Population structure and recent evolution of Plasmodium falciparum

Plasmodium falciparum is the agent of malignant malaria, one of mankind's most severe maladies. The parasite exhibits antigenic polymorphisms that have been postulated to be ancient. We have proposed that the extant world populations of P. falciparum have derived from one single parasite, a cenancestor, within the last 5,000–50,000 years. This inference derives from the virtual or complete absence of synonymous nucleotide polymorphisms at genes not involved in immune or drug responses. Seeking to conciliate this claim with extensive antigenic polymorphism, we first note that allele substitutions or polymorphisms can arise very rapidly, even in a single generation, in large populations subject to strong natural selection. Second, new alleles can arise not only by single-nucleotide mutations, but also by duplication/deletion of short simple-repeat DNA sequences, a process several orders of magnitude faster than single-nucleotide mutation. We analyze three antigenic genes known to be extremely polymorphic: Csp, Msp-1, and Msp-2. We identify regions consisting of tandem or proximally repetitive short DNA sequences, including some previously unnoticed. We conclude that the antigenic polymorphisms are consistent with the recent origin of the world populations of P. falciparum inferred from the analysis of nonantigenic genes.

Transposons and genome evolution in plants

Although it is known today that transposons comprise a significant fraction of the genomes of many organisms, they eluded discovery through the first half century of genetic analysis and even once discovered, their ubiquity and abundance were not recognized for some time. This genetic invisibility of transposons focuses attention on the mechanisms that control not only transposition, but illegitimate recombination. The thesis is developed that the mechanisms that control transposition are a reflection of the more general capacity of eukaryotic organisms to detect, mark, and retain duplicated DNA through repressive chromatin structures.

Maternal effects and the evolution of aposematic signals

Aposematic signals that warn predators of the noxious qualities of prey gain their greatest selective advantage when predators have already experienced similar signals. Existing theory explains how such signals can spread through selective advantage after they are present at some critical frequency, but is unclear about how warning signals can be selectively advantageous when the trait is initially rare (i.e., when it first arises through mutation) and predators are naive. When aposematism is controlled by a maternal effect gene, the difficulty of initial rarity may be overcome. Unlike a zygotically expressed gene, a maternally expressed aposematism gene will be hidden from selection because it is not phenotypically expressed in the first individual with the mutation. Furthermore, the first individual carrying the new mutation will produce an entire family of aposematic offspring, thereby providing an immediate fitness advantage to this gene.

Common endocrine and genetic mechanisms of behavioral development in male and worker honey bees and the evolution of division of labor.

Temporal polyethism is a highly derived form of behavioral development displayed by social insects. Hormonal and genetic mechanisms regulating temporal polyethism in worker honey bees have been identified, but the evolution of these mechanisms is not well understood. We performed three experiments with male honey bees (drones) to investigate how mechanisms regulating temporal polyethism may have evolved because, relative to workers, drones display an intriguing combination of similarities and differences in behavioral development. We report that behavioral development in drones is regulated by mechanisms common to workers. In experiment 1, drones treated with the juvenile hormone (JH) analog methoprene started flying at significantly younger ages than did control drones, as is the case for workers. In experiment 2, there was an age-related increase in JH associated with the onset of drone flight, as in workers. In experiment 3, drones derived from workers with fast rates of behavioral development themselves started flying at younger ages than drones derived from workers with slower rates of behavioral development. These results suggest that endocrine and genetic mechanisms associated with temporal polyethism did not evolve strictly within the context of worker social behavior.

Intron phase correlations and the evolution of the intron/exon structure of genes.

Two issues in the evolution of the intron/exon structure of genes are the role of exon shuffling and the origin of introns. Using a large data base of eukaryotic intron-containing genes, we have found that there are correlations between intron phases leading to an excess of symmetric exons and symmetric exon sets. We interpret these excesses as manifestations of exon shuffling and make a conservative estimate that at least 19% of the exons in the data base were involved in exon shuffling, suggesting an important role for exon shuffling in evolution. Furthermore, these excesses of symmetric exons appear also in those regions of eukaryotic genes that are homologous to prokaryotic genes: the ancient conserved regions. This last fact cannot be explained in terms of the insertional theory of introns but rather supports the concept that some of the introns were ancient, the exon theory of genes.

Documentation of reticulate evolution in peonies (Paeonia) using internal transcribed spacer sequences of nuclear ribosomal DNA: implications for biogeography and concerted evolution.

The internal transcribed spacers (ITS) of nuclear ribosomal DNA of 33 species of genus Paeonia (Paeoniaceae) were sequenced. In section Paeonia, different patterns of nucleotide additivity were detected in 14 diploid and tetraploid species at sites that are variable in the other 12 species of the section, suggesting that reticulate evolution has occurred. Phylogenetic relationships of species that do not show additivity, and thus ostensibly were not derived through hybridization, were reconstructed by parsimony analysis. The taxa presumably derived through reticulate evolution were then added to the phylogenetic tree according to additivity from putative parents. The study provides an example of successfully using ITS sequences to reconstruct reticulate evolution in plants and further demonstrates that the sequence data could be highly informative and accurate for detecting hybridization. Maintenance of parental sequences in the species of hybrid origin is likely due to slowing of concerted evolution caused by the long generation time of peonies. The partial and uneven homogenization of parental sequences displayed in nine species of putative hybrid origin may have resulted from gradients of gene conversion. The documented hybridizations may have occurred since the Pleistocene glaciations. The species of hybrid origin and their putative parents are now distantly allopatric. Reconstruction of reticulate evolution with sequence data, therefore, provides gene records for distributional histories of some of the parental species.

The Eclogitic Gneisses of the Cabo Ortegal Complex: provenance and tectonothermal evolution (zircon U-Pb/ Lu-Hf methods)

El cinturón Varisco se formó cuando varios continentes interactuaron para acabar formando el supercontinente de Pangea. La tesis que aquí se presenta se enmarca en este contexto general de interacción continental y desarrollo orogénico. El principal objetivo es explorar la formación, las fuentes y el desarrollo de un terreno metamórfico de alto grado involucrado en la orogénesis Varisca. En esta tesis se hace especial hincapié en los Gneises Eclogíticos (Gneises Bandeados), los cuales están incluidos en el miembro de alta presión y alta temperatura (HP–HT) del Alóctono Superior del Complejo de Cabo Ortegal (NO de Iberia). También se aborda el estudio de otros miembros del Alóctono Superior, como la banda principal de eclogitas y los Gneises de Cariño, con el fin de tener más herramientas para abordar la evolución tectonotermal general. Para cumplir con los objetivos de esta tesis se han aplicado varios métodos. El primer grupo de métodos tenían por objetivo reconocer y describir el objeto de estudio, desde un punto de vista macroscópico (cartografía y representación detallada de secciones geológicas) hasta un punto de vista microscópico (observación y descripción de láminas delgadas). Una vez terminado el reconocimiento de las diferentes litologías y de la revisión bibliográfica pertinente, se llevaron a cabo determinaciones isotópicas detalladas. Se aplicaron métodos isotópicos U–Pb, Lu–Hf y Sm–Nd en las formaciones estudiadas para conocer las áreas fuente de los materiales detríticos, las edades de cristalización, las fuentes ígneas primigenias y la edad y las condiciones del metamorfismo de alto grado desarrollado en las rocas ígneas estudiadas...

Distance Education and the Evolution of Online Learning in the United States

Online education is no longer a trend, rather it is mainstream. In the Fall of 2012, 69.1% of chief academic leaders indicated online learning was critical to their long-term strategy and of the 20.6 million students enrolled in higher education, 6.7 million were enrolled in an online course (Allen & Seaman, 2013; United States Department of Education, 2013). The advent of online education and its rapid growth has forced academic institutions and faculty to question the current styles and techniques for teaching and learning. As developments in educational technology continue to advance, the ways in which we deliver and receive knowledge in both the traditional and online classrooms will further evolve. It is necessary to investigate and understand the progression and advancements in educational technology and the variety of methods used to deliver knowledge to improve the quality of education we provide today and motivate, inspire, and educate the students of the 21st century. This paper explores the atioevolution of distance education beginning with correspondence and the use of parcel post, to radio, then to television, and finally to online education.

Quiescent state and outburst evolution of SGR 0501+4516

We report on the quiescent state of the soft gamma repeater SGR 0501+4516 observed by XMM–Newton on 2009 August 30. The source exhibits an absorbed flux ∼75 times lower than that measured at the peak of the 2008 outburst, and a rather soft spectrum, with the same value of the blackbody temperature observed with ROSAT back in 1992. This new observation is put into the context of all existing X-ray data since its discovery in 2008 August, allowing us to complete the study of the timing and spectral evolution of the source from outburst until its quiescent state. The set of deep XMM–Newton observations performed during the few years time-scale of its outburst allows us to monitor the spectral characteristics of this magnetar as a function of its rotational period, and their evolution along these years. After the first ∼10 d, the initially hot and bright surface spot progressively cooled down during the decay. We discuss the behaviour of this magnetar in the context of its simulated secular evolution, inferring a plausible dipolar field at birth of 3 × 1014 G, and a current (magnetothermal) age of ∼10 kyr.

Ecological gradients and landscape structure affecting seasonal woodpigeon Columba palumbus densities in a coastal region (South-East Spain)

The aim of the present study is to identify and evaluate the relationship between Woodpigeon (Columba palumbus, Linnaeus, 1758) density and different environmental gradients (thermotype, ombrotype, continentality and latitudinal), land use and landscape structure, using geographic information systems and multivariate modelling. Transects (n = 396) were developed to estimate the density of Woodpigeon in the Marina Baja (Alicante, Spain) from 2006 to 2008. The highestdensity for Woodpigeon was in September-October (1.28birds/10ha) and the lowest inFebruary-March (0.34birds/10ha). Moreover, there were more Woodpigeons in areas with a mesomediterranean thermotypethan in thermomediterranean or supramediterranean ones. There was greater densityinthe intermediate zones compared to thecoast and interior. The natural or cultural landscape had the highest Woodpigeon density (1.53birds/10ha), with both denseand clear pine forest values standing out. Therefore, it is very important to conserve these traditional landscapes with adequate management strategies in order to maintain, resident and transient Woodpigeon populations. These natural areas are open places where the Woodpigeons find food and detect the presence ofpredators. Thus, this study will enable more precise knowledge of the ecological factors (habitat variables) that intervene in the distribution of Woodpigeon populations and their density.

Kinetic Analysis and Pollutant Evolution During Thermal Degradation of Printed Circuit Boards Considering the Effect of Metals

Paper submitted to the 7th International Symposium on Feedstock Recycling of Polymeric Materials (7th ISFR 2013), New Delhi, India, 23-26 October 2013.

Main ecological gradients and landscape matrix affect wild rabbit Oryctolagus cuniculus (Linnaeus, 1758) (Mammalia: Leporidae) abundance in a coastal region (South-East Spain)

Landscape analysis with transects, in the Marina Baja area (province of Alicante, Spain), has contributed to establish the influence of different landscape matrices and some environmental gradients on wild rabbit Oryctolagus cuniculus (Linnaeus, 1758) (Mammalia: Leporidae) abundance (kilometric abundance index, KAI). Transects (n = 396) were developed to estimate the abundance of this species in the study area from 2006 to 2008.Our analysis shows that rabbits have preferences for a specific land use matrix (irrigated: KAI = 3.47 ± 1.14 rabbits/km). They prefer the coastal area (KAI = 3.82 ± 1.71 rabbits/km), which coincides with thermo-Mediterranean (a bioclimatic belt with a tempered winter and a hot and dry summer with high human density), as opposed to areas in the interior (continental climate with lower human occupation). Their preference for the southern area of the region was also noted (KAI = 8.22 ± 3.90 rabbits/km), which coincides with the upper semi-arid area, as opposed to the northern and intermediate areas (the north of the region coinciding with the upper dry and the intermediate area with the lower dry). On the other hand, we found that the number of rabbits increased during the 3-year study period, with the highest abundance (KAI = 2.71 ± 1.30 rabbits/km) inMay. Thus, this study will enable more precise knowledge of the ecological factors (habitat variables) that intervene in the distribution of wild rabbit populations in a poorly studied area.

Middle Miocene isotope stratigraphy and paleoceanographic evolution of the northwest and southwest Australian margins (Wombat Plateau and Great Australian Bight)

The benthic stable isotope record from ODP Site 761 (Wombat Plateau, NW Australia, 2179.3 m water depth) documents complete recovery of the middle Miocene delta13C excursion corresponding to the climatic optimum and subsequent expansion of the East Antarctic Ice Sheet. The six main delta13C maxima of the "Monterey Excursion" between 16.4 and 13.6 Ma and the characteristic stepped increase in delta18O between 14.5 and 13.9 Ma are clearly identified. The sedimentary record of the shallower ODP Sites 1126 and 1134 [Great Australian Bight (GAB), SWAustralia, 783.8 and 701 m water depth, respectively] is truncated by several unconformities. However, a composite benthic stable isotope curve for these sites provides a first middle Miocene bathyal record for southwest Australia. The delta18O and delta13C curves for Sites 1126 and 1134 indicate a cooler, better-ventilated water mass at ~700 m water depth in the Great Australian Bight since approximately 16 Ma. This cooler and younger water mass probably originated from a close southern source. Cooling of the bottom water at ~16 Ma started much earlier than at other sites of equivalent paleodepths in the central and western parts of the Indian Ocean. At Site 761, the delta18O curve shows an excellent match with the global sea level curve between ~11.5 and 15.1 Ma, and thus closely reflects changes in global ice volume. Prior to 15.1 Ma, the mismatch between the delta18O curve and the sea level curve indicates that delta18O fluctuations are mainly due to changes in bottom water temperature.