Effects of different swimming race constraints on turning movements

The aim of this study was to investigate the effects of different swimming race constraints on the evolution of turn parameters. One hundred and fifty-eight national and regional level 200-m (meters) male swimming performances were video-analyzed using the individualized-distance model in the Open Comunidad de Madrid tournament. Turn (p < .001, ES = 0.36) and underwater distances (p < .001, ES = 0.38) as well as turn velocity (p < .001, ES = 0.69) significantly dropped throughout the race, although stroke velocity and underwater velocity were maintained in the last lap of the race (p > .05). Higher expertise swimmers obtained faster average velocities and longer distances in all the turn phases (p < .001, ES = 0.59), except the approach distance. In addition, national level swimmers showed the ability to maintain most of the turn parameters throughout the race, which assisted them in improving average velocity at the end of races. Therefore, the variations in the turning movements of a swimming race were expertise-related and focused on optimizing average velocity. Turning skills should be included in the swimming race action plan.

Dynamic media stream mobility with TURN

Multi party videoconference systems use MCU (Multipoint Control Unit) devices to forward media streams. In this paper we describe a mechanism that allows the mobility of such streams between MCU devices. This mobility is especially useful when redistribution of streams is needed due to scalability requirements. These requirements are mandatory in Cloud scenarios to adapt the number of MCUs and their capabilities to variations in the user demand. Our mechanism is based on TURN (Traversal Using Relay around NAT) standard and adapts MICE (Mobility with ICE) specification to the requirements of this kind of scenarios. We conclude that this mechanism achieves the stream mobility in a transparent way for client nodes and without interruptions for the users.

Automatic fault detection on BIPV systems without solar irradiation data

BIPV systems are small PV generation units spread out over the territory, and whose characteristics are very diverse. This makes difficult a cost-effective procedure for monitoring, fault detection, performance analyses, operation and maintenance. As a result, many problems affecting BIPV systems go undetected. In order to carry out effective automatic fault detection procedures, we need a performance indicator that is reliable and that can be applied on many PV systems at a very low cost. The existing approaches for analyzing the performance of PV systems are often based on the Performance Ratio (PR), whose accuracy depends on good solar irradiation data, which in turn can be very difficult to obtain or cost-prohibitive for the BIPV owner. We present an alternative fault detection procedure based on a performance indicator that can be constructed on the sole basis of the energy production data measured at the BIPV systems. This procedure does not require the input of operating conditions data, such as solar irradiation, air temperature, or wind speed. The performance indicator, called Performance to Peers (P2P), is constructed from spatial and temporal correlations between the energy output of neighboring and similar PV systems. This method was developed from the analysis of the energy production data of approximately 10,000 BIPV systems located in Europe. The results of our procedure are illustrated on the hourly, daily and monthly data monitored during one year at one BIPV system located in the South of Belgium. Our results confirm that it is possible to carry out automatic fault detection procedures without solar irradiation data. P2P proves to be more stable than PR most of the time, and thus constitutes a more reliable performance indicator for fault detection procedures. We also discuss the main limitations of this novel methodology, and we suggest several future lines of research that seem promising to improve on these procedures.

Climate variability effects on field crops in Iberian Peninsula. Predictability

La presente Tesis constituye un avance en el conocimiento de los efectos de la variabilidad climática en los cultivos en la Península Ibérica (PI). Es bien conocido que la temperatura del océano, particularmente de la región tropical, es una de las variables más convenientes para ser utilizado como predictor climático. Los océanos son considerados como la principal fuente de almacenamiento de calor del planeta debido a la alta capacidad calorífica del agua. Cuando se libera esta energía, altera los regímenes globales de circulación atmosférica por mecanismos de teleconexión. Estos cambios en la circulación general de la atmósfera afectan a la temperatura, precipitación, humedad, viento, etc., a escala regional, los cuales afectan al crecimiento, desarrollo y rendimiento de los cultivos. Para el caso de Europa, esto implica que la variabilidad atmosférica en una región específica se asocia con la variabilidad de otras regiones adyacentes y/o remotas, como consecuencia Europa está siendo afectada por los patrones de circulaciones globales, que a su vez, se ven afectados por patrones oceánicos. El objetivo general de esta tesis es analizar la variabilidad del rendimiento de los cultivos y su relación con la variabilidad climática y teleconexiones, así como evaluar su predictibilidad. Además, esta Tesis tiene como objetivo establecer una metodología para estudiar la predictibilidad de las anomalías del rendimiento de los cultivos. El análisis se centra en trigo y maíz como referencia para otros cultivos de la PI, cultivos de invierno en secano y cultivos de verano en regadío respectivamente. Experimentos de simulación de cultivos utilizando una metodología en cadena de modelos (clima + cultivos) son diseñados para evaluar los impactos de los patrones de variabilidad climática en el rendimiento y su predictibilidad. La presente Tesis se estructura en dos partes: La primera se centra en el análisis de la variabilidad del clima y la segunda es una aplicación de predicción cuantitativa de cosechas. La primera parte está dividida en 3 capítulos y la segundo en un capitulo cubriendo los objetivos específicos del presente trabajo de investigación. Parte I. Análisis de variabilidad climática El primer capítulo muestra un análisis de la variabilidad del rendimiento potencial en una localidad como indicador bioclimático de las teleconexiones de El Niño con Europa, mostrando su importancia en la mejora de predictibilidad tanto en clima como en agricultura. Además, se presenta la metodología elegida para relacionar el rendimiento con las variables atmosféricas y oceánicas. El rendimiento de los cultivos es parcialmente determinado por la variabilidad climática atmosférica, que a su vez depende de los cambios en la temperatura de la superficie del mar (TSM). El Niño es el principal modo de variabilidad interanual de la TSM, y sus efectos se extienden en todo el mundo. Sin embargo, la predictibilidad de estos impactos es controversial, especialmente aquellos asociados con la variabilidad climática Europea, que se ha encontrado que es no estacionaria y no lineal. Este estudio mostró cómo el rendimiento potencial de los cultivos obtenidos a partir de datos de reanálisis y modelos de cultivos sirve como un índice alternativo y más eficaz de las teleconexiones de El Niño, ya que integra las no linealidades entre las variables climáticas en una única serie temporal. Las relaciones entre El Niño y las anomalías de rendimiento de los cultivos son más significativas que las contribuciones individuales de cada una de las variables atmosféricas utilizadas como entrada en el modelo de cultivo. Además, la no estacionariedad entre El Niño y la variabilidad climática europea se detectan con mayor claridad cuando se analiza la variabilidad de los rendimiento de los cultivos. La comprensión de esta relación permite una cierta predictibilidad hasta un año antes de la cosecha del cultivo. Esta predictibilidad no es constante, sino que depende tanto la modulación de la alta y baja frecuencia. En el segundo capítulo se identifica los patrones oceánicos y atmosféricos de variabilidad climática que afectan a los cultivos de verano en la PI. Además, se presentan hipótesis acerca del mecanismo eco-fisiológico a través del cual el cultivo responde. Este estudio se centra en el análisis de la variabilidad del rendimiento de maíz en la PI para todo el siglo veinte, usando un modelo de cultivo calibrado en 5 localidades españolas y datos climáticos de reanálisis para obtener series temporales largas de rendimiento potencial. Este estudio evalúa el uso de datos de reanálisis para obtener series de rendimiento de cultivos que dependen solo del clima, y utilizar estos rendimientos para analizar la influencia de los patrones oceánicos y atmosféricos. Los resultados muestran una gran fiabilidad de los datos de reanálisis. La distribución espacial asociada a la primera componente principal de la variabilidad del rendimiento muestra un comportamiento similar en todos los lugares estudiados de la PI. Se observa una alta correlación lineal entre el índice de El Niño y el rendimiento, pero no es estacionaria en el tiempo. Sin embargo, la relación entre la temperatura del aire y el rendimiento se mantiene constante a lo largo del tiempo, siendo los meses de mayor influencia durante el período de llenado del grano. En cuanto a los patrones atmosféricos, el patrón Escandinavia presentó una influencia significativa en el rendimiento en PI. En el tercer capítulo se identifica los patrones oceánicos y atmosféricos de variabilidad climática que afectan a los cultivos de invierno en la PI. Además, se presentan hipótesis acerca del mecanismo eco-fisiológico a través del cual el cultivo responde. Este estudio se centra en el análisis de la variabilidad del rendimiento de trigo en secano del Noreste (NE) de la PI. La variabilidad climática es el principal motor de los cambios en el crecimiento, desarrollo y rendimiento de los cultivos, especialmente en los sistemas de producción en secano. En la PI, los rendimientos de trigo son fuertemente dependientes de la cantidad de precipitación estacional y la distribución temporal de las mismas durante el periodo de crecimiento del cultivo. La principal fuente de variabilidad interanual de la precipitación en la PI es la Oscilación del Atlántico Norte (NAO), que se ha relacionado, en parte, con los cambios en la temperatura de la superficie del mar en el Pacífico Tropical (El Niño) y el Atlántico Tropical (TNA). La existencia de cierta predictibilidad nos ha animado a analizar la posible predicción de los rendimientos de trigo en la PI utilizando anomalías de TSM como predictor. Para ello, se ha utilizado un modelo de cultivo (calibrado en dos localidades del NE de la PI) y datos climáticos de reanálisis para obtener series temporales largas de rendimiento de trigo alcanzable y relacionar su variabilidad con anomalías de la TSM. Los resultados muestran que El Niño y la TNA influyen en el desarrollo y rendimiento del trigo en el NE de la PI, y estos impactos depende del estado concurrente de la NAO. Aunque la relación cultivo-TSM no es igual durante todo el periodo analizado, se puede explicar por un mecanismo eco-fisiológico estacionario. Durante la segunda mitad del siglo veinte, el calentamiento (enfriamiento) en la superficie del Atlántico tropical se asocia a una fase negativa (positiva) de la NAO, que ejerce una influencia positiva (negativa) en la temperatura mínima y precipitación durante el invierno y, por lo tanto, aumenta (disminuye) el rendimiento de trigo en la PI. En relación con El Niño, la correlación más alta se observó en el período 1981 -2001. En estas décadas, los altos (bajos) rendimientos se asocian con una transición El Niño - La Niña (La Niña - El Niño) o con eventos de El Niño (La Niña) que están finalizando. Para estos eventos, el patrón atmosférica asociada se asemeja a la NAO, que también influye directamente en la temperatura máxima y precipitación experimentadas por el cultivo durante la floración y llenado de grano. Los co- efectos de los dos patrones de teleconexión oceánicos ayudan a aumentar (disminuir) la precipitación y a disminuir (aumentar) la temperatura máxima en PI, por lo tanto el rendimiento de trigo aumenta (disminuye). Parte II. Predicción de cultivos. En el último capítulo se analiza los beneficios potenciales del uso de predicciones climáticas estacionales (por ejemplo de precipitación) en las predicciones de rendimientos de trigo y maíz, y explora métodos para aplicar dichos pronósticos climáticos en modelos de cultivo. Las predicciones climáticas estacionales tienen un gran potencial en las predicciones de cultivos, contribuyendo de esta manera a una mayor eficiencia de la gestión agrícola, seguridad alimentaria y de subsistencia. Los pronósticos climáticos se expresan en diferentes formas, sin embargo todos ellos son probabilísticos. Para ello, se evalúan y aplican dos métodos para desagregar las predicciones climáticas estacionales en datos diarios: 1) un generador climático estocástico condicionado (predictWTD) y 2) un simple re-muestreador basado en las probabilidades del pronóstico (FResampler1). Los dos métodos se evaluaron en un caso de estudio en el que se analizaron los impactos de tres escenarios de predicciones de precipitación estacional (predicción seco, medio y lluvioso) en el rendimiento de trigo en secano, sobre las necesidades de riego y rendimiento de maíz en la PI. Además, se estimó el margen bruto y los riesgos de la producción asociada con las predicciones de precipitación estacional extremas (seca y lluviosa). Los métodos predWTD y FResampler1 usados para desagregar los pronósticos de precipitación estacional en datos diarios, que serán usados como inputs en los modelos de cultivos, proporcionan una predicción comparable. Por lo tanto, ambos métodos parecen opciones factibles/viables para la vinculación de los pronósticos estacionales con modelos de simulación de cultivos para establecer predicciones de rendimiento o las necesidades de riego en el caso de maíz. El análisis del impacto en el margen bruto de los precios del grano de los dos cultivos (trigo y maíz) y el coste de riego (maíz) sugieren que la combinación de los precios de mercado previstos y la predicción climática estacional pueden ser una buena herramienta en la toma de decisiones de los agricultores, especialmente en predicciones secas y/o localidades con baja precipitación anual. Estos métodos permiten cuantificar los beneficios y riesgos de los agricultores ante una predicción climática estacional en la PI. Por lo tanto, seríamos capaces de establecer sistemas de alerta temprana y diseñar estrategias de adaptación del manejo del cultivo para aprovechar las condiciones favorables o reducir los efectos de condiciones adversas. La utilidad potencial de esta Tesis es la aplicación de las relaciones encontradas para predicción de cosechas de la próxima campaña agrícola. Una correcta predicción de los rendimientos podría ayudar a los agricultores a planear con antelación sus prácticas agronómicas y todos los demás aspectos relacionados con el manejo de los cultivos. Esta metodología se puede utilizar también para la predicción de las tendencias futuras de la variabilidad del rendimiento en la PI. Tanto los sectores públicos (mejora de la planificación agrícola) como privados (agricultores, compañías de seguros agrarios) pueden beneficiarse de esta mejora en la predicción de cosechas. ABSTRACT The present thesis constitutes a step forward in advancing of knowledge of the effects of climate variability on crops in the Iberian Peninsula (IP). It is well known that ocean temperature, particularly the tropical ocean, is one of the most convenient variables to be used as climate predictor. Oceans are considered as the principal heat storage of the planet due to the high heat capacity of water. When this energy is released, it alters the global atmospheric circulation regimes by teleconnection1 mechanisms. These changes in the general circulation of the atmosphere affect the regional temperature, precipitation, moisture, wind, etc., and those influence crop growth, development and yield. For the case of Europe, this implies that the atmospheric variability in a specific region is associated with the variability of others adjacent and/or remote regions as a consequence of Europe being affected by global circulations patterns which, in turn, are affected by oceanic patterns. The general objective of this Thesis is to analyze the variability of crop yields at climate time scales and its relation to the climate variability and teleconnections, as well as to evaluate their predictability. Moreover, this Thesis aims to establish a methodology to study the predictability of crop yield anomalies. The analysis focuses on wheat and maize as a reference crops for other field crops in the IP, for winter rainfed crops and summer irrigated crops respectively. Crop simulation experiments using a model chain methodology (climate + crop) are designed to evaluate the impacts of climate variability patterns on yield and its predictability. The present Thesis is structured in two parts. The first part is focused on the climate variability analyses, and the second part is an application of the quantitative crop forecasting for years that fulfill specific conditions identified in the first part. This Thesis is divided into 4 chapters, covering the specific objectives of the present research work. Part I. Climate variability analyses The first chapter shows an analysis of potential yield variability in one location, as a bioclimatic indicator of the El Niño teleconnections with Europe, putting forward its importance for improving predictability in both climate and agriculture. It also presents the chosen methodology to relate yield with atmospheric and oceanic variables. Crop yield is partially determined by atmospheric climate variability, which in turn depends on changes in the sea surface temperature (SST). El Niño is the leading mode of SST interannual variability, and its impacts extend worldwide. Nevertheless, the predictability of these impacts is controversial, especially those associated with European climate variability, which have been found to be non-stationary and non-linear. The study showed how potential2 crop yield obtained from reanalysis data and crop models serves as an alternative and more effective index of El Niño teleconnections because it integrates the nonlinearities between the climate variables in a unique time series. The relationships between El Niño and crop yield anomalies are more significant than the individual contributions of each of the atmospheric variables used as input in the crop model. Additionally, the non-stationarities between El Niño and European climate variability are more clearly detected when analyzing crop-yield variability. The understanding of this relationship allows for some predictability up to one year before the crop is harvested. This predictability is not constant, but depends on both high and low frequency modulation. The second chapter identifies the oceanic and atmospheric patterns of climate variability affecting summer cropping systems in the IP. Moreover, hypotheses about the eco-physiological mechanism behind crop response are presented. It is focused on an analysis of maize yield variability in IP for the whole twenty century, using a calibrated crop model at five contrasting Spanish locations and reanalyses climate datasets to obtain long time series of potential yield. The study tests the use of reanalysis data for obtaining only climate dependent time series of simulated crop yield for the whole region, and to use these yield to analyze the influences of oceanic and atmospheric patterns. The results show a good reliability of reanalysis data. The spatial distribution of the leading principal component of yield variability shows a similar behaviour over all the studied locations in the IP. The strong linear correlation between El Niño index and yield is remarkable, being this relation non-stationary on time, although the air temperature-yield relationship remains on time, being the highest influences during grain filling period. Regarding atmospheric patterns, the summer Scandinavian pattern has significant influence on yield in IP. The third chapter identifies the oceanic and atmospheric patterns of climate variability affecting winter cropping systems in the IP. Also, hypotheses about the eco-physiological mechanism behind crop response are presented. It is focused on an analysis of rainfed wheat yield variability in IP. Climate variability is the main driver of changes in crop growth, development and yield, especially for rainfed production systems. In IP, wheat yields are strongly dependent on seasonal rainfall amount and temporal distribution of rainfall during the growing season. The major source of precipitation interannual variability in IP is the North Atlantic Oscillation (NAO) which has been related in part with changes in the Tropical Pacific (El Niño) and Atlantic (TNA) sea surface temperature (SST). The existence of some predictability has encouraged us to analyze the possible predictability of the wheat yield in the IP using SSTs anomalies as predictor. For this purpose, a crop model with a site specific calibration for the Northeast of IP and reanalysis climate datasets have been used to obtain long time series of attainable wheat yield and relate their variability with SST anomalies. The results show that El Niño and TNA influence rainfed wheat development and yield in IP and these impacts depend on the concurrent state of the NAO. Although crop-SST relationships do not equally hold on during the whole analyzed period, they can be explained by an understood and stationary ecophysiological mechanism. During the second half of the twenty century, the positive (negative) TNA index is associated to a negative (positive) phase of NAO, which exerts a positive (negative) influence on minimum temperatures (Tmin) and precipitation (Prec) during winter and, thus, yield increases (decreases) in IP. In relation to El Niño, the highest correlation takes place in the period 1981-2001. For these decades, high (low) yields are associated with an El Niño to La Niña (La Niña to El Niño) transitions or to El Niño events finishing. For these events, the regional associated atmospheric pattern resembles the NAO, which also influences directly on the maximum temperatures (Tmax) and precipitation experienced by the crop during flowering and grain filling. The co-effects of the two teleconnection patterns help to increase (decrease) the rainfall and decrease (increase) Tmax in IP, thus on increase (decrease) wheat yield. Part II. Crop forecasting The last chapter analyses the potential benefits for wheat and maize yields prediction from using seasonal climate forecasts (precipitation), and explores methods to apply such a climate forecast to crop models. Seasonal climate prediction has significant potential to contribute to the efficiency of agricultural management, and to food and livelihood security. Climate forecasts come in different forms, but probabilistic. For this purpose, two methods were evaluated and applied for disaggregating seasonal climate forecast into daily weather realizations: 1) a conditioned stochastic weather generator (predictWTD) and 2) a simple forecast probability resampler (FResampler1). The two methods were evaluated in a case study where the impacts of three scenarios of seasonal rainfall forecasts on rainfed wheat yield, on irrigation requirements and yields of maize in IP were analyzed. In addition, we estimated the economic margins and production risks associated with extreme scenarios of seasonal rainfall forecasts (dry and wet). The predWTD and FResampler1 methods used for disaggregating seasonal rainfall forecast into daily data needed by the crop simulation models provided comparable predictability. Therefore both methods seem feasible options for linking seasonal forecasts with crop simulation models for establishing yield forecasts or irrigation water requirements. The analysis of the impact on gross margin of grain prices for both crops and maize irrigation costs suggests the combination of market prices expected and the seasonal climate forecast can be a good tool in farmer’s decision-making, especially on dry forecast and/or in locations with low annual precipitation. These methodologies would allow quantifying the benefits and risks of a seasonal weather forecast to farmers in IP. Therefore, we would be able to establish early warning systems and to design crop management adaptation strategies that take advantage of favorable conditions or reduce the effect of adverse conditions. The potential usefulness of this Thesis is to apply the relationships found to crop forecasting on the next cropping season, suggesting opportunity time windows for the prediction. The methodology can be used as well for the prediction of future trends of IP yield variability. Both public (improvement of agricultural planning) and private (decision support to farmers, insurance companies) sectors may benefit from such an improvement of crop forecasting.

Physically-sound simulation of low-velocity impact on fiber reinforced laminates

A high-fidelity virtual tool for the numerical simulation of low-velocity impact damage in unidirectional composite laminates is proposed. A continuum material model for the simulation of intraply damage phenomena is implemented in a numerical scheme as a user subroutine of the commercially available Abaqus finite element package. Delaminations are simulated using of cohesive surfaces. The use of structured meshes, aligned with fiber directions allows the physically-sound simulation of matrix cracks parallel to fiber directions, and their interaction with the development of delaminations. The implementation of element erosion criteria and the application of intraply and interlaminar friction allow for the simulation of fiber splits and their entanglement, which in turn results in permanent indentation in the impacted laminate. It is shown that this simulation strategy gives sound results for impact energies bellow and above the Barely Visible Impact Damage threshold, up to laminate perforation conditions

50 Years Ago We Marched: What began on the grounds of Lincoln University, ended on the steps of the Alabama State Capitol

LINCOLN UNIVERSITY - On March 25, 1965, a bus loaded with Lincoln University students and staff arrived in Montgomery, Ala. to join the Selma march for racial and voting equality. Although the Civil Rights Act of 1964 was in force, African-Americans continued to feel the effects of segregation. The 1960s was a decade of social unrest and change. In the Deep South, specifically Alabama, racial segregation was a cultural norm resistant to change. Governor George Wallace never concealed his personal viewpoints and political stance of the white majority, declaring “Segregation now, segregation tomorrow, segregation forever.” The march was aimed at obtaining African-Americans their constitutionally protected right to vote. However, Alabama’s deep-rooted culture of racial bias began to be challenged by a shift in American attitudes towards equality. Both black and whites wanted to end discrimination by using passive resistance, a movement utilized by Dr. Martin Luther King Jr. That passive resistance was often met with violence, sometimes at the hands of law enforcement and local citizens. The Selma to Montgomery march was a result of a protest for voting equality. The Student Nonviolent Coordinating Committee (SNCC) and the Southern Christian Leadership Counsel (SCLC) among other students marched along the streets to bring awareness to the voter registration campaign, which was organized to end discrimination in voting based on race. Violent acts of police officers and others were some of the everyday challenges protesters were facing. Forty-one participants from Lincoln University arrived in Montgomery to take part in the 1965 march for equality. Students from Lincoln University’s Journalism 383 class spent part of their 2015 spring semester researching the historical event. Here are their stories: Peter Kellogg “We’ve been watching the television, reading about it in the newspapers,” said Peter Kellogg during a February 2015 telephone interview. “Everyone knew the civil rights movement was going on, and it was important that we give him (Robert Newton) some assistance … and Newton said we needed to get involve and do something,” Kellogg, a lecturer in the 1960s at Lincoln University, discussed how the bus trip originated. “That’s why the bus happened,” Kellogg said. “Because of what he (Newton) did - that’s why Lincoln students went and participated.” “People were excited and the people along the sidewalk were supportive,” Kellogg said. However, the mood flipped from excited to scared and feeling intimidated. “It seems though every office building there was a guy in a blue uniform with binoculars standing in the crowd with troops and police. And if looks could kill me, we could have all been dead.” He says the hatred and intimidation was intense. Kellogg, being white, was an immediate target among many white people. He didn’t realize how dangerous the event in Alabama was until he and the others in the bus heard about the death of Viola Liuzzo. The married mother of five from Detroit was shot and killed by members of the Ku Klux Klan while shuttling activists to the Montgomery airport. “We found out about her death on the ride back,” Kellogg recalled. “Because it was a loss of life, and it shows the violence … we could have been exposed to that danger!” After returning to LU, Kellogg’s outlook on life took a dramatic turn. Kellogg noted King’s belief that a person should be willing to die for important causes. “The idea is that life is about something larger and more important than your own immediate gratification, and career success or personal achievements,” Kellogg said. “The civil rights movement … it made me, it made my life more significant because it was about something important.” The civil rights movement influenced Kellogg to change his career path and to become a black history lecturer. Until this day, he has no regrets and believes that his choices made him as a better individual. The bus ride to Alabama, he says, began with the actions of just one student. Robert Newton Robert Newton was the initiator, recruiter and leader of the Lincoln University movement to join Dr. Martin Luther King’s march in Selma. “In the 60s much of the civil rights activists came out of college,” said Newton during a recent phone interview. Many of the events that involved segregation compelled college students to fight for equality. “We had selected boycotts of merchants, when blacks were not allowed to try on clothes,” Newton said. “You could buy clothes at department stores, but no blacks could work at the department stores as sales people. If you bought clothes there you couldn’t try them on, you had to buy them first and take them home and try them on.” Newton said the students risked their lives to be a part of history and influence change. He not only recognized the historic event of his fellow Lincolnites, but also recognized other college students and historical black colleges and universities who played a vital role in history. “You had the S.N.C.C organization, in terms of voting rights and other things, including a lot of participation and working off the bureau,” Newton said. Other schools and places such as UNT, Greenville and Howard University and other historically black schools had groups that came out as leaders. Newton believes that much has changed from 50 years ago. “I think we’ve certainly come a long way from what I’ve seen from the standpoint of growing up outside of Birmingham, Alabama,” Newton said. He believes that college campuses today are more organized in their approach to social causes. “The campus appears to be some more integrated amongst students in terms of organizations and friendships.” Barbara Flint Dr. Barbara Flint grew up in the southern part of Arkansas and came to Lincoln University in 1961. She describes her experience at Lincoln as “being at Lincoln when the world was changing.“ She was an active member of Lincoln’s History Club, which focused on current events and issues and influenced her decision to join the Selma march. “The first idea was to raise some money and then we started talking about ‘why can’t we go?’ I very much wanted to be a living witness in history.” Reflecting on the march and journey to Montgomery, Flint describes it as being filled with tension. “We were very conscious of the fact that once we got on the road past Tennessee we didn’t know what was going to happen,” said Flint during a February 2015 phone interview. “Many of the students had not been beyond Missouri, so they didn’t have that sense of what happens in the South. Having lived there you knew the balance as well as what is likely to happen and what is not likely to happen. As my father use to say, ‘you have to know how to stay on that line of balance.’” Upon arriving in Alabama she remembers the feeling of excitement and relief from everyone on the bus. “We were tired and very happy to be there and we were trying to figure out where we were going to join and get into the march,” Flint said. “There were so many people coming in and then we were also trying to stay together; that was one of the things that really stuck out for me, not just for us but the people who were coming in. You didn’t want to lose sight of the people you came with.” Flint says she was keenly aware of her surroundings. For her, it was more than just marching forward. “I can still hear those helicopters now,” Flint recalled. “Every time the helicopters would come over the sound would make people jump and look up - I think that demonstrated the extent of the tenseness that was there at the time because the helicopters kept coming over every few minutes.” She said that the marchers sang “we are not afraid,” but that fear remained with every step. “Just having been there and being a witness and marching you realize that I’m one of those drops that’s going to make up this flood and with this flood things will move,” said Flint. As a student at Lincoln in 1965, Flint says the Selma experience undoubtedly changed her life. “You can’t expect to do exactly what you came to Lincoln to do,” Flint says. “That march - along with all the other marchers and the action that was taking place - directly changed the paths that I and many other people at Lincoln would take.” She says current students and new generations need to reflect on their personal role in society. “Decide what needs to be done and ask yourself ‘how can I best contribute to it?’” Flint said. She notes technology and social media can be used to reach audiences in ways unavailable to her generation in 1965. “So you don’t always have to wait for someone else to step out there and say ‘let’s march,’ you can express your vision and your views and you have the means to do so (so) others can follow you. Jaci Newsom Jaci Newsom came to Lincoln in 1965 from Atlanta. She came to Lincoln to major in sociology and being in Jefferson City was largely different from what she had grown up with. “To be able to come into a restaurant, sit down and be served a nice meal was eye-opening to me,” said Newsom during a recent interview. She eventually became accustomed to the relaxed attitude of Missouri and was shocked by the situation she encountered on an out-of-town trip. “I took a bus trip from Atlanta to Pensacola and I encountered the worse racism that I have ever seen. I was at bus stop, I went in to be served and they would not serve me. There was a policeman sitting there at the table and he told me that privately owned places could select not to serve you.” Newsom describes her experience of marching in Montgomery as being one with a purpose. “We felt as though we achieved something - we felt a sense of unity,” Newsom said. “We were very excited (because) we were going to hear from Martin Luther King. To actually be in the presence of him and the other civil rights workers there was just such enthusiasm and excitement yet there was also some apprehension of what we might encounter.” Many of the marchers showed their inspiration and determination while pressing forward towards the grounds of the Alabama Capitol building. Newsom recalled that the marchers were singing the lyrics “ain’t gonna let nobody turn me around” and “we shall overcome.” “ I started seeing people just like me,” Newsom said. “I don’t recall any of the scowling, the hitting, the things I would see on TV later. I just saw a sea of humanity marching towards the Capitol. I don’t remember what Martin Luther King said but it was always the same message: keep the faith; we’re going to get where we’re going and let us remember what our purpose is.” Newsom offers advice on what individuals can do to make their society a more productive and peaceful place. “We have come a long way and we have ways to change things that we did not have before,” Newsom said. “You need to work in positive ways to change.” Referencing the recent unrest in Ferguson, Mo., she believes that people become destructive as a way to show and vent anger. Her generation, she says, was raised to react in lawful ways – and believe in hope. “We have faith to do things in a way that was lawful and it makes me sad what people do when they feel without hope, and there is hope,” Newsom says. “Non-violence does work - we need to include everyone to make this world a better place.” Newsom graduated from Lincoln in 1969 and describes her experience at Lincoln as, “I grew up and did more growing at Lincoln than I think I did for the rest of my life.”

Development of pilus organelle subassemblies in vitro depends on chaperone uncapping of a beta zipper

The major subassemblies of virulence-associated P pili, the pilus rod (comprised of PapA) and tip fibrillum (comprised of PapE), were reconstituted from purified chaperone-subunit complexes in vitro. Subunits are held in assembly-competent conformations in chaperone-subunit complexes prior to their assembly into mature pili. The PapD chaperone binds, in part, to a conserved motif present at the C terminus of the subunits via a beta zippering interaction. Amino acid residues in this conserved motif were also found to be essential for subunit–subunit interactions necessary for the formation of pili, thus revealing a molecular mechanism whereby the PapD chaperone may prevent premature subunit–subunit interactions in the periplasm. Uncapping of the chaperone-protected C terminus of PapA and PapE was mimicked in vitro by freeze–thaw techniques and resulted in the formation of pilus rods and tip fibrillae, respectively. A mutation in the leading edge of the beta zipper of PapA produces pilus rods with an altered helical symmetry and azimuthal disorder. This change in the number of subunits per turn of the helix most likely reflects involvement of the leading edge of the beta zipper in forming a right-handed helical cylinder. Organelle development is a fundamental process in all living cells, and these studies shed new light on how immunoglobulin-like chaperones govern the formation of virulence-associated organelles in pathogenic bacteria.

Quantifying single gene copy number by measuring fluorescent probe lengths on combed genomic DNA

An approach was developed for the quantification of subtle gains and losses of genomic DNA. The approach relies on a process called molecular combing. Molecular combing consists of the extension and alignment of purified molecules of genomic DNA on a glass coverslip. It has the advantage that a large number of genomes can be combed per coverslip, which allows for a statistically adequate number of measurements to be made on the combed DNA. Consequently, a high-resolution approach to mapping and quantifying genomic alterations is possible. The approach consists of applying fluorescence hybridization to the combed DNA by using probes to identify the amplified region. Measurements then are made on the linear hybridization signals to ascertain the region's exact size. The reliability of the approach first was tested for low copy number amplifications by determining the copy number of chromosome 21 in a normal and trisomy 21 cell line. It then was tested for high copy number amplifications by quantifying the copy number of an oncogene amplified in the tumor cell line GTL-16. These results demonstrate that a wide range of amplifications can be accurately and reliably quantified. The sensitivity and resolution of the approach likewise was assessed by determining the copy number of a single allele (160 kb) alteration.

Thermodynamic basis of the enhanced specificity of structured DNA probes

Molecular beacons are DNA probes that form a stem-and-loop structure and possess an internally quenched fluorophore. When they bind to complementary nucleic acids, they undergo a conformational transition that switches on their fluorescence. These probes recognize their targets with higher specificity than probes that cannot form a hairpin stem, and they easily discriminate targets that differ from one another by only a single nucleotide. Our results show that molecular beacons can exist in three different states: bound to a target, free in the form of a hairpin structure, and free in the form of a random coil. Thermodynamic analysis of the transitions between these states reveals that enhanced specificity is a general feature of conformationally constrained probes.

Mapping the σ70 subunit contact sites on Escherichia coli RNA polymerase with a σ70-conjugated chemical protease

The core enzyme of Escherichia coli RNA polymerase acquires essential promoter recognition and transcription initiation activities by binding one of several σ subunits. To characterize the proximity between σ70, the major σ for transcription of the growth-related genes, and the core enzyme subunits (α2ββ′), we analyzed the protein-cutting patterns produced by a set of covalently tethered FeEDTA probes [FeBABE: Fe (S)-1-(p-bromoacetamidobenzyl)EDTA]. The probes were positioned in or near conserved regions of σ70 by using seven mutants, each carrying a single cysteine residue at position 132, 376, 396, 422, 496, 517, or 581. Each FeBABE-conjugated σ70 was bound to the core enzyme, which led to cleavage of nearby sites on the β and β′ subunits (but not α). Unlike the results of random cleavage [Greiner, D. P., Hughes, K. A., Gunasekera, A. H. & Meares, C. F. (1996) Proc. Natl. Acad. Sci. USA 93, 71–75], the cut sites from different probe-modified σ70 proteins are clustered in distinct regions of the subunits. On the β subunit, cleavage is observed in two regions, one between residues 383 and 554, including the conserved C and Rif regions; and the other between 854 and 1022, including conserved region G, regions of ppGpp sensitivity, and one of the segments forming the catalytic center of RNA polymerase. On the β′ subunit, the cleavage was identified within the sequence 228–461, including β′ conserved regions C and D (which comprise part of the catalytic center).

Protein fluctuations are sensed by stimulated infrared echoes of the vibrations of carbon monoxide and azide probes

The correlation functions of the fluctuations of vibrational frequencies of azide ions and carbon monoxide in proteins are determined directly from stimulated photon echoes generated with femtosecond infrared pulses. The asymmetric stretching vibration of azide bound to carbonic anhydrase II exhibits a pronounced evolution of its vibrational frequency distribution on the time scale of a few picoseconds, which is attributed to modifications of the ligand structure through interactions with the nearby Thr-199. When azide is bound in hemoglobin, a more complex evolution of the protein structure is required to interchange the different ligand configurations, as evidenced by the much slower relaxation of the frequency distribution in this case. The time evolution of the distribution of frequencies of carbon monoxide bound in hemoglobin occurs on the ≈10-ps time scale and is very nonexponential. The correlation functions of the frequency fluctuations determine the evolution of the protein structure local to the probe and the extent to which the probe can navigate those parts of the energy landscape where the structural configurations are able to modify the local potential energy function of the probe.

Coagulation initiated on herpesviruses

Herpesviruses have been previously correlated to vascular disease and shown to cause thrombogenic and atherogenic changes to host cells. Herein we show that even in the absence of cells, purified cytomegalovirus (CMV) and herpes simplex virus type 1 (HSV-1) and type 2 (HSV-2) can initiate thrombin production. Functional assays demonstrated that purified HSV-1 and HSV-2 provide the necessary phospholipid (proPL) for assembling the coagulation factors Xa and Va into prothrombinase, which is responsible for generating thrombin. These observations are consistent with our earlier studies involving CMV. The presence of proPL on all three herpesviruses was confirmed directly by flow cytometry and electron microscopy by using annexin V and factor Va, respectively, as proPL-specific probes. Of equal importance, we found that CMV, HSV-1, and HSV-2 were also able to facilitate factor Xa generation from the inactive precursor factor X, but only when factor VII/VIIa and Ca2+ were present. Monoclonal antibodies specific for tissue factor (TF), the coagulation initiator, inhibited this factor X activation and, furthermore, enabled identification of TF antigen on each virus type by flow cytometry and electron microscopy. Collectively, these data show that CMV, HSV-1, and HSV-2 can initiate the generation of thrombin by having essential proPL and TF activities on their surface. Unlike the normal cellular source, the viral activity is constitutive and, therefore, not restricted to sites of vascular injury. Thus cell-independent thrombin production may be the earliest event in vascular pathology mediated by herpesviruses.

Arrayed transposase-binding sequences on the ends of transposon Tn5090/Tn402

The transposon Tn5090/Tn402 encodes a 559 amino acid transposase, TniA, with a DDE motif. Gel mobility shifting and cleavage protection analysis with DNase I and hydroxyl radical probes revealed that TniA binds to multiple repeat sequences on either terminus of Tn5090/Tn402. Four of these TniA-binding 19mers occurred on the left-hand (t) end and two on the right-hand (i) end. Hydroxyl radical cleavage protection demonstrated the presence of 3–6 bp contact sequences on one face of the DNA helix. The binding pattern and organisation of repeats suggested parallels between Tn5090/Tn402 and Mu, which controls its transpositional activity in the assembly step of a higher order transpososome complex. The complex terminal structure and genes of transposase and nucleotide-binding proteins in tandem are hallmarks of the handful of Mu-like elements that are known to date.

Hybridization of single-stranded DNA targets to immobilized complementary DNA probes: comparison of hairpin versus linear capture probes

A microtiter-based assay system is described in which DNA hairpin probes with dangling ends and single-stranded, linear DNA probes were immobilized and compared based on their ability to capture single-strand target DNA. Hairpin probes consisted of a 16 bp duplex stem, linked by a T2-biotin·dT-T2 loop. The third base was a biotinylated uracil (UB) necessary for coupling to avidin coated microtiter wells. The capture region of the hairpin was a 3′ dangling end composed of either 16 or 32 bases. Fundamental parameters of the system, such as probe density and avidin adsorption capacity of the plates were characterized. The target DNA consisted of 65 bases whose 3′ end was complementary to the dangling end of the hairpin or to the linear probe sequence. The assay system was employed to measure the time dependence and thermodynamic stability of target hybridization with hairpin and linear probes. Target molecules were labeled with either a 5′-FITC, or radiolabeled with [γ-33P]ATP and captured by either linear or hairpin probes affixed to the solid support. Over the range of target concentrations from 10 to 640 pmol hybridization rates increased with increasing target concentration, but varied for the different probes examined. Hairpin probes displayed higher rates of hybridization and larger equilibrium amounts of captured targets than linear probes. At 25 and 45°C, rates of hybridization were better than twice as great for the hairpin compared with the linear capture probes. Hairpin–target complexes were also more thermodynamically stable. Binding free energies were evaluated from the observed equilibrium constants for complex formation. Results showed the order of stability of the probes to be: hairpins with 32 base dangling ends > hairpin probes with l6 base dangling ends > 16 base linear probes > 32 base linear probes. The physical characteristics of hairpins could offer substantial advantages as nucleic acid capture moieties in solid support based hybridization systems.

Lifespan depends on month of birth

Month of birth influences adult life expectancy at ages 50+. Why? In two countries of the Northern Hemisphere–Austria and Denmark–people born in autumn (October–December) live longer than those born in spring (April–June). Data for Australia show that, in the Southern Hemisphere, the pattern is shifted by half a year. The lifespan pattern of British immigrants to Australia is similar to that of Austrians and Danes and significantly different from that of Australians. These findings are based on population data with more than a million observations and little or no selectivity. The differences in lifespan are independent of the seasonal distribution of deaths and the social differences in the seasonal distribution of births. In the Northern Hemisphere, the excess mortality in the first year of life of infants born in spring does not support the explanation of selective infant survival. Instead, remaining life expectancy at age 50 appears to depend on factors that arise in utero or early in infancy and that increase susceptibility to diseases later in life. This result is consistent with the finding that, at the turn of the last century, infants born in autumn had higher birth weights than those born in other seasons. Furthermore, differences in adult lifespan by month of birth decrease over time and are significantly smaller in more recent cohorts, which benefited from substantial improvements in maternal and infant health.