novel gene arrangement, highlighting the extreme plasticity of gene order observed in tunicate mitochondrial genomes. Probabilistic phylogenetic inferences were conducted on the concatenation of the 13 mitochondrial protein-coding genes from representatives of major metazoan phyla. We show that whereas standard homogeneous amino acid models support an artefactual sister position of tunicates relative to all other bilaterians, the CAT and CAT+BP site- and time-heterogeneous mixture models place tunicates as the sister-group of vertebrates within monophyletic chordates. Moreover, the reference phylogeny indicates that tunicate mitochondrial genomes have experienced a drastic acceleration in their evolutionary rate that equally affects protein-coding and ribosomal-RNA genes. This is the first mitogenomic study supporting the new chordate phylogeny revealed by recent phylogenomic analyses. It illustrates the beneficial effects of an increased taxon sampling coupled with the use of more realistic amino acid substitution models for the reconstruction of animal phylogeny.

VizieR Online Data Catalog: NIR spectrum of NGC1705-1 (Martins+, 2012)

NASA Astrophysics Data System (ADS)

Martins, F.; Foerster Schreiber, N. M.; Eisenhauer, F.; Lutz, D.

2012-10-01

We used adaptive-optics assisted integral field spectroscopy with SINFONI on the Very Large Telescope. We estimated the spatial extent of the cluster and extracted its K-band spectrum from which we constrained the age of the dominant stellar population. Results. Our observations have an angular resolution of about 0.11", providing an upper limit on the cluster radius of 2.85+/-0.50pc depending on the assumed distance. The K-band spectrum is dominated by strong CO absorption bandheads typical of red supergiants. Its spectral type is equivalent to a K4-5I star. Using evolutionary tracks from the Geneva and Utrecht groups, we determine an age of 12+/-6Myr. The large uncertainty is rooted in the large difference between the Geneva and Utrecht tracks in the red supergiants regime. The absence of ionized gas lines in the K-band spectrum is consistent with the absence of O and/or Wolf-Rayet stars in the cluster, as expected for the estimated age. (2 data files).

Quantifying condition-dependent intracellular protein levels enables high-precision fitness estimates.

PubMed

Geiler-Samerotte, Kerry A; Hashimoto, Tatsunori; Dion, Michael F; Budnik, Bogdan A; Airoldi, Edoardo M; Drummond, D Allan

2013-01-01

Countless studies monitor the growth rate of microbial populations as a measure of fitness. However, an enormous gap separates growth-rate differences measurable in the laboratory from those that natural selection can distinguish efficiently. Taking advantage of the recent discovery that transcript and protein levels in budding yeast closely track growth rate, we explore the possibility that growth rate can be more sensitively inferred by monitoring the proteomic response to growth, rather than growth itself. We find a set of proteins whose levels, in aggregate, enable prediction of growth rate to a higher precision than direct measurements. However, we find little overlap between these proteins and those that closely track growth rate in other studies. These results suggest that, in yeast, the pathways that set the pace of cell division can differ depending on the growth-altering stimulus. Still, with proper validation, protein measurements can provide high-precision growth estimates that allow extension of phenotypic growth-based assays closer to the limits of evolutionary selection.

Tracking the Obscured Star Formation Along the Complete Evolutionary Merger Sequence of LIRGs

NASA Astrophysics Data System (ADS)

Diaz-Santos, Tanio

2014-10-01

We propose to obtain WFC3 narrow-band Pa-beta imaging of a sample of 24 nearby luminous infrared (IR) galaxies (LIRGs) from the Great Observatories All-sky LIRG survey (GOALS) selected to be in advanced stages of interaction. LIRGs account for half of the obscured star formation of the Universe at z ~ 1-2, and they represent a key population in galaxy formation and evolution. We will use the Pa-beta images to trace the ionized gas in LIRGs and study its spatial distribution from scales of ~ 100 pc to up to several kpc, probing the youngest, massive stars formed in the most buried environments of LIRGs due to the interaction process. This will allow us to measure how the gas in the center of mergers is converted into stars, which eventually leads to the build-up of a nuclear stellar cusp and the "inside-out" growth of bulges. We will also create spatially-resolved Pa-beta equivalent width maps to search for age gradients across the galaxies and correlate the distribution of Pa-beta emission with that of un-obscured star clusters detected in the UV and optical with HST on the same spatial scales. Finally, we will combine our data with previous studies mainly focused on isolated and early-stage interacting LIRG systems to analyze the size and compactness of the starburst along the complete merger sequence of LIRGs. The requested data represent a critical missing piece of information that will allow us to understand both the physics of merger-induced star formation and the applicability of local LIRGs as templates for high-z interacting starburst galaxies.

INFRARED TWO-COLOR DIAGRAMS FOR AGB STARS, POST-AGB STARS, AND PLANETARY NEBULAE

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

Suh, Kyung-Won, E-mail: kwsuh@chungbuk.ac.kr

2015-08-01

We present various infrared two-color diagrams (2CDs) for asymptotic giant branch (AGB) stars, post-AGB stars, and Planetary Nebulae (PNe) and investigate possible evolutionary tracks. We use catalogs from the available literature for the sample of 4903 AGB stars (3373 O-rich; 1168 C-rich; 362 S-type), 660 post-AGB stars (326 post-AGB; 334 pre-PN), and 1510 PNe in our Galaxy. For each object in the catalog, we cross-identify the IRAS, AKARI, Midcourse Space Experiment, and 2MASS counterparts. The IR 2CDs can provide useful information about the structure and evolution of the dust envelopes as well as the central stars. To find possible evolutionarymore » tracks from AGB stars to PNe on the 2CDs, we investigate spectral evolution of post-AGB stars by making simple but reasonable assumptions on the evolution of the central star and dust shell. We perform radiative transfer model calculations for the detached dust shells around evolving central stars in the post-AGB phase. We find that the theoretical dust shell model tracks using dust opacity functions of amorphous silicate and amorphous carbon roughly coincide with the densely populated observed points of AGB stars, post-AGB stars, and PNe on various IR 2CDs. Even though some discrepancies are inevitable, the end points of the theoretical post-AGB model tracks generally converge in the region of the observed points of PNe on most 2CDs.« less

PSO Algorithm Particle Filters for Improving the Performance of Lane Detection and Tracking Systems in Difficult Roads

PubMed Central

Cheng, Wen-Chang

2012-01-01

In this paper we propose a robust lane detection and tracking method by combining particle filters with the particle swarm optimization method. This method mainly uses the particle filters to detect and track the local optimum of the lane model in the input image and then seeks the global optimal solution of the lane model by a particle swarm optimization method. The particle filter can effectively complete lane detection and tracking in complicated or variable lane environments. However, the result obtained is usually a local optimal system status rather than the global optimal system status. Thus, the particle swarm optimization method is used to further refine the global optimal system status in all system statuses. Since the particle swarm optimization method is a global optimization algorithm based on iterative computing, it can find the global optimal lane model by simulating the food finding way of fish school or insects under the mutual cooperation of all particles. In verification testing, the test environments included highways and ordinary roads as well as straight and curved lanes, uphill and downhill lanes, lane changes, etc. Our proposed method can complete the lane detection and tracking more accurately and effectively then existing options. PMID:23235453

Assessing the evolutionary rate of positional orthologous genes in prokaryotes using synteny data

PubMed Central

Lemoine, Frédéric; Lespinet, Olivier; Labedan, Bernard

2007-01-01

Background Comparison of completely sequenced microbial genomes has revealed how fluid these genomes are. Detecting synteny blocks requires reliable methods to determining the orthologs among the whole set of homologs detected by exhaustive comparisons between each pair of completely sequenced genomes. This is a complex and difficult problem in the field of comparative genomics but will help to better understand the way prokaryotic genomes are evolving. Results We have developed a suite of programs that automate three essential steps to study conservation of gene order, and validated them with a set of 107 bacteria and archaea that cover the majority of the prokaryotic taxonomic space. We identified the whole set of shared homologs between two or more species and computed the evolutionary distance separating each pair of homologs. We applied two strategies to extract from the set of homologs a collection of valid orthologs shared by at least two genomes. The first computes the Reciprocal Smallest Distance (RSD) using the PAM distances separating pairs of homologs. The second method groups homologs in families and reconstructs each family's evolutionary tree, distinguishing bona fide orthologs as well as paralogs created after the last speciation event. Although the phylogenetic tree method often succeeds where RSD fails, the reverse could occasionally be true. Accordingly, we used the data obtained with either methods or their intersection to number the orthologs that are adjacent in for each pair of genomes, the Positional Orthologous Genes (POGs), and to further study their properties. Once all these synteny blocks have been detected, we showed that POGs are subject to more evolutionary constraints than orthologs outside synteny groups, whichever the taxonomic distance separating the compared organisms. Conclusion The suite of programs described in this paper allows a reliable detection of orthologs and is useful for evaluating gene order conservation in prokaryotes whichever their taxonomic distance. Thus, our approach will make easy the rapid identification of POGS in the next few years as we are expecting to be inundated with thousands of completely sequenced microbial genomes. PMID:18047665

Resistance to extreme strategies, rather than prosocial preferences, can explain human cooperation in public goods games.

PubMed

Kümmerli, Rolf; Burton-Chellew, Maxwell N; Ross-Gillespie, Adin; West, Stuart A

2010-06-01

The results of numerous economic games suggest that humans behave more cooperatively than would be expected if they were maximizing selfish interests. It has been argued that this is because individuals gain satisfaction from the success of others, and that such prosocial preferences require a novel evolutionary explanation. However, in previous games, imperfect behavior would automatically lead to an increase in cooperation, making it impossible to decouple any form of mistake or error from prosocial cooperative decisions. Here we empirically test between these alternatives by decoupling imperfect behavior from prosocial preferences in modified versions of the public goods game, in which individuals would maximize their selfish gain by completely (100%) cooperating. We found that, although this led to higher levels of cooperation, it did not lead to full cooperation, and individuals still perceived their group mates as competitors. This is inconsistent with either selfish or prosocial preferences, suggesting that the most parsimonious explanation is imperfect behavior triggered by psychological drives that can prevent both complete defection and complete cooperation. More generally, our results illustrate the caution that must be exercised when interpreting the evolutionary implications of economic experiments, especially the absolute level of cooperation in a particular treatment.

Normalization of Complete Genome Characteristics: Application to Evolution from Primitive Organisms to Homo sapiens.

PubMed

Sorimachi, Kenji; Okayasu, Teiji; Ohhira, Shuji

2015-04-01

Normalized nucleotide and amino acid contents of complete genome sequences can be visualized as radar charts. The shapes of these charts depict the characteristics of an organism's genome. The normalized values calculated from the genome sequence theoretically exclude experimental errors. Further, because normalization is independent of both target size and kind, this procedure is applicable not only to single genes but also to whole genomes, which consist of a huge number of different genes. In this review, we discuss the applications of the normalization of the nucleotide and predicted amino acid contents of complete genomes to the investigation of genome structure and to evolutionary research from primitive organisms to Homo sapiens. Some of the results could never have been obtained from the analysis of individual nucleotide or amino acid sequences but were revealed only after the normalization of nucleotide and amino acid contents was applied to genome research. The discovery that genome structure was homogeneous was obtained only after normalization methods were applied to the nucleotide or predicted amino acid contents of genome sequences. Normalization procedures are also applicable to evolutionary research. Thus, normalization of the contents of whole genomes is a useful procedure that can help to characterize organisms.

Complete chloroplast genome sequences of Praxelis (Eupatorium catarium Veldkamp), an important invasive species.

PubMed

Zhang, Ying; Li, Lei; Yan, Ting Liang; Liu, Qiang

2014-10-01

Praxelis (Eupatorium catarium Veldkamp) is a new hazardous invasive plant species that has caused serious economic losses and environmental damage in the Northern hemisphere tropical and subtropical regions. Although previous studies focused on detecting the biological characteristics of this plant to prevent its expansion, little effort has been made to understand the impact of Praxelis on the ecosystem in an evolutionary process. The genetic information of Praxelis is required for further phylogenetic identification and evolutionary studies. Here, we report the complete Praxelis chloroplast (cp) genome sequence. The Praxelis chloroplast genome is 151,410 bp in length including a small single-copy region (18,547 bp) and a large single-copy region (85,311 bp) separated by a pair of inverted repeats (IRs; 23,776 bp). The genome contains 85 unique and 18 duplicated genes in the IR region. The gene content and organization are similar to other Asteraceae tribe cp genomes. We also analyzed the whole cp genome sequence, repeat structure, codon usage, contraction of the IR and gene structure/organization features between native and invasive Asteraceae plants, in order to understand the evolution of organelle genomes between native and invasive Asteraceae. Comparative analysis identified the 14 markers containing greater than 2% parsimony-informative characters, indicating that they are potential informative markers for barcoding and phylogenetic analysis. Moreover, a sister relationship between Praxelis and seven other species in Asteraceae was found based on phylogenetic analysis of 28 protein-coding sequences. Complete cp genome information is useful for plant phylogenetic and evolutionary studies within this invasive species and also within the Asteraceae family. Copyright © 2014 Elsevier B.V. All rights reserved.

Reconstructing community assembly in time and space reveals enemy escape in a Western Palearctic insect community.

PubMed

Stone, Graham N; Lohse, Konrad; Nicholls, James A; Fuentes-Utrilla, Pablo; Sinclair, Frazer; Schönrogge, Karsten; Csóka, György; Melika, George; Nieves-Aldrey, Jose-Luis; Pujade-Villar, Juli; Tavakoli, Majide; Askew, Richard R; Hickerson, Michael J

2012-03-20

How geographically widespread biological communities assemble remains a major question in ecology. Do parallel population histories allow sustained interactions (such as host-parasite or plant-pollinator) among species, or do discordant histories necessarily interrupt them? Though few empirical data exist, these issues are central to our understanding of multispecies evolutionary dynamics. Here we use hierarchical approximate Bayesian analysis of DNA sequence data for 12 herbivores and 19 parasitoids to reconstruct the assembly of an insect community spanning the Western Palearctic and assess the support for alternative host tracking and ecological sorting hypotheses. We show that assembly occurred primarily by delayed host tracking from a shared eastern origin. Herbivores escaped their enemies for millennia before parasitoid pursuit restored initial associations, with generalist parasitoids no better able to track their hosts than specialists. In contrast, ecological sorting played only a minor role. Substantial turnover in host-parasitoid associations means that coevolution must have been diffuse, probably contributing to the parasitoid generalism seen in this and similar systems. Reintegration of parasitoids after host escape shows these communities to have been unsaturated throughout their history, arguing against major roles for parasitoid niche evolution or competition during community assembly. Copyright © 2012 Elsevier Ltd. All rights reserved.

New Parallaxes for the Upper Scorpius OB Association

NASA Astrophysics Data System (ADS)

Donaldson, J. K.; Weinberger, A. J.; Gagné, J.; Boss, A. P.; Keiser, S. A.

2017-11-01

Upper Scorpius is a subgroup of the nearest OB association, Scorpius-Centaurus. Its young age makes it an important association to study star and planet formation. We present parallaxes to 52 low-mass stars in Upper Scorpius, 28 of which have full kinematics. We measure ages of the individual stars by combining our measured parallaxes with pre-main-sequence evolutionary tracks. We find a significant difference in the ages of stars with and without circumstellar disks. The stars without disks have a mean age of 4.9 ± 0.8 Myr and those with disks have an older mean age of 8.2 ± 0.9 Myr. This somewhat counterintuitive result suggests that evolutionary effects in young stars can dominate their apparent ages. We also attempt to use the 28 stars with full kinematics (I.e., proper motion, radial velocity (RV), and parallax) to trace the stars back in time to their original birthplace to obtain a trackback age. As expected, given the large measurement uncertainties on available RV measurements, we find that measurement uncertainties alone cause the group to diverge after a few Myr.

Observational constraints for C-rich AGB stars

NASA Astrophysics Data System (ADS)

Rau, G.; Hron, J.; Paladini, C.; Aringer, B.; Marigo, P.; Eriksson, K.

We modeled the atmospheres of six carbon-rich Asymptotic Giant Branch stars (R Lep, R Vol, Y Pav, AQ Sgr, U Hya, and X TrA) using VLTI/MIDI interferometric observations, together with spectro-photometric data, we compared them with self-consistent, dynamic model atmospheres. The results show that the models can reproduce the Spectral Energy Distribution (SED) data well at wavelengths longer than 1 mu m, and the interferometric observations between 8 mu m and 10 mu m. We found differences at wavelengths shorter than 1 mu m in the SED, and longer than 10 mu m in the visibilities. The discrepancies observed can be explained in terms of a combination of data- and model-related reasons. We derived some stellar parameters, and our findings agree well with literature values within the uncertainties. Also, when comparing the location of the stars in the H-R diagram, with evolutionary tracks, the results show that the main derived properties (L, Teff, C/O ratios and stellar masses) from the model fitting are in good agreement with TP-AGB evolutionary calculations.

Tomographic separation of composite spectra. The components of Plaskett's Star

NASA Technical Reports Server (NTRS)

Bagnuolo, William G., Jr.; Gies, Douglas R.; Wiggs, Michael S.

1991-01-01

The UV photospheric lines of Plaskett's Star (HD 47129), a 14.4 day period, double lined O-type spectroscopic binary were analyzed. Archival data from IUE (17 spectra well distributed in orbital phase) were analyzed with several techniques. A cross correlation analysis, which showed that the secondary produces significant lines in the UV, indicates that the mass ratio is q = 1.18 + or - 0.12 (secondary slightly more massive). A tomography algorithm was used to produce the separate spectra of the two stars in six spectral regions. The interpolated spectral classifications of the primary and secondary, 07.3 I and 06.2 I, respectively, were estimated through a comparison of UV line ratios with those in spectral standard stars. The intensity ratio of the stars in the UV is 0.53 + or - 0.05 (primary brighter). The secondary lines appear rotationally broadened, and the projected rotational velocity V sin i for this star is estimated to be 310 + or - 20 km/s. The possible evolutionary history of this system is discussed through a comparison of the positions of the components and evolutionary tracks in the H-R diagram.

A dynamic parking charge optimal control model under perspective of commuters' evolutionary game behavior

NASA Astrophysics Data System (ADS)

Lin, XuXun; Yuan, PengCheng

2018-01-01

In this research we consider commuters' dynamic learning effect by modeling the trip mode choice behavior from a new perspective of dynamic evolutionary game theory. We explore the behavior pattern of different types of commuters and study the evolution path and equilibrium properties under different traffic conditions. We further establish a dynamic parking charge optimal control (referred to as DPCOC) model to alter commuters' trip mode choice while minimizing the total social cost. Numerical tests show. (1) Under fixed parking fee policy, the evolutionary results are completely decided by the travel time and the only method for public transit induction is to increase the parking charge price. (2) Compared with fixed parking fee policy, DPCOC policy proposed in this research has several advantages. Firstly, it can effectively turn the evolutionary path and evolutionary stable strategy to a better situation while minimizing the total social cost. Secondly, it can reduce the sensitivity of trip mode choice behavior to traffic congestion and improve the ability to resist interferences and emergencies. Thirdly, it is able to control the private car proportion to a stable state and make the trip behavior more predictable for the transportation management department. The research results can provide theoretical basis and decision-making references for commuters' mode choice prediction, dynamic setting of urban parking charge prices and public transit induction.

Measuring Contours of Coal-Seam Cuts

NASA Technical Reports Server (NTRS)

1983-01-01

Angle transducers measure angle between track sections as longwall shearer proceeds along coal face. Distance transducer functions in conjunction with angle transducers to obtain relative angles at known positions. When cut is complete, accumulated data are stored on cassette tape, and track profile is computed and displayed. Micro-processor-based instrument integrates small changes in angle and distance.

Using Eye Tracking to Investigate Semantic and Spatial Representations of Scientific Diagrams during Text-Diagram Integration

ERIC Educational Resources Information Center

Jian, Yu-Cin; Wu, Chao-Jung

2015-01-01

We investigated strategies used by readers when reading a science article with a diagram and assessed whether semantic and spatial representations were constructed while reading the diagram. Seventy-one undergraduate participants read a scientific article while tracking their eye movements and then completed a reading comprehension test. Our…

The New Space Network: the Tracking and Data Relay Satellite System

NASA Technical Reports Server (NTRS)

Froehlich, W.

1986-01-01

When the Tracking and Data Relay Satellite System (TDRSS)is completed, the system, together with its various NASA support elements will be known simply as the Space Networks. It will substantially increase information exchanges between low-orbiting spacecraft and the ground. The structural design, functions, earth-based links, and present and future use are discussed.

Yearly Success and Progress Rates (Fall 2010 Entering Cohort). Snapshot™ Report

ERIC Educational Resources Information Center

National Student Clearinghouse, 2017

2017-01-01

This snapshot goes beyond traditional measures of postsecondary attainment by tracking the fall 2010 entering cohort over time, and showing persistence, stop-out, and completion rates at the end of each subsequent academic year. The model tracks outcomes for both full-time and part-time starters, and takes spring and summer terms into account.…

FOLLOW-UP ALPHA-TRACK MONITORING IN 40 EASTERN PENNSYLVANIA HOUSES WITH INDOOR RADON REDUCTION SYSTEMS (WINTER 1988-89)

EPA Science Inventory

The report gives results of 4-month-long alpha-track detector (ATD) measurements of indoor radon concentrations, completed during the winter of 1988-89 in 38 of 40 houses where radon reduction techniques had been installed 2-4 years previously during an earlier EPA project. The t...

Intentional Response Distortion on Personality Tests: Using Eye-Tracking to Understand Response Processes when Faking

ERIC Educational Resources Information Center

van Hooft, Edwin A. J.; Born, Marise Ph.

2012-01-01

Intentional response distortion or faking among job applicants completing measures such as personality and integrity tests is a concern in personnel selection. The present study aimed to investigate whether eye-tracking technology can improve our understanding of the response process when faking. In an experimental within-participants design, a…

Parent-child talk about the origins of living things.

PubMed

Tenenbaum, Harriet R; Hohenstein, Jill M

2016-10-01

This study examined relations between 124 British children's and their parents' endorsements about the origins of three living things (human, non-human animal, and plant) as reported on questionnaires. In addition to completing questionnaires, half of the sample discussed the origins of entities (n=64) in parent-child dyads before completing the questionnaires. The 7-year-old age group endorsed creationism more than evolution, and the 10-year-old age group endorsed both concepts equally for all three living things. Children's endorsements were correlated with their parents' endorsements for all three living things. Children's endorsement of evolutionary theory was more closely related to parent-child conversational mentions of evolution than to parents' endorsement of evolutionary theory in questionnaires. A similar pattern was found for children's endorsement of creationism. Parent-child conversations did not consistently invoke evolution or creationism even when parents endorsed a particular theory. Findings are interpreted in relation to the pivotal role of joint collaborative conversation in children's appropriation of scientific content. Copyright © 2016 Elsevier Inc. All rights reserved.

Complete mitochondrial genome of the brown alga Sargassum fusiforme (Sargassaceae, Phaeophyceae): genome architecture and taxonomic consideration.

PubMed

Liu, Feng; Pang, Shaojun; Luo, Minbo

2016-01-01

Sargassum fusiforme (Harvey) Setchell (=Hizikia fusiformis (Harvey) Okamura) is one of the most important economic seaweeds for mariculture in China. In this study, we present the complete mitochondrial genome of S. fusiforme. The genome is 34,696 bp in length with circular organization, encoding the standard set of three ribosomal RNA genes (rRNA), 25 transfer RNA genes (tRNA), 35 protein-coding genes, and two conserved open reading frames (ORFs). Its total AT content is 62.47%, lower than other brown algae except Pylaiella littoralis. The mitogenome carries 1571 bp of intergenic region constituting 4.53% of the genome, and 13 pairs of overlapping genes with the overlap size from 1 to 90 bp. The phylogenetic analyses based on 35 protein-coding genes reveal that S. fusiforme has a closer evolutionary relationship with Sargassum muticum than Sargassum horneri, indicating Hizikia are not distinct evolutionary entity and should be reduced to synonymy with Sargassum.

Spatial evolutionary public goods game on complete graph and dense complex networks

NASA Astrophysics Data System (ADS)

Kim, Jinho; Chae, Huiseung; Yook, Soon-Hyung; Kim, Yup

2015-03-01

We study the spatial evolutionary public goods game (SEPGG) with voluntary or optional participation on a complete graph (CG) and on dense networks. Based on analyses of the SEPGG rate equation on finite CG, we find that SEPGG has two stable states depending on the value of multiplication factor r, illustrating how the ``tragedy of the commons'' and ``an anomalous state without any active participants'' occurs in real-life situations. When r is low (), the state with only loners is stable, and the state with only defectors is stable when r is high (). We also derive the exact scaling relation for r*. All of the results are confirmed by numerical simulation. Furthermore, we find that a cooperator-dominant state emerges when the number of participants or the mean degree, , decreases. We also investigate the scaling dependence of the emergence of cooperation on r and . These results show how ``tragedy of the commons'' disappears when cooperation between egoistic individuals without any additional socioeconomic punishment increases.

Automatic weld torch guidance control system

NASA Technical Reports Server (NTRS)

Smaith, H. E.; Wall, W. A.; Burns, M. R., Jr.

1982-01-01

A highly reliable, fully digital, closed circuit television optical, type automatic weld seam tracking control system was developed. This automatic tracking equipment is used to reduce weld tooling costs and increase overall automatic welding reliability. The system utilizes a charge injection device digital camera which as 60,512 inidividual pixels as the light sensing elements. Through conventional scanning means, each pixel in the focal plane is sequentially scanned, the light level signal digitized, and an 8-bit word transmitted to scratch pad memory. From memory, the microprocessor performs an analysis of the digital signal and computes the tracking error. Lastly, the corrective signal is transmitted to a cross seam actuator digital drive motor controller to complete the closed loop, feedback, tracking system. This weld seam tracking control system is capable of a tracking accuracy of + or - 0.2 mm, or better. As configured, the system is applicable to square butt, V-groove, and lap joint weldments.

Error rate information in attention allocation pilot models

NASA Technical Reports Server (NTRS)

Faulkner, W. H.; Onstott, E. D.

1977-01-01

The Northrop urgency decision pilot model was used in a command tracking task to compare the optimized performance of multiaxis attention allocation pilot models whose urgency functions were (1) based on tracking error alone, and (2) based on both tracking error and error rate. A matrix of system dynamics and command inputs was employed, to create both symmetric and asymmetric two axis compensatory tracking tasks. All tasks were single loop on each axis. Analysis showed that a model that allocates control attention through nonlinear urgency functions using only error information could not achieve performance of the full model whose attention shifting algorithm included both error and error rate terms. Subsequent to this analysis, tracking performance predictions for the full model were verified by piloted flight simulation. Complete model and simulation data are presented.

Comparative systems biology across an evolutionary gradient within the Shewanella genus.

PubMed

Konstantinidis, Konstantinos T; Serres, Margrethe H; Romine, Margaret F; Rodrigues, Jorge L M; Auchtung, Jennifer; McCue, Lee-Ann; Lipton, Mary S; Obraztsova, Anna; Giometti, Carol S; Nealson, Kenneth H; Fredrickson, James K; Tiedje, James M

2009-09-15

To what extent genotypic differences translate to phenotypic variation remains a poorly understood issue of paramount importance for several cornerstone concepts of microbiology including the species definition. Here, we take advantage of the completed genomic sequences, expressed proteomic profiles, and physiological studies of 10 closely related Shewanella strains and species to provide quantitative insights into this issue. Our analyses revealed that, despite extensive horizontal gene transfer within these genomes, the genotypic and phenotypic similarities among the organisms were generally predictable from their evolutionary relatedness. The power of the predictions depended on the degree of ecological specialization of the organisms evaluated. Using the gradient of evolutionary relatedness formed by these genomes, we were able to partly isolate the effect of ecology from that of evolutionary divergence and to rank the different cellular functions in terms of their rates of evolution. Our ranking also revealed that whole-cell protein expression differences among these organisms, when the organisms were grown under identical conditions, were relatively larger than differences at the genome level, suggesting that similarity in gene regulation and expression should constitute another important parameter for (new) species description. Collectively, our results provide important new information toward beginning a systems-level understanding of bacterial species and genera.

Gender approaches to evolutionary multi-objective optimization using pre-selection of criteria

NASA Astrophysics Data System (ADS)

Kowalczuk, Zdzisław; Białaszewski, Tomasz

2018-01-01

A novel idea to perform evolutionary computations (ECs) for solving highly dimensional multi-objective optimization (MOO) problems is proposed. Following the general idea of evolution, it is proposed that information about gender is used to distinguish between various groups of objectives and identify the (aggregate) nature of optimality of individuals (solutions). This identification is drawn out of the fitness of individuals and applied during parental crossover in the processes of evolutionary multi-objective optimization (EMOO). The article introduces the principles of the genetic-gender approach (GGA) and virtual gender approach (VGA), which are not just evolutionary techniques, but constitute a completely new rule (philosophy) for use in solving MOO tasks. The proposed approaches are validated against principal representatives of the EMOO algorithms of the state of the art in solving benchmark problems in the light of recognized EC performance criteria. The research shows the superiority of the gender approach in terms of effectiveness, reliability, transparency, intelligibility and MOO problem simplification, resulting in the great usefulness and practicability of GGA and VGA. Moreover, an important feature of GGA and VGA is that they alleviate the 'curse' of dimensionality typical of many engineering designs.

Natural selection. IV. The Price equation*

PubMed Central

Frank, Steven A.

2012-01-01

The Price equation partitions total evolutionary change into two components. The first component provides an abstract expression of natural selection. The second component subsumes all other evolutionary processes, including changes during transmission. The natural selection component is often used in applications. Those applications attract widespread interest for their simplicity of expression and ease of interpretation. Those same applications attract widespread criticism by dropping the second component of evolutionary change and by leaving unspecified the detailed assumptions needed for a complete study of dynamics. Controversies over approximation and dynamics have nothing to do with the Price equation itself, which is simply a mathematical equivalence relation for total evolutionary change expressed in an alternative form. Disagreements about approach have to do with the tension between the relative valuation of abstract versus concrete analyses. The Price equation’s greatest value has been on the abstract side, particularly the invariance relations that illuminate the understanding of natural selection. Those abstract insights lay the foundation for applications in terms of kin selection, information theory interpretations of natural selection, and partitions of causes by path analysis. I discuss recent critiques of the Price equation by Nowak and van Veelen. PMID:22487312

Yellow Fever Virus Exhibits Slower Evolutionary Dynamics than Dengue Virus ▿ †

PubMed Central

Sall, Amadou A.; Faye, Ousmane; Diallo, Mawlouth; Firth, Cadhla; Kitchen, Andrew; Holmes, Edward C.

2010-01-01

Although yellow fever has historically been one of the most important viral infections of humans, relatively little is known about the evolutionary processes that shape its genetic diversity. Similarly, there is limited information on the molecular epidemiology of yellow fever virus (YFV) in Africa even though it most likely first emerged on this continent. Through an analysis of complete E gene sequences, including a newly acquired viral collection from Central and West Africa (Senegal, Cameroon, Central African Republic, Côte d'Ivoire, Mali, and Mauritania), we show that YFV exhibits markedly lower rates of evolutionary change than dengue virus, despite numerous biological similarities between these two viruses. From this observation, along with a lack of clock-like evolutionary behavior in YFV, we suggest that vertical transmission, itself characterized by lower replication rates, may play an important role in the evolution of YFV in its enzootic setting. Despite a reduced rate of nucleotide substitution, phylogenetic patterns and estimates of times to common ancestry in YFV still accord well with the dual histories of colonialism and the slave trade, with areas of sylvatic transmission (such as Kedougou, Senegal) acting as enzootic/epidemic foci. PMID:19889759

An evolutionary ecology of individual differences

PubMed Central

Dall, Sasha R. X.; Bell, Alison M.; Bolnick, Daniel I.; Ratnieks, Francis L. W.

2014-01-01

Individuals often differ in what they do. This has been recognised since antiquity. Nevertheless, the ecological and evolutionary significance of such variation is attracting widespread interest, which is burgeoning to an extent that is fragmenting the literature. As a first attempt at synthesis, we focus on individual differences in behaviour within populations that exceed the day-to-day variation in individual behaviour (i.e. behavioural specialisation). Indeed, the factors promoting ecologically relevant behavioural specialisation within natural populations are likely to have far-reaching ecological and evolutionary consequences. We discuss such individual differences from three distinct perspectives: individual niche specialisations, the division of labour within insect societies and animal personality variation. In the process, while recognising that each area has its own unique motivations, we identify a number of opportunities for productive ‘crossfertilisation’ among the (largely independent) bodies of work. We conclude that a complete understanding of evolutionarily and ecologically relevant individual differences must specify how ecological interactions impact the basic biological process (e.g. Darwinian selection, development and information processing) that underpin the organismal features determining behavioural specialisations. Moreover, there is likely to be covariation amongst behavioural specialisations. Thus, we sketch the key elements of a general framework for studying the evolutionary ecology of individual differences. PMID:22897772

Evolutionary dynamics of retrotransposons assessed by high-throughput sequencing in wild relatives of wheat.

PubMed

Senerchia, Natacha; Wicker, Thomas; Felber, François; Parisod, Christian

2013-01-01

Transposable elements (TEs) represent a major fraction of plant genomes and drive their evolution. An improved understanding of genome evolution requires the dynamics of a large number of TE families to be considered. We put forward an approach bypassing the required step of a complete reference genome to assess the evolutionary trajectories of high copy number TE families from genome snapshot with high-throughput sequencing. Low coverage sequencing of the complex genomes of Aegilops cylindrica and Ae. geniculata using 454 identified more than 70% of the sequences as known TEs, mainly long terminal repeat (LTR) retrotransposons. Comparing the abundance of reads as well as patterns of sequence diversity and divergence within and among genomes assessed the dynamics of 44 major LTR retrotransposon families of the 165 identified. In particular, molecular population genetics on individual TE copies distinguished recently active from quiescent families and highlighted different evolutionary trajectories of retrotransposons among related species. This work presents a suite of tools suitable for current sequencing data, allowing to address the genome-wide evolutionary dynamics of TEs at the family level and advancing our understanding of the evolution of nonmodel genomes.

The complete coding region sequence of river buffalo (Bubalus bubalis) SRY gene.

PubMed

Parma, Pietro; Feligini, Maria; Greppi, Gianfranco; Enne, Giuseppe

2004-02-01

The Y-linked SRY gene is responsible for testis determination in mammals. Mutations in this gene can lead to XY Gonadal Dysgenesis, an abnormal sexual phenotype described in humans, cattle, horses and river buffalo. We report here the complete river buffalo SRY sequence in order to enable the genetic diagnosis of this disease. The SRY sequence was also used to confirm the evolutionary divergence time between cattle and river buffalo 10 million years ago.

Track following of Ξ-hyperons in nuclear emulsion for the E07 experiment

NASA Astrophysics Data System (ADS)

Mishina, Akihiro; Nakazawa, Kazuma; Hoshino, Kaoru; Itonaga, Kazunori; Yoshida, Junya; Than Tint, Khin; Kyaw Soe, Myint; Kinbara, Shinji; Itoh, Hiroki; Endo, Yoko; Kobayashi, Hidetaka; Umehara, Kaori; Yokoyama, Hiroyuki; Nakashima, Daisuke; J-PARC E07 Collaboration

2014-09-01

Events of Double- Λ and Twin Single- Λ Hypernuclei are very important to understand Λ- Λ and Ξ--N interaction. We planned the E07 experiment to find Nuclear mass dependences of them with ten times higher statistics than before. In the experiment, the number of Ξ- hyperon stopping at rest is about ten thousands which is ten times larger than before. Such number of tracks for Ξ- hyperon candidates should be followed in nuclear emulsion plate up to their stopping point. To complete its job within one year, it is necessary for development of automated track following system. The important points for track following is Track connection in plate by plate. To carry out these points, we innovated image processing methods. Especially, we applied pattern match of K- beams for 2nd point. Position accuracy of this method was 1.4 +/-0.8 μm . If we succeed this application in about one minute for a track in each plate, all track following can be finished in one year.

Nebular Continuum and Line Emission in Stellar Population Synthesis Models

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

Byler, Nell; Dalcanton, Julianne J.; Conroy, Charlie

Accounting for nebular emission when modeling galaxy spectral energy distributions (SEDs) is important, as both line and continuum emissions can contribute significantly to the total observed flux. In this work, we present a new nebular emission model integrated within the Flexible Stellar Population Synthesis code that computes the line and continuum emission for complex stellar populations using the photoionization code Cloudy. The self-consistent coupling of the nebular emission to the matched ionizing spectrum produces emission line intensities that correctly scale with the stellar population as a function of age and metallicity. This more complete model of galaxy SEDs will improvemore » estimates of global gas properties derived with diagnostic diagrams, star formation rates based on H α , and physical properties derived from broadband photometry. Our models agree well with results from other photoionization models and are able to reproduce observed emission from H ii regions and star-forming galaxies. Our models show improved agreement with the observed H ii regions in the Ne iii/O ii plane and show satisfactory agreement with He ii emission from z = 2 galaxies, when including rotating stellar models. Models including post-asymptotic giant branch stars are able to reproduce line ratios consistent with low-ionization emission regions. The models are integrated into current versions of FSPS and include self-consistent nebular emission predictions for MIST and Padova+Geneva evolutionary tracks.« less

A typological approach to testing the evolutionary functions of human female orgasm.

PubMed

King, Robert; Belsky, Jay

2012-10-01

Building on previous work that identified different types of orgasm in women (King, Belsky, Mah, & Binik, 2011), the goal of the present study was to extend such typological work and determine whether female orgasmic variability tracked potentially evolutionarily salient sexual partner characteristics (e.g., those displaying possible immune-system compatibility). A total of 265 females completed an Internet survey about their orgasmic experience-achieved either with partners or alone. For partnered orgasms, they also provided details of partner characteristics and sexual behaviors. Latent class analysis revealed two orgasm types which were meaningfully distinguishable in terms of sensations and location-either centered on the surface of genitalia or deep inside. Deep orgasms were associated with internal sensations consistent with proposed functions of female orgasm in terms of differential sperm insuck. Such orgasms were associated with partners who were perceived as considerate, dominant, with a noticeably attractive smell, and as providing firm penetration. However, some hypothesized reproductively significant partner characteristics were not differentially associated with deep orgasms (i.e., muscularity, aggression, masculinity). Results were discussed and future research directions outlined. In particular, it is suggested that sexual passion between partners is a non-accidental component of sexual functioning and that this has too frequently been missing in sex research involving humans. Direct physiological measures of the results of female orgasm need to be undertaken. Additionally, the intriguing phenomenon of female ejaculation deserves scientific attention.

Epidemiology of transmissible diseases: Array hybridization and next generation sequencing as universal nucleic acid-mediated typing tools.

PubMed

Michael Dunne, W; Pouseele, Hannes; Monecke, Stefan; Ehricht, Ralf; van Belkum, Alex

2017-09-21

The magnitude of interest in the epidemiology of transmissible human diseases is reflected in the vast number of tools and methods developed recently with the expressed purpose to characterize and track evolutionary changes that occur in agents of these diseases over time. Within the past decade a new suite of such tools has become available with the emergence of the so-called "omics" technologies. Among these, two are exponents of the ongoing genomic revolution. Firstly, high-density nucleic acid probe arrays have been proposed and developed using various chemical and physical approaches. Via hybridization-mediated detection of entire genes or genetic polymorphisms in such genes and intergenic regions these so called "DNA chips" have been successfully applied for distinguishing very closely related microbial species and strains. Second and even more phenomenal, next generation sequencing (NGS) has facilitated the assessment of the complete nucleotide sequence of entire microbial genomes. This technology currently provides the most detailed level of bacterial genotyping and hence allows for the resolution of microbial spread and short-term evolution in minute detail. We will here review the very recent history of these two technologies, sketch their usefulness in the elucidation of the spread and epidemiology of mostly hospital-acquired infections and discuss future developments. Copyright © 2017 Elsevier B.V. All rights reserved.

A comprehensive model of the railway wheelset-track interaction in curves

NASA Astrophysics Data System (ADS)

Martínez-Casas, José; Di Gialleonardo, Egidio; Bruni, Stefano; Baeza, Luis

2014-09-01

Train-track interaction has been extensively studied in the last 40 years at least, leading to modelling approaches that can deal satisfactorily with many dynamic problems arising at the wheel/rail interface. However, the available models are usually not considering specifically the running dynamics of the vehicle in a curve, whereas a number of train-track interaction phenomena are specific to curve negotiation. The aim of this paper is to define a model for a flexible wheelset running on a flexible curved track. The main novelty of this work is to combine a trajectory coordinate set with Eulerian modal coordinates; the former permits to consider curved tracks, and the latter models the small relative displacements between the trajectory frame and the solid. In order to reduce the computational complexity of the problem, one single flexible wheelset is considered instead of one complete bogie, and suitable forces are prescribed at the primary suspension seats so that the mean values of the creepages and contact forces are consistent with the low frequency curving dynamics of the complete vehicle. The wheelset model is coupled to a cyclic track model having constant curvature by means of a wheel/rail contact model which accounts for the actual geometry of the contacting profiles and for the nonlinear relationship between creepages and creep forces. The proposed model can be used to analyse a variety of dynamic problems for railway vehicles, including rail corrugation and wheel polygonalisation, squeal noise, numerical estimation of the wheelset service loads. In this paper, simulation results are presented for some selected running conditions to exemplify the application of the model to the study of realistic train-track interaction cases and to point out the importance of curve negotiation effects specifically addressed in the work.

Tether deployment monitoring system, phase 2

NASA Technical Reports Server (NTRS)

1989-01-01

An operational Tether Deployment Monitoring System (TEDEMS) was constructed that would show system functionality in a terrestrial environment. The principle function of the TEDEMS system is the launching and attachment of reflective targets onto the tether during its deployment. These targets would be tracked with a radar antenna that was pointed towards the targets by a positioning system. A spring powered launcher for the targets was designed and fabricated. An instrumentation platform and launcher were also developed. These modules are relatively heavy and will influence tether deployment scenarios, unless they are released with a velocity and trajectory closely matching that of the tether. Owing to the tracking range limitations encountered during field trails of the Radar system, final TEDEMS system integration was not completed. The major module not finished was the system control computer. The lack of this device prevented any subsystem testing or field trials to be conducted. Other items only partially complete were the instrumentation platform launcher and modules and the radar target launcher. The work completed and the tests performed suggest that the proposed system continues to be a feasible approach to tether monitoring, although additional effort is still necessary to increase the range at which modules can be detected. The equipment completed and tested, to the extent stated, is available to NASA for use on any future program that requires tether tracking capability.

50 CFR 300.186 - Completed and approved documents.

Code of Federal Regulations, 2010 CFR

2010-10-01

... 50 Wildlife and Fisheries 7 2010-10-01 2010-10-01 false Completed and approved documents. 300.186 Section 300.186 Wildlife and Fisheries INTERNATIONAL FISHING AND RELATED ACTIVITIES INTERNATIONAL FISHERIES REGULATIONS International Trade Documentation and Tracking Programs for Highly Migratory Species...

50 CFR 300.186 - Completed and approved documents.

Code of Federal Regulations, 2011 CFR

2011-10-01

... 50 Wildlife and Fisheries 9 2011-10-01 2011-10-01 false Completed and approved documents. 300.186 Section 300.186 Wildlife and Fisheries INTERNATIONAL FISHING AND RELATED ACTIVITIES INTERNATIONAL FISHERIES REGULATIONS International Trade Documentation and Tracking Programs for Highly Migratory Species...

Investigation of Requirements and Capabilities of Next Generation Mine Warfare Unmanned Underwater Vehicles

DTIC Science & Technology

2017-12-01

increases, TtC decreases. The increased travel time allows for more analysis to be completed on-board instead of through PMA and the parallel...Distance the UUV must travel past each track to have time and realign with the next track Local X X X X X X km N/A N/A TrackFlag Flag use to reroute...No. 0704-0188 Public reporting burden for this collection of information is estimated to average 1 hour per response, including the time for reviewing

DiTour 3.1

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

Pelaia II, Thomas A.

2015-06-30

There is a need for software that allows a tour guide to present different tracks of slides and then return to the default slide show automatically upon completion. A mobile solution is needed for trade shows. DiTour is an iPad/iPhone app that pulls presentation content from a website, stores it on the device and presents it on a connected display. A tour guide can select a track to present and it will automatically return to the default track after a timeout. It offers a mobile solution which is ideal for trade shows.

Least Squares Approach to the Alignment of the Generic High Precision Tracking System

NASA Astrophysics Data System (ADS)

de Renstrom, Pawel Brückman; Haywood, Stephen

2006-04-01

A least squares method to solve a generic alignment problem of a high granularity tracking system is presented. The algorithm is based on an analytical linear expansion and allows for multiple nested fits, e.g. imposing a common vertex for groups of particle tracks is of particular interest. We present a consistent and complete recipe to impose constraints on either implicit or explicit parameters. The method has been applied to the full simulation of a subset of the ATLAS silicon tracking system. The ultimate goal is to determine ≈35,000 degrees of freedom (DoF's). We present a limited scale exercise exploring various aspects of the solution.

In-laboratory development of an automatic track counting system for solid state nuclear track detectors

NASA Astrophysics Data System (ADS)

Uzun, Sefa Kemal; Demiröz, Işık; Ulus, İzzet

2017-01-01

In this study, an automatic track counting system was developed for solid state nuclear track detectors (SSNTD). Firstly the specifications of required hardware components were determined, and accordingly the CCD camera, microscope and stage motor table was supplied and integrated. The system was completed by developing parametric software with VB.Net language. Finally a set of test intended for radon activity concentration measurement was applied. According to the test results, the system was enabled for routine radon measurement. Whether the parameters of system are adjusted for another SSNTD application, it could be used for other fields of SSNTD like neutron dosimetry or heavy charged particle detection.

Global Linking of Cell Tracks Using the Viterbi Algorithm

PubMed Central

Jaldén, Joakim; Gilbert, Penney M.; Blau, Helen M.

2016-01-01

Automated tracking of living cells in microscopy image sequences is an important and challenging problem. With this application in mind, we propose a global track linking algorithm, which links cell outlines generated by a segmentation algorithm into tracks. The algorithm adds tracks to the image sequence one at a time, in a way which uses information from the complete image sequence in every linking decision. This is achieved by finding the tracks which give the largest possible increases to a probabilistically motivated scoring function, using the Viterbi algorithm. We also present a novel way to alter previously created tracks when new tracks are created, thus mitigating the effects of error propagation. The algorithm can handle mitosis, apoptosis, and migration in and out of the imaged area, and can also deal with false positives, missed detections, and clusters of jointly segmented cells. The algorithm performance is demonstrated on two challenging datasets acquired using bright-field microscopy, but in principle, the algorithm can be used with any cell type and any imaging technique, presuming there is a suitable segmentation algorithm. PMID:25415983

RATT: RFID Assisted Tracking Tile. Preliminary results.

PubMed

Quinones, Dario R; Cuevas, Aaron; Cambra, Javier; Canals, Santiago; Moratal, David

2017-07-01

Behavior is one of the most important aspects of animal life. This behavior depends on the link between animals, their nervous systems and their environment. In order to study the behavior of laboratory animals several tools are needed, but a tracking tool is essential to perform a thorough behavioral study. Currently, several visual tracking tools are available. However, they have some drawbacks. For instance, when an animal is inside a cave, or is close to other animals, the tracking cameras cannot always detect the location or movement of this animal. This paper presents RFID Assisted Tracking Tile (RATT), a tracking system based on passive Radio Frequency Identification (RFID) technology in high frequency band according to ISO/IEC 15693. The RATT system is composed of electronic tiles that have nine active RFID antennas attached; in addition, it contains several overlapping passive coils to improve the magnetic field characteristics. Using several tiles, a large surface can be built on which the animals can move, allowing identification and tracking of their movements. This system, that could also be combined with a visual tracking system, paves the way for complete behavioral studies.

SELENE mission: mathematical model for SST Doppler measurements

NASA Astrophysics Data System (ADS)

Ping, J.; Kono, Y.; Kawano, N.; Hanada, H.; Matsumoto, K.

2001-09-01

Japanese lunar exploration mission, SELENE, has been planned to be launched into space by using H II-a rocket in the Summer of 2004. This mission is composed of 3 subsatellites, a main lunar orbiter, a relay satellite and a free flying VLBI radio source. One of its main scientific objectives is the estimation of high order and degree spherical harmonic coefficients for the lunar gravity field. Different tracking methods will be employed in SELENE. The key tracking method is 4 way Satellite-to-Satellite Tracking (SST) technique. By this way, the tracking data can be obtained through the relay when the low altitude main orbiter is flying at the far-side of the Moon and can not be "seen" from the Earth. To success the historical tracking data, a complete coverage of Doppler tracking from an orbiter at sufficiently low altitude with high tracking accuracy can be obtained. The 4 way SST has various configurations. For SELENE, the SST tracking mode is introduced here, the mathematical relation between range rate and 4 way Doppler count number is established, and a data processing stream frame by using GEODYN II is suggested.

On the Statistical Properties of the Lower Main Sequence

NASA Astrophysics Data System (ADS)

Angelou, George C.; Bellinger, Earl P.; Hekker, Saskia; Basu, Sarbani

2017-04-01

Astronomy is in an era where all-sky surveys are mapping the Galaxy. The plethora of photometric, spectroscopic, asteroseismic, and astrometric data allows us to characterize the comprising stars in detail. Here we quantify to what extent precise stellar observations reveal information about the properties of a star, including properties that are unobserved, or even unobservable. We analyze the diagnostic potential of classical and asteroseismic observations for inferring stellar parameters such as age, mass, and radius from evolutionary tracks of solar-like oscillators on the lower main sequence. We perform rank correlation tests in order to determine the capacity of each observable quantity to probe structural components of stars and infer their evolutionary histories. We also analyze the principal components of classic and asteroseismic observables to highlight the degree of redundancy present in the measured quantities and demonstrate the extent to which information of the model parameters can be extracted. We perform multiple regression using combinations of observable quantities in a grid of evolutionary simulations and appraise the predictive utility of each combination in determining the properties of stars. We identify the combinations that are useful and provide limits to where each type of observable quantity can reveal information about a star. We investigate the accuracy with which targets in the upcoming TESS and PLATO missions can be characterized. We demonstrate that the combination of observations from GAIA and PLATO will allow us to tightly constrain stellar masses, ages, and radii with machine learning for the purposes of Galactic and planetary studies.

Evolutionary genomics of dog domestication.

PubMed

Wayne, Robert K; vonHoldt, Bridgett M

2012-02-01

We review the underlying principles and tools used in genomic studies of domestic dogs aimed at understanding the genetic changes that have occurred during domestication. We show that there are two principle modes of evolution within dogs. One primary mode that accounts for much of the remarkable diversity of dog breeds is the fixation of discrete mutations of large effect in individual lineages that are then crossed to various breed groupings. This transfer of mutations across the dog evolutionary tree leads to the appearance of high phenotypic diversity that in actuality reflects a small number of major genes. A second mechanism causing diversification involves the selective breeding of dogs within distinct phenotypic or functional groups, which enhances specific group attributes such as heading or tracking. Such progressive selection leads to a distinct genetic structure in evolutionary trees such that functional and phenotypic groups cluster genetically. We trace the origin of the nuclear genome in dogs based on haplotype-sharing analyses between dogs and gray wolves and show that contrary to previous mtDNA analyses, the nuclear genome of dogs derives primarily from Middle Eastern or European wolves, a result more consistent with the archeological record. Sequencing analysis of the IGF1 gene, which has been the target of size selection in small breeds, further supports this conclusion. Finally, we discuss how a black coat color mutation that evolved in dogs has transformed North American gray wolf populations, providing a first example of a mutation that appeared under domestication and selectively swept through a wild relative.

Living on the edge: adaptive and plastic responses of the tree Nothofagus pumilio to a long-term transplant experiment predict rear-edge upward expansion.

PubMed

Mathiasen, Paula; Premoli, Andrea C

2016-06-01

Current climate change affects the competitive ability and reproductive success of many species, leading to local extinctions, adjustment to novel local conditions by phenotypic plasticity or rapid adaptation, or tracking their optima through range shifts. However, many species have limited ability to expand to suitable areas. Altitudinal gradients, with abrupt changes in abiotic conditions over short distances, represent "natural experiments" for the evaluation of ecological and evolutionary responses under scenarios of climate change. Nothofagus pumilio is the tree species which dominates as pure stands the montane forests of Patagonia. We evaluated the adaptive value of variation in quantitative traits of N. pumilio under contrasting conditions of the altitudinal gradient with a long-term reciprocal transplant experimental design. While high-elevation plants show little response in plant, leaf, and phenological traits to the experimental trials, low-elevation ones show greater plasticity in their responses to changing environments, particularly at high elevation. Our results suggest a relatively reduced potential for evolutionary adaptation of high-elevation genotypes, and a greater evolutionary potential of low-elevation ones. Under global warming scenarios of forest upslope migration, high-elevation variants may be outperformed by low-elevation ones during this process, leading to the local extinction and/or replacement of these genotypes. These results challenge previous models and predictions expected under global warming for altitudinal gradients, on which the leading edge is considered to be the upper treeline forests.

A Review of Dendroctonus frontalis Zimmermann Systematics

Treesearch

Anthony I. Cognato

2011-01-01

The systematic history of the southern pine beetle, Dendroctonus frontalis Zimmermann, is reviewed. Morphological, biological, karyological, and molecular data clearly define and diagnose the species limits of D. frontalis. More complete phylogenetic analysis and characterization of population genetic variation will further clarify the evolutionary history of the D....

The Evolution of Ebola virus: Insights from the 2013–2016 Epidemic

PubMed Central

Holmes, Edward C.; Dudas, Gytis; Rambaut, Andrew; Andersen, Kristian G.

2017-01-01

Preface The 2013–2016 epidemic of Ebola virus disease in West Africa was of unprecedented magnitude and changed our perspective on this lethal but sporadically emerging virus. This outbreak also marked the beginning of large-scale real-time molecular epidemiology. Herein, we show how evolutionary analyses of Ebola virus genome sequences provided key insights into virus origins, evolution, and spread during the epidemic. We provide basic scientists, epidemiologists, medical practitioners, and other outbreak responders with an enhanced understanding of the utility and limitations of pathogen genomic sequencing. This will be crucially important in our attempts to track and control future infectious disease outbreaks. PMID:27734858

The timescales of global surface-ocean connectivity.

PubMed

Jönsson, Bror F; Watson, James R

2016-04-19

Planktonic communities are shaped through a balance of local evolutionary adaptation and ecological succession driven in large part by migration. The timescales over which these processes operate are still largely unresolved. Here we use Lagrangian particle tracking and network theory to quantify the timescale over which surface currents connect different regions of the global ocean. We find that the fastest path between two patches--each randomly located anywhere in the surface ocean--is, on average, less than a decade. These results suggest that marine planktonic communities may keep pace with climate change--increasing temperatures, ocean acidification and changes in stratification over decadal timescales--through the advection of resilient types.

Biodiversity and Topographic Complexity: Modern and Geohistorical Perspectives

PubMed Central

Badgley, Catherine; Smiley, Tara M.; Terry, Rebecca; Davis, Edward B.; DeSantis, Larisa R.G.; Fox, David L.; Hopkins, Samantha S.B.; Jezkova, Tereza; Matocq, Marjorie D.; Matzke, Nick; McGuire, Jenny L.; Mulch, Andreas; Riddle, Brett R.; Roth, V. Louise; Samuels, Joshua X.; Strömberg, Caroline A.E.; Yanites, Brian J.

2018-01-01

Topographically complex regions on land and in the oceans feature hotspots of biodiversity that reflect geological influences on ecological and evolutionary processes. Over geologic time, topographic diversity gradients wax and wane over millions of years, tracking tectonic or climatic history. Topographic diversity gradients from the present day and the past can result from the generation of species by vicariance or from the accumulation of species from dispersal into a region with strong environmental gradients. Biological and geological approaches must be integrated to test alternative models of diversification along topographic gradients. Reciprocal illumination among phylogenetic, phylogeographic, ecological, paleontological, tectonic, and climatic perspectives is an emerging frontier of biogeographic research. PMID:28196688

The timescales of global surface-ocean connectivity

PubMed Central

Jönsson, Bror F.; Watson, James R.

2016-01-01

Planktonic communities are shaped through a balance of local evolutionary adaptation and ecological succession driven in large part by migration. The timescales over which these processes operate are still largely unresolved. Here we use Lagrangian particle tracking and network theory to quantify the timescale over which surface currents connect different regions of the global ocean. We find that the fastest path between two patches—each randomly located anywhere in the surface ocean—is, on average, less than a decade. These results suggest that marine planktonic communities may keep pace with climate change—increasing temperatures, ocean acidification and changes in stratification over decadal timescales—through the advection of resilient types. PMID:27093522

Kinematics and age of 15 stars-photometric solar analogs

NASA Astrophysics Data System (ADS)

Galeev, A. I.; Shimansky, V. V.

2008-03-01

The radial and space velocities are inferred for 15 stars that are photometric analogs of the Sun. The space velocity components (U, V, W) of most of these stars lie within the 10-60 km/s interval. The star HD 225239, which in our previous papers we classified as a subgiant, has a space velocity exceeding 100 km/s, and belongs to the thick disk. The inferred fundamental parameters of the atmospheres of solar analogs are combined with published evolutionary tracks to estimate the masses and ages of the stars studied. The kinematics of photometric analogs is compared to the data for a large group of solar-type stars.

Validity of an Athletic Skills Track among 6- to 12-year-old children.

PubMed

Hoeboer, Joris; De Vries, Sanne; Krijger-Hombergen, Michiel; Wormhoudt, René; Drent, Annelies; Krabben, Kay; Savelsbergh, Geert

2016-11-01

The purpose of this study was to examine the feasibility and validity of an Athletic Skills Track (AST) to assess fundamental movement skills among 6- to 12-year-old children in a physical education setting. Four hundred sixty-three Dutch children (211 girls, 252 boys) completed three tests: the Körperkoordinationstest für Kinder (KTK) and two Athletic Skills Tracks (AST-1, AST-2). The validity of AST-1 and AST-2 was examined by correlating the time (s) needed to complete the tracks and the KTK Motor Quotient (MQ). Overall, there was a low correlation between AST-1 and the KTK MQ (r = -0.474 (P < 0.01)) and a moderate correlation between AST-2 and the KTK MQ (r = -0.502 (P < 0.01)). When split up by age group the associations were much higher and ranged between r = -0.469 and r = -0.767), with the exception of the low correlation coefficient of the AST-2 in 7-year-olds. The results indicate that fundamental movement skills of 6- to 12-year-old children can be assessed with a quick, convenient and low-cost motor competence test in a physical education setting, i.e., an Athletic Skills Track. Future studies should further assess the reliability, discriminative ability and validity of age-specific versions of the AST.

Tracking "Learning Behaviours" in the Incidental Acquisition of Two Dimensional Adjectives by Japanese Beginner Learners of L2 English

ERIC Educational Resources Information Center

Shintani, Natsuko; Ellis, Rod

2014-01-01

The purpose of this article is to examine both the process and product of vocabulary learning in a task-based instructional context. The article reports a study that investigated the acquisition of two dimensional adjectives ("big" and "small") by six-year-old Japanese children who were complete beginners. It tracked the…

The Development of Skill and Knowledge during a Sport Education Season of Track and Field Athletics

ERIC Educational Resources Information Center

Hastie, Peter A.; Calderón, Antonio; Rolim, Ramiro J.; Guarino, Anthony J.

2013-01-01

Purpose: The purpose of this study was to examine the relative effectiveness of 2 forms of physical education instruction on students' skill and technical performance, as well as content knowledge in 3 track and field events. Method: Students from 6 classes in 3 Portuguese schools completed 900-min units conducted under the auspices of sport…

An Exploration of the Use of Eye-Gaze Tracking to Study Problem-Solving on Standardized Science Assessments

ERIC Educational Resources Information Center

Tai, Robert H.; Loehr, John F.; Brigham, Frederick J.

2006-01-01

This pilot study investigated the capacity of eye-gaze tracking to identify differences in problem-solving behaviours within a group of individuals who possessed varying degrees of knowledge and expertise in three disciplines of science (biology, chemistry and physics). The six participants, all pre-service science teachers, completed an 18-item…

A complete system for head tracking using motion-based particle filter and randomly perturbed active contour

NASA Astrophysics Data System (ADS)

Bouaynaya, N.; Schonfeld, Dan

2005-03-01

Many real world applications in computer and multimedia such as augmented reality and environmental imaging require an elastic accurate contour around a tracked object. In the first part of the paper we introduce a novel tracking algorithm that combines a motion estimation technique with the Bayesian Importance Sampling framework. We use Adaptive Block Matching (ABM) as the motion estimation technique. We construct the proposal density from the estimated motion vector. The resulting algorithm requires a small number of particles for efficient tracking. The tracking is adaptive to different categories of motion even with a poor a priori knowledge of the system dynamics. Particulary off-line learning is not needed. A parametric representation of the object is used for tracking purposes. In the second part of the paper, we refine the tracking output from a parametric sample to an elastic contour around the object. We use a 1D active contour model based on a dynamic programming scheme to refine the output of the tracker. To improve the convergence of the active contour, we perform the optimization over a set of randomly perturbed initial conditions. Our experiments are applied to head tracking. We report promising tracking results in complex environments.

Etracker: A Mobile Gaze-Tracking System with Near-Eye Display Based on a Combined Gaze-Tracking Algorithm.

PubMed

Li, Bin; Fu, Hong; Wen, Desheng; Lo, WaiLun

2018-05-19

Eye tracking technology has become increasingly important for psychological analysis, medical diagnosis, driver assistance systems, and many other applications. Various gaze-tracking models have been established by previous researchers. However, there is currently no near-eye display system with accurate gaze-tracking performance and a convenient user experience. In this paper, we constructed a complete prototype of the mobile gaze-tracking system ' Etracker ' with a near-eye viewing device for human gaze tracking. We proposed a combined gaze-tracking algorithm. In this algorithm, the convolutional neural network is used to remove blinking images and predict coarse gaze position, and then a geometric model is defined for accurate human gaze tracking. Moreover, we proposed using the mean value of gazes to resolve pupil center changes caused by nystagmus in calibration algorithms, so that an individual user only needs to calibrate it the first time, which makes our system more convenient. The experiments on gaze data from 26 participants show that the eye center detection accuracy is 98% and Etracker can provide an average gaze accuracy of 0.53° at a rate of 30⁻60 Hz.

Completing College: A National View of Student Completion Rates--Fall 2011 Cohort. (Signature Report No. 14)

ERIC Educational Resources Information Center

Shapiro, Doug; Dundar, Afet; Huie, Faye; Wakhungu, Phoebe Khasiala; Yuan, Xin; Nathan, Angel; Bhimdiwala, Ayesha

2017-01-01

This Signature Report examines the rate of completion of postsecondary certificates and degrees by first-time-in-college degree-seeking students who initially enrolled in two- and four-year colleges and universities (public, private nonprofit, or private for-profit) nationwide in fall 2011. It tracks their enrollment behaviors and outcomes for six…

Microbial minimalism: genome reduction in bacterial pathogens.

PubMed

Moran, Nancy A

2002-03-08

When bacterial lineages make the transition from free-living or facultatively parasitic life cycles to permanent associations with hosts, they undergo a major loss of genes and DNA. Complete genome sequences are providing an understanding of how extreme genome reduction affects evolutionary directions and metabolic capabilities of obligate pathogens and symbionts.

Genetic Characterization of Providence Virus Isolated from Bat Guano in Hungary

PubMed Central

Kemenesi, Gábor; Földes, Fanni; Zana, Brigitta; Kurucz, Kornélia; Estók, Péter; Boldogh, Sándor; Görföl, Tamás; Bányai, Krisztián; Oldal, Miklós

2016-01-01

We report the complete genome sequence and genetic characterization of a novel strain of Providence virus, detected in Barbastella barbastellus bat guano, collected in Hungary in 2014. Our data may facilitate the understanding of the evolutionary processes of this unique viral family of Carmotetraviridae. PMID:27198029

Bioinformatics: A History of Evolution "In Silico"

ERIC Educational Resources Information Center

Ondrej, Vladan; Dvorak, Petr

2012-01-01

Bioinformatics, biological databases, and the worldwide use of computers have accelerated biological research in many fields, such as evolutionary biology. Here, we describe a primer of nucleotide sequence management and the construction of a phylogenetic tree with two examples; the two selected are from completely different groups of organisms:…

Why a True Account of Human Development Requires Exemplar Research

ERIC Educational Resources Information Center

Damon, William; Colby, Anne

2013-01-01

This chapter uses moral psychology to illustrate why exemplar methods are essential for building a valid, complete understanding of key domains of human development. Social psychological, economic, and biological-evolutionary paradigms for studying morality rely on samples drawn from the general population. This research reveals a bleak picture of…

Education, Religion, and a Sustainable Planet

ERIC Educational Resources Information Center

Vandenberg, Donald

2008-01-01

Religious pluralism led to the colonies' separation of church and state by 1776, to Mann's campaign for common schooling, and to the complete secularization of public schools by 1900. The dependence of Western theology upon untenable Greek metaphysics justifies an explanation that the evolutionary purpose of religion was to promote personal…

Self-Love or Other-Love? Explicit Other-Preference but Implicit Self-Preference

PubMed Central

Gebauer, Jochen E.; Göritz, Anja S.; Hofmann, Wilhelm; Sedikides, Constantine

2012-01-01

Do humans prefer the self even over their favorite other person? This question has pervaded philosophy and social-behavioral sciences. Psychology’s distinction between explicit and implicit preferences calls for a two-tiered solution. Our evolutionarily-based Dissociative Self-Preference Model offers two hypotheses. Other-preferences prevail at an explicit level, because they convey caring for others, which strengthens interpersonal bonds–a major evolutionary advantage. Self-preferences, however, prevail at an implicit level, because they facilitate self-serving automatic behavior, which favors the self in life-or-die situations–also a major evolutionary advantage. We examined the data of 1,519 participants, who completed an explicit measure and one of five implicit measures of preferences for self versus favorite other. The results were consistent with the Dissociative Self-Preference Model. Explicitly, participants preferred their favorite other over the self. Implicitly, however, they preferred the self over their favorite other (be it their child, romantic partner, or best friend). Results are discussed in relation to evolutionary theorizing on self-deception. PMID:22848605

Parasites and deleterious mutations: interactions influencing the evolutionary maintenance of sex.

PubMed

Park, A W; Jokela, J; Michalakis, Y

2010-05-01

The restrictive assumptions associated with purely genetic and purely ecological mechanisms suggest that neither of the two forces, in isolation, can offer a general explanation for the evolutionary maintenance of sex. Consequently, attention has turned to pluralistic models (i.e. models that apply both ecological and genetic mechanisms). Existing research has shown that combining mutation accumulation and parasitism allows restrictive assumptions about genetic and parasite parameter values to be relaxed while still predicting the maintenance of sex. However, several empirical studies have shown that deleterious mutations and parasitism can reduce fitness to a greater extent than would be expected if the two acted independently. We show how interactions between these genetic and ecological forces can completely reverse predictions about the evolution of reproductive modes. Moreover, we demonstrate that synergistic interactions between infection and deleterious mutations can render sex evolutionarily stable even when there is antagonistic epistasis among deleterious mutations, thereby widening the conditions for the evolutionary maintenance of sex.

Centrin diversity and basal body patterning across evolution: new insights from Paramecium

PubMed Central

Balavoine, Guillaume; Lemullois, Michel; Bouhouche, Khaled; Beisson, Janine; Koll, France

2017-01-01

ABSTRACT First discovered in unicellular eukaryotes, centrins play crucial roles in basal body duplication and anchoring mechanisms. While the evolutionary status of the founding members of the family, Centrin2/Vfl2 and Centrin3/cdc31 has long been investigated, the evolutionary origin of other members of the family has received less attention. Using a phylogeny of ciliate centrins, we identify two other centrin families, the ciliary centrins and the centrins present in the contractile filaments (ICL centrins). In this paper, we carry on the functional analysis of still not well-known centrins, the ICL1e subfamily identified in Paramecium, and show their requirement for correct basal body anchoring through interactions with Centrin2 and Centrin3. Using Paramecium as well as a eukaryote-wide sampling of centrins from completely sequenced genomes, we revisited the evolutionary story of centrins. Their phylogeny shows that the centrins associated with the ciliate contractile filaments are widespread in eukaryotic lineages and could be as ancient as Centrin2 and Centrin3. PMID:28432105

SpreaD3: Interactive Visualization of Spatiotemporal History and Trait Evolutionary Processes.

PubMed

Bielejec, Filip; Baele, Guy; Vrancken, Bram; Suchard, Marc A; Rambaut, Andrew; Lemey, Philippe

2016-08-01

Model-based phylogenetic reconstructions increasingly consider spatial or phenotypic traits in conjunction with sequence data to study evolutionary processes. Alongside parameter estimation, visualization of ancestral reconstructions represents an integral part of these analyses. Here, we present a complete overhaul of the spatial phylogenetic reconstruction of evolutionary dynamics software, now called SpreaD3 to emphasize the use of data-driven documents, as an analysis and visualization package that primarily complements Bayesian inference in BEAST (http://beast.bio.ed.ac.uk, last accessed 9 May 2016). The integration of JavaScript D3 libraries (www.d3.org, last accessed 9 May 2016) offers novel interactive web-based visualization capacities that are not restricted to spatial traits and extend to any discrete or continuously valued trait for any organism of interest. © The Author 2016. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.

Multi Sensor Fusion Using Fitness Adaptive Differential Evolution

NASA Astrophysics Data System (ADS)

Giri, Ritwik; Ghosh, Arnob; Chowdhury, Aritra; Das, Swagatam

The rising popularity of multi-source, multi-sensor networks supports real-life applications calls for an efficient and intelligent approach to information fusion. Traditional optimization techniques often fail to meet the demands. The evolutionary approach provides a valuable alternative due to its inherent parallel nature and its ability to deal with difficult problems. We present a new evolutionary approach based on a modified version of Differential Evolution (DE), called Fitness Adaptive Differential Evolution (FiADE). FiADE treats sensors in the network as distributed intelligent agents with various degrees of autonomy. Existing approaches based on intelligent agents cannot completely answer the question of how their agents could coordinate their decisions in a complex environment. The proposed approach is formulated to produce good result for the problems that are high-dimensional, highly nonlinear, and random. The proposed approach gives better result in case of optimal allocation of sensors. The performance of the proposed approach is compared with an evolutionary algorithm coordination generalized particle model (C-GPM).

Lifemap: Exploring the Entire Tree of Life.

PubMed

de Vienne, Damien M

2016-12-01

The Tree of Life (ToL) is meant to be a unique representation of the evolutionary relationships between all species on earth. Huge efforts are made to assemble such a large tree, helped by the decrease of sequencing costs and improved methods to reconstruct and combine phylogenies, but no tool exists today to explore the ToL in its entirety in a satisfying manner. By combining methods used in modern cartography, such as OpenStreetMap, with a new way of representing tree-like structures, I created Lifemap, a tool allowing the exploration of a complete representation of the ToL (between 800,000 and 2.2 million species depending on the data source) in a zoomable interface. A server version of Lifemap also allows users to visualize their own trees. This should help researchers in ecology and evolutionary biology in their everyday work, but may also permit the diffusion to a broader audience of our current knowledge of the evolutionary relationships linking all organisms.

Two Rounds of Whole Genome Duplication in the Ancestral Vertebrate

PubMed Central

Dehal, Paramvir; Boore, Jeffrey L

2005-01-01

The hypothesis that the relatively large and complex vertebrate genome was created by two ancient, whole genome duplications has been hotly debated, but remains unresolved. We reconstructed the evolutionary relationships of all gene families from the complete gene sets of a tunicate, fish, mouse, and human, and then determined when each gene duplicated relative to the evolutionary tree of the organisms. We confirmed the results of earlier studies that there remains little signal of these events in numbers of duplicated genes, gene tree topology, or the number of genes per multigene family. However, when we plotted the genomic map positions of only the subset of paralogous genes that were duplicated prior to the fish–tetrapod split, their global physical organization provides unmistakable evidence of two distinct genome duplication events early in vertebrate evolution indicated by clear patterns of four-way paralogous regions covering a large part of the human genome. Our results highlight the potential for these large-scale genomic events to have driven the evolutionary success of the vertebrate lineage. PMID:16128622

Optimizing a realistic large-scale frequency assignment problem using a new parallel evolutionary approach

NASA Astrophysics Data System (ADS)

Chaves-González, José M.; Vega-Rodríguez, Miguel A.; Gómez-Pulido, Juan A.; Sánchez-Pérez, Juan M.

2011-08-01

This article analyses the use of a novel parallel evolutionary strategy to solve complex optimization problems. The work developed here has been focused on a relevant real-world problem from the telecommunication domain to verify the effectiveness of the approach. The problem, known as frequency assignment problem (FAP), basically consists of assigning a very small number of frequencies to a very large set of transceivers used in a cellular phone network. Real data FAP instances are very difficult to solve due to the NP-hard nature of the problem, therefore using an efficient parallel approach which makes the most of different evolutionary strategies can be considered as a good way to obtain high-quality solutions in short periods of time. Specifically, a parallel hyper-heuristic based on several meta-heuristics has been developed. After a complete experimental evaluation, results prove that the proposed approach obtains very high-quality solutions for the FAP and beats any other result published.

Evolutionary Patterns and Processes: Lessons from Ancient DNA.

PubMed

Leonardi, Michela; Librado, Pablo; Der Sarkissian, Clio; Schubert, Mikkel; Alfarhan, Ahmed H; Alquraishi, Saleh A; Al-Rasheid, Khaled A S; Gamba, Cristina; Willerslev, Eske; Orlando, Ludovic

2017-01-01

Ever since its emergence in 1984, the field of ancient DNA has struggled to overcome the challenges related to the decay of DNA molecules in the fossil record. With the recent development of high-throughput DNA sequencing technologies and molecular techniques tailored to ultra-damaged templates, it has now come of age, merging together approaches in phylogenomics, population genomics, epigenomics, and metagenomics. Leveraging on complete temporal sample series, ancient DNA provides direct access to the most important dimension in evolution—time, allowing a wealth of fundamental evolutionary processes to be addressed at unprecedented resolution. This review taps into the most recent findings in ancient DNA research to present analyses of ancient genomic and metagenomic data.

Evolutionary Patterns and Processes: Lessons from Ancient DNA

PubMed Central

Leonardi, Michela; Librado, Pablo; Der Sarkissian, Clio; Schubert, Mikkel; Alfarhan, Ahmed H.; Alquraishi, Saleh A.; Al-Rasheid, Khaled A. S.; Gamba, Cristina; Willerslev, Eske

2017-01-01

Abstract Ever since its emergence in 1984, the field of ancient DNA has struggled to overcome the challenges related to the decay of DNA molecules in the fossil record. With the recent development of high-throughput DNA sequencing technologies and molecular techniques tailored to ultra-damaged templates, it has now come of age, merging together approaches in phylogenomics, population genomics, epigenomics, and metagenomics. Leveraging on complete temporal sample series, ancient DNA provides direct access to the most important dimension in evolution—time, allowing a wealth of fundamental evolutionary processes to be addressed at unprecedented resolution. This review taps into the most recent findings in ancient DNA research to present analyses of ancient genomic and metagenomic data. PMID:28173586

Limited gene dispersal and spatial genetic structure as stabilizing factors in an ant-plant mutualism.

PubMed

Malé, P-J G; Leroy, C; Humblot, P; Dejean, A; Quilichini, A; Orivel, J

2016-12-01

Comparative studies of the population genetics of closely associated species are necessary to properly understand the evolution of these relationships because gene flow between populations affects the partners' evolutionary potential at the local scale. As a consequence (at least for antagonistic interactions), asymmetries in the strength of the genetic structures of the partner populations can result in one partner having a co-evolutionary advantage. Here, we assess the population genetic structure of partners engaged in a species-specific and obligatory mutualism: the Neotropical ant-plant, Hirtella physophora, and its ant associate, Allomerus decemarticulatus. Although the ant cannot complete its life cycle elsewhere than on H. physophora and the plant cannot live for long without the protection provided by A. decemarticulatus, these species also have antagonistic interactions: the ants have been shown to benefit from castrating their host plant and the plant is able to retaliate against too virulent ant colonies. We found similar short dispersal distances for both partners, resulting in the local transmission of the association and, thus, inbred populations in which too virulent castrating ants face the risk of local extinction due to the absence of H. physophora offspring. On the other hand, we show that the plant populations probably experienced greater gene flow than did the ant populations, thus enhancing the evolutionary potential of the plants. We conclude that such levels of spatial structure in the partners' populations can increase the stability of the mutualistic relationship. Indeed, the local transmission of the association enables partial alignments of the partners' interests, and population connectivity allows the plant retaliation mechanisms to be locally adapted to the castration behaviour of their symbionts. © 2016 European Society For Evolutionary Biology. Journal of Evolutionary Biology © 2016 European Society For Evolutionary Biology.

Evolution of precopulatory and post-copulatory strategies of inbreeding avoidance and associated polyandry.

PubMed

Duthie, A B; Bocedi, G; Germain, R R; Reid, J M

2018-01-01

Inbreeding depression is widely hypothesized to drive adaptive evolution of precopulatory and post-copulatory mechanisms of inbreeding avoidance, which in turn are hypothesized to affect evolution of polyandry (i.e. female multiple mating). However, surprisingly little theory or modelling critically examines selection for precopulatory or post-copulatory inbreeding avoidance, or both strategies, given evolutionary constraints and direct costs, or examines how evolution of inbreeding avoidance strategies might feed back to affect evolution of polyandry. Selection for post-copulatory inbreeding avoidance, but not for precopulatory inbreeding avoidance, requires polyandry, whereas interactions between precopulatory and post-copulatory inbreeding avoidance might cause functional redundancy (i.e. 'degeneracy') potentially generating complex evolutionary dynamics among inbreeding strategies and polyandry. We used individual-based modelling to quantify evolution of interacting precopulatory and post-copulatory inbreeding avoidance and associated polyandry given strong inbreeding depression and different evolutionary constraints and direct costs. We found that evolution of post-copulatory inbreeding avoidance increased selection for initially rare polyandry and that evolution of a costly inbreeding avoidance strategy became negligible over time given a lower-cost alternative strategy. Further, fixed precopulatory inbreeding avoidance often completely precluded evolution of polyandry and hence post-copulatory inbreeding avoidance, but fixed post-copulatory inbreeding avoidance did not preclude evolution of precopulatory inbreeding avoidance. Evolution of inbreeding avoidance phenotypes and associated polyandry is therefore affected by evolutionary feedbacks and degeneracy. All else being equal, evolution of precopulatory inbreeding avoidance and resulting low polyandry is more likely when post-copulatory inbreeding avoidance is precluded or costly, and evolution of post-copulatory inbreeding avoidance greatly facilitates evolution of costly polyandry. © The Authors. Journal of Evolutionary Biology published by John Wiley & Sons Ltd on behalf of European Society for Evolutionary Biology.

[Evolutionary process unveiled by the maximum genetic diversity hypothesis].

PubMed

Huang, Yi-Min; Xia, Meng-Ying; Huang, Shi

2013-05-01

As two major popular theories to explain evolutionary facts, the neutral theory and Neo-Darwinism, despite their proven virtues in certain areas, still fail to offer comprehensive explanations to such fundamental evolutionary phenomena as the genetic equidistance result, abundant overlap sites, increase in complexity over time, incomplete understanding of genetic diversity, and inconsistencies with fossil and archaeological records. Maximum genetic diversity hypothesis (MGD), however, constructs a more complete evolutionary genetics theory that incorporates all of the proven virtues of existing theories and adds to them the novel concept of a maximum or optimum limit on genetic distance or diversity. It has yet to meet a contradiction and explained for the first time the half-century old Genetic Equidistance phenomenon as well as most other major evolutionary facts. It provides practical and quantitative ways of studying complexity. Molecular interpretation using MGD-based methods reveal novel insights on the origins of humans and other primates that are consistent with fossil evidence and common sense, and reestablished the important role of China in the evolution of humans. MGD theory has also uncovered an important genetic mechanism in the construction of complex traits and the pathogenesis of complex diseases. We here made a series of sequence comparisons among yeasts, fishes and primates to illustrate the concept of limit on genetic distance. The idea of limit or optimum is in line with the yin-yang paradigm in the traditional Chinese view of the universal creative law in nature.

The complete mitochondrial genome of Arctic Calanus hyperboreus (Copepoda, Calanoida) reveals characteristic patterns in calanoid mitochondrial genome.

PubMed

Kim, Sanghee; Lim, Byung-Jin; Min, Gi-Sik; Choi, Han-Gu

2013-05-10

Copepoda is the most diverse and abundant group of crustaceans, but its phylogenetic relationships are ambiguous. Mitochondrial (mt) genomes are useful for studying evolutionary history, but only six complete Copepoda mt genomes have been made available and these have extremely rearranged genome structures. This study determined the mt genome of Calanus hyperboreus, making it the first reported Arctic copepod mt genome and the first complete mt genome of a calanoid copepod. The mt genome of C. hyperboreus is 17,910 bp in length and it contains the entire set of 37 mt genes, including 13 protein-coding genes, 2 rRNAs, and 22 tRNAs. It has a very unusual gene structure, including the longest control region reported for a crustacean, a large tRNA gene cluster, and reversed GC skews in 11 out of 13 protein-coding genes (84.6%). Despite the unusual features, comparing this genome to published copepod genomes revealed retained pan-crustacean features, as well as a conserved calanoid-specific pattern. Our data provide a foundation for exploring the calanoid pattern and the mechanisms of mt gene rearrangement in the evolutionary history of the copepod mt genome. Copyright © 2012 Elsevier B.V. All rights reserved.

A high resolution gravity model for Venus - GVM-1

NASA Technical Reports Server (NTRS)

Nerem, R. S.; Bills, B. G.; Mcnamee, J. B.

1993-01-01

A spherical harmonic model of the gravitational field of Venus complete to degree and order 50 has been developed using the S-band Doppler tracking data of the Pioneer Venus Orbiter (PVO) collected between 1979 and 1982. The short wavelengths of this model could only be resolved near the PVO periapse location (about 14 deg N latitude), therefore a priori constraints were applied to the model to bias poorly observed coefficients towards zero. The resulting model has a half-wavelength resolution of 400 km near the PVO periapse location, but the resolution degrades to greater than 1000 km near the poles. This gravity model correlates well with a degree 50 spherical harmonic expansion of the Venus topography derived from a combination of Magellan and PVO data. New tracking data from Magellan's gravity mission should provide some improvement to this model, although a complete model of the Venusian gravity field will depend on tracking of Magellan after the circularization of its orbit using aerobraking.

Method and apparatus for efficiently tracking queue entries relative to a timestamp

DOEpatents

Blumrich, Matthias A.; Chen, Dong; Gara, Alan G.; Giampapa, Mark E.; Heidelberger, Philip; Ohmacht, Martin; Salapura, Velentina; Vranas, Pavlos

2014-06-17

An apparatus and method for tracking coherence event signals transmitted in a multiprocessor system. The apparatus comprises a coherence logic unit, each unit having a plurality of queue structures with each queue structure associated with a respective sender of event signals transmitted in the system. A timing circuit associated with a queue structure controls enqueuing and dequeuing of received coherence event signals, and, a counter tracks a number of coherence event signals remaining enqueued in the queue structure and dequeued since receipt of a timestamp signal. A counter mechanism generates an output signal indicating that all of the coherence event signals present in the queue structure at the time of receipt of the timestamp signal have been dequeued. In one embodiment, the timestamp signal is asserted at the start of a memory synchronization operation and, the output signal indicates that all coherence events present when the timestamp signal was asserted have completed. This signal can then be used as part of the completion condition for the memory synchronization operation.

Complete nucleotide sequence of pig (Sus scrofa) mitochondrial genome and dating evolutionary divergence within Artiodactyla.

PubMed

Lin, C S; Sun, Y L; Liu, C Y; Yang, P C; Chang, L C; Cheng, I C; Mao, S J; Huang, M C

1999-08-05

The complete nucleotide sequence of the pig (Sus scrofa) mitochondrial genome, containing 16613bp, is presented in this report. The genome is not a specific length because of the presence of the variable numbers of tandem repeats, 5'-CGTGCGTACA in the displacement loop (D-loop). Genes responsible for 12S and 16S rRNAs, 22 tRNAs, and 13 protein-coding regions are found. The genome carries very few intergenic nucleotides with several instances of overlap between protein-coding or tRNA genes, except in the D-loop region. For evaluating the possible evolutionary relationships between Artiodactyla and Cetacea, the nucleotide substitutions and amino acid sequences of 13 protein-coding genes were aligned by pairwise comparisons of the pig, cow, and fin whale. By comparing these sequences, we suggest that there is a closer relationship between the pig and cow than that between either of these species and fin whale. In addition, the accumulation of transversions and gaps in pig 12S and 16S rRNA genes was compared with that in other eutherian species, including cow, fin whale, human, horse, and harbor seal. The results also reveal a close phylogenetic relationship between pig and cow, as compared to fin whale and others. Thus, according to the sequence differences of mitochondrial rRNA genes in eutherian species, the evolutionary separation of pig and cow occurred about 53-60 million years ago.

A reassessment of the evolutionary timescale of bat rabies viruses based upon glycoprotein gene sequences.

PubMed

Kuzmina, Natalia A; Kuzmin, Ivan V; Ellison, James A; Taylor, Steven T; Bergman, David L; Dew, Beverly; Rupprecht, Charles E

2013-10-01

Rabies, an acute progressive encephalomyelitis caused by viruses in the genus Lyssavirus, is one of the oldest known infectious diseases. Although dogs and other carnivores represent the greatest threat to public health as rabies reservoirs, it is commonly accepted that bats are the primary evolutionary hosts of lyssaviruses. Despite early historical documentation of rabies, molecular clock analyses indicate a quite young age of lyssaviruses, which is confusing. For example, the results obtained for partial and complete nucleoprotein gene sequences of rabies viruses (RABV), or for a limited number of glycoprotein gene sequences, indicated that the time of the most recent common ancestor (TMRCA) for current bat RABV diversity in the Americas lies in the seventeenth to eighteenth centuries and might be directly or indirectly associated with the European colonization. Conversely, several other reports demonstrated high genetic similarity between lyssavirus isolates, including RABV, obtained within a time interval of 25-50 years. In the present study, we attempted to re-estimate the age of several North American bat RABV lineages based on the largest set of complete and partial glycoprotein gene sequences compiled to date (n = 201) employing a codon substitution model. Although our results overlap with previous estimates in marginal areas of the 95 % high probability density (HPD), they suggest a longer evolutionary history of American bat RABV lineages (TMRCA at least 732 years, with a 95 % HPD 436-1107 years).

Vehicle Tracking System using Nanotechnology Satellites and Tags

NASA Technical Reports Server (NTRS)

Lorenzini, Dino A.; Tubis, Chris

1995-01-01

This paper describes a joint project to design, develop, and deploy a satellite based tracking system incorporating micro-nanotechnology components. The system consists of a constellation of 'nanosats', a satellite command station and data collection sites, and a large number of low-cost electronic 'tags'. Both government and commercial applications are envisioned for the satellite based tracking system. The projected low price for the tracking service is made possible by the lightweight nanosats and inexpensive electronic tags which use high production volume single chip transceivers and microprocessor devices. The nanosat consists of a five inch aluminum cube with body mounted solar panels (GaAs solar cells) on all six faces. A UHF turnstile antenna and a simple, spring release mechanism complete the external configuration of the spacecraft.

Rapid and Iterative Estimation of Predictions of High School Graduation and Other Milestones

ERIC Educational Resources Information Center

Porter, Kristin E.; Balu, Rekha; Gunton, Brad; Pestronk, Jefferson; Cohen, Allison

2016-01-01

With the advent of data systems that allow for frequent or even real-time student data updates, and recognition that high school students often can move from being on-track to graduation to off-track in a matter of weeks, indicator analysis alone may not provide a complete picture to guide school leaders' actions. The authors of this paper suggest…

Electronic Fingerprinting for Industry

NASA Technical Reports Server (NTRS)

1995-01-01

Veritec's VeriSystem is a complete identification and tracking system for component traceability, improved manufacturing and processing, and automated shop floor applications. The system includes the Vericode Symbol, a more accurate and versatile alternative to the traditional bar code, that is scanned by charge coupled device (CCD) cameras. The system was developed by Veritec, Rockwell International and Marshall Space Flight Center to identify and track Space Shuttle parts.

9-D polarized proton transport in the MEIC figure 8 collider ring - first steps

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

Meot, F.; Morozov, V. S.

2015-05-03

Spin tracking studies in the MEIC figure-8 collider ion ring are presented, based on a very preliminary design of the lattice. They provide numerical illustrations of some of the aspects of the figure-8 concept, including spin-rotator based spin control, and lay out the path towards a complete spin tracking simulation of a figure-8 ring.

9-D polarized proton transport in the MEIC figure-8 collider ring: first steps

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

Meot, F.; Thomas Jefferson National Accelerator Facility; Morozov, V. S.

2014-10-24

Spin tracking studies in the MEIC figure-8 collider ion ring are presented, based on a very preliminary design of the lattice. They provide numerical illustrations of some of the aspects of the figure-8 concept, including spin-rotator based spin control, and lay out the path towards a complete spin tracking simulation of a figure-8 ring.

Integrated Eye Tracking and Neural Monitoring for Enhanced Assessment of Mild TBI

DTIC Science & Technology

2015-04-01

virtual reality driving simulator data acquisition. Data collection for the pilot study is nearly complete and data analyses are currently under way...Training for primary study procedures including neuropsychological testing, eye- tracking, virtual reality driving simulator, and EEG data acquisition is...the virtual reality driving simulator. Participants are instructed to drive along a coastal highway while performing the target detection task

Independent Orbiter Assessment (IOA): Assessment of the communication and tracking subsystem, volume 2

NASA Technical Reports Server (NTRS)

Long, W. C.

1988-01-01

The results of the Independent Orbiter Assessment (IOA) of the Failure Modes and Effects Analysis (FMEA) and Critical Items List (CIL) are presented. The IOA effort first completed and analysis of the Communication and Tracking hardware, generating draft failure modes and potential critical items. The IOA results were then compared to the NASA FMEA/CIL baseline. A resolution of each discrepancy from the comparison is provided through additional analysis as required. This report documents the results of that comparison for the Orbiter Communication and Tracking hardware. Volume 2 continues the presentation of IOA worksheets.

Complete Bell-state analysis for superconducting-quantum-interference-device qubits with a transitionless tracking algorithm

NASA Astrophysics Data System (ADS)

Kang, Yi-Hao; Chen, Ye-Hong; Shi, Zhi-Cheng; Huang, Bi-Hua; Song, Jie; Xia, Yan

2017-08-01

We propose a protocol for complete Bell-state analysis for two superconducting-quantum-interference-device qubits. The Bell-state analysis could be completed by using a sequence of microwave pulses designed by the transitionless tracking algorithm, which is a useful method in the technique of shortcut to adiabaticity. After the whole process, the information for distinguishing four Bell states will be encoded on two auxiliary qubits, while the Bell states remain unchanged. One can read out the information by detecting the auxiliary qubits. Thus the Bell-state analysis is nondestructive. The numerical simulations show that the protocol possesses a high success probability of distinguishing each Bell state with current experimental technology even when decoherence is taken into account. Thus, the protocol may have potential applications for the information readout in quantum communications and quantum computations in superconducting quantum networks.

Improved astigmatic focus error detection method

NASA Technical Reports Server (NTRS)

Bernacki, Bruce E.

1992-01-01

All easy-to-implement focus- and track-error detection methods presently used in magneto-optical (MO) disk drives using pre-grooved media suffer from a side effect known as feedthrough. Feedthrough is the unwanted focus error signal (FES) produced when the optical head is seeking a new track, and light refracted from the pre-grooved disk produces an erroneous FES. Some focus and track-error detection methods are more resistant to feedthrough, but tend to be complicated and/or difficult to keep in alignment as a result of environmental insults. The astigmatic focus/push-pull tracking method is an elegant, easy-to-align focus- and track-error detection method. Unfortunately, it is also highly susceptible to feedthrough when astigmatism is present, with the worst effects caused by astigmatism oriented such that the tangential and sagittal foci are at 45 deg to the track direction. This disclosure outlines a method to nearly completely eliminate the worst-case form of feedthrough due to astigmatism oriented 45 deg to the track direction. Feedthrough due to other primary aberrations is not improved, but performance is identical to the unimproved astigmatic method.

Anti-Runaway Prevention System with Wireless Sensors for Intelligent Track Skates at Railway Stations.

PubMed

Jiang, Chaozhe; Xu, Yibo; Wen, Chao; Chen, Dilin

2017-12-19

Anti-runaway prevention of rolling stocks at a railway station is essential in railway safety management. The traditional track skates for anti-runaway prevention of rolling stocks have some disadvantages since they are operated and monitored completely manually. This paper describes an anti-runaway prevention system (ARPS) based on intelligent track skates equipped with sensors and real-time monitoring and management system. This system, which has been updated from the traditional track skates, comprises four parts: intelligent track skates, a signal reader, a database station, and a monitoring system. This system can monitor the real-time situation of track skates without changing their workflow for anti-runaway prevention, and thus realize the integration of anti-runaway prevention information management. This system was successfully tested and practiced at Sunjia station in Harbin Railway Bureau in 2014, and the results confirmed that the system showed 100% accuracy in reflecting the usage status of the track skates. The system could meet practical demands, as it is highly reliable and supports long-distance communication.

Information Quality Challenges of Patient-Generated Data in Clinical Practice

PubMed Central

West, Peter; Van Kleek, Max; Giordano, Richard; Weal, Mark; Shadbolt, Nigel

2017-01-01

A characteristic trend of digital health has been the dramatic increase in patient-generated data being presented to clinicians, which follows from the increased ubiquity of self-tracking practices by individuals, driven, in turn, by the proliferation of self-tracking tools and technologies. Such tools not only make self-tracking easier but also potentially more reliable by automating data collection, curation, and storage. While self-tracking practices themselves have been studied extensively in human–computer interaction literature, little work has yet looked at whether these patient-generated data might be able to support clinical processes, such as providing evidence for diagnoses, treatment monitoring, or postprocedure recovery, and how we can define information quality with respect to self-tracked data. In this article, we present the results of a literature review of empirical studies of self-tracking tools, in which we identify how clinicians perceive quality of information from such tools. In the studies, clinicians perceive several characteristics of information quality relating to accuracy and reliability, completeness, context, patient motivation, and representation. We discuss the issues these present in admitting self-tracked data as evidence for clinical decisions. PMID:29209601

Anti-Runaway Prevention System with Wireless Sensors for Intelligent Track Skates at Railway Stations

PubMed Central

Jiang, Chaozhe; Xu, Yibo; Chen, Dilin

2017-01-01

Anti-runaway prevention of rolling stocks at a railway station is essential in railway safety management. The traditional track skates for anti-runaway prevention of rolling stocks have some disadvantages since they are operated and monitored completely manually. This paper describes an anti-runaway prevention system (ARPS) based on intelligent track skates equipped with sensors and real-time monitoring and management system. This system, which has been updated from the traditional track skates, comprises four parts: intelligent track skates, a signal reader, a database station, and a monitoring system. This system can monitor the real-time situation of track skates without changing their workflow for anti-runaway prevention, and thus realize the integration of anti-runaway prevention information management. This system was successfully tested and practiced at Sunjia station in Harbin Railway Bureau in 2014, and the results confirmed that the system showed 100% accuracy in reflecting the usage status of the track skates. The system could meet practical demands, as it is highly reliable and supports long-distance communication. PMID:29257108

Strategic Plan for Standards-Based Reform. Report of Progress.

ERIC Educational Resources Information Center

Hawaii State Dept. of Education, Honolulu. Office of the Superintendent.

This report summarizes the expectations, mission, guiding principles, standards, assessments, and time line for standards implementation for the state of Hawai'i. Implementation was scheduled for completion by August 2000. A technical reference matrix tracks the development of the assessment and accountability system. The completion of specific…

Complete nucleotide sequence of the Cryptomeria japonica D. Don. chloroplast genome and comparative chloroplast genomics: diversified genomic structure of coniferous species.

PubMed

Hirao, Tomonori; Watanabe, Atsushi; Kurita, Manabu; Kondo, Teiji; Takata, Katsuhiko

2008-06-23

The recent determination of complete chloroplast (cp) genomic sequences of various plant species has enabled numerous comparative analyses as well as advances in plant and genome evolutionary studies. In angiosperms, the complete cp genome sequences of about 70 species have been determined, whereas those of only three gymnosperm species, Cycas taitungensis, Pinus thunbergii, and Pinus koraiensis have been established. The lack of information regarding the gene content and genomic structure of gymnosperm cp genomes may severely hamper further progress of plant and cp genome evolutionary studies. To address this need, we report here the complete nucleotide sequence of the cp genome of Cryptomeria japonica, the first in the Cupressaceae sensu lato of gymnosperms, and provide a comparative analysis of their gene content and genomic structure that illustrates the unique genomic features of gymnosperms. The C. japonica cp genome is 131,810 bp in length, with 112 single copy genes and two duplicated (trnI-CAU, trnQ-UUG) genes that give a total of 116 genes. Compared to other land plant cp genomes, the C. japonica cp has lost one of the relevant large inverted repeats (IRs) found in angiosperms, fern, liverwort, and gymnosperms, such as Cycas and Gingko, and additionally has completely lost its trnR-CCG, partially lost its trnT-GGU, and shows diversification of accD. The genomic structure of the C. japonica cp genome also differs significantly from those of other plant species. For example, we estimate that a minimum of 15 inversions would be required to transform the gene organization of the Pinus thunbergii cp genome into that of C. japonica. In the C. japonica cp genome, direct repeat and inverted repeat sequences are observed at the inversion and translocation endpoints, and these sequences may be associated with the genomic rearrangements. The observed differences in genomic structure between C. japonica and other land plants, including pines, strongly support the theory that the large IRs stabilize the cp genome. Furthermore, the deleted large IR and the numerous genomic rearrangements that have occurred in the C. japonica cp genome provide new insights into both the evolutionary lineage of coniferous species in gymnosperm and the evolution of the cp genome.

Updated clusters of orthologous genes for Archaea: a complex ancestor of the Archaea and the byways of horizontal gene transfer.

PubMed

Wolf, Yuri I; Makarova, Kira S; Yutin, Natalya; Koonin, Eugene V

2012-12-14

Collections of Clusters of Orthologous Genes (COGs) provide indispensable tools for comparative genomic analysis, evolutionary reconstruction and functional annotation of new genomes. Initially, COGs were made for all complete genomes of cellular life forms that were available at the time. However, with the accumulation of thousands of complete genomes, construction of a comprehensive COG set has become extremely computationally demanding and prone to error propagation, necessitating the switch to taxon-specific COG collections. Previously, we reported the collection of COGs for 41 genomes of Archaea (arCOGs). Here we present a major update of the arCOGs and describe evolutionary reconstructions to reveal general trends in the evolution of Archaea. The updated version of the arCOG database incorporates 91% of the pangenome of 120 archaea (251,032 protein-coding genes altogether) into 10,335 arCOGs. Using this new set of arCOGs, we performed maximum likelihood reconstruction of the genome content of archaeal ancestral forms and gene gain and loss events in archaeal evolution. This reconstruction shows that the last Common Ancestor of the extant Archaea was an organism of greater complexity than most of the extant archaea, probably with over 2,500 protein-coding genes. The subsequent evolution of almost all archaeal lineages was apparently dominated by gene loss resulting in genome streamlining. Overall, in the evolution of Archaea as well as a representative set of bacteria that was similarly analyzed for comparison, gene losses are estimated to outnumber gene gains at least 4 to 1. Analysis of specific patterns of gene gain in Archaea shows that, although some groups, in particular Halobacteria, acquire substantially more genes than others, on the whole, gene exchange between major groups of Archaea appears to be largely random, with no major 'highways' of horizontal gene transfer. The updated collection of arCOGs is expected to become a key resource for comparative genomics, evolutionary reconstruction and functional annotation of new archaeal genomes. Given that, in spite of the major increase in the number of genomes, the conserved core of archaeal genes appears to be stabilizing, the major evolutionary trends revealed here have a chance to stand the test of time. This article was reviewed by (for complete reviews see the Reviewers' Reports section): Dr. PLG, Prof. PF, Dr. PL (nominated by Prof. JPG).

Comparison of Arc Tracking Tests in Various Aerospace Environments

NASA Technical Reports Server (NTRS)

Stueber, Thomas J.; Hammoud, Ahmad; McCall, David

1996-01-01

Momentary short-circuit arcs between a polyimide insulated wire with defective insulation and another conductor may cause pyrolization of the insulation resulting in a conductive path capable of sustaining the arc. These sustained arcs may propagate along the wires or to neighboring wires leading to complete failure of the wire bundle. Wire insulation susceptibility to arc tracking may be dependent on its environment. Because all wire insulation types tested to date arc track, a test procedure has been developed to compare different insulation types with respect to their arc tracking susceptibility. This test procedure is presented along with a comparison of arc tracking in the following three environments: (1) Air at atmospheric pressure and 1 gravitational(g) force; (2) Vacuum (2.67 x 10(exp -3) Pa) and 1g, and (3) Air at atmospheric pressure and microgravity (less than 0.04g).

Inferring explicit weighted consensus networks to represent alternative evolutionary histories

PubMed Central

2013-01-01

Background The advent of molecular biology techniques and constant increase in availability of genetic material have triggered the development of many phylogenetic tree inference methods. However, several reticulate evolution processes, such as horizontal gene transfer and hybridization, have been shown to blur the species evolutionary history by causing discordance among phylogenies inferred from different genes. Methods To tackle this problem, we hereby describe a new method for inferring and representing alternative (reticulate) evolutionary histories of species as an explicit weighted consensus network which can be constructed from a collection of gene trees with or without prior knowledge of the species phylogeny. Results We provide a way of building a weighted phylogenetic network for each of the following reticulation mechanisms: diploid hybridization, intragenic recombination and complete or partial horizontal gene transfer. We successfully tested our method on some synthetic and real datasets to infer the above-mentioned evolutionary events which may have influenced the evolution of many species. Conclusions Our weighted consensus network inference method allows one to infer, visualize and validate statistically major conflicting signals induced by the mechanisms of reticulate evolution. The results provided by the new method can be used to represent the inferred conflicting signals by means of explicit and easy-to-interpret phylogenetic networks. PMID:24359207

Evolutionary relationships of flying foxes (genus Pteropus) in the Philippines inferred from DNA sequences of cytochrome b gene.

PubMed

Bastian, S T; Tanaka, K; Anunciado, R V P; Natural, N G; Sumalde, A C; Namikawa, T

2002-04-01

Six flying fox species, genus Pteropus (four from the Philippines) were investigated using complete cytochrome b gene sequences (1140 bp) to infer their evolutionary relationships. The DNA sequences generated via polymerase chain reaction were analyzed using the neighbor-joining, parsimony, and maximum likelihood methods. We estimated that the first evolutionary event among these Pteropus species occurred approximately 13.90 +/- 1.49 MYA. Within this short period of evolutionary time we further hypothesized that the ancestors of the flying foxes found in the Philippines experienced a subsequent diversification forming two clusters in the topology. The first cluster is composed of P. pumilus (Philippine endemic), P. speciosus (restricted in western Mindanao) with P. scapulatus, while the second one comprised P. vampyrus and P. dasymallus species based on the analysis from first and second codon positions. Consistently, all phylogenetic analyses divulged close association of P. dasymallus with P. vampyrus contradicting the previous report categorizing P. dasymallus under subniger species group with P. pumilus. P. speciosus, and P. hypomelanus. The Philippine endemic species (P. pumilus) is closely linked with P. speciosus. The representative samples of P. vampyrus showed a large genetic distance of 1.87%. The large genetic distance between P. dasymallus and P. hypomelanus, P. pumilus and P. speciosus denotes a distinct species group.

Computability, Gödel's incompleteness theorem, and an inherent limit on the predictability of evolution

PubMed Central

Day, Troy

2012-01-01

The process of evolutionary diversification unfolds in a vast genotypic space of potential outcomes. During the past century, there have been remarkable advances in the development of theory for this diversification, and the theory's success rests, in part, on the scope of its applicability. A great deal of this theory focuses on a relatively small subset of the space of potential genotypes, chosen largely based on historical or contemporary patterns, and then predicts the evolutionary dynamics within this pre-defined set. To what extent can such an approach be pushed to a broader perspective that accounts for the potential open-endedness of evolutionary diversification? There have been a number of significant theoretical developments along these lines but the question of how far such theory can be pushed has not been addressed. Here a theorem is proven demonstrating that, because of the digital nature of inheritance, there are inherent limits on the kinds of questions that can be answered using such an approach. In particular, even in extremely simple evolutionary systems, a complete theory accounting for the potential open-endedness of evolution is unattainable unless evolution is progressive. The theorem is closely related to Gödel's incompleteness theorem, and to the halting problem from computability theory. PMID:21849390

Asteroseismic modelling of the solar-like star β Hydri

NASA Astrophysics Data System (ADS)

Doğan, G.; Brandão, I. M.; Bedding, T. R.; Christensen-Dalsgaard, J.; Cunha, M. S.; Kjeldsen, H.

2010-07-01

We present the results of modelling the subgiant star β Hydri using seismic observational constraints. We have computed several grids of stellar evolutionary tracks using the Aarhus STellar Evolution Code (ASTEC, Christensen-Dalsgaard in Astrophys. Space Sci. 316:13, 2008a), with and without helium diffusion and settling. For those models on each track that are located at the observationally determined position of β Hydri in the Hertzsprung-Russell (HR) diagram, we have calculated the oscillation frequencies using the Aarhus adiabatic pulsation package (ADIPLS, Christensen-Dalsgaard in Astrophys. Space Sci. 316:113, 2008b). Applying the near-surface corrections to the calculated frequencies using the empirical law presented by Kjeldsen et al. (Astrophys. J. 683:L175, 2008), we have compared the corrected model frequencies with the observed frequencies of the star. We show that after correcting the frequencies for the near-surface effects, we have a fairly good fit for both l=0 and l=2 frequencies. We also have good agreement between the observed and calculated l=1 mode frequencies, although there is room for improvement in order to fit all the observed mixed modes simultaneously.

The role of social and ecological processes in structuring animal populations: a case study from automated tracking of wild birds

PubMed Central

Farine, Damien R.; Firth, Josh A.; Aplin, Lucy M.; Crates, Ross A.; Culina, Antica; Garroway, Colin J.; Hinde, Camilla A.; Kidd, Lindall R.; Milligan, Nicole D.; Psorakis, Ioannis; Radersma, Reinder; Verhelst, Brecht; Voelkl, Bernhard; Sheldon, Ben C.

2015-01-01

Both social and ecological factors influence population process and structure, with resultant consequences for phenotypic selection on individuals. Understanding the scale and relative contribution of these two factors is thus a central aim in evolutionary ecology. In this study, we develop a framework using null models to identify the social and spatial patterns that contribute to phenotypic structure in a wild population of songbirds. We used automated technologies to track 1053 individuals that formed 73 737 groups from which we inferred a social network. Our framework identified that both social and spatial drivers contributed to assortment in the network. In particular, groups had a more even sex ratio than expected and exhibited a consistent age structure that suggested local association preferences, such as preferential attachment or avoidance. By contrast, recent immigrants were spatially partitioned from locally born individuals, suggesting differential dispersal strategies by phenotype. Our results highlight how different scales of social decision-making, ranging from post-natal dispersal settlement to fission–fusion dynamics, can interact to drive phenotypic structure in animal populations. PMID:26064644

Stakeholder consultation on tracking in UK veterinary degrees: part 1.

PubMed

Crowther, E; Hughes, K; Handel, I; Whittington, R; Pryce, M; Warman, S; Rhind, S; Baillie, S

2014-07-26

There is on-going debate regarding whether veterinary students should focus on one (or a small number of) species during their undergraduate training (ie, track). The aims of this study were to: evaluate UK stakeholders' opinion on partial tracking (whereby students continue to qualify able to practise in all species) and full tracking (students qualify in a limited number of species necessitating restricted registration); and evaluate students' career aspirations in relation to the UK veterinary profession's employment profile. This paper presents the quantitative results of surveys completed by practitioners, students and university staff. The majority of respondents (69.4 per cent) disagreed or strongly disagreed with full tracking, however, there was widespread support for partial tracking (79.0 per cent agreed or strongly agreed). Students favoured partial tracking more so than practitioners (P<0.001). Univariate analysis of demographic factors did not identify differences in opinion regarding tracking within stakeholder groups. Students' knowledge of the UK veterinary employment profile appeared accurate. However, their career aspiration changed with year of the course, and only final year students' intentions were aligned with the profession's current profile. Qualitative data from these surveys are presented in a second paper and include the advantages, disadvantages and implications of partial and full tracking. British Veterinary Association.

A Brunswikian Evolutionary Developmental Theory of Preparedness and Plasticity

ERIC Educational Resources Information Center

Figueredo, Aurelio Jose; Hammond, Kenneth R.; McKiernan, Erin C.

2006-01-01

The domain-independent and domain-dependent approach to the evolution of cognition have been taken by separate groups of researchers who have focused exclusively on either the formal properties or the distinct cognitive demands of tasks. We express the view that synthesizing the two approaches could lead to a more complete understanding, and…

Genetic Characterization of Providence Virus Isolated from Bat Guano in Hungary.

PubMed

Kemenesi, Gábor; Földes, Fanni; Zana, Brigitta; Kurucz, Kornélia; Estók, Péter; Boldogh, Sándor; Görföl, Tamás; Bányai, Krisztián; Oldal, Miklós; Jakab, Ferenc

2016-05-19

We report the complete genome sequence and genetic characterization of a novel strain of Providence virus, detected in Barbastella barbastellus bat guano, collected in Hungary in 2014. Our data may facilitate the understanding of the evolutionary processes of this unique viral family of Carmotetraviridae. Copyright © 2016 Kemenesi et al.

Evolution and homoplasy at the Bem6 microsatellite locus in three sweetpotato whitefly (Bemisia tabaci) cryptic species

USDA-ARS?s Scientific Manuscript database

The evolution of individual microsatellite loci is often complex and homoplasy is common but often goes undetected. Sequencing alleles at a microsatellite locus can provide a more complete picture of the common evolutionary mechanisms occurring at that locus and can reveal cases of homoplasy. Within...

Evolution and homoplasy at the bem6 microsatellite locus in three Bemisia tabaci cryptic species

USDA-ARS?s Scientific Manuscript database

The evolution of individual microsatellite loci is often complex and homoplasy is common but often goes undetected. Sequencing alleles at a microsatellite locus can provide a more complete picture of the common evolutionary mechanisms occurring at that locus and can reveal cases of homoplasy. Within...

Phylogenomics of MADS-Box Genes in Plants - Two Opposing Life Styles in One Gene Family.

PubMed

Gramzow, Lydia; Theißen, Günter

2013-09-12

The development of multicellular eukaryotes, according to their body plan, is often directed by members of multigene families that encode transcription factors. MADS (for MINICHROMOSOME MAINTENANCE1, AGAMOUS, DEFICIENS and SERUM RESPONSE FACTOR)-box genes form one of those families controlling nearly all major aspects of plant development. Knowing the complete complement of MADS-box genes in sequenced plant genomes will allow a better understanding of the evolutionary patterns of these genes and the association of their evolution with the evolution of plant morphologies. Here, we have applied a combination of automatic and manual annotations to identify the complete set of MADS-box genes in 17 plant genomes. Furthermore, three plant genomes were reanalyzed and published datasets were used for four genomes such that more than 2,600 genes from 24 species were classified into the two types of MADS-box genes, Type I and Type II. Our results extend previous studies, highlighting the remarkably different evolutionary patterns of Type I and Type II genes and provide a basis for further studies on the evolution and function of MADS-box genes.

Implementing large scale fast track diagnostics in a comprehensive cancer center, pre- and post-measurement data.

PubMed

van Harten, W H; Goedbloed, N; Boekhout, A H; Heintzbergen, S

2018-02-07

In general, patients with a cancer suspicion visit the hospital multiple times before diagnosis is completed. Using various "operations management" techniques a few fast track diagnostic services were implemented in the Netherlands Cancer Institute (NKI) in 2006. Growing patient numbers and increasing process complexity, led to diminished service levels. To decrease the amount of patient visits and to extend these services beyond the (obvious) breast cancer services, fast track diagnostics is now implemented for all 18 cancer types that present with a frequency of minimally one per week. The throughput time (first visit to diagnosis conversation) was measured before, and after implementation of fast track diagnostics. The process was redesigned closely involving the multidisciplinary teams. In an eclectic approach elements from lean management, theory of constraints and mathematical analysis were used to organize slots per tumor type for MRI, CT, PET and echography. A post measurement was performed after 3 and 6 months. In pre measurement access time was calculated to be 10 to 15 workdays, mean throughput time was 6.0 workdays. It proved possible to design the process of 18 tumors as a fast track, of which 7 as "one stop shop" (diagnosis completed in one visit). Involvement of clinical- and board leadership, massive communication efforts and commitment of physicians to reschedule their work proved decisive. After 3 and 6 months of implementation, the mean access time was 8.2 and 8.7 workdays respectively and mean throughput time was 3.4 and 3.3 workdays respectively. Throughput- and access time were considerably shortened after implementation of fast track diagnostics for 18 cancer types. The involvement of physicians in reorganizing their work and rapid responding to their needs during the implementation phase were a crucial success factor.

Moran-evolution of cooperation: From well-mixed to heterogeneous complex networks

NASA Astrophysics Data System (ADS)

Sarkar, Bijan

2018-05-01

Configurational arrangement of network architecture and interaction character of individuals are two most influential factors on the mechanisms underlying the evolutionary outcome of cooperation, which is explained by the well-established framework of evolutionary game theory. In the current study, not only qualitatively but also quantitatively, we measure Moran-evolution of cooperation to support an analytical agreement based on the consequences of the replicator equation in a finite population. The validity of the measurement has been double-checked in the well-mixed network by the Langevin stochastic differential equation and the Gillespie-algorithmic version of Moran-evolution, while in a structured network, the measurement of accuracy is verified by the standard numerical simulation. Considering the Birth-Death and Death-Birth updating rules through diffusion of individuals, the investigation is carried out in the wide range of game environments those relate to the various social dilemmas where we are able to draw a new rigorous mathematical track to tackle the heterogeneity of complex networks. The set of modified criteria reveals the exact fact about the emergence and maintenance of cooperation in the structured population. We find that in general, nature promotes the environment of coexistent traits.

An Evolutionary Perspective on Yeast Mating-Type Switching

PubMed Central

Hanson, Sara J.; Wolfe, Kenneth H.

2017-01-01

Cell differentiation in yeast species is controlled by a reversible, programmed DNA-rearrangement process called mating-type switching. Switching is achieved by two functionally similar but structurally distinct processes in the budding yeast Saccharomyces cerevisiae and the fission yeast Schizosaccharomyces pombe. In both species, haploid cells possess one active and two silent copies of the mating-type locus (a three-cassette structure), the active locus is cleaved, and synthesis-dependent strand annealing is used to replace it with a copy of a silent locus encoding the opposite mating-type information. Each species has its own set of components responsible for regulating these processes. In this review, we summarize knowledge about the function and evolution of mating-type switching components in these species, including mechanisms of heterochromatin formation, MAT locus cleavage, donor bias, lineage tracking, and environmental regulation of switching. We compare switching in these well-studied species to others such as Kluyveromyces lactis and the methylotrophic yeasts Ogataea polymorpha and Komagataella phaffii. We focus on some key questions: Which cells switch mating type? What molecular apparatus is required for switching? Where did it come from? And what is the evolutionary purpose of switching? PMID:28476860

A holistic image segmentation framework for cloud detection and extraction

NASA Astrophysics Data System (ADS)

Shen, Dan; Xu, Haotian; Blasch, Erik; Horvath, Gregory; Pham, Khanh; Zheng, Yufeng; Ling, Haibin; Chen, Genshe

2013-05-01

Atmospheric clouds are commonly encountered phenomena affecting visual tracking from air-borne or space-borne sensors. Generally clouds are difficult to detect and extract because they are complex in shape and interact with sunlight in a complex fashion. In this paper, we propose a clustering game theoretic image segmentation based approach to identify, extract, and patch clouds. In our framework, the first step is to decompose a given image containing clouds. The problem of image segmentation is considered as a "clustering game". Within this context, the notion of a cluster is equivalent to a classical equilibrium concept from game theory, as the game equilibrium reflects both the internal and external (e.g., two-player) cluster conditions. To obtain the evolutionary stable strategies, we explore three evolutionary dynamics: fictitious play, replicator dynamics, and infection and immunization dynamics (InImDyn). Secondly, we use the boundary and shape features to refine the cloud segments. This step can lower the false alarm rate. In the third step, we remove the detected clouds and patch the empty spots by performing background recovery. We demonstrate our cloud detection framework on a video clip provides supportive results.

Evolutionary Grids of Accreting White Dwarf Companions in Cataclysmic Variables

NASA Astrophysics Data System (ADS)

Benjamin, J.; Jensen, M.; Nadeau, S.; Nelson, L. A.

2003-12-01

We analyze the evolution of accreting white dwarfs in binary systems for a wide range of initial conditions. Specifically, evolutionary tracks are calculated for CO white dwarfs with masses in the range of 0.6 - 1.3 solar masses and accreting H-rich gas at rates of between 10-6 to 10-10 solar masses per year. Since the white dwarfs in these binaries could be very young or very old at the onset of mass transfer we simulated this possibility by investigating the evolution for a large range of internal temperatures. Thus most of the sequences generated were not thermally relaxed at the onset of mass transfer (and the thermonuclear flashes were not cyclic). We discuss the temporal dependence of the interior properties (envelope readjustment on a thermal timescale and compressional heating) on the initial conditions. Particular attention is paid to the white dwarfs accretors that remained small (relative to the Roche lobe radius) during the shell flash event. Finally, we use the results of these models to comment on the observed properties of Supersoft X-ray sources. This research was supported in part by funds from the Natural Sciences and Engineering Research Council (Canada).

The Role of Rotation in the Evolution of Massive Stars

NASA Technical Reports Server (NTRS)

Heap, Sara R.; Lanz, Thierry M.

2002-01-01

Recent evolutionary models of massive stars predict important effects of rotation including: increasing the rate of mass-loss; lowering the effective gravity; altering the evolutionary track on the HRD; extending the main-sequence phase (both on the HR diagram and in time); and mixing of CNO-processed elements up to the stellar surface. Observations suggest that rotation is a more important factor at lower metallicities because of higher initial rotational velocities and weaker winds. This makes the SMC, a low-metallicity galaxy (Z= 0.2 solar Z), an excellent environment for discerning the role of rotation in massive stars. We report on a FUSE + STIS + optical spectral analysis of 17 O-type stars in the SMC, where we found an enormous range in N abundances. Three stars in the sample have the same (low) CN abundances as the nebular material out of which they formed, namely C = 0.085 solar C and N = 0.034 solar N. However, more than half show N approx. solar N, an enrichment factor of 30X! Such unexpectedly high levels of N have ramifications for the evolution of massive stars including precursors to supernovae. They also raise questions about the sources of nitrogen in the early universe.

Aging jets from low-mass stars

NASA Technical Reports Server (NTRS)

Graham, J. A.; Chen, W. P.

1994-01-01

An extended faint optical jet is associated with the compact emission region plus faint star known as HH 55. HH 55 is located in the Lupus 2 cloud 2 min SW of the well studied T Tauri star RU Lupi. The HH 55 jet extends 55 sec N and 35 sec S in PA 160 deg. The HH 55 star is an emission line star of spectral type M3.5. Its image in the emission lines of H-alpha and (S II) is slightly elongated by 2 sec - 3 sec to the S but in continuum light is symmetrical and pointlike ((full width at half maximum) (FWHM) = 1.7 sec). The star and jet have several features in common with the star and jet known as Sz 102 = Th 28 in the nearby Lupus 3 cloud. We suggest that these objects are representative of the late evolutionary stage of the HH jet-outflow phenomenon and point out that such objects may be quite common although difficult to detect. With L(sub bol) approximately = 0.005 solar luminosity, and log T(sub e) approximately = 3.5, the HH 55 star is close to the main sequence and evolutionary tracks suggest an age of 3 x 10(exp 7) yr.

Comparative Phylogenomics Uncovers the Impact of Symbiotic Associations on Host Genome Evolution

PubMed Central

Delaux, Pierre-Marc; Varala, Kranthi; Edger, Patrick P.; Coruzzi, Gloria M.; Pires, J. Chris; Ané, Jean-Michel

2014-01-01

Mutualistic symbioses between eukaryotes and beneficial microorganisms of their microbiome play an essential role in nutrition, protection against disease, and development of the host. However, the impact of beneficial symbionts on the evolution of host genomes remains poorly characterized. Here we used the independent loss of the most widespread plant–microbe symbiosis, arbuscular mycorrhization (AM), as a model to address this question. Using a large phenotypic approach and phylogenetic analyses, we present evidence that loss of AM symbiosis correlates with the loss of many symbiotic genes in the Arabidopsis lineage (Brassicales). Then, by analyzing the genome and/or transcriptomes of nine other phylogenetically divergent non-host plants, we show that this correlation occurred in a convergent manner in four additional plant lineages, demonstrating the existence of an evolutionary pattern specific to symbiotic genes. Finally, we use a global comparative phylogenomic approach to track this evolutionary pattern among land plants. Based on this approach, we identify a set of 174 highly conserved genes and demonstrate enrichment in symbiosis-related genes. Our findings are consistent with the hypothesis that beneficial symbionts maintain purifying selection on host gene networks during the evolution of entire lineages. PMID:25032823

Specialization to Extremely Low-Nutrient Soils Limits the Nutritional Adaptability of Plant Lineages.

PubMed

Verboom, G Anthony; Stock, William D; Cramer, Michael D

2017-06-01

Specialization to extreme selective situations promotes the acquisition of traits whose coadaptive integration may compromise evolutionary flexibility and adaptability. We test this idea in the context of the foliar stoichiometry of plants native to the South African Cape. Whereas foliar concentrations of nitrogen, phosphorus (P), potassium (K), calcium, magnesium, and sodium showed strong phylogenetic signal, as did the foliar ratios of these nutrients to P, the same was not true of the corresponding soil values. In addition, although foliar traits were often related to soil values, the coefficients of determination were consistently low. These results identify foliar stoichiometry as having a strong genetic component, with variation in foliar nutrient concentrations, especially [P] and [K], being identified as potentially adaptive. Comparison of stoichiometric variation across 11 similarly aged clades revealed consistently low foliar nutrient concentrations in lineages showing specialization to extremely low-nutrient fynbos heathlands. These lineages also display lower rates of evolution of these traits as well as a reduced tendency for foliar [P] to track soil [P]. Reduced evolutionary lability and adaptability in the nutritional traits of fynbos-specialist lineages may explain the floristic distinctness of the fynbos flora and implies a reduced scope for edaphically driven ecological speciation.

An Analysis of Student Success Rates for Academic and Workforce Programs at a Large Texas Community College: Examining Fall 2009 to Spring 2011

ERIC Educational Resources Information Center

High, Clennis F.

2012-01-01

Student success rates for academic track and workforce track students were examined for thousands of students at a large urban Texas Community College. The study covered fall 2009 through spring 2011, a two year period. Data were collected from the institution's data base regarding students who successfully completed the courses in which they were…

Tracking Transfer: Measures of Effectiveness in Helping Community College Students to Complete Bachelor's Degrees. (Signature Report No. 13)

ERIC Educational Resources Information Center

Shapiro, Doug; Dundar, Afet; Huie, Faye; Wakhungu, Phoebe Khasiala; Yuan, Xin; Nathan, Angel; Hwang, Youngsik

2017-01-01

This report is an update of the January 2016 Transfer Tracking report (see ED563499). It is the first in an annual series from the National Student Clearinghouse Research Center that will investigate postsecondary student transfer outcomes. The goal is to provide institutions and states with a set of specific, up-to-date metrics with which to…

Velocities along Byrd Glacier, East Antarctica, derived from Automatic Feature Tracking

NASA Astrophysics Data System (ADS)

Stearns, L. A.; Hamilton, G. S.

2003-12-01

Automatic feature tracking techniques are applied to recently acquired ASTER (Advanced Spaceborne Thermal Emission and Reflection Radiometer) imagery in order to determine the velocity field of Byrd Glacier, East Antarctica. The software IMCORR tracks the displacement of surface features (crevasses, drift mounds) in time sequential images, to produce the velocity field. Due to its high resolution, ASTER imagery is ideally suited for detecting small features changes. The produced result is a dense array of velocity vectors, which allows more thorough characterization of glacier dynamics. Byrd Glacier drains approximately 20.5 km3 of ice into the Ross Ice Shelf every year. Previous studies have determined ice velocities for Byrd Glacier by using photogrammetry, field measurements and manual feature tracking. The most recent velocity data is from 1986 and, as evident in the West Antarctic ice streams, substantial changes in velocity can occur on decadal time scales. The application of ASTER-based velocities fills this time lapse, and increased temporal resolution allows for a more complete analysis of Byrd Glacier. The ASTER-derived ice velocities are used in updating mass balance and force budget calculations to assess the stability of Byrd Glacier. Ice thickness information from BEDMAP, surface slopes from the OSUDEM and a compilation of accumulation rates are used to complete the calculations.

Upper limb stroke rehabilitation: the effectiveness of Stimulation Assistance through Iterative Learning (SAIL).

PubMed

Meadmore, Katie L; Cai, Zhonglun; Tong, Daisy; Hughes, Ann-Marie; Freeman, Chris T; Rogers, Eric; Burridge, Jane H

2011-01-01

A novel system has been developed which combines robotic therapy with electrical stimulation (ES) for upper limb stroke rehabilitation. This technology, termed SAIL: Stimulation Assistance through Iterative Learning, employs advanced model-based iterative learning control (ILC) algorithms to precisely assist participant's completion of 3D tracking tasks with their impaired arm. Data is reported from a preliminary study with unimpaired participants, and also from a single hemiparetic stroke participant with reduced upper limb function who has used the system in a clinical trial. All participants completed tasks which involved moving their (impaired) arm to follow an image of a slowing moving sphere along a trajectory. The participants' arm was supported by a robot and ES was applied to the triceps brachii and anterior deltoid muscles. During each task, the same tracking trajectory was repeated 6 times and ILC was used to compute the stimulation signals to be applied on the next iteration. Unimpaired participants took part in a single, one hour training session and the stroke participant undertook 18, 1 hour treatment sessions composed of tracking tasks varying in length, orientation and speed. The results reported describe changes in tracking ability and demonstrate feasibility of the SAIL system for upper limb rehabilitation. © 2011 IEEE

Patton's tracks in the Mojave Desert, USA: An ecological legacy

USGS Publications Warehouse

Belnap, Jayne; Warren, Steven D.

2002-01-01

Recovery of soil properties from World War II-era military training exercises in the Mojave Desert was measured approximately 55 years following disturbance. Tracks from military vehicles were still visible, particularly in areas of desert pavement. Soil penetrability was much lower in visible tracks than outside the tracks. Soils in tracks had fewer rocks in the top 10cm of the soil profile than adjacent untracked soils. Larger particles (> 4.8mm) formed a moderately well-developed pavement outside of the tracks, while smaller, loose particles ( h 4.8mm) dominated the surface of the tracks. The time required to restore the desert pavement is likely to be measured in centuries. Based on biomass estimates, the cyanobacterial component of biological soil crusts had recovered 46-65% in tracks, compared to outside the tracks. Overall recovery of lichen cover has been much slower. Under plant canopies, cover of Collema tenax was not significantly different between areas inside and outside the tracks; however, recovery of Catapyrenium squamulosum was only 36%. In plant interspaces with less favorable moisture and temperature conditions, C. tenax showed a 6% recovery and C. squamulosum a 3% recovery. Assuming recovery of the biological soil crust is linear, and complete only when the most sensitive species (C. squamulosum) has fully recovered in the most limiting microhabitats (plant interspaces), it may require almost two millennia for full recovery of these areas.

On the Statistical Properties of the Lower Main Sequence

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

Angelou, George C.; Bellinger, Earl P.; Hekker, Saskia

Astronomy is in an era where all-sky surveys are mapping the Galaxy. The plethora of photometric, spectroscopic, asteroseismic, and astrometric data allows us to characterize the comprising stars in detail. Here we quantify to what extent precise stellar observations reveal information about the properties of a star, including properties that are unobserved, or even unobservable. We analyze the diagnostic potential of classical and asteroseismic observations for inferring stellar parameters such as age, mass, and radius from evolutionary tracks of solar-like oscillators on the lower main sequence. We perform rank correlation tests in order to determine the capacity of each observablemore » quantity to probe structural components of stars and infer their evolutionary histories. We also analyze the principal components of classic and asteroseismic observables to highlight the degree of redundancy present in the measured quantities and demonstrate the extent to which information of the model parameters can be extracted. We perform multiple regression using combinations of observable quantities in a grid of evolutionary simulations and appraise the predictive utility of each combination in determining the properties of stars. We identify the combinations that are useful and provide limits to where each type of observable quantity can reveal information about a star. We investigate the accuracy with which targets in the upcoming TESS and PLATO missions can be characterized. We demonstrate that the combination of observations from GAIA and PLATO will allow us to tightly constrain stellar masses, ages, and radii with machine learning for the purposes of Galactic and planetary studies.« less

Stability-activity tradeoffs constrain the adaptive evolution of RubisCO.

PubMed

Studer, Romain A; Christin, Pascal-Antoine; Williams, Mark A; Orengo, Christine A

2014-02-11

A well-known case of evolutionary adaptation is that of ribulose-1,5-bisphosphate carboxylase (RubisCO), the enzyme responsible for fixation of CO2 during photosynthesis. Although the majority of plants use the ancestral C3 photosynthetic pathway, many flowering plants have evolved a derived pathway named C4 photosynthesis. The latter concentrates CO2, and C4 RubisCOs consequently have lower specificity for, and faster turnover of, CO2. The C4 forms result from convergent evolution in multiple clades, with substitutions at a small number of sites under positive selection. To understand the physical constraints on these evolutionary changes, we reconstructed in silico ancestral sequences and 3D structures of RubisCO from a large group of related C3 and C4 species. We were able to precisely track their past evolutionary trajectories, identify mutations on each branch of the phylogeny, and evaluate their stability effect. We show that RubisCO evolution has been constrained by stability-activity tradeoffs similar in character to those previously identified in laboratory-based experiments. The C4 properties require a subset of several ancestral destabilizing mutations, which from their location in the structure are inferred to mainly be involved in enhancing conformational flexibility of the open-closed transition in the catalytic cycle. These mutations are near, but not in, the active site or at intersubunit interfaces. The C3 to C4 transition is preceded by a sustained period in which stability of the enzyme is increased, creating the capacity to accept the functionally necessary destabilizing mutations, and is immediately followed by compensatory mutations that restore global stability.

Conceptual models of the evolution of transgressive dune field systems

NASA Astrophysics Data System (ADS)

A. Hesp, Patrick

2013-10-01

This paper examines the evolutionary paths of some transgressive dune fields that have formed on different coasts of the world, and presents some initial conceptual models of system dynamics for transgressive dune sheets and dune fields. Various evolutionary pathways are conceptualized based on a visual examination of dune fields from around the world. On coasts with high sediment supply, dune sheets and dune fields tend to accumulate as large scale barrier systems with little colonization of vegetation in arid-hyper to arid climate regimes, and as multiple, active discrete phases of dune field and deflation plain couplets in temperate to tropical environments. Active dune fields tend to be singular entities on coasts with low to moderate sediment supply. Landscape complexity and vegetation richness and diversity increases as dune fields evolve from simple active sheets and dunes to single and multiple deflation plains and basins, precipitation ridges, nebkha fields and a host of other dune types associated with vegetation (e.g. trailing ridges, slacks, remnant knobs, gegenwalle ridges and dune track ridges, ‘tree islands' and ‘bush pockets'). Three principal scenarios of transgressive dune sheet and dune field development are discussed, including dune sheets or dune fields evolving directly from the backshore, development following foredune and/or dune field erosion, and development from the breakdown or merging of parabolic dunes. Various stages of evolution are outlined for each scenario. Knowledge of evolutionary patterns and stages in coastal dune fields is very limited and caution is urged in attempts to reverse, change and/or modify dune fields to ‘restore' some perceived loss of ecosystem or dune functioning.

Conceptual models of the evolution of transgressive dune field systems

NASA Astrophysics Data System (ADS)

Hesp, Patrick A.

2013-10-01

This paper examines the evolutionary paths of some transgressive dune fields that have formed on different coasts of the world, and presents some initial conceptual models of system dynamics for transgressive dune sheets and dune fields. Various evolutionary pathways are conceptualized based on a visual examination of dune fields from around the world. On coasts with high sediment supply, dune sheets and dune fields tend to accumulate as large scale barrier systems with little colonization of vegetation in arid-hyper to arid climate regimes, and as multiple, active discrete phases of dune field and deflation plain couplets in temperate to tropical environments. Active dune fields tend to be singular entities on coasts with low to moderate sediment supply. Landscape complexity and vegetation richness and diversity increases as dune fields evolve from simple active sheets and dunes to single and multiple deflation plains and basins, precipitation ridges, nebkha fields and a host of other dune types associated with vegetation (e.g. trailing ridges, slacks, remnant knobs, gegenwalle ridges and dune track ridges, 'tree islands' and 'bush pockets'). Three principal scenarios of transgressive dune sheet and dune field development are discussed, including dune sheets or dune fields evolving directly from the backshore, development following foredune and/or dune field erosion, and development from the breakdown or merging of parabolic dunes. Various stages of evolution are outlined for each scenario. Knowledge of evolutionary patterns and stages in coastal dune fields is very limited and caution is urged in attempts to reverse, change and/or modify dune fields to 'restore' some perceived loss of ecosystem or dune functioning.

Adaptation of reference volumes for correlation-based digital holographic particle tracking

NASA Astrophysics Data System (ADS)

Hesseling, Christina; Peinke, Joachim; Gülker, Gerd

2018-04-01

Numerically reconstructed reference volumes tailored to particle images are used for particle position detection by means of three-dimensional correlation. After a first tracking of these positions, the experimentally recorded particle images are retrieved as a posteriori knowledge about the particle images in the system. This knowledge is used for a further refinement of the detected positions. A transparent description of the individual algorithm steps including the results retrieved with experimental data complete the paper. The work employs extraordinarily small particles, smaller than the pixel pitch of the camera sensor. It is the first approach known to the authors that combines numerical knowledge about particle images and particle images retrieved from the experimental system to an iterative particle tracking approach for digital holographic particle tracking velocimetry.

Mapping of Technological Opportunities-Labyrinth Seal Example

NASA Technical Reports Server (NTRS)

Clarke, Dana W., Sr.

2006-01-01

All technological systems evolve based on evolutionary sequences that have repeated throughout history and can be abstracted from the history of technology and patents. These evolutionary sequences represent objective patterns and provide considerable insights that can be used to proactively model future seal concepts. This presentation provides an overview of how to map seal technology into the future using a labyrinth seal example. The mapping process delivers functional descriptions of sequential changes in market/consumer demand, from today s current paradigm to the next major paradigm shift. The future paradigm is developed according to a simple formula: the future paradigm is free of all flaws associated with the current paradigm; it is as far into the future as we can see. Although revolutionary, the vision of the future paradigm is typically not immediately or completely realizable nor is it normally seen as practical. There are several reasons that prevent immediate and complete practical application, such as: 1) Some of the required technological or business resources and knowledge not being available; 2) Availability of other technological or business resources are limited; and/or 3) Some necessary knowledge has not been completely developed. These factors tend to drive the Total Cost of Ownership or Utilization out of an acceptable range and revealing the reasons for the high Total Cost of Ownership or Utilization which provides a clear understanding of research opportunities essential for future developments and defines the current limits of the immediately achievable improvements. The typical roots of high Total Cost of Ownership or Utilization lie in the limited availability or even the absence of essential resources and knowledge necessary for its realization. In order to overcome this obstacle, step-by-step modification of the current paradigm is pursued to evolve from the current situation toward the ideal future, i.e., evolution rather than revolution. A key point is that evolutionary stages are mapped to show step-by-step evolution from the current paradigm to the next major paradigm.

Recombination and evolution of duplicate control regions in the mitochondrial genome of the Asian big-headed turtle, Platysternon megacephalum.

PubMed

Zheng, Chenfei; Nie, Liuwang; Wang, Jue; Zhou, Huaxing; Hou, Huazhen; Wang, Hao; Liu, Juanjuan

2013-01-01

Complete mitochondrial (mt) genome sequences with duplicate control regions (CRs) have been detected in various animal species. In Testudines, duplicate mtCRs have been reported in the mtDNA of the Asian big-headed turtle, Platysternon megacephalum, which has three living subspecies. However, the evolutionary pattern of these CRs remains unclear. In this study, we report the completed sequences of duplicate CRs from 20 individuals belonging to three subspecies of this turtle and discuss the micro-evolutionary analysis of the evolution of duplicate CRs. Genetic distances calculated with MEGA 4.1 using the complete duplicate CR sequences revealed that within turtle subspecies, genetic distances between orthologous copies from different individuals were 0.63% for CR1 and 1.2% for CR2app:addword:respectively, and the average distance between paralogous copies of CR1 and CR2 was 4.8%. Phylogenetic relationships were reconstructed from the CR sequences, excluding the variable number of tandem repeats (VNTRs) at the 3' end using three methods: neighbor-joining, maximum likelihood algorithm, and Bayesian inference. These data show that any two CRs within individuals were more genetically distant from orthologous genes in different individuals within the same subspecies. This suggests independent evolution of the two mtCRs within each P. megacephalum subspecies. Reconstruction of separate phylogenetic trees using different CR components (TAS, CD, CSB, and VNTRs) suggested the role of recombination in the evolution of duplicate CRs. Consequently, recombination events were detected using RDP software with break points at ≈290 bp and ≈1,080 bp. Based on these results, we hypothesize that duplicate CRs in P. megacephalum originated from heterological ancestral recombination of mtDNA. Subsequent recombination could have resulted in homogenization during independent evolutionary events, thus maintaining the functions of duplicate CRs in the mtDNA of P. megacephalum.

Recombination and Evolution of Duplicate Control Regions in the Mitochondrial Genome of the Asian Big-Headed Turtle, Platysternon megacephalum

PubMed Central

Zheng, Chenfei; Nie, Liuwang; Wang, Jue; Zhou, Huaxing; Hou, Huazhen; Wang, Hao; Liu, Juanjuan

2013-01-01

Complete mitochondrial (mt) genome sequences with duplicate control regions (CRs) have been detected in various animal species. In Testudines, duplicate mtCRs have been reported in the mtDNA of the Asian big-headed turtle, Platysternon megacephalum, which has three living subspecies. However, the evolutionary pattern of these CRs remains unclear. In this study, we report the completed sequences of duplicate CRs from 20 individuals belonging to three subspecies of this turtle and discuss the micro-evolutionary analysis of the evolution of duplicate CRs. Genetic distances calculated with MEGA 4.1 using the complete duplicate CR sequences revealed that within turtle subspecies, genetic distances between orthologous copies from different individuals were 0.63% for CR1 and 1.2% for CR2app:addword:respectively, and the average distance between paralogous copies of CR1 and CR2 was 4.8%. Phylogenetic relationships were reconstructed from the CR sequences, excluding the variable number of tandem repeats (VNTRs) at the 3′ end using three methods: neighbor-joining, maximum likelihood algorithm, and Bayesian inference. These data show that any two CRs within individuals were more genetically distant from orthologous genes in different individuals within the same subspecies. This suggests independent evolution of the two mtCRs within each P. megacephalum subspecies. Reconstruction of separate phylogenetic trees using different CR components (TAS, CD, CSB, and VNTRs) suggested the role of recombination in the evolution of duplicate CRs. Consequently, recombination events were detected using RDP software with break points at ≈290 bp and ≈1,080 bp. Based on these results, we hypothesize that duplicate CRs in P. megacephalum originated from heterological ancestral recombination of mtDNA. Subsequent recombination could have resulted in homogenization during independent evolutionary events, thus maintaining the functions of duplicate CRs in the mtDNA of P. megacephalum. PMID:24367563

Quantitative results of stellar evolution and pulsation theories.

NASA Technical Reports Server (NTRS)

Fricke, K.; Stobie, R. S.; Strittmatter, P. A.

1971-01-01

The discrepancy between the masses of Cepheid variables deduced from evolution theory and pulsation theory is examined. The effect of input physics on evolutionary tracks is first discussed; in particular, changes in the opacity are considered. The sensitivity of pulsation masses to opacity changes and to the ascribed values of luminosity and effective temperature are then analyzed. The Cepheid mass discrepancy is discussed in the light of the results already obtained. Other astronomical evidence, including the mass-luminosity relation for main sequence stars, the solar neutrino flux, and cluster ages are also considered in an attempt to determine the most likely source of error in the event that substantial mass loss has not occurred.

High-resolution abundance analysis of the metallic-line star HR 7250

NASA Astrophysics Data System (ADS)

Elmaslı, Aslı; Ünal, Kübraözge; Çalışkan, Şeyma

2018-07-01

We estimated the stellar parameters and chemical abundances of the highly neglected A-type star HR 7250. The star's high resolution spectrum, spanning a wavelength range from 3900 to 7900 Å, was obtained at the TÜBİTAK National Observatory. We derived the abundances of 14 elements (O, Na, Mg, Si, S, Ca, Sc, Ti, Cr, Fe, Ni, Sr, Y, and Ba) for HR 7250 from the unblended lines of the star's spectrum. Our analysis shows that HR 7250 is a chemically peculiar Am star. We also estimated its age and mass as 400 ± 70 Myr and 3.25 ± 0.17 M⊙ from evolutionary tracks and isochrones.

Biodiversity and Topographic Complexity: Modern and Geohistorical Perspectives.

PubMed

Badgley, Catherine; Smiley, Tara M; Terry, Rebecca; Davis, Edward B; DeSantis, Larisa R G; Fox, David L; Hopkins, Samantha S B; Jezkova, Tereza; Matocq, Marjorie D; Matzke, Nick; McGuire, Jenny L; Mulch, Andreas; Riddle, Brett R; Roth, V Louise; Samuels, Joshua X; Strömberg, Caroline A E; Yanites, Brian J

2017-03-01

Topographically complex regions on land and in the oceans feature hotspots of biodiversity that reflect geological influences on ecological and evolutionary processes. Over geologic time, topographic diversity gradients wax and wane over millions of years, tracking tectonic or climatic history. Topographic diversity gradients from the present day and the past can result from the generation of species by vicariance or from the accumulation of species from dispersal into a region with strong environmental gradients. Biological and geological approaches must be integrated to test alternative models of diversification along topographic gradients. Reciprocal illumination among phylogenetic, phylogeographic, ecological, paleontological, tectonic, and climatic perspectives is an emerging frontier of biogeographic research. Copyright © 2017 Elsevier Ltd. All rights reserved.

The X-Ray Counterpart to LAT PSR J2021+4026 and Its Interesting Spectrum

NASA Technical Reports Server (NTRS)

Weisskopf, Martin C.; Becker, W.; Carraminana, A.; De Luca, A.; Dormandy, M.; Harding, A.; Kanbach, G.; O'Dell, S. L.; Parkinson, P. Saz; Ray, P.;

Evolution of New miRNAs and Cerebro-Cortical Development.

PubMed

Kosik, Kenneth S; Nowakowski, Tomasz

2018-04-04

The noncoding portion of the genome, including microRNAs, has been fertile evolutionary soil for cortical development in primates. A major contribution to cortical expansion in primates is the generation of novel precursor cell populations. Because miRNA expression profiles track closely with cell identity, it is likely that numerous novel microRNAs have contributed to cellular diversity in the brain. The tools to determine the genomic context within which novel microRNAs emerge and how they become integrated into molecular circuitry are now in hand. Expected final online publication date for the Annual Review of Neuroscience Volume 41 is July 8, 2018. Please see http://www.annualreviews.org/page/journal/pubdates for revised estimates.

Mapping the seafloor geology offshore of Massachusetts

USGS Publications Warehouse

Barnhardt, Walter A.; Andrews, Brian D.

2006-01-01

Geologic and bathymetric maps help us understand the evolutionary history of the Massachusetts coast and the processes that have shaped it. The maps show the distribution of bottom types (for example, bedrock, gravel, sand, mud) and water depths over large areas of the seafloor. In turn, these two fundamental parameters largely determine the species of flora and fauna that inhabit a particular area. Knowledge of bottom types and water depths provides a framework for mapping benthic habitats and managing marine resources. The need for coastal–zone mapping to inform policy and management is widely recognized as critical for mitigating hazards, creating resource inventories, and tracking environmental changes (National Research Council, 2004; U.S. Commission on Ocean Policy, 2004).

NEXT Ion Propulsion System Development Status and Capabilities

NASA Technical Reports Server (NTRS)

Patterson, Michael J.; Benson, Scott W.

2008-01-01

NASA s Evolutionary Xenon Thruster (NEXT) project is developing next generation ion propulsion technologies to provide future NASA science missions with enhanced mission performance benefit at a low total development cost. The objective of the NEXT project is to advance next generation ion propulsion technology by producing engineering model system components, validating these through qualification-level and integrated system testing, and ensuring preparedness for transitioning to flight system development. As NASA s Evolutionary Xenon Thruster technology program completes advanced development activities, it is advantageous to review the existing technology capabilities of the system under development. This paper describes the NEXT ion propulsion system development status, characteristics and performance. A review of mission analyses results conducted to date using the NEXT system is also provided.

What can we learn from fitness landscapes?

PubMed

Hartl, Daniel L

2014-10-01

A combinatorially complete data set consists of studies of all possible combinations of a set of mutant sites in a gene or mutant alleles in a genome. Among the most robust conclusions from these studies is that epistasis between beneficial mutations often shows a pattern of diminishing returns, in which favorable mutations are less fit when combined than would be expected. Another robust inference is that the number of adaptive evolutionary paths is often limited to a relatively small fraction of the theoretical possibilities, owing largely to sign epistasis requiring evolutionary steps that would entail a decrease in fitness. Here we summarize these and other results while also examining issues that remain unresolved and future directions that seem promising. Copyright © 2014 Elsevier Ltd. All rights reserved.

Application of resequencing to rice genomics, functional genomics and evolutionary analysis

PubMed Central

2014-01-01

Rice is a model system used for crop genomics studies. The completion of the rice genome draft sequences in 2002 not only accelerated functional genome studies, but also initiated a new era of resequencing rice genomes. Based on the reference genome in rice, next-generation sequencing (NGS) using the high-throughput sequencing system can efficiently accomplish whole genome resequencing of various genetic populations and diverse germplasm resources. Resequencing technology has been effectively utilized in evolutionary analysis, rice genomics and functional genomics studies. This technique is beneficial for both bridging the knowledge gap between genotype and phenotype and facilitating molecular breeding via gene design in rice. Here, we also discuss the limitation, application and future prospects of rice resequencing. PMID:25006357

Leading Indicators: Increasing Statewide Bachelor's Degree Completion Rates at 4-Year Public Institutions

ERIC Educational Resources Information Center

Davidson, Jeffrey Cody

2014-01-01

For the United States to maintain national and global economic stability, colleges must graduate more students. Four-year completion rates have declined and less than one-third of full-time, degree-seeking students graduate in 4 years. Some researchers and policymakers have suggested "leading indicators" to track postsecondary…

Honors and the Completion Agenda: Identifying and Duplicating Student Success

ERIC Educational Resources Information Center

Trucker, Jay

2014-01-01

Longitudinal studies that track student persistence each semester serve as the primary measurement of an institution's success or failure. These studies take place at the institutional and state-wide levels as well as nationally through grant-based organizations such as Complete College America. At the Community College of Baltimore County (CCBC),…

Extended Opportunity Programs and Services (EOPS): A Quantitative Study of Latino Students' Goal Completion

ERIC Educational Resources Information Center

Barraza, Bertha

2012-01-01

A problem exists with consistency in measuring and tracking students' academic goals in California Community Colleges [CCC]. Effective measurements in CCC that embody academic goals below the associate degree and four-year college articulation agreements, call for attention to determine student academic interests and completion rates. Specific…

Multi-object tracking of human spermatozoa

NASA Astrophysics Data System (ADS)

Sørensen, Lauge; Østergaard, Jakob; Johansen, Peter; de Bruijne, Marleen

2008-03-01

We propose a system for tracking of human spermatozoa in phase-contrast microscopy image sequences. One of the main aims of a computer-aided sperm analysis (CASA) system is to automatically assess sperm quality based on spermatozoa motility variables. In our case, the problem of assessing sperm quality is cast as a multi-object tracking problem, where the objects being tracked are the spermatozoa. The system combines a particle filter and Kalman filters for robust motion estimation of the spermatozoa tracks. Further, the combinatorial aspect of assigning observations to labels in the particle filter is formulated as a linear assignment problem solved using the Hungarian algorithm on a rectangular cost matrix, making the algorithm capable of handling missing or spurious observations. The costs are calculated using hidden Markov models that express the plausibility of an observation being the next position in the track history of the particle labels. Observations are extracted using a scale-space blob detector utilizing the fact that the spermatozoa appear as bright blobs in a phase-contrast microscope. The output of the system is the complete motion track of each of the spermatozoa. Based on these tracks, different CASA motility variables can be computed, for example curvilinear velocity or straight-line velocity. The performance of the system is tested on three different phase-contrast image sequences of varying complexity, both by visual inspection of the estimated spermatozoa tracks and by measuring the mean squared error (MSE) between the estimated spermatozoa tracks and manually annotated tracks, showing good agreement.

Fossil preservation and the stratigraphic ranges of taxa

NASA Technical Reports Server (NTRS)

Foote, M.; Raup, D. M.

1996-01-01

The incompleteness of the fossil record hinders the inference of evolutionary rates and patterns. Here, we derive relationships among true taxonomic durations, preservation probability, and observed taxonomic ranges. We use these relationships to estimate original distributions of taxonomic durations, preservation probability, and completeness (proportion of taxa preserved), given only the observed ranges. No data on occurrences within the ranges of taxa are required. When preservation is random and the original distribution of durations is exponential, the inference of durations, preservability, and completeness is exact. However, reasonable approximations are possible given non-exponential duration distributions and temporal and taxonomic variation in preservability. Thus, the approaches we describe have great potential in studies of taphonomy, evolutionary rates and patterns, and genealogy. Analyses of Upper Cambrian-Lower Ordovician trilobite species, Paleozoic crinoid genera, Jurassic bivalve species, and Cenozoic mammal species yield the following results: (1) The preservation probability inferred from stratigraphic ranges alone agrees with that inferred from the analysis of stratigraphic gaps when data on the latter are available. (2) Whereas median durations based on simple tabulations of observed ranges are biased by stratigraphic resolution, our estimates of median duration, extinction rate, and completeness are not biased.(3) The shorter geologic ranges of mammalian species relative to those of bivalves cannot be attributed to a difference in preservation potential. However, we cannot rule out the contribution of taxonomic practice to this difference. (4) In the groups studied, completeness (proportion of species [trilobites, bivalves, mammals] or genera [crinoids] preserved) ranges from 60% to 90%. The higher estimates of completeness at smaller geographic scales support previous suggestions that the incompleteness of the fossil record reflects loss of fossiliferous rock more than failure of species to enter the fossil record in the first place.

Comprehensive comparative analysis of kinesins in photosynthetic eukaryotes

PubMed Central

Richardson, Dale N; Simmons, Mark P; Reddy, Anireddy SN

2006-01-01

Background Kinesins, a superfamily of molecular motors, use microtubules as tracks and transport diverse cellular cargoes. All kinesins contain a highly conserved ~350 amino acid motor domain. Previous analysis of the completed genome sequence of one flowering plant (Arabidopsis) has resulted in identification of 61 kinesins. The recent completion of genome sequencing of several photosynthetic and non-photosynthetic eukaryotes that belong to divergent lineages offers a unique opportunity to conduct a comprehensive comparative analysis of kinesins in plant and non-plant systems and infer their evolutionary relationships. Results We used the kinesin motor domain to identify kinesins in the completed genome sequences of 19 species, including 13 newly sequenced genomes. Among the newly analyzed genomes, six represent photosynthetic eukaryotes. A total of 529 kinesins was used to perform comprehensive analysis of kinesins and to construct gene trees using the Bayesian and parsimony approaches. The previously recognized 14 families of kinesins are resolved as distinct lineages in our inferred gene tree. At least three of the 14 kinesin families are not represented in flowering plants. Chlamydomonas, a green alga that is part of the lineage that includes land plants, has at least nine of the 14 known kinesin families. Seven of ten families present in flowering plants are represented in Chlamydomonas, indicating that these families were retained in both the flowering-plant and green algae lineages. Conclusion The increase in the number of kinesins in flowering plants is due to vast expansion of the Kinesin-14 and Kinesin-7 families. The Kinesin-14 family, which typically contains a C-terminal motor, has many plant kinesins that have the motor domain at the N terminus, in the middle, or the C terminus. Several domains in kinesins are present exclusively either in plant or animal lineages. Addition of novel domains to kinesins in lineage-specific groups contributed to the functional diversification of kinesins. Results from our gene-tree analyses indicate that there was tremendous lineage-specific duplication and diversification of kinesins in eukaryotes. Since the functions of only a few plant kinesins are reported in the literature, this comprehensive comparative analysis will be useful in designing functional studies with photosynthetic eukaryotes. PMID:16448571

Aircraft Landing Dynamics Facility - A unique facility with new capabilities

NASA Technical Reports Server (NTRS)

Davis, P. A.; Stubbs, S. M.; Tanner, J. A.

1985-01-01

The Aircraft Landing Dynamics Facility (ALDF), formerly called the Landing Loads Track, is described. The paper gives a historical overview of the original NASA Langley Research Center Landing Loads Track and discusses the unique features of this national test facility. Comparisons are made between the original track characteristics and the new capabilities of the Aircraft Landing Dynamics Facility following the recently completed facility update. Details of the new propulsion and arresting gear systems are presented along with the novel features of the new high-speed carriage. The data acquisition system is described and the paper concludes with a review of future test programs.

Evaluating OpenSHMEM Explicit Remote Memory Access Operations and Merged Requests

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

Boehm, Swen; Pophale, Swaroop S; Gorentla Venkata, Manjunath

The OpenSHMEM Library Specification has evolved consid- erably since version 1.0. Recently, non-blocking implicit Remote Memory Access (RMA) operations were introduced in OpenSHMEM 1.3. These provide a way to achieve better overlap between communication and computation. However, the implicit non-blocking operations do not pro- vide a separate handle to track and complete the individual RMA opera- tions. They are guaranteed to be completed after either a shmem quiet(), shmem barrier() or a shmem barrier all() is called. These are global com- pletion and synchronization operations. Though this semantic is expected to achieve a higher message rate for the applications, themore » drawback is that it does not allow fine-grained control over the completion of RMA operations. In this paper, first, we introduce non-blocking RMA operations with requests, where each operation has an explicit request to track and com- plete the operation. Second, we introduce interfaces to merge multiple requests into a single request handle. The merged request tracks multiple user-selected RMA operations, which provides the flexibility of tracking related communication operations with one request handle. Lastly, we explore the implications in terms of performance, productivity, usability and the possibility of defining different patterns of communication via merging of requests. Our experimental results show that a well designed and implemented OpenSHMEM stack can hide the overhead of allocating and managing the requests. The latency of RMA operations with requests is similar to blocking and implicit non-blocking RMA operations. We test our implementation with the Scalable Synthetic Compact Applications (SSCA #1) benchmark and observe that using RMA operations with requests and merging of these requests outperform the implementation using blocking RMA operations and implicit non-blocking operations by 49% and 74% respectively.« less

Fellowship and career path preferences in residents of otolaryngology-head and neck surgery.

PubMed

Golub, Justin S; Ossoff, Robert H; Johns, Michael M

2011-04-01

Assess fellowship and academic/private practice career track preferences in residents of otolaryngology-head and neck surgery. Cross-sectional survey. A total of 1,364 U.S. otolaryngology residents were surveyed. Questions addressed demographics, work hours and sleep, fellowship preference, and career track preference (academic/private practice). Trends in fellowship and career track preference were analyzed by year of clinical otolaryngology training. Data were additionally analyzed after stratification by sex. The response rate was 50%. The desire to complete a fellowship declined from 62% (year 2) to 58% (year 5), whereas the desire to not complete a fellowship increased from 31% (year 2) to 41% (year 5). Fellowship interest increased for rhinology and head and neck surgery by training year, whereas interest declined for neurotology and facial plastics. Expectation of an academic path increased from 29% (year 2) to 38% (year 5), whereas expectation of private practice declined slightly from 59% (year 2) to 57% (year 5). Women were initially more interested in both completing a fellowship (69% women, 60% men) and academics (40% women, 27% men). At the end of training, these sex differences were eliminated or reversed (59% men, 54% women for fellowship; 39% men, 35% women for academics). Residents interested in pursuing fellowship or academics reported working 2 hr/week more than those interested in no fellowship or private practice, respectively (P < 0.01). Fellowship and career track preferences suggest trends that may be useful to residency/fellowship program directors and residents making career choices. Inequalities producing differences according to sex should be addressed. Copyright © 2011 The American Laryngological, Rhinological, and Otological Society, Inc.

EXors and the stellar birthline

NASA Astrophysics Data System (ADS)

Moody, Mackenzie S. L.; Stahler, Steven W.

2017-04-01

We assess the evolutionary status of EXors. These low-mass, pre-main-sequence stars repeatedly undergo sharp luminosity increases, each a year or so in duration. We place into the HR diagram all EXors that have documented quiescent luminosities and effective temperatures, and thus determine their masses and ages. Two alternate sets of pre-main-sequence tracks are used, and yield similar results. Roughly half of EXors are embedded objects, I.e., they appear observationally as Class I or flat-spectrum infrared sources. We find that these are relatively young and are located close to the stellar birthline in the HR diagram. Optically visible EXors, on the other hand, are situated well below the birthline. They have ages of several Myr, typical of classical T Tauri stars. Judging from the limited data at hand, we find no evidence that binarity companions trigger EXor eruptions; this issue merits further investigation. We draw several general conclusions. First, repetitive luminosity outbursts do not occur in all pre-main-sequence stars, and are not in themselves a sign of extreme youth. They persist, along with other signs of activity, in a relatively small subset of these objects. Second, the very existence of embedded EXors demonstrates that at least some Class I infrared sources are not true protostars, but very young pre-main-sequence objects still enshrouded in dusty gas. Finally, we believe that the embedded pre-main-sequence phase is of observational and theoretical significance, and should be included in a more complete account of early stellar evolution.

Sustained cooperation by running away from bad behavior

PubMed Central

Efferson, Charles; Roca, Carlos P.; Vogt, Sonja; Helbing, Dirk

2016-01-01

For cooperation to evolve, some mechanism must limit the rate at which cooperators are exposed to defectors. Only then can the advantages of mutual cooperation outweigh the costs of being exploited. Although researchers widely agree on this, they disagree intensely about which evolutionary mechanisms can explain the extraordinary cooperation exhibited by humans. Much of the controversy follows from disagreements about the informational regularity that allows cooperators to avoid defectors. Reliable information can allow cooperative individuals to avoid exploitation, but which mechanisms can sustain such a situation is a matter of considerable dispute. We conducted a behavioral experiment to see if cooperators could avoid defectors when provided with limited amounts of explicit information. We gave each participant the simple option to move away from her current neighborhood at any time. Participants were not identifiable as individuals, and they could not track each other's tendency to behave more or less cooperatively. More broadly, a participant had no information about the behavior she was likely to encounter if she moved, and so information about the risk of exploitation was extremely limited. Nonetheless, our results show that simply providing the option to move allowed cooperation to persist for a long period of time. Our results further show that movement, even though it involved considerable uncertainty, allowed would-be cooperators to assort positively and eliminate on average any individual payoff disadvantage associated with cooperation. This suggests that choosing to move, even under limited information, can completely reorganize the mix of selective forces relevant for the evolution of cooperation. PMID:26766895

Stakeholder consultation on tracking in UK veterinary degrees: part 2.

PubMed

Crowther, E; Hughes, K; Handel, I; Whittington, R; Pryce, M; Warman, S; Rhind, S; Baillie, S

2014-07-26

There is ongoing debate in the profession as to whether veterinary students should focus on one (or a small number of) species during their undergraduate training (ie, track). This paper presents the qualitative data from surveys evaluating UK stakeholder opinion on introducing partial tracking (whereby students continue to qualify able to practise in all species) and full tracking (students qualify in a limited number of species with restricted registration). Surveys were distributed to practitioners, students and university staff; 1061 responses were completed. Thematic framework analysis was conducted on the free-text responses; responses were coded to a hierarchical framework developed inductively from the data. Six major themes were identified: choice, flexibility, competency and knowledge, stakeholder implications, specialisation and 'what is a vet?'. The majority of the themes related to both full and partial tracking, usually being more pronounced in full tracking. The theme 'choice' is particularly important in light of the study's quantitative findings on students' awareness of the profession and their career aspirations (presented in a previous paper); should tracking be implemented, veterinary schools will need to take a proactive role in educating and assisting students while making career choices. British Veterinary Association.

Training the "assertive practitioner of behavioral science": advancing a behavioral medicine track in a family medicine residency.

PubMed

Butler, Dennis J; Holloway, Richard L; Fons, Dominique

2013-01-01

This article describes the development of a Behavioral Medicine track in a family medicine residency designed to train physicians to proactively and consistently apply advanced skills in psychosocial medicine, psychiatric care, and behavioral medicine. The Behavioral Medicine track emerged from a behavioral science visioning retreat, an opportunity to restructure residency training, a comparative family medicine-psychiatry model, and qualified residents with high interest in behavioral science. Training was restructured to increase rotational opportunities in core behavioral science areas and track residents were provided an intensive longitudinal counseling seminar and received advanced training in psychopharmacology, case supervision, and mindfulness. The availability of a Behavioral Medicine track increased medical student interest in the residency program and four residents have completed the track. All track residents have presented medical Grand Rounds on behavioral science topics and have lead multiple workshops or research sessions at national meetings. Graduate responses indicate effective integration of behavioral medicine skills and abilities in practice, consistent use of brief counseling skills, and good confidence in treating common psychiatric disorders. As developed and structured, the Behavioral Medicine track has achieved the goal of producing "assertive practitioners of behavioral science in family medicine" residents with advanced behavioral science skills and abilities who globally integrate behavioral science into primary care.

The complete mitochondrial genome of the big-belly seahorse, Hippocampus abdominalis (Lesson 1827).

PubMed

Wang, Lei; Chen, Zaizhong; Leng, Xiangjun; Gao, Jianzhong; Chen, Xiaowu; Li, Zhongpu; Sun, Peiying; Zhao, Yuming

2016-11-01

In this study, the complete mitogenome sequence of the big-belly seahorse, Hippocampus abdominalis (Lesson, 1827) (Syngnathiformes: Syngnathidae), has been sequenced by the next-generation sequencing method. The assembled mitogenome is 16 521 bp in length which includes 13 protein-coding genes, 22 transfer RNAs, and 2 ribosomal RNAs genes. The overall base composition of the seahorse is 31.1% for A, 23.6% for C, 16.0% for G, 29.3% for T and shows 87% identities similar to tiger tail seahorse, Hippocampus comes. The complete mitogenome of the big-belly seahorse provides essential and important DNA molecular data for further phylogeography and evolutionary analysis for seahorse family.

Complex Ancestries of Isoprenoid Synthesis in Dinoflagellates.

PubMed

Bentlage, Bastian; Rogers, Travis S; Bachvaroff, Tsvetan R; Delwiche, Charles F

2016-01-01

Isoprenoid metabolism occupies a central position in the anabolic metabolism of all living cells. In plastid-bearing organisms, two pathways may be present for de novo isoprenoid synthesis, the cytosolic mevalonate pathway (MVA) and nuclear-encoded, plastid-targeted nonmevalonate pathway (DOXP). Using transcriptomic data we find that dinoflagellates apparently make exclusive use of the DOXP pathway. Using phylogenetic analyses of all DOXP genes we inferred the evolutionary origins of DOXP genes in dinoflagellates. Plastid replacements led to a DOXP pathway of multiple evolutionary origins. Dinoflagellates commonly referred to as dinotoms due to their relatively recent acquisition of a diatom plastid, express two completely redundant DOXP pathways. Dinoflagellates with a tertiary plastid of haptophyte origin, by contrast, express a hybrid pathway of dual evolutionary origin. Here, changes in the targeting motif of signal/transit peptide likely allow for targeting the new plastid by the proteins of core isoprenoid metabolism proteins. Parasitic dinoflagellates of the Amoebophyra species complex appear to have lost the DOXP pathway, suggesting that they may rely on their host for sterol synthesis. © 2015 The Author(s) Journal of Eukaryotic Microbiology © 2015 International Society of Protistologists.

The genomic and epidemiological dynamics of human influenza A virus.

PubMed

Rambaut, Andrew; Pybus, Oliver G; Nelson, Martha I; Viboud, Cecile; Taubenberger, Jeffery K; Holmes, Edward C

2008-05-29

The evolutionary interaction between influenza A virus and the human immune system, manifest as 'antigenic drift' of the viral haemagglutinin, is one of the best described patterns in molecular evolution. However, little is known about the genome-scale evolutionary dynamics of this pathogen. Similarly, how genomic processes relate to global influenza epidemiology, in which the A/H3N2 and A/H1N1 subtypes co-circulate, is poorly understood. Here through an analysis of 1,302 complete viral genomes sampled from temperate populations in both hemispheres, we show that the genomic evolution of influenza A virus is characterized by a complex interplay between frequent reassortment and periodic selective sweeps. The A/H3N2 and A/H1N1 subtypes exhibit different evolutionary dynamics, with diverse lineages circulating in A/H1N1, indicative of weaker antigenic drift. These results suggest a sink-source model of viral ecology in which new lineages are seeded from a persistent influenza reservoir, which we hypothesize to be located in the tropics, to sink populations in temperate regions.

Degeneration of the Y chromosome in evolutionary aging models

NASA Astrophysics Data System (ADS)

Lobo, M. P.; Onody, R. N.

2005-06-01

The Y chromosomes are genetically degenerated and do not recombine with their matching partners X. Recombination of XX pairs is pointed out as the key factor for the Y chromosome degeneration. However, there is an additional evolutionary force driving sex-chromosomes evolution. Here we show this mechanism by means of two different evolutionary models, in which sex chromosomes with non-recombining XX and XY pairs of chromosomes is considered. Our results show three curious effects. First, we observed that even when both XX and XY pairs of chromosomes do not recombine, the Y chromosomes still degenerate. Second, the accumulation of mutations on Y chromosomes followed a completely different pattern then those accumulated on X chromosomes. And third, the models may differ with respect to sexual proportion. These findings suggest that a more primeval mechanism rules the evolution of Y chromosomes due exclusively to the sex-chromosomes asymmetry itself, i.e., the fact that Y chromosomes never experience female bodies. Over aeons, natural selection favored X chromosomes spontaneously, even if at the very beginning of evolution, both XX and XY pairs of chromosomes did not recombine.

Genetic architecture of hybrid male sterility in Drosophila: analysis of intraspecies variation for interspecies isolation.

PubMed

Reed, Laura K; LaFlamme, Brooke A; Markow, Therese A

2008-08-27

The genetic basis of postzygotic isolation is a central puzzle in evolutionary biology. Evolutionary forces causing hybrid sterility or inviability act on the responsible genes while they still are polymorphic, thus we have to study these traits as they arise, before isolation is complete. Isofemale strains of D. mojavensis vary significantly in their production of sterile F(1) sons when females are crossed to D. arizonae males. We took advantage of the intraspecific polymorphism, in a novel design, to perform quantitative trait locus (QTL) mapping analyses directly on F(1) hybrid male sterility itself. We found that the genetic architecture of the polymorphism for hybrid male sterility (HMS) in the F(1) is complex, involving multiple QTL, epistasis, and cytoplasmic effects. The role of extensive intraspecific polymorphism, multiple QTL, and epistatic interactions in HMS in this young species pair shows that HMS is arising as a complex trait in this system. Directional selection alone would be unlikely to maintain polymorphism at multiple loci, thus we hypothesize that directional selection is unlikely to be the only evolutionary force influencing postzygotic isolation.

Structural technology challenges for evolutionary growth of Space Station Freedom

NASA Technical Reports Server (NTRS)

Doiron, Harold H.

1990-01-01

A proposed evolutionary growth scenario for Space Station Freedom was defined recently by a NASA task force created to study requirements for a Human Exploration Initiative. The study was an initial response to President Bush's July 20, 1989 proposal to begin a long range program of human exploration of space including a permanently manned lunar base and a manned mission to Mars. This growth scenario evolves Freedom into a critical transportation node to support lunar and Mars missions. The growth scenario begins with the Assembly Complete configuration and adds structure, power, and facilities to support a Lunar Transfer Vehicle (LTV) verification flight. Evolutionary growth continues to support expendable, then reusable LTV operations, and finally, LTV and Mars Transfer Vehicle (MTV) operations. The significant structural growth and additional operations creating new loading conditions will present new technological and structural design challenges in addition to the considerable technology requirements of the baseline Space Station Freedom program. Several structural design and technology issues of the baseline program are reviewed and related technology development required by the growth scenario is identified.

Toward A New Evolutionary Synthesis.

PubMed

Flannery, Michael A

2017-01-01

This essay responds to Peter T. Saunders's call to go Beyond the neo-Darwinist Paradigm. While there is much to commend in his analysis, especially his suggestion that the extended evolutionary synthesis (EES) may not go far enough, he leaves the question of whether this should involve mere revision or total replacement open. A historiographical review reveals significant problems stemming from certain positivist assumptions and commitments within neo-Darwinian orthodoxy and the EES over and above any scientific considerations. As such, mere tweaking of the existing paradigm or its extension will do little to remedy the intellectual prejudices currently plaguing it. A complete overhaul is suggested by applying the López Ontological Demarcation Design (LODD) principle with biology in a multidisciplinary, non-reductionist philosophical framework. Building on the concept of Organismic-Systems Biology (OSB), a component of General Systems Theory (GTS) associated with polymathic biologist Ludwig von Bertalanffy (1901-1972), and cosmic evolution (CE) proposed by UCLA philosopher John Elof Boodin (1869-1950), the outline of a new evolutionary synthesis is offered as a prolegomenon to further study and evaluation. Copyright: © 2016 by Fabrizio Serra editore, Pisa · Roma.

Assessing the Potential Use of Eye-Tracking Triangulation for Evaluating the Usability of an Online Diabetes Exercise System.

PubMed

Schaarup, Clara; Hartvigsen, Gunnar; Larsen, Lars Bo; Tan, Zheng-Hua; Årsand, Eirik; Hejlesen, Ole Kristian

2015-01-01

The Online Diabetes Exercise System was developed to motivate people with Type 2 diabetes to do a 25 minutes low-volume high-intensity interval training program. In a previous multi-method evaluation of the system, several usability issues were identified and corrected. Despite the thorough testing, it was unclear whether all usability problems had been identified using the multi-method evaluation. Our hypothesis was that adding the eye-tracking triangulation to the multi-method evaluation would increase the accuracy and completeness when testing the usability of the system. The study design was an Eye-tracking Triangulation; conventional eye-tracking with predefined tasks followed by The Post-Experience Eye-Tracked Protocol (PEEP). Six Areas of Interests were the basis for the PEEP-session. The eye-tracking triangulation gave objective and subjective results, which are believed to be highly relevant for designing, implementing, evaluating and optimizing systems in the field of health informatics. Future work should include testing the method on a larger and more representative group of users and apply the method on different system types.

Goal formulation and tracking in child mental health settings: when is it more likely and is it associated with satisfaction with care?

PubMed

Jacob, Jenna; De Francesco, Davide; Deighton, Jessica; Law, Duncan; Wolpert, Miranda; Edbrooke-Childs, Julian

2017-07-01

Goal formulation and tracking may support preference-based care. Little is known about the likelihood of goal formulation and tracking and associations with care satisfaction. Logistic and Poisson stepwise regressions were performed on clinical data for N = 3757 children from 32 services in the UK (M age  = 11; SD age  = 3.75; most common clinician-reported presenting problem was emotional problems = 55.6%). Regarding the likelihood of goal formulation, it was more likely for pre-schoolers, those with learning difficulties or those with both hyperactivity disorder and conduct disorder. Regarding the association between goal formulation and tracking and satisfaction with care, parents of children with goals information were more likely to report complete satisfaction by scoring at the maximum of the scale. Findings of the present research suggest that goal formulation and tracking may be an important part of patient satisfaction with care. Clinicians should be encouraged to consider goal formulation and tracking when it is clinically meaningful as a means of promoting collaborative practice.

Atmospheric heating of meteorites: Results from nuclear track studies

NASA Technical Reports Server (NTRS)

Jha, R.

1984-01-01

A quantitative model to estimate the degree of annealing of nuclear tracks in mineral grains subjected to a variable temperature history was proposed. This model is applied to study the track annealing records in different meteorites resulting from their atmospheric heating. Scale lengths were measured of complete and partial track annealing, delta X sub 1 and delta X sub 2, respectively. In mineral grain close to fusion crust in about a dozen meteorites. Values of delta X sub 1 and delta X sub 2 depend on extent and duration of heating during atmospheric transit and hence on meteorite entry parameters. To estimate track annealing, the temperature history during atmospheric heating at different distances from the crusted surface of the meteorite is obtained by solving heat conduction equation in conjunction with meteorite entry model, and use of the annealing model to evaluate the degree of annealing of tracks. It is shown that the measured values of delta X sub 1 and delta X sub 2 in three of the meteorites studied are consistent with values using preatmospheric mass, entry velocity and entry angle of these meteorites.

A new approach for the screening of carotid lesions: a 'fast-track' method with the use of new generation hand-held ultrasound devices.

PubMed

Aboyans, V; Lacroix, P; Jeannicot, A; Guilloux, J; Bertin, F; Laskar, M

2004-09-01

We assessed the usefulness of fast-track neck sonography with a new-generation hand-held ultrasound scanner in the detection of > or =60% carotid stenosis. Patients with a past history of atherosclerotic disease or presence of risk factors were enrolled. All had fast-track carotid screening with a hand-held ultrasound scanner. Initial assessment was performed with our quick imaging protocol. A second examiner performed a conventional complete carotid duplex as gold-standard. We enrolled 197 consecutive patients with a mean age of 67 years (range 35-94). A carotid stenosis >60% was detected in 13 cases (6%). The sensitivity, specificity, positive and negative predictive value of fast-track sonography was 100%, 64%, 17% and 100%, respectively. Concomitant power Doppler imaging during the fast-track method did not improve accuracy. The use of a fast-track method with a hand-held ultrasound device can reduce the number of unnecessary carotid Duplex and enhance the screening efficiency without missing significant carotid stenoses.

Comment on "Protein sequences from mastodon and Tyrannosaurus rex revealed by mass spectrometry".

PubMed

Pevzner, Pavel A; Kim, Sangtae; Ng, Julio

2008-08-22

Asara et al. (Reports, 13 April 2007, p. 280) reported sequencing of Tyrannosaurus rex proteins and used them to establish the evolutionary relationships between birds and dinosaurs. We argue that the reported T. rex peptides may represent statistical artifacts and call for complete data release to enable experimental and computational verification of their findings.

Factors Associated with Jealousy over Real and Imagined Infidelity: An Examination of the Social-Cognitive and Evolutionary Psychology Perspectives

ERIC Educational Resources Information Center

Harris, Christine R.

2003-01-01

Three hundred fifty-eight undergraduates completed anonymous questionnaires regarding jealousy over a mate's infidelity. More men than women predicted that sexual infidelity would be worse than emotional infidelity when given the forced-choice hypothetical measures used in previous work. When some of the implications of hypothetical infidelity…

Delineating the Sequelae of Destructive and Constructive Interparental Conflict for Children within an Evolutionary Framework

ERIC Educational Resources Information Center

Davies, Patrick T.; Martin, Meredith J.; Cicchetti, Dante

2012-01-01

We examined the joint role of constructive and destructive interparental conflict in predicting children's emotional insecurity and psychological problems. In Study 1, 250 early adolescents (M = 12.6 years) and their primary caregivers completed assessments of family and child functioning. In Study 2, 201 mothers and their 2-year-old children…

Evolutionary and biotechnology implications of plastid genome variation in the inverted-repeat-lacking clade of legumes.

PubMed

Sabir, Jamal; Schwarz, Erika; Ellison, Nicholas; Zhang, Jin; Baeshen, Nabih A; Mutwakil, Muhammed; Jansen, Robert; Ruhlman, Tracey

2014-08-01

Land plant plastid genomes (plastomes) provide a tractable model for evolutionary study in that they are relatively compact and gene dense. Among the groups that display an appropriate level of variation for structural features, the inverted-repeat-lacking clade (IRLC) of papilionoid legumes presents the potential to advance general understanding of the mechanisms of genomic evolution. Here, are presented six complete plastome sequences from economically important species of the IRLC, a lineage previously represented by only five completed plastomes. A number of characters are compared across the IRLC including gene retention and divergence, synteny, repeat structure and functional gene transfer to the nucleus. The loss of clpP intron 2 was identified in one newly sequenced member of IRLC, Glycyrrhiza glabra. Using deeply sequenced nuclear transcriptomes from two species helped clarify the nature of the functional transfer of accD to the nucleus in Trifolium, which likely occurred in the lineage leading to subgenus Trifolium. Legumes are second only to cereal crops in agricultural importance based on area harvested and total production. Genetic improvement via plastid transformation of IRLC crop species is an appealing proposition. Comparative analyses of intergenic spacer regions emphasize the need for complete genome sequences for developing transformation vectors for plastid genetic engineering of legume crops. © 2014 Society for Experimental Biology, Association of Applied Biologists and John Wiley & Sons Ltd.

Complete Columbian mammoth mitogenome suggests interbreeding with woolly mammoths

PubMed Central

2011-01-01

Background Late Pleistocene North America hosted at least two divergent and ecologically distinct species of mammoth: the periglacial woolly mammoth (Mammuthus primigenius) and the subglacial Columbian mammoth (Mammuthus columbi). To date, mammoth genetic research has been entirely restricted to woolly mammoths, rendering their genetic evolution difficult to contextualize within broader Pleistocene paleoecology and biogeography. Here, we take an interspecific approach to clarifying mammoth phylogeny by targeting Columbian mammoth remains for mitogenomic sequencing. Results We sequenced the first complete mitochondrial genome of a classic Columbian mammoth, as well as the first complete mitochondrial genome of a North American woolly mammoth. Somewhat contrary to conventional paleontological models, which posit that the two species were highly divergent, the M. columbi mitogenome we obtained falls securely within a subclade of endemic North American M. primigenius. Conclusions Though limited, our data suggest that the two species interbred at some point in their evolutionary histories. One potential explanation is that woolly mammoth haplotypes entered Columbian mammoth populations via introgression at subglacial ecotones, a scenario with compelling parallels in extant elephants and consistent with certain regional paleontological observations. This highlights the need for multi-genomic data to sufficiently characterize mammoth evolutionary history. Our results demonstrate that the use of next-generation sequencing technologies holds promise in obtaining such data, even from non-cave, non-permafrost Pleistocene depositional contexts. PMID:21627792

Fossil evidence for key innovations in the evolution of insect diversity.

PubMed

Nicholson, David B; Ross, Andrew J; Mayhew, Peter J

2014-10-22

Explaining the taxonomic richness of the insects, comprising over half of all described species, is a major challenge in evolutionary biology. Previously, several evolutionary novelties (key innovations) have been posited to contribute to that richness, including the insect bauplan, wings, wing folding and complete metamorphosis, but evidence over their relative importance and modes of action is sparse and equivocal. Here, a new dataset on the first and last occurrences of fossil hexapod (insects and close relatives) families is used to show that basal families of winged insects (Palaeoptera, e.g. dragonflies) show higher origination and extinction rates in the fossil record than basal wingless groups (Apterygota, e.g. silverfish). Origination and extinction rates were maintained at levels similar to Palaeoptera in the more derived Polyneoptera (e.g. cockroaches) and Paraneoptera (e.g. true bugs), but extinction rates subsequently reduced in the very rich group of insects with complete metamorphosis (Holometabola, e.g. beetles). Holometabola show evidence of a recent slow-down in their high net diversification rate, whereas other winged taxa continue to diversify at constant but low rates. These data suggest that wings and complete metamorphosis have had the most effect on family-level insect macroevolution, and point to specific mechanisms by which they have influenced insect diversity through time. © 2014 The Author(s) Published by the Royal Society. All rights reserved.

UWB Tracking Software Development

NASA Technical Reports Server (NTRS)

Gross, Julia; Arndt, Dickey; Ngo, Phong; Phan, Chau; Dusl, John; Ni, Jianjun; Rafford, Melinda

2006-01-01

An Ultra-Wideband (UWB) two-cluster Angle of Arrival (AOA) tracking prototype system is currently being developed and tested at NASA Johnson Space Center for space exploration applications. This talk discusses the software development efforts for this UWB two-cluster AOA tracking system. The role the software plays in this system is to take waveform data from two UWB radio receivers as an input, feed this input into an AOA tracking algorithm, and generate the target position as an output. The architecture of the software (Input/Output Interface and Algorithm Core) will be introduced in this talk. The development of this software has three phases. In Phase I, the software is mostly Matlab driven and calls C++ socket functions to provide the communication links to the radios. This is beneficial in the early stage when it is necessary to frequently test changes in the algorithm. Phase II of the development is to have the software mostly C++ driven and call a Matlab function for the AOA tracking algorithm. This is beneficial in order to send the tracking results to other systems and also to improve the tracking update rate of the system. The third phase is part of future work and is to have the software completely C++ driven with a graphics user interface. This software design enables the fine resolution tracking of the UWB two-cluster AOA tracking system.

A vision-based approach for tramway rail extraction

NASA Astrophysics Data System (ADS)

Zwemer, Matthijs H.; van de Wouw, Dennis W. J. M.; Jaspers, Egbert; Zinger, Sveta; de With, Peter H. N.

2015-03-01

The growing traffic density in cities fuels the desire for collision assessment systems on public transportation. For this application, video analysis is broadly accepted as a cornerstone. For trams, the localization of tramway tracks is an essential ingredient of such a system, in order to estimate a safety margin for crossing traffic participants. Tramway-track detection is a challenging task due to the urban environment with clutter, sharp curves and occlusions of the track. In this paper, we present a novel and generic system to detect the tramway track in advance of the tram position. The system incorporates an inverse perspective mapping and a-priori geometry knowledge of the rails to find possible track segments. The contribution of this paper involves the creation of a new track reconstruction algorithm which is based on graph theory. To this end, we define track segments as vertices in a graph, in which edges represent feasible connections. This graph is then converted to a max-cost arborescence graph, and the best path is selected according to its location and additional temporal information based on a maximum a-posteriori estimate. The proposed system clearly outperforms a railway-track detector. Furthermore, the system performance is validated on 3,600 manually annotated frames. The obtained results are promising, where straight tracks are found in more than 90% of the images and complete curves are still detected in 35% of the cases.

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

Elicio, Andy U.

My ERM 593 applied project will provide guidance for the Los Alamos National Laboratory Waste Stream Profile reviewer (i.e. RCRA reviewer) in regards to Reviewing and Approving a Waste Stream Profile in the Waste Compliance and Tracking System. The Waste Compliance and Tracking system is called WCATS. WCATS is a web-based application that “supports the generation, characterization, processing and shipment of LANL radioactive, hazardous, and industrial waste.” The LANL generator must characterize their waste via electronically by filling out a waste stream profile (WSP) in WCATS. Once this process is completed, the designated waste management coordinator (WMC) will perform amore » review of the waste stream profile to ensure the generator has completed their waste stream characterization in accordance with applicable state, federal and LANL directives particularly P930-1, “LANL Waste Acceptance Criteria,” and the “Waste Compliance and Tracking System User's Manual, MAN-5004, R2,” as applicable. My guidance/applied project will describe the purpose, scope, acronyms, definitions, responsibilities, assumptions and guidance for the WSP reviewer as it pertains to each panel and subpanel of a waste stream profile.« less

Cassini Archive Tracking System

NASA Technical Reports Server (NTRS)

Conner, Diane; Sayfi, Elias; Tinio, Adrian

2006-01-01

The Cassini Archive Tracking System (CATS) is a computer program that enables tracking of scientific data transfers from originators to the Planetary Data System (PDS) archives. Without CATS, there is no systematic means of locating products in the archive process or ensuring their completeness. By keeping a database of transfer communications and status, CATS enables the Cassini Project and the PDS to efficiently and accurately report on archive status. More importantly, problem areas are easily identified through customized reports that can be generated on the fly from any Web-enabled computer. A Web-browser interface and clearly defined authorization scheme provide safe distributed access to the system, where users can perform functions such as create customized reports, record a transfer, and respond to a transfer. CATS ensures that Cassini provides complete science archives to the PDS on schedule and that those archives are available to the science community by the PDS. The three-tier architecture is loosely coupled and designed for simple adaptation to multimission use. Written in the Java programming language, it is portable and can be run on any Java-enabled Web server.

YELLOW SUPERGIANTS IN THE ANDROMEDA GALAXY (M31)

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

Drout, Maria R.; Massey, Philip; Meynet, Georges

2009-09-20

The yellow supergiant content of nearby galaxies can provide a critical test of stellar evolution theory, bridging the gap between the hot, massive stars and the cool red supergiants. But, this region of the color-magnitude diagram is dominated by foreground contamination, requiring membership to somehow be determined. Fortunately, the large negative systemic velocity of M31, coupled to its high rotation rate, provides the means for separating the contaminating foreground dwarfs from the bona fide yellow supergiants within M31. We obtained radial velocities of {approx}2900 individual targets within the correct color-magnitude range corresponding to masses of 12 M{sub sun} and higher.more » A comparison of these velocities to those expected from M31's rotation curve reveals 54 rank-1 (near certain) and 66 rank-2 (probable) yellow supergiant members, indicating a foreground contamination >= 96%. We expect some modest contamination from Milky Way halo giants among the remainder, particularly for the rank-2 candidates, and indeed follow-up spectroscopy of a small sample eliminates four rank 2's while confirming five others. We find excellent agreement between the location of yellow supergiants in the H-R diagram and that predicted by the latest Geneva evolutionary tracks that include rotation. However, the relative number of yellow supergiants seen as a function of mass varies from that predicted by the models by a factor of >10, in the sense that more high-mass yellow supergiants are predicted than those are actually observed. Comparing the total number (16) of >20 M{sub sun} yellow supergiants with the estimated number (24,800) of unevolved O stars indicates that the duration of the yellow supergiant phase is {approx}3000 years. This is consistent with what the 12 M{sub sun} and 15 M{sub sun} evolutionary tracks predict, but disagrees with the 20,000-80,000 year timescales predicted by the models for higher masses.« less

Progress in the development of the GMM-2 gravity field model for Mars

NASA Technical Reports Server (NTRS)

Lemoine, F. G.; Smith, D. E.; Lerch, F. J.; Zuber, M. T.; Patel, G. B.

1994-01-01

Last year we published the GMM-1 (Goddard Mars Model-1) gravity model for Mars. We have completely re-analyzed the Viking and Mariner 9 tracking data in the development of the new field, designated GMM-2. The model is complete to degree and order 70. Various aspects of the model are discussed.

Aiming to Complete the Matrix: Eye-Movement Analysis of Processing Strategies in Children's Relational Thinking

ERIC Educational Resources Information Center

Chen, Zhe; Honomichl, Ryan; Kennedy, Diane; Tan, Enda

2016-01-01

The present study examines 5- to 8-year-old children's relation reasoning in solving matrix completion tasks. This study incorporates a componential analysis, an eye-tracking method, and a microgenetic approach, which together allow an investigation of the cognitive processing strategies involved in the development and learning of children's…

Female orgasm rates are largely independent of other traits: implications for "female orgasmic disorder" and evolutionary theories of orgasm.

PubMed

Zietsch, Brendan P; Miller, Geoffrey F; Bailey, J Michael; Martin, Nicholas G

2011-08-01

The criteria for "female orgasmic disorder" (FOD) assume that low rates of orgasm are dysfunctional, implying that high rates are functional. Evolutionary theories about the function of female orgasm predict correlations of orgasm rates with sexual attitudes and behavior and other fitness-related traits. To test hypothesized evolutionary functions of the female orgasm. We examined such correlations in a community sample of 2,914 adult female Australian twins who reported their orgasm rates during masturbation, intercourse, and other sexual activities, and who completed demographic, personality, and sexuality questionnaires. Orgasm rates during intercourse, other sex, and masturbation. Although orgasm rates showed high variance across women and substantial heritability, they were largely phenotypically and genetically independent of other important traits. We found zero to weak phenotypic correlations between all three orgasm rates and all other 19 traits examined, including occupational status, social class, educational attainment, extraversion, neuroticism, psychoticism, impulsiveness, childhood illness, maternal pregnancy stress, marital status, political liberalism, restrictive attitudes toward sex, libido, lifetime number of sex partners, risky sexual behavior, masculinity, orientation toward uncommitted sex, age of first intercourse, and sexual fantasy. Furthermore, none of the correlations had significant genetic components. These findings cast doubt on most current evolutionary theories about female orgasm's adaptive functions, and on the validity of FOD as a psychiatric construct. © 2011 International Society for Sexual Medicine.

Should colon-penetrating small missiles be removed? An experimental study of retrocolic wound tracks.

PubMed

Edwards, D P; Brown, D; Watkins, P E

1999-01-01

Small-fragment injury to the colon may occur in approximately 5% of battlefield casualties. The surgical management aims to reduce the risk of retrocolic infection and provide optimal conditions for colonic wound healing. This study aimed to quantify the risk of retrocolic infection. Steel fragments were fired through exteriorized porcine colon and caught in 20% gelatin. The fragments, and resultant tracks, were extracted and subjected to quantitative bacteriological examination to determine the extent of contamination. The median bacterial count for complete tracks was 1.2 x 10(4) CFU/g (interquartile range 1.8 x 10(3) to 2.7 x 10(4)). Counts were highest in the initial 1 cm of the track and reduced along its length. This study does not support wound track excision or missile fragment removal in cases of retrocolic trauma following penetrating colonic injury. Either or both procedures will increase local trauma and are likely to prejudice colonic wound repair.

Second sound tracking system

NASA Astrophysics Data System (ADS)

Yang, Jihee; Ihas, Gary G.; Ekdahl, Dan

2017-10-01

It is common that a physical system resonates at a particular frequency, whose frequency depends on physical parameters which may change in time. Often, one would like to automatically track this signal as the frequency changes, measuring, for example, its amplitude. In scientific research, one would also like to utilize the standard methods, such as lock-in amplifiers, to improve the signal to noise ratio. We present a complete He ii second sound system that uses positive feedback to generate a sinusoidal signal of constant amplitude via automatic gain control. This signal is used to produce temperature/entropy waves (second sound) in superfluid helium-4 (He ii). A lock-in amplifier limits the oscillation to a desirable frequency and demodulates the received sound signal. Using this tracking system, a second sound signal probed turbulent decay in He ii. We present results showing that the tracking system is more reliable than those of a conventional fixed frequency method; there is less correlation with temperature (frequency) fluctuation when the tracking system is used.

Calorie counting and fitness tracking technology: Associations with eating disorder symptomatology.

PubMed

Simpson, Courtney C; Mazzeo, Suzanne E

2017-08-01

The use of online calorie tracking applications and activity monitors is increasing exponentially. Anecdotal reports document the potential for these trackers to trigger, maintain, or exacerbate eating disorder symptomatology. Yet, research has not examined the relation between use of these devices and eating disorder-related attitudes and behaviors. This study explored associations between the use of calorie counting and fitness tracking devices and eating disorder symptomatology. Participants (N=493) were college students who reported their use of tracking technology and completed measures of eating disorder symptomatology. Individuals who reported using calorie trackers manifested higher levels of eating concern and dietary restraint, controlling for BMI. Additionally, fitness tracking was uniquely associated with ED symptomatology after adjusting for gender and bingeing and purging behavior within the past month. Findings highlight associations between use of calorie and fitness trackers and eating disorder symptomatology. Although preliminary, overall results suggest that for some individuals, these devices might do more harm than good. Copyright © 2017 Elsevier Ltd. All rights reserved.

Influences on Understanding and Belief About the Origin of Species in Chinese and American Adolescents

NASA Astrophysics Data System (ADS)

Smith, Erin Irene

Although beliefs about origins and evolutionary knowledge have been considered independent, research has suggested that both are influenced by cognitive constraints of psychological essentialism and teleology. Most research supporting these claims has been conducted with children from Western cultures; little is known about the psychological processes underpinning beliefs and knowledge about the natural world outside Western contexts or during adolescence. Claims about the universality of beliefs, knowledge, and the possible relationship between should be made after examining samples that differ in theoretically relevant ways from a typical Western sample, such as a Chinese sample in which religious explanations are rare or an adolescent sample in which brain development promotes the coordination of conflicting information. To examine how belief and knowledge are related in Western- and non-Western samples, as well as the factors that predict both independently, 238 Chinese (M = 15.85 years old, SD = .85 years; 36.6% male) and 277 American adolescents (M = 15.80 years, SD = 1.34 years; 51.6% male) were recruited from their high schools to participate. Adolescents completed a survey measuring beliefs about the origin of living and non-living exemplars, evolutionary knowledge, and variables that were likely to influence belief and knowledge such as science preference, epistemology, psychological essentialism, teleological reasoning, and religious beliefs. American adolescents were more creationist than Chinese adolescents. Chinese adolescents displayed more sophisticated evolutionary knowledge than American adolescents although overall performance was low. Finally, there was no relationship between belief and knowledge for American adolescents yet there was a small, positive relationship for Chinese adolescents such that adolescents who believed in creation also tended to demonstrate more evolutionary knowledge. Additional analyses employed mediation techniques to explain why cultural differences in creation belief and evolutionary knowledge exist. Age was unrelated to belief and to knowledge. The discussion focuses on the aspects of cultural membership that contribute to belief and evolutionary knowledge. Additional discussion highlights the role of classroom curriculum, curriculum testing, and focusing on uncovering variables and techniques that promote evolutionary learning.

The dynamic evolutionary history of the bananaquit (Coereba flaveola) in the Caribbean revealed by a multigene analysis

PubMed Central

2008-01-01

Background The bananaquit (Coereba flaveola) is a small nectivorous and frugivorous emberizine bird (order Passeriformes) that is an abundant resident throughout the Caribbean region. We used multi-gene analyses to investigate the evolutionary history of this species throughout its distribution in the West Indies and in South and Middle America. We sequenced six mitochondrial genes (3744 base pairs) and three nuclear genes (2049 base pairs) for forty-four bananaquits and three outgroup species. We infer the ancestral area of the present-day bananaquit populations, report on the species' phylogenetic, biogeographic and evolutionary history, and propose scenarios for its diversification and range expansion. Results Phylogenetic concordance between mitochondrial and nuclear genes at the base of the bananaquit phylogeny supported a West Indian origin for continental populations. Multi-gene analysis showing genetic remnants of successive colonization events in the Lesser Antilles reinforced earlier research demonstrating that bananaquits alternate periods of invasiveness and colonization with biogeographic quiescence. Although nuclear genes provided insufficient information at the tips of the tree to further evaluate relationships of closely allied but strongly supported mitochondrial DNA clades, the discrepancy between mitochondrial and nuclear data in the population of Dominican Republic suggested that the mitochondrial genome was recently acquired by introgression from Jamaica. Conclusion This study represents one of the most complete phylogeographic analyses of its kind and reveals three patterns that are not commonly appreciated in birds: (1) island to mainland colonization, (2) multiple expansion phases, and (3) mitochondrial genome replacement. The detail revealed by this analysis will guide evolutionary analyses of populations in archipelagos such as the West Indies, which include islands varying in size, age, and geological history. Our results suggest that multi-gene phylogenies will permit improved comparative analysis of the evolutionary histories of different lineages in the same geographical setting, which provide replicated "natural experiments" for testing evolutionary hypotheses. PMID:18718030

Evolutionary versatility of eukaryotic protein domains revealed by their bigram networks

PubMed Central

2011-01-01

Background Protein domains are globular structures of independently folded polypeptides that exert catalytic or binding activities. Their sequences are recognized as evolutionary units that, through genome recombination, constitute protein repertoires of linkage patterns. Via mutations, domains acquire modified functions that contribute to the fitness of cells and organisms. Recent studies have addressed the evolutionary selection that may have shaped the functions of individual domains and the emergence of particular domain combinations, which led to new cellular functions in multi-cellular animals. This study focuses on modeling domain linkage globally and investigates evolutionary implications that may be revealed by novel computational analysis. Results A survey of 77 completely sequenced eukaryotic genomes implies a potential hierarchical and modular organization of biological functions in most living organisms. Domains in a genome or multiple genomes are modeled as a network of hetero-duplex covalent linkages, termed bigrams. A novel computational technique is introduced to decompose such networks, whereby the notion of domain "networking versatility" is derived and measured. The most and least "versatile" domains (termed "core domains" and "peripheral domains" respectively) are examined both computationally via sequence conservation measures and experimentally using selected domains. Our study suggests that such a versatility measure extracted from the bigram networks correlates with the adaptivity of domains during evolution, where the network core domains are highly adaptive, significantly contrasting the network peripheral domains. Conclusions Domain recombination has played a major part in the evolution of eukaryotes attributing to genome complexity. From a system point of view, as the results of selection and constant refinement, networks of domain linkage are structured in a hierarchical modular fashion. Domains with high degree of networking versatility appear to be evolutionary adaptive, potentially through functional innovations. Domain bigram networks are informative as a model of biological functions. The networking versatility indices extracted from such networks for individual domains reflect the strength of evolutionary selection that the domains have experienced. PMID:21849086

Evolutionary versatility of eukaryotic protein domains revealed by their bigram networks.

PubMed

Xie, Xueying; Jin, Jing; Mao, Yongyi

2011-08-18

Protein domains are globular structures of independently folded polypeptides that exert catalytic or binding activities. Their sequences are recognized as evolutionary units that, through genome recombination, constitute protein repertoires of linkage patterns. Via mutations, domains acquire modified functions that contribute to the fitness of cells and organisms. Recent studies have addressed the evolutionary selection that may have shaped the functions of individual domains and the emergence of particular domain combinations, which led to new cellular functions in multi-cellular animals. This study focuses on modeling domain linkage globally and investigates evolutionary implications that may be revealed by novel computational analysis. A survey of 77 completely sequenced eukaryotic genomes implies a potential hierarchical and modular organization of biological functions in most living organisms. Domains in a genome or multiple genomes are modeled as a network of hetero-duplex covalent linkages, termed bigrams. A novel computational technique is introduced to decompose such networks, whereby the notion of domain "networking versatility" is derived and measured. The most and least "versatile" domains (termed "core domains" and "peripheral domains" respectively) are examined both computationally via sequence conservation measures and experimentally using selected domains. Our study suggests that such a versatility measure extracted from the bigram networks correlates with the adaptivity of domains during evolution, where the network core domains are highly adaptive, significantly contrasting the network peripheral domains. Domain recombination has played a major part in the evolution of eukaryotes attributing to genome complexity. From a system point of view, as the results of selection and constant refinement, networks of domain linkage are structured in a hierarchical modular fashion. Domains with high degree of networking versatility appear to be evolutionary adaptive, potentially through functional innovations. Domain bigram networks are informative as a model of biological functions. The networking versatility indices extracted from such networks for individual domains reflect the strength of evolutionary selection that the domains have experienced.

Bigger Is Fitter? Quantitative Genetic Decomposition of Selection Reveals an Adaptive Evolutionary Decline of Body Mass in a Wild Rodent Population.

PubMed

Bonnet, Timothée; Wandeler, Peter; Camenisch, Glauco; Postma, Erik

2017-01-01

In natural populations, quantitative trait dynamics often do not appear to follow evolutionary predictions. Despite abundant examples of natural selection acting on heritable traits, conclusive evidence for contemporary adaptive evolution remains rare for wild vertebrate populations, and phenotypic stasis seems to be the norm. This so-called "stasis paradox" highlights our inability to predict evolutionary change, which is especially concerning within the context of rapid anthropogenic environmental change. While the causes underlying the stasis paradox are hotly debated, comprehensive attempts aiming at a resolution are lacking. Here, we apply a quantitative genetic framework to individual-based long-term data for a wild rodent population and show that despite a positive association between body mass and fitness, there has been a genetic change towards lower body mass. The latter represents an adaptive response to viability selection favouring juveniles growing up to become relatively small adults, i.e., with a low potential adult mass, which presumably complete their development earlier. This selection is particularly strong towards the end of the snow-free season, and it has intensified in recent years, coinciding which a change in snowfall patterns. Importantly, neither the negative evolutionary change, nor the selective pressures that drive it, are apparent on the phenotypic level, where they are masked by phenotypic plasticity and a non causal (i.e., non genetic) positive association between body mass and fitness, respectively. Estimating selection at the genetic level enabled us to uncover adaptive evolution in action and to identify the corresponding phenotypic selective pressure. We thereby demonstrate that natural populations can show a rapid and adaptive evolutionary response to a novel selective pressure, and that explicitly (quantitative) genetic models are able to provide us with an understanding of the causes and consequences of selection that is superior to purely phenotypic estimates of selection and evolutionary change.

Evolutionary explanations in medicine: how do they differ and how to benefit from them.

PubMed

Lozano, George A

2010-04-01

Evolutionary explanations, many of which have appeared on the pages of this journal, are becoming more pervasive and influential in medicine, so it is becoming more important to understand how these types of explanations differ from the proximate approach that is more common in medicine, and how the evolutionary approach can contribute to medicine. Understanding of any biological phenomenon can occur at four levels: (1) ontogeny (2) causation, (3) function and (4) evolution. These approaches are not mutually exclusive, and whereas the first two are more common in medical practice, a complete explanation requires all four levels of analysis. Two major differences among these approaches are the apparent degree of immediacy associated with them, and the extent to which they apply to individuals rather than populations. Criticisms of adaptive explanations often arise from a failure to understand the complementary nature of these four types of explanations. Other unwarranted criticisms result from a failure to appreciate that adaptive explanations often apply to populations, not individuals. A third type of criticism is driven by the mistaken belief that adaptive explanations somehow justify morally reprehensible behaviours. Finally, evolutionary explanations sometimes face the criticism of "personal incredulity". Adaptive explanations must be consistent with basic evolutionary concepts and must adhere to the physical reality of the phenomenon in question. Their value, however, comes not in devising a seemingly rational explanation, but in their predictions. Testable predictions must be explicitly stated and clearly articulated. They must differ from those of arising from other hypotheses and must not only be interesting to evolutionary biologists, but also useful to medical practitioners. Integration of the proximate and the ultimate approaches is possible and potentially beneficial to both evolutionists and physicians, but it requires some basic understanding of our differences and a desire to co-operate. (c) 2009 Elsevier Ltd. All rights reserved.

Bigger Is Fitter? Quantitative Genetic Decomposition of Selection Reveals an Adaptive Evolutionary Decline of Body Mass in a Wild Rodent Population

PubMed Central

Wandeler, Peter; Camenisch, Glauco

2017-01-01

In natural populations, quantitative trait dynamics often do not appear to follow evolutionary predictions. Despite abundant examples of natural selection acting on heritable traits, conclusive evidence for contemporary adaptive evolution remains rare for wild vertebrate populations, and phenotypic stasis seems to be the norm. This so-called “stasis paradox” highlights our inability to predict evolutionary change, which is especially concerning within the context of rapid anthropogenic environmental change. While the causes underlying the stasis paradox are hotly debated, comprehensive attempts aiming at a resolution are lacking. Here, we apply a quantitative genetic framework to individual-based long-term data for a wild rodent population and show that despite a positive association between body mass and fitness, there has been a genetic change towards lower body mass. The latter represents an adaptive response to viability selection favouring juveniles growing up to become relatively small adults, i.e., with a low potential adult mass, which presumably complete their development earlier. This selection is particularly strong towards the end of the snow-free season, and it has intensified in recent years, coinciding which a change in snowfall patterns. Importantly, neither the negative evolutionary change, nor the selective pressures that drive it, are apparent on the phenotypic level, where they are masked by phenotypic plasticity and a non causal (i.e., non genetic) positive association between body mass and fitness, respectively. Estimating selection at the genetic level enabled us to uncover adaptive evolution in action and to identify the corresponding phenotypic selective pressure. We thereby demonstrate that natural populations can show a rapid and adaptive evolutionary response to a novel selective pressure, and that explicitly (quantitative) genetic models are able to provide us with an understanding of the causes and consequences of selection that is superior to purely phenotypic estimates of selection and evolutionary change. PMID:28125583

Historics of the Space Tracking And Data Acquisition Network (STADAN), the Manned Space Flight Network (MSFN), and the NASA Communications Network (NASCOM)

NASA Technical Reports Server (NTRS)

Corliss, W. R.

1974-01-01

The historical and technical aspects of the major networks which comprise the NASA tracking and data acquisition system are considered in a complete reference work which traces the origin and growth of STADAN, MSFN, and NASCOM up to mid-1971. The roles of these networks in both the Gemini and Apollo programs are discussed, and the separate developmental trends are identified for each network.

Analysis of a Light Cross Country Combat Vehicle - The Cobra

DTIC Science & Technology

1951-06-01

34-’"- _.-- ; ..-".’ ;" - -; - Regular fracks > Beguiar tracks, baled on the conventional :d©«= trend defined i>y the close spacing of track links...Annex .2 ). The complexity of conventional steering mechanisms is high. Plan- etary gears «, hydraulic controls., brakes, and other accessories...sntiite vehicle« i£n straight ^ruaning*. the joint is completely closed and is held In that position by the two hydraulic cylinders» ’To mate

A unified perspective on robot control - The energy Lyapunov function approach

NASA Technical Reports Server (NTRS)

Wen, John T.

1990-01-01

A unified framework for the stability analysis of robot tracking control is presented. By using an energy-motivated Lyapunov function candidate, the closed-loop stability is shown for a large family of control laws sharing a common structure of proportional and derivative feedback and a model-based feedforward. The feedforward can be zero, partial or complete linearized dynamics, partial or complete nonlinear dynamics, or linearized or nonlinear dynamics with parameter adaptation. As result, the dichotomous approaches to the robot control problem based on the open-loop linearization and nonlinear Lyapunov analysis are both included in this treatment. Furthermore, quantitative estimates of the trade-offs between different schemes in terms of the tracking performance, steady state error, domain of convergence, realtime computation load and required a prior model information are derived.

Complete Mitochondrial Genome Sequences of Chinese Indigenous Sheep with Different Tail Types and an Analysis of Phylogenetic Evolution in Domestic Sheep.

PubMed

Fan, Hongying; Zhao, Fuping; Zhu, Caiye; Li, Fadi; Liu, Jidong; Zhang, Li; Wei, Caihong; Du, Lixin

2016-05-01

China has a long history of sheep (Ovis aries [O. aries]) breeding and an abundance of sheep genetic resources. Knowledge of the complete O. aries mitogenome should facilitate the study of the evolutionary history of the species. Therefore, the complete mitogenome of O. aries was sequenced and annotated. In order to characterize the mitogenomes of 3 Chinese sheep breeds (Altay sheep [AL], Shandong large-tailed sheep [SD], and small-tailed Hulun Buir sheep [sHL]), 19 sets of primers were employed to amplify contiguous, overlapping segments of the complete mitochondrial DNA (mtDNA) sequence of each breed. The sizes of the complete mitochondrial genomes of the sHL, AL, and SD breeds were 16,617 bp, 16,613 bp, and 16,613 bp, respectively. The mitochondrial genomes were deposited in the GenBank database with accession numbers KP702285 (AL sheep), KP981378 (SD sheep), and KP981380 (sHL sheep) respectively. The organization of the 3 analyzed sheep mitochondrial genomes was similar, with each consisting of 22 tRNA genes, 2 rRNA genes (12S rRNA and 16S rRNA), 13 protein-coding genes, and 1 control region (D-loop). The NADH dehydrogenase subunit 6 (ND6) and 8 tRNA genes were encoded on the light strand, whereas the rest of the mitochondrial genes were encoded on the heavy strand. The nucleotide skewness of the coding strands of the 3 analyzed mitogenomes was biased toward A and T. We constructed a phylogenetic tree using the complete mitogenomes of each type of sheep to allow us to understand the genetic relationships between Chinese breeds of O. aries and those developed and utilized in other countries. Our findings provide important information regarding the O. aries mitogenome and the evolutionary history of O. aries inside and outside China. In addition, our results provide a foundation for further exploration of the taxonomic status of O. aries.

Complete Mitochondrial Genome Sequences of Chinese Indigenous Sheep with Different Tail Types and an Analysis of Phylogenetic Evolution in Domestic Sheep

PubMed Central

Fan, Hongying; Zhao, Fuping; Zhu, Caiye; Li, Fadi; Liu, Jidong; Zhang, Li; Wei, Caihong; Du, Lixin

2016-01-01

China has a long history of sheep (Ovis aries [O. aries]) breeding and an abundance of sheep genetic resources. Knowledge of the complete O. aries mitogenome should facilitate the study of the evolutionary history of the species. Therefore, the complete mitogenome of O. aries was sequenced and annotated. In order to characterize the mitogenomes of 3 Chinese sheep breeds (Altay sheep [AL], Shandong large-tailed sheep [SD], and small-tailed Hulun Buir sheep [sHL]), 19 sets of primers were employed to amplify contiguous, overlapping segments of the complete mitochondrial DNA (mtDNA) sequence of each breed. The sizes of the complete mitochondrial genomes of the sHL, AL, and SD breeds were 16,617 bp, 16,613 bp, and 16,613 bp, respectively. The mitochondrial genomes were deposited in the GenBank database with accession numbers KP702285 (AL sheep), KP981378 (SD sheep), and KP981380 (sHL sheep) respectively. The organization of the 3 analyzed sheep mitochondrial genomes was similar, with each consisting of 22 tRNA genes, 2 rRNA genes (12S rRNA and 16S rRNA), 13 protein-coding genes, and 1 control region (D-loop). The NADH dehydrogenase subunit 6 (ND6) and 8 tRNA genes were encoded on the light strand, whereas the rest of the mitochondrial genes were encoded on the heavy strand. The nucleotide skewness of the coding strands of the 3 analyzed mitogenomes was biased toward A and T. We constructed a phylogenetic tree using the complete mitogenomes of each type of sheep to allow us to understand the genetic relationships between Chinese breeds of O. aries and those developed and utilized in other countries. Our findings provide important information regarding the O. aries mitogenome and the evolutionary history of O. aries inside and outside China. In addition, our results provide a foundation for further exploration of the taxonomic status of O. aries. PMID:26954183

Draft genome of the medaka fish: a comprehensive resource for medaka developmental genetics and vertebrate evolutionary biology.

PubMed

Takeda, Hiroyuki

2008-06-01

The medaka Oryzias latipes is a small egg-laying freshwater teleost, and has become an excellent model system for developmental genetics and evolutionary biology. The medaka genome is relatively small in size, approximately 800 Mb, and the genome sequencing project was recently completed by Japanese research groups, providing a high-quality draft genome sequence of the inbred Hd-rR strain of medaka. In this review, I present an overview of the medaka genome project including genome resources, followed by specific findings obtained with the medaka draft genome. In particular, I focus on the analysis that was done by taking advantage of the medaka system, such as the sex chromosome differentiation and the regional history of medaka species using single nucleotide polymorphisms as genomic markers.

Independent Orbiter Assessment (IOA): Assessment of the communication and tracking subsystem, volume 3

NASA Technical Reports Server (NTRS)

Long, W. C.

1988-01-01

The results of the Independent Orbiter Assessment (IOA) of the Failure Modes and Effects Analysis (FMEA) and Critical Items List (CIL) are presented. The IOA effort first completed and analysis of the Communication and Tracking hardware, generating draft failure modes and potential critical items. The IOA results were then compared to the NASA FMEA/CIL baseline. A resolution of each discrepancy from the comparison is provided through additional analysis as required. This report documents the results of that comparison for the Orbiter Communication and Tracking hardware. Volume 3 continues the presentation of IOA worksheets and contains the potential critical items list, detailed analysis, and the NASA FMEA to IOA worksheet cross reference and recommendations.

Apparatus and method to pulverize rock using a superconducting electromagnetic linear motor

NASA Technical Reports Server (NTRS)

Ignatiev, Alex (Inventor)

2009-01-01

A rock pulverizer device based on a superconducting linear motor. The superconducting electromagnetic rock pulverizer accelerates a projectile via a superconducting linear motor and directs the projectile at high speed toward a rock structure that is to be pulverized by collision of the speeding projectile with the rock structure. The rock pulverizer is comprised of a trapped field superconducting secondary magnet mounted on a movable car following a track, a wire wound series of primary magnets mounted on the track, and the complete magnet/track system mounted on a vehicle used for movement of the pulverizer through a mine as well as for momentum transfer during launch of the rock breaking projectile.

Tracking techniques for space shuttle rendezvous

NASA Technical Reports Server (NTRS)

1975-01-01

The space shuttle rendezvous radar has a requirement to track cooperative and non-cooperative targets. For this reason the Lunar Module (LM) Rendezvous Radar was modified to incorporate the capability of tracking a non-cooperative target. The modifications are discussed. All modifications except those relating to frequency diversity were completed, and system tests were performed to confirm proper performance in the non-cooperative mode. Frequency diversity was added to the radar and to the special test equipment, and then system tests were performed. This last set of tests included re-running the tests of the non-cooperative mode without frequency diversity, followed by tests with frequency diversity and tests of operation in the original cooperative mode.

Dynamic Nucleotide Mutation Gradients and Control Region Usage in Squamate Reptile Mitochondrial Genomes

PubMed Central

Castoe, T.A.; Gu, W.; de Koning, A.P.J.; Daza, J.M.; Jiang, Z.J.; Parkinson, C.L.; Pollock, D.D.

2010-01-01

Gradients of nucleotide bias and substitution rates occur in vertebrate mitochondrial genomes due to the asymmetric nature of the replication process. The evolution of these gradients has previously been studied in detail in primates, but not in other vertebrate groups. From the primate study, the strengths of these gradients are known to evolve in ways that can substantially alter the substitution process, but it is unclear how rapidly they evolve over evolutionary time or how different they may be in different lineages or groups of vertebrates. Given the importance of mitochondrial genomes in phylogenetics and molecular evolutionary research, a better understanding of how asymmetric mitochondrial substitution gradients evolve would contribute key insights into how this gradient evolution may mislead evolutionary inferences, and how it may also be incorporated into new evolutionary models. Most snake mitochondrial genomes have an additional interesting feature, 2 nearly identical control regions, which vary among different species in the extent that they are used as origins of replication. Given the expanded sampling of complete snake genomes currently available, together with 2 additional snakes sequenced in this study, we reexamined gradient strength and CR usage in alethinophidian snakes as well as several lizards that possess dual CRs. Our results suggest that nucleotide substitution gradients (and corresponding nucleotide bias) and CR usage is highly labile over the ∼200 m.y. of squamate evolution, and demonstrates greater overall variability than previously shown in primates. The evidence for the existence of such gradients, and their ability to evolve rapidly and converge among unrelated species suggests that gradient dynamics could easily mislead phylogenetic and molecular evolutionary inferences, and argues strongly that these dynamics should be incorporated into phylogenetic models. PMID:20215734

Evolutionary rescue and local adaptation under different rates of temperature increase: a combined analysis of changes in phenotype expression and genotype frequency in Paramecium microcosms.

PubMed

Killeen, Joshua; Gougat-Barbera, Claire; Krenek, Sascha; Kaltz, Oliver

2017-04-01

Evolutionary rescue (ER) occurs when populations, which have declined due to rapid environmental change, recover through genetic adaptation. The success of this process and the evolutionary trajectory of the population strongly depend on the rate of environmental change. Here we investigated how different rates of temperature increase (from 23 to 32 °C) affect population persistence and evolutionary change in experimental microcosms of the protozoan Paramecium caudatum. Consistent with theory on ER, we found that those populations experiencing the slowest rate of temperature increase were the least likely to become extinct and tended to be the best adapted to the new temperature environment. All high-temperature populations were more tolerant to severe heat stress (35, 37 °C), indicating a common mechanism of heat protection. High-temperature populations also had superior growth rates at optimum temperatures, leading to the absence of a pattern of local adaptation to control (23 °C) and high-temperature (32 °C) environments. However, high-temperature populations had reduced growth at low temperatures (5-9 °C), causing a shift in the temperature niche. In part, the observed evolutionary change can be explained by selection from standing variation. Using mitochondrial markers, we found complete divergence between control and high-temperature populations in the frequencies of six initial founder genotypes. Our results confirm basic predictions of ER and illustrate how adaptation to an extreme local environment can produce positive as well as negative correlated responses to selection over the entire range of the ecological niche. © 2017 John Wiley & Sons Ltd.

Upon Accounting for the Impact of Isoenzyme Loss, Gene Deletion Costs Anticorrelate with Their Evolutionary Rates.

PubMed

Jacobs, Christopher; Lambourne, Luke; Xia, Yu; Segrè, Daniel

2017-01-01

System-level metabolic network models enable the computation of growth and metabolic phenotypes from an organism's genome. In particular, flux balance approaches have been used to estimate the contribution of individual metabolic genes to organismal fitness, offering the opportunity to test whether such contributions carry information about the evolutionary pressure on the corresponding genes. Previous failure to identify the expected negative correlation between such computed gene-loss cost and sequence-derived evolutionary rates in Saccharomyces cerevisiae has been ascribed to a real biological gap between a gene's fitness contribution to an organism "here and now" and the same gene's historical importance as evidenced by its accumulated mutations over millions of years of evolution. Here we show that this negative correlation does exist, and can be exposed by revisiting a broadly employed assumption of flux balance models. In particular, we introduce a new metric that we call "function-loss cost", which estimates the cost of a gene loss event as the total potential functional impairment caused by that loss. This new metric displays significant negative correlation with evolutionary rate, across several thousand minimal environments. We demonstrate that the improvement gained using function-loss cost over gene-loss cost is explained by replacing the base assumption that isoenzymes provide unlimited capacity for backup with the assumption that isoenzymes are completely non-redundant. We further show that this change of the assumption regarding isoenzymes increases the recall of epistatic interactions predicted by the flux balance model at the cost of a reduction in the precision of the predictions. In addition to suggesting that the gene-to-reaction mapping in genome-scale flux balance models should be used with caution, our analysis provides new evidence that evolutionary gene importance captures much more than strict essentiality.

Evolutionary History and Phylodynamics of Influenza A and B Neuraminidase (NA) Genes Inferred from Large-Scale Sequence Analyses

PubMed Central

Xu, Jianpeng; Davis, C. Todd; Christman, Mary C.; Rivailler, Pierre; Zhong, Haizhen; Donis, Ruben O.; Lu, Guoqing

2012-01-01

Background Influenza neuraminidase (NA) is an important surface glycoprotein and plays a vital role in viral replication and drug development. The NA is found in influenza A and B viruses, with nine subtypes classified in influenza A. The complete knowledge of influenza NA evolutionary history and phylodynamics, although critical for the prevention and control of influenza epidemics and pandemics, remains lacking. Methodology/Principal findings Evolutionary and phylogenetic analyses of influenza NA sequences using Maximum Likelihood and Bayesian MCMC methods demonstrated that the divergence of influenza viruses into types A and B occurred earlier than the divergence of influenza A NA subtypes. Twenty-three lineages were identified within influenza A, two lineages were classified within influenza B, and most lineages were specific to host, subtype or geographical location. Interestingly, evolutionary rates vary not only among lineages but also among branches within lineages. The estimated tMRCAs of influenza lineages suggest that the viruses of different lineages emerge several months or even years before their initial detection. The d N /d S ratios ranged from 0.062 to 0.313 for influenza A lineages, and 0.257 to 0.259 for influenza B lineages. Structural analyses revealed that all positively selected sites are at the surface of the NA protein, with a number of sites found to be important for host antibody and drug binding. Conclusions/Significance The divergence into influenza type A and B from a putative ancestral NA was followed by the divergence of type A into nine NA subtypes, of which 23 lineages subsequently diverged. This study provides a better understanding of influenza NA lineages and their evolutionary dynamics, which may facilitate early detection of newly emerging influenza viruses and thus improve influenza surveillance. PMID:22808012

Explicit Building Block Multiobjective Evolutionary Computation: Methods and Applications

DTIC Science & Technology

2005-06-16

which is introduced in 1990 by Richard Dawkins in his book ”The Selfish Gene .” [34] 356 E.5.7 Pareto Envelop-based Selection Algorithm I and II...IGC Intelligent Gene Collector . . . . . . . . . . . . . . . . . 59 OED Orthogonal Experimental Design . . . . . . . . . . . . . 59 MED Main Effect...complete one experiment 74 `′ The string length hold within the computer (can be longer than number of genes

Fossil record of stem groups employed in evaluating the chronogram of insects (Arthropoda: Hexapoda)

PubMed Central

Wang, Yan-hui; Engel, Michael S.; Rafael, José A.; Wu, Hao-yang; Rédei, Dávid; Xie, Qiang; Wang, Gang; Liu, Xiao-guang; Bu, Wen-jun

2016-01-01

Insecta s. str. (=Ectognatha), comprise the largest and most diversified group of living organisms, accounting for roughly half of the biodiversity on Earth. Understanding insect relationships and the specific time intervals for their episodes of radiation and extinction are critical to any comprehensive perspective on evolutionary events. Although some deeper nodes have been resolved congruently, the complete evolution of insects has remained obscure due to the lack of direct fossil evidence. Besides, various evolutionary phases of insects and the corresponding driving forces of diversification remain to be recognized. In this study, a comprehensive sample of all insect orders was used to reconstruct their phylogenetic relationships and estimate deep divergences. The phylogenetic relationships of insect orders were congruently recovered by Bayesian inference and maximum likelihood analyses. A complete timescale of divergences based on an uncorrelated log-normal relaxed clock model was established among all lineages of winged insects. The inferred timescale for various nodes are congruent with major historical events including the increase of atmospheric oxygen in the Late Silurian and earliest Devonian, the radiation of vascular plants in the Devonian, and with the available fossil record of the stem groups to various insect lineages in the Devonian and Carboniferous. PMID:27958352

Relaxed selection causes microevolution of seawater osmoregulation and gene expression in landlocked Alewives

USGS Publications Warehouse

Velotta, Jonathan P.; McCormick, Stephen D.; O'Neill, Rachel J.; Schultz, Eric T.

2014-01-01

Ecological transitions from marine to freshwater environments have been important in the creation of diversity among fishes. Evolutionary changes associated with these transitions likely involve modifications of osmoregulatory function. In particular, relaxed selection on hypo-osmoregulation should strongly affect animals that transition into novel freshwater environments. We used populations of the Alewife (Alosa pseudoharengus) to study evolutionary shifts in hypo-osmoregulatory capacity and ion regulation associated with freshwater transitions. Alewives are ancestrally anadromous, but multiple populations in Connecticut have been independently restricted to freshwater lakes; these landlocked populations complete their entire life cycle in freshwater. Juvenile landlocked and anadromous Alewives were exposed to three salinities (1, 20 and 30 ppt) in small enclosures within the lake. We detected strong differentiation between life history forms: landlocked Alewives exhibited reduced seawater tolerance and hypo-osmoregulatory performance compared to anadromous Alewives. Furthermore, gill Na+/K+-ATPase activity and transcription of genes for seawater osmoregulation (NKCC—Na+/K+/2Cl− cotransporter and CFTR—cystic fibrosis transmembrane conductance regulator) exhibited reduced responsiveness to seawater challenge. Our study demonstrates that adaptations of marine-derived species to completely freshwater life cycles involve partial loss of seawater osmoregulatory performance mediated through changes to ion regulation in the gill.

Global patterns of insect diversification: towards a reconciliation of fossil and molecular evidence?

PubMed

Condamine, Fabien L; Clapham, Matthew E; Kergoat, Gael J

2016-01-18

Macroevolutionary studies of insects at diverse taxonomic scales often reveal dynamic evolutionary patterns, with multiple inferred diversification rate shifts. Responses to major past environmental changes, such as the Cretaceous Terrestrial Revolution, or the development of major key innovations, such as wings or complete metamorphosis are usually invoked as potential evolutionary triggers. However this view is partially contradicted by studies on the family-level fossil record showing that insect diversification was relatively constant through time. In an attempt to reconcile both views, we investigate large-scale insect diversification dynamics at family level using two distinct types of diversification analyses on a molecular timetree representing ca. 82% of the extant families, and reassess the insect fossil diversity using up-to-date records. Analyses focusing on the fossil record recovered an early burst of diversification, declining to low and steady rates through time, interrupted by extinction events. Phylogenetic analyses showed that major shifts of diversification rates only occurred in the four richest holometabolous orders. Both suggest that neither the development of flight or complete metamorphosis nor the Cretaceous Terrestrial Revolution environmental changes induced immediate changes in diversification regimes; instead clade-specific innovations likely promoted the diversification of major insect orders.

Global patterns of insect diversification: towards a reconciliation of fossil and molecular evidence?

PubMed Central

Condamine, Fabien L.; Clapham, Matthew E.; Kergoat, Gael J.

2016-01-01

Macroevolutionary studies of insects at diverse taxonomic scales often reveal dynamic evolutionary patterns, with multiple inferred diversification rate shifts. Responses to major past environmental changes, such as the Cretaceous Terrestrial Revolution, or the development of major key innovations, such as wings or complete metamorphosis are usually invoked as potential evolutionary triggers. However this view is partially contradicted by studies on the family-level fossil record showing that insect diversification was relatively constant through time. In an attempt to reconcile both views, we investigate large-scale insect diversification dynamics at family level using two distinct types of diversification analyses on a molecular timetree representing ca. 82% of the extant families, and reassess the insect fossil diversity using up-to-date records. Analyses focusing on the fossil record recovered an early burst of diversification, declining to low and steady rates through time, interrupted by extinction events. Phylogenetic analyses showed that major shifts of diversification rates only occurred in the four richest holometabolous orders. Both suggest that neither the development of flight or complete metamorphosis nor the Cretaceous Terrestrial Revolution environmental changes induced immediate changes in diversification regimes; instead clade-specific innovations likely promoted the diversification of major insect orders. PMID:26778170

Complete mitochondrial genomes of living and extinct pigeons revise the timing of the columbiform radiation.

PubMed

Soares, André E R; Novak, Ben J; Haile, James; Heupink, Tim H; Fjeldså, Jon; Gilbert, M Thomas P; Poinar, Hendrik; Church, George M; Shapiro, Beth

2016-10-26

Pigeons and doves (Columbiformes) are one of the oldest and most diverse extant lineages of birds. However, the nature and timing of the group's evolutionary radiation remains poorly resolved, despite recent advances in DNA sequencing and assembly and the growing database of pigeon mitochondrial genomes. One challenge has been to generate comparative data from the large number of extinct pigeon lineages, some of which are morphologically unique and therefore difficult to place in a phylogenetic context. We used ancient DNA and next generation sequencing approaches to assemble complete mitochondrial genomes for eleven pigeons, including the extinct Ryukyu wood pigeon (Columba jouyi), the thick-billed ground dove (Alopecoenas salamonis), the spotted green pigeon (Caloenas maculata), the Rodrigues solitaire (Pezophaps solitaria), and the dodo (Raphus cucullatus). We used a Bayesian approach to infer the evolutionary relationships among 24 species of living and extinct pigeons and doves. Our analyses indicate that the earliest radiation of the Columbidae crown group most likely occurred during the Oligocene, with continued divergence of major clades into the Miocene, suggesting that diversification within the Columbidae occurred more recently than has been reported previously.

MESA models for the evolutionary status of the epsilon Aurigae disk-eclipsed binary system

NASA Astrophysics Data System (ADS)

Stencel, Robert E.; Gibson, Justus

2018-06-01

The brightest member of the class of disk-eclipsed binary stars is the Algol-like long-period binary, epsilon Aurigae (HD 31964, F0Iap + disk, http://adsabs.harvard.edu/abs/2016SPIE.9907E..17S ). Using MESA (Modules for Experiments in Stellar Astrophysics, version 9575), we have made an evaluation of its evolutionary state. We sought to satisfy several observational constraints, including: (1) requiring evolutionary tracks to pass close to the current temperature and luminosity of the primary star; (2) obtaining a period near the observed value of 27.1 years; (3) matching a mass function of 3.0; (4) concurrent Roche lobe overflow and mass transfer; (5) an isotopic ratio 12C / 13C = 5 and, (6) matching the interferometrically determined angular diameter. A MESA model starting with binary masses of 9.85 + 4.5 solar masses, with a 100 day initial period, produces a 1.2 + 10.6 solar masses result having a 547 day period, plus a single digit 12C / 13C ratio. These values were reached near an age of 20 Myr, when the donor star comes close to the observed luminosity and temperature for epsilon Aurigae A, as a post-RGB/pre-AGB star. Contemporaneously, the accretor then appears as an upper main sequence, early B-type star. This benchmark model can provide a basis for further exploration of this interacting binary, and other long period binary stars. This report has been submitted to MNRAS, along with a parallel investigation of mass transfer stream and disk sub-structure. The authors are grateful to the estate of William Herschel Womble for the support of astronomy at the University of Denver.

Functional phylogenomics analysis of bacteria and archaea using consistent genome annotation with UniFam

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

Chai, Juanjuan; Kora, Guruprasad; Ahn, Tae-Hyuk

2014-10-09

To supply some background, phylogenetic studies have provided detailed knowledge on the evolutionary mechanisms of genes and species in Bacteria and Archaea. However, the evolution of cellular functions, represented by metabolic pathways and biological processes, has not been systematically characterized. Many clades in the prokaryotic tree of life have now been covered by sequenced genomes in GenBank. This enables a large-scale functional phylogenomics study of many computationally inferred cellular functions across all sequenced prokaryotes. Our results show a total of 14,727 GenBank prokaryotic genomes were re-annotated using a new protein family database, UniFam, to obtain consistent functional annotations for accuratemore » comparison. The functional profile of a genome was represented by the biological process Gene Ontology (GO) terms in its annotation. The GO term enrichment analysis differentiated the functional profiles between selected archaeal taxa. 706 prokaryotic metabolic pathways were inferred from these genomes using Pathway Tools and MetaCyc. The consistency between the distribution of metabolic pathways in the genomes and the phylogenetic tree of the genomes was measured using parsimony scores and retention indices. The ancestral functional profiles at the internal nodes of the phylogenetic tree were reconstructed to track the gains and losses of metabolic pathways in evolutionary history. In conclusion, our functional phylogenomics analysis shows divergent functional profiles of taxa and clades. Such function-phylogeny correlation stems from a set of clade-specific cellular functions with low parsimony scores. On the other hand, many cellular functions are sparsely dispersed across many clades with high parsimony scores. These different types of cellular functions have distinct evolutionary patterns reconstructed from the prokaryotic tree.« less

On the Reconstruction of Text Phylogeny Trees: Evaluation and Analysis of Textual Relationships

PubMed Central

Marmerola, Guilherme D.; Dias, Zanoni; Goldenstein, Siome; Rocha, Anderson

2016-01-01

Over the history of mankind, textual records change. Sometimes due to mistakes during transcription, sometimes on purpose, as a way to rewrite facts and reinterpret history. There are several classical cases, such as the logarithmic tables, and the transmission of antique and medieval scholarship. Today, text documents are largely edited and redistributed on the Web. Articles on news portals and collaborative platforms (such as Wikipedia), source code, posts on social networks, and even scientific publications or literary works are some examples in which textual content can be subject to changes in an evolutionary process. In this scenario, given a set of near-duplicate documents, it is worthwhile to find which one is the original and the history of changes that created the whole set. Such functionality would have immediate applications on news tracking services, detection of plagiarism, textual criticism, and copyright enforcement, for instance. However, this is not an easy task, as textual features pointing to the documents’ evolutionary direction may not be evident and are often dataset dependent. Moreover, side information, such as time stamps, are neither always available nor reliable. In this paper, we propose a framework for reliably reconstructing text phylogeny trees, and seamlessly exploring new approaches on a wide range of scenarios of text reusage. We employ and evaluate distinct combinations of dissimilarity measures and reconstruction strategies within the proposed framework, and evaluate each approach with extensive experiments, including a set of artificial near-duplicate documents with known phylogeny, and from documents collected from Wikipedia, whose modifications were made by Internet users. We also present results from qualitative experiments in two different applications: text plagiarism and reconstruction of evolutionary trees for manuscripts (stemmatology). PMID:27992446

Consequences of mating and predation risk for longevity in a freshwater snail: abstinence makes the heart beat longer.

PubMed

Auld, J R; Helker, A D; Kolpas, A

2016-12-01

Senescence is not a static property of an individual or population, but rather it is a dynamic process that may be influenced by environmental conditions. This can occur in at least two ways: in the long-term across multiple generations, and in the short-term via phenotypic plasticity. The former has attracted a lot of attention, both theoretically and empirically; the latter has lagged behind. To determine whether two important environmental variables (predation risk and mate availability) affect the pattern of actuarial senescence (i.e. the increase in mortality with age), we reared 30 full-sib families of the simultaneously hermaphroditic freshwater snail Physa acuta under four different environmental conditions and tracked individuals until death. Individuals were reared in a 2×2 factorial experiment that manipulated the nonlethal presence of chemical cues from predatory crayfish (presence/absence) and the opportunity to mate with an unrelated partner (mated/not mated). Snails that receive a partner reproduce by outcrossing, whereas those that remain in isolation can reproduce by self-fertilization. We compared the cumulative survival curves to test for an effect of predation risk and mating. The hazard ratio (HR) for the predation risk comparison was 1.042 indicating no significant difference between the curves. However, the HR for the mating comparison was 4.021, reflecting a significant reduction in survival probability for mated snails relative to isolated snails. As such, mating resulted in a much shorter lifespan, an outcome that we interpret in terms of shifting resource allocation. © 2016 European Society For Evolutionary Biology. Journal of Evolutionary Biology © 2016 European Society For Evolutionary Biology.

The Path of Human Evolution

NASA Astrophysics Data System (ADS)

Feibel, C. S.

2004-12-01

A complex series of evolutionary steps, contingent upon a dynamic environmental context and a long biological heritage, have led to the ascent of Homo sapiens as a dominant component of the modern biosphere. In a field where missing links still abound and new discoveries regularly overturn theoretical paradigms, our understanding of the path of human evolution has made tremendous advances in recent years. Two major trends characterize the development of the hominin clade subsequent to its origins with the advent of upright bipedalism in the Late Miocene of Africa. One is a diversification into two prominent morphological branches, each with a series of 'twigs' representing evolutionary experimentation at the species or subspecies level. The second important trend, which in its earliest manifestations cannot clearly be ascribed to one or the other branch, is the behavioral complexity of an increasing reliance on technology to expand upon limited inherent morphological specializations and to buffer the organism from its environment. This technological dependence is directly associated with the expansion of hominin range outside Africa by the genus Homo, and is accelerated in the sole extant form Homo sapiens through the last 100 Ka. There are interesting correlates between the evolutionary and behavioral patterns seen in the hominin clade and environmental dynamics of the Neogene. In particular, the tempo of morphological and behavioral innovation may be tracking major events in Neogene climatic development as well as reflecting intervals of variability or stability. Major improvements in analytical techniques, coupled with important new collections and a growing body of contextual data are now making possible the integration of global, regional and local environmental archives with an improved biological understanding of the hominin clade to address questions of coincidence and causality.

Dissecting cancer evolution at the macro-heterogeneity and micro-heterogeneity scale.

PubMed

Barber, Louise J; Davies, Matthew N; Gerlinger, Marco

2015-02-01

Intratumour heterogeneity complicates biomarker discovery and treatment personalization, and pervasive cancer evolution is a key mechanism leading to therapy failure and patient death. Thus, understanding subclonal heterogeneity architectures and cancer evolution processes is critical for the development of effective therapeutic approaches which can control or thwart cancer evolutionary plasticity. Current insights into heterogeneity are mainly limited to the macroheterogeneity level, established by cancer subclones that have undergone significant clonal expansion. Novel single cell sequencing and blood-based subclonal tracking technologies are enabling detailed insights into microheterogeneity and the dynamics of clonal evolution. We assess how this starts to delineate the rules governing cancer evolution and novel angles for more effective therapeutic intervention. Copyright © 2014 The Authors. Published by Elsevier Ltd.. All rights reserved.

VizieR Online Data Catalog: Spectroscopic analysis of 348 red giants (Zielinski+, 2012)

NASA Astrophysics Data System (ADS)

Zielinski, P.; Niedzielski, A.; Wolszczan, A.; Adamow, M.; Nowak, G.

2012-10-01

The atmospheric parameters were derived using a strictly spectroscopic method based on the LTE analysis of equivalent widths of FeI and FeII lines. With existing photometric data and the Hipparcos parallaxes, we estimated stellar masses and ages via evolutionary tracks fitting. The stellar radii were calculated from either estimated masses and the spectroscopic logg or from the spectroscopic Teff and estimated luminosities. The absolute radial velocities were obtained by cross-correlating spectra with a numerical template. Our high-quality, high-resolution optical spectra have been collected since 2004 with the Hobby-Eberly Telescope (HET), located in the McDonald Observatory. The telescope was equipped with the High Resolution Spectrograph (HRS; R~60000 resolution). (2 data files).

The Likelihood of Completing a VET Qualification: A Model-Based Approach. Technical Paper

ERIC Educational Resources Information Center

Mark, Kevin; Karmel, Tom

2010-01-01

This paper estimates vocational education and training (VET) course-completion rates, in order to fill a gap in performance measures for the VET sector. The technique the authors use is to track all VET course enrolments within a three-year window, centred on the year of interest. Then, using an absorbing Markov chain model for a VET course…

Characteristics of US Students That Pursued a STEM Major and Factors That Predicted Their Persistence in Degree Completion

ERIC Educational Resources Information Center

Mau, Wei-Cheng J.

2016-01-01

Low participation and completion rates in the science, technology, engineering, or mathematics (STEM) careers are a world-wide concern. This study tracked American college students over a 5-year period and identifies factors that lead to choosing a STEM major and in turn successfully earning a STEM degree. Characteristics of female and minority…

Development of the Code RITRACKS

NASA Technical Reports Server (NTRS)

Plante, Ianik; Cucinotta, Francis A.

2013-01-01

A document discusses the code RITRACKS (Relativistic Ion Tracks), which was developed to simulate heavy ion track structure at the microscopic and nanoscopic scales. It is a Monte-Carlo code that simulates the production of radiolytic species in water, event-by-event, and which may be used to simulate tracks and also to calculate dose in targets and voxels of different sizes. The dose deposited by the radiation can be calculated in nanovolumes (voxels). RITRACKS allows simulation of radiation tracks without the need of extensive knowledge of computer programming or Monte-Carlo simulations. It is installed as a regular application on Windows systems. The main input parameters entered by the user are the type and energy of the ion, the length and size of the irradiated volume, the number of ions impacting the volume, and the number of histories. The simulation can be started after the input parameters are entered in the GUI. The number of each kind of interactions for each track is shown in the result details window. The tracks can be visualized in 3D after the simulation is complete. It is also possible to see the time evolution of the tracks and zoom on specific parts of the tracks. The software RITRACKS can be very useful for radiation scientists to investigate various problems in the fields of radiation physics, radiation chemistry, and radiation biology. For example, it can be used to simulate electron ejection experiments (radiation physics).

Preliminary Orbit Determination System (PODS) for Tracking and Data Relay Satellite System (TDRSS)-tracked target Spacecraft using the homotopy continuation method

NASA Technical Reports Server (NTRS)

Kirschner, S. M.; Samii, M. V.; Broaddus, S. R.; Doll, C. E.

1988-01-01

The Preliminary Orbit Determination System (PODS) provides early orbit determination capability in the Trajectory Computation and Orbital Products System (TCOPS) for a Tracking and Data Relay Satellite System (TDRSS)-tracked spacecraft. PODS computes a set of orbit states from an a priori estimate and six tracking measurements, consisting of any combination of TDRSS range and Doppler tracking measurements. PODS uses the homotopy continuation method to solve a set of nonlinear equations, and it is particularly effective for the case when the a priori estimate is not well known. Since range and Doppler measurements produce multiple states in PODS, a screening technique selects the desired state. PODS is executed in the TCOPS environment and can directly access all operational data sets. At the completion of the preliminary orbit determination, the PODS-generated state, along with additional tracking measurements, can be directly input to the differential correction (DC) process to generate an improved state. To validate the computational and operational capabilities of PODS, tests were performed using simulated TDRSS tracking measurements for the Cosmic Background Explorer (COBE) satellite and using real TDRSS measurements for the Earth Radiation Budget Satellite (ERBS) and the Solar Mesosphere Explorer (SME) spacecraft. The effects of various measurement combinations, varying arc lengths, and levels of degradation of the a priori state vector on the PODS solutions were considered.

Footprints pull origin and diversification of dinosaur stem lineage deep into Early Triassic.

PubMed

Brusatte, Stephen L; Niedźwiedzki, Grzegorz; Butler, Richard J

2011-04-07

The ascent of dinosaurs in the Triassic is an exemplary evolutionary radiation, but the earliest phase of dinosaur history remains poorly understood. Body fossils of close dinosaur relatives are rare, but indicate that the dinosaur stem lineage (Dinosauromorpha) originated by the latest Anisian (ca 242-244 Ma). Here, we report footprints from the Early-Middle Triassic of Poland, stratigraphically well constrained and identified using a conservative synapomorphy-based approach, which shifts the origin of the dinosaur stem lineage back to the Early Olenekian (ca 249-251 Ma), approximately 5-9 Myr earlier than indicated by body fossils, earlier than demonstrated by previous footprint records, and just a few million years after the Permian/Triassic mass extinction (252.3 Ma). Dinosauromorph tracks are rare in all Polish assemblages, suggesting that these animals were minor faunal components. The oldest tracks are quadrupedal, a morphology uncommon among the earliest dinosauromorph body fossils, but bipedality and moderately large body size had arisen by the Early Anisian (ca 246 Ma). Integrating trace fossils and body fossils demonstrates that the rise of dinosaurs was a drawn-out affair, perhaps initiated during recovery from the Permo-Triassic extinction.

The Emergent Properties of Conspecific Attraction Can Limit a Species' Ability to Track Environmental Change.

PubMed

Stodola, Kirk W; Ward, Michael P

2017-06-01

Multiple biotic, abiotic, and evolutionary constraints interact to determine a species' range. However, most species are not present in all suitable and accessible locations. Dispersal ability may explain why many species do not occupy all suitable habitat, but highly mobile species also exhibit a mismatch. Habitat selection behavior where individuals are site faithful and settle near conspecifics could create a social pressure that make a species' geographic range resistant to change. We investigated this possibility by using an individual-based model of habitat selection where habitat quality moved each year. Our model demonstrated the benefits of conspecific attraction in relatively stable environments and its detrimental influence when habitat quality shifted rapidly. These results were most apparent when adult survival was high, because site fidelity led to more individuals occupying poor-quality habitat areas as habitat quality changed. These individuals attracted other dispersing individuals, thereby decreasing the ability to track shifts in habitat quality, which we refer to as "social inertia." Consequently, social inertia may arise for species that exhibit site fidelity and conspecific attraction, which may have conservation implications in light of climate change and widespread alteration of natural habitats.

Context-specific selection of algorithms for recursive feature tracking in endoscopic image using a new methodology.

PubMed

Selka, F; Nicolau, S; Agnus, V; Bessaid, A; Marescaux, J; Soler, L

2015-03-01

In minimally invasive surgery, the tracking of deformable tissue is a critical component for image-guided applications. Deformation of the tissue can be recovered by tracking features using tissue surface information (texture, color,...). Recent work in this field has shown success in acquiring tissue motion. However, the performance evaluation of detection and tracking algorithms on such images are still difficult and are not standardized. This is mainly due to the lack of ground truth data on real data. Moreover, in order to avoid supplementary techniques to remove outliers, no quantitative work has been undertaken to evaluate the benefit of a pre-process based on image filtering, which can improve feature tracking robustness. In this paper, we propose a methodology to validate detection and feature tracking algorithms, using a trick based on forward-backward tracking that provides an artificial ground truth data. We describe a clear and complete methodology to evaluate and compare different detection and tracking algorithms. In addition, we extend our framework to propose a strategy to identify the best combinations from a set of detector, tracker and pre-process algorithms, according to the live intra-operative data. Experimental results have been performed on in vivo datasets and show that pre-process can have a strong influence on tracking performance and that our strategy to find the best combinations is relevant for a reasonable computation cost. Copyright © 2014 Elsevier Ltd. All rights reserved.

Detection and Tracking of Dynamic Objects by Using a Multirobot System: Application to Critical Infrastructures Surveillance

PubMed Central

Rodríguez-Canosa, Gonzalo; Giner, Jaime del Cerro; Barrientos, Antonio

2014-01-01

The detection and tracking of mobile objects (DATMO) is progressively gaining importance for security and surveillance applications. This article proposes a set of new algorithms and procedures for detecting and tracking mobile objects by robots that work collaboratively as part of a multirobot system. These surveillance algorithms are conceived of to work with data provided by long distance range sensors and are intended for highly reliable object detection in wide outdoor environments. Contrary to most common approaches, in which detection and tracking are done by an integrated procedure, the approach proposed here relies on a modular structure, in which detection and tracking are carried out independently, and the latter might accept input data from different detection algorithms. Two movement detection algorithms have been developed for the detection of dynamic objects by using both static and/or mobile robots. The solution to the overall problem is based on the use of a Kalman filter to predict the next state of each tracked object. Additionally, new tracking algorithms capable of combining dynamic objects lists coming from either one or various sources complete the solution. The complementary performance of the separated modular structure for detection and identification is evaluated and, finally, a selection of test examples discussed. PMID:24526305

A New Filtering and Smoothing Algorithm for Railway Track Surveying Based on Landmark and IMU/Odometer

PubMed Central

Jiang, Qingan; Wu, Wenqi; Jiang, Mingming; Li, Yun

2017-01-01

High-accuracy railway track surveying is essential for railway construction and maintenance. The traditional approaches based on total station equipment are not efficient enough since high precision surveying frequently needs static measurements. This paper proposes a new filtering and smoothing algorithm based on the IMU/odometer and landmarks integration for the railway track surveying. In order to overcome the difficulty of estimating too many error parameters with too few landmark observations, a new model with completely observable error states is established by combining error terms of the system. Based on covariance analysis, the analytical relationship between the railway track surveying accuracy requirements and equivalent gyro drifts including bias instability and random walk noise are established. Experiment results show that the accuracy of the new filtering and smoothing algorithm for railway track surveying can reach 1 mm (1σ) when using a Ring Laser Gyroscope (RLG)-based Inertial Measurement Unit (IMU) with gyro bias instability of 0.03°/h and random walk noise of 0.005°/h while control points of the track control network (CPIII) position observations are provided by the optical total station in about every 60 m interval. The proposed approach can satisfy at the same time the demands of high accuracy and work efficiency for railway track surveying. PMID:28629191

On application of image analysis and natural language processing for music search

NASA Astrophysics Data System (ADS)

Gwardys, Grzegorz

2013-10-01

In this paper, I investigate a problem of finding most similar music tracks using, popular in Natural Language Processing, techniques like: TF-IDF and LDA. I de ned document as music track. Each music track is transformed to spectrogram, thanks that, I can use well known techniques to get words from images. I used SURF operation to detect characteristic points and novel approach for their description. The standard kmeans was used for clusterization. Clusterization is here identical with dictionary making, so after that I can transform spectrograms to text documents and perform TF-IDF and LDA. At the final, I can make a query in an obtained vector space. The research was done on 16 music tracks for training and 336 for testing, that are splitted in four categories: Hiphop, Jazz, Metal and Pop. Although used technique is completely unsupervised, results are satisfactory and encouraging to further research.

Tracking and Navigation of Future NASA Spacecraft with the Square Kilometer Array

NASA Astrophysics Data System (ADS)

Resch, G. M.; Jones, D. L.; Connally, M. J.; Weinreb, S.; Preston, R. A.

2001-12-01

The international radio astronomy community is currently working on the design of an array of small radio antennas with a total collecting area of one square kilometer - more than a hundred times that of the largest existing (100-m) steerable antennas. An array of this size would provide obvious advantages for high data rate telemetry reception and for spacecraft navigation. Among these advantages are a two-orders-of-magnitude increase in sensitivity for telemetry downlink, flexible sub-arraying to track multiple spacecraft simultaneously, increased reliability through the use of large numbers of identical array elements, very accurate real-time angular spacecraft tracking, and a dramatic reduction in cost per unit area. NASA missions in many disciplines, including planetary science, would benefit from this increased ground-based tracking capability. The science return from planned missions could be increased, and opportunities for less expensive or completely new kinds of missions would be created.

Intelligent Tracking Control for a Class of Uncertain High-Order Nonlinear Systems.

PubMed

Zhao, Xudong; Shi, Peng; Zheng, Xiaolong; Zhang, Jianhua

2016-09-01

This brief is concerned with the problem of intelligent tracking control for a class of high-order nonlinear systems with completely unknown nonlinearities. An intelligent adaptive control algorithm is presented by combining the adaptive backstepping technique with the neural networks' approximation ability. It is shown that the practical output tracking performance of the system is achieved using the proposed state-feedback controller under two mild assumptions. In particular, by introducing a parameter in the derivations, the tracking error between the time-varying target signal and the output can be reduced via tuning the controller design parameters. Moreover, in order to solve the problem of overparameterization, which is a common issue in adaptive control design, a controller with one adaptive law is also designed. Finally, simulation results are given to show the effectiveness of the theoretical approaches and the potential of the proposed new design techniques.

New color-based tracking algorithm for joints of the upper extremities

NASA Astrophysics Data System (ADS)

Wu, Xiangping; Chow, Daniel H. K.; Zheng, Xiaoxiang

2007-11-01

To track the joints of the upper limb of stroke sufferers for rehabilitation assessment, a new tracking algorithm which utilizes a developed color-based particle filter and a novel strategy for handling occlusions is proposed in this paper. Objects are represented by their color histogram models and particle filter is introduced to track the objects within a probability framework. Kalman filter, as a local optimizer, is integrated into the sampling stage of the particle filter that steers samples to a region with high likelihood and therefore fewer samples is required. A color clustering method and anatomic constraints are used in dealing with occlusion problem. Compared with the general basic particle filtering method, the experimental results show that the new algorithm has reduced the number of samples and hence the computational consumption, and has achieved better abilities of handling complete occlusion over a few frames.

Complete mitochondrial genome of the Asian pencil halfbeak Hyporhamphus intermedius (Beloniformes, Hemirhamphidae).

PubMed

Song, Chao; Hu, Gengdong; Qiu, Liping; Fan, Limin; Meng, Shunlong; Chen, Jiazhang

2016-11-01

The complete mitochondrial genome of Hyporhamphus intermedius was determined to be 16,720 bp in length with (A + T) content of 56.3%, and it consists of 13 protein-coding genes, 22 tRNAs, two ribosomal RNAs, and a control region. The gene composition and the structural arrangement of the H. intermedius complete mtDNA were identical to most of the other vertebrates. Interestingly, two tandem repeat units were identified across tRNA-Pro and control region (2*41 bp), while in most of the fishes the tandem repeat units are located in the control region. The molecular data we presented here could play a useful role to study the evolutionary relationships and population genetics of Hemirhamphidae fish.

Performance Evaluation Within CASE_ATTI of MHT and JVC Association Algorithms for COMDAT TD

DTIC Science & Technology

2007-05-01

les résultats du travail effectué dans le cadre de l’analyse de sensibilité des algorithmes uti- lisés dans COMDAT, comparativement à ceux...is also very important in tracking system. Neverthe- less, tracking performance with even the best designed filter may become very degraded in the...for completeness. 2.2 IMM Some practical model of target motion is assumed for the design of the Kalman filter. This target kinematics model is

Evolutionary multiobjective design of a flexible caudal fin for robotic fish.

PubMed

Clark, Anthony J; Tan, Xiaobo; McKinley, Philip K

2015-11-25

Robotic fish accomplish swimming by deforming their bodies or other fin-like appendages. As an emerging class of embedded computing system, robotic fish are anticipated to play an important role in environmental monitoring, inspection of underwater structures, tracking of hazardous wastes and oil spills, and the study of live fish behaviors. While integration of flexible materials (into the fins and/or body) holds the promise of improved swimming performance (in terms of both speed and maneuverability) for these robots, such components also introduce significant design challenges due to the complex material mechanics and hydrodynamic interactions. The problem is further exacerbated by the need for the robots to meet multiple objectives (e.g., both speed and energy efficiency). In this paper, we propose an evolutionary multiobjective optimization approach to the design and control of a robotic fish with a flexible caudal fin. Specifically, we use the NSGA-II algorithm to investigate morphological and control parameter values that optimize swimming speed and power usage. Several evolved fin designs are validated experimentally with a small robotic fish, where fins of different stiffness values and sizes are printed with a multi-material 3D printer. Experimental results confirm the effectiveness of the proposed design approach in balancing the two competing objectives.

Low-Mass Star Formation and the Initial Mass Function in Young Clusters

NASA Astrophysics Data System (ADS)

Luhman, Kevin Lee

I have used optical and near-infrared spectroscopy and imaging to measure spectral types and luminosities for young (/tau<10 Myr), embedded (AV=0[-]50), low-mass (0.1-1 Msolar) stars in three nearby (d<300 pc) clusters: L1495E, IC 348, and ρ Ophiuchi. In conjunction with theoretical evolutionary tracks, I have derived the star formation history and initial mass function for each stellar population. A large number of brown dwarf candidates have been identified in the photometry, several of which are confirmed through spectroscopy. Finally, I have measured the frequency and survival times of circumstellar disks and investigated the photometric and spectroscopic properties of protostars. In S 2, I apply observational tests to the available sets of evolutionary models for low-mass stars, concluding that the calculations of D'Antona & Mazzitelli are preferred for the range of masses and ages considered here. In S 3 and S 4, I examine in detail the spectroscopic characteristics and substellar nature of two brown dwarf candidates. The study then expands to include the populations within the clusters L1495E (S 5), IC 348 (S 6), and ρ Ophiuchi (S 7). In S 8, I briefly discuss the past, present, and future of scientific research related to this thesis.

Evolutionary persistence in Gunnera and the contribution of southern plant groups to the tropical Andes biodiversity hotspot.

PubMed

Bacon, Christine D; Velásquez-Puentes, Francisco J; Hinojosa, Luis Felipe; Schwartz, Thomas; Oxelman, Bengt; Pfeil, Bernard; Arroyo, Mary T K; Wanntorp, Livia; Antonelli, Alexandre

2018-01-01

Several studies have demonstrated the contribution of northern immigrants to the flora of the tropical Andes-the world's richest and most diverse biodiversity hotspot. However, much less is known about the biogeographic history and diversification of Andean groups with southern origins, although it has been suggested that northern and southern groups have contributed roughly equally to the high Andean (i.e., páramo) flora. Here we infer the evolutionary history of the southern hemisphere plant genus Gunnera , a lineage with a rich fossil history and an important ecological role as an early colonising species characteristic of wet, montane environments. Our results show striking contrasts in species diversification, where some species may have persisted for some 90 million years, and whereas others date to less than 2 Ma since origination. The outstanding longevity of the group is likely linked to a high degree of niche conservatism across its highly disjunct range, whereby Gunnera tracks damp and boggy soils in cool habitats. Colonisation of the northern Andes is related to Quaternary climate change, with subsequent rapid diversification appearing to be driven by their ability to take advantage of environmental opportunities. This study demonstrates the composite origin of a mega-diverse biota.

Did shifting seawater sulfate concentrations drive the evolution of deep-sea methane-seep ecosystems?

PubMed

Kiel, Steffen

2015-04-07

The origin and evolution of the faunas inhabiting deep-sea hydrothermal vents and methane seeps have been debated for decades. These faunas rely on a local source of sulfide and other reduced chemicals for nutrition, which spawned the hypothesis that their evolutionary history is independent from that of photosynthesis-based food chains and instead driven by extinction events caused by deep-sea anoxia. Here I use the fossil record of seep molluscs to show that trends in body size, relative abundance and epifaunal/infaunal ratios track current estimates of seawater sulfate concentrations through the last 150 Myr. Furthermore, the two main faunal turnovers during this time interval coincide with major changes in seawater sulfate concentrations. Because sulfide at seeps originates mostly from seawater sulfate, variations in sulfate concentrations should directly affect the base of the food chain of this ecosystem and are thus the likely driver of the observed macroecologic and evolutionary patterns. The results imply that the methane-seep fauna evolved largely independently from developments and mass extinctions affecting the photosynthesis-based biosphere and add to the growing body of evidence that the chemical evolution of the oceans had a major impact on the evolution of marine life. © 2015 The Author(s) Published by the Royal Society. All rights reserved.

Comparing reactive and memory-one strategies of direct reciprocity

NASA Astrophysics Data System (ADS)

Baek, Seung Ki; Jeong, Hyeong-Chai; Hilbe, Christian; Nowak, Martin A.

2016-05-01

Direct reciprocity is a mechanism for the evolution of cooperation based on repeated interactions. When individuals meet repeatedly, they can use conditional strategies to enforce cooperative outcomes that would not be feasible in one-shot social dilemmas. Direct reciprocity requires that individuals keep track of their past interactions and find the right response. However, there are natural bounds on strategic complexity: Humans find it difficult to remember past interactions accurately, especially over long timespans. Given these limitations, it is natural to ask how complex strategies need to be for cooperation to evolve. Here, we study stochastic evolutionary game dynamics in finite populations to systematically compare the evolutionary performance of reactive strategies, which only respond to the co-player’s previous move, and memory-one strategies, which take into account the own and the co-player’s previous move. In both cases, we compare deterministic strategy and stochastic strategy spaces. For reactive strategies and small costs, we find that stochasticity benefits cooperation, because it allows for generous-tit-for-tat. For memory one strategies and small costs, we find that stochasticity does not increase the propensity for cooperation, because the deterministic rule of win-stay, lose-shift works best. For memory one strategies and large costs, however, stochasticity can augment cooperation.

Dispersal-competition tradeoff in microbiomes in the quest for land colonization.

PubMed

Dini-Andreote, Francisco; van Elsas, Jan Dirk; Olff, Han; Salles, Joana Falcão

2018-06-21

Ancestor microbes started colonizing inland habitats approximately 2.7 to 3.5 billion years ago. With some exceptions, the key physiological adaptations of microbiomes associated with marine-to-land transitions have remained elusive. This is essentially caused by the lack of suitable systems that depict changes in microbiomes across sufficiently large time scales. Here, we investigate the adaptive routes taken by microbiomes along a contemporary gradient of land formation. Using functional trait-based metagenomics, we show that a switch from a microbial 'dispersal' to a 'competition' response modus best characterizes the microbial trait changes during this eco-evolutionary trajectory. The 'dispersal' modus prevails in microbiomes at the boundary sites between land and sea. It encompasses traits conferring cell chemosensory and motile behaviors, thus allowing the local microbes to exploit short-lived nutritional patches in high-diffusion microhabitats. A systematic transition towards the 'competition' modus occurs progressively as the soil matures, which is likely due to forces of viscosity or strain that favor traits for competition and chemical defense. Concomitantly, progressive increases in the abundances of genes encoding antibiotic resistance and complex organic substrate degradation were found. Our findings constitute a novel perspective on the ecology and evolution of microbiome traits, tracking back one of the most seminal transitions in the evolutionary history of life.