Severe mammal declines coincide with proliferation of invasive Burmese pythons in Everglades National Park

USGS Publications Warehouse

Dorcas, Michael E.; Wilson, John D.; Reed, Robert N.; Snow, Ray W.; Rochford, Michael R.; Miller, Melissa A.; Meshaka, Walter E.; Andreadis, Paul T.; Mazzotti, Frank J.; Romagosa, Christina M.; Hart, Kristen M.

2012-01-01

Invasive species represent a significant threat to global biodiversity and a substantial economic burden. Burmese pythons, giant constricting snakes native to Asia, now are found throughout much of southern Florida, including all of Everglades National Park (ENP). Pythons have increased dramatically in both abundance and geographic range since 2000 and consume a wide variety of mammals and birds. Here we report severe apparent declines in mammal populations that coincide temporally and spatially with the proliferation of pythons in ENP. Before 2000, mammals were encountered frequently during nocturnal road surveys within ENP. In contrast, road surveys totaling 56,971 km from 2003–2011 documented a 99.3% decrease in the frequency of raccoon observations, decreases of 98.9% and 87.5% for opossum and bobcat observations, respectively, and failed to detect rabbits. Road surveys also revealed that these species are more common in areas where pythons have been discovered only recently and are most abundant outside the python's current introduced range. These findings suggest that predation by pythons has resulted in dramatic declines in mammals within ENP and that introduced apex predators, such as giant constrictors, can exert significant top-down pressure on prey populations. Severe declines in easily observed and/or common mammals, such as raccoons and bobcats, bode poorly for species of conservation concern, which often are more difficult to sample and occur at lower densities.

Rapid microsatellite marker development using next generation pyrosequencing to inform invasive Burmese python -- Python molurus bivittatus -- management

USGS Publications Warehouse

Hunter, Margaret E.; Hart, Kristen M.

2013-01-01

Invasive species represent an increasing threat to native ecosystems, harming indigenous taxa through predation, habitat modification, cross-species hybridization and alteration of ecosystem processes. Additionally, high economic costs are associated with environmental damage, restoration and control measures. The Burmese python, Python molurus bivittatus, is one of the most notable invasive species in the US, due to the threat it poses to imperiled species and the Greater Everglades ecosystem. To address population structure and relatedness, next generation sequencing was used to rapidly produce species-specific microsatellite loci. The Roche 454 GS-FLX Titanium platform provided 6616 di-, tri- and tetra-nucleotide repeats in 117,516 sequences. Using stringent criteria, 24 of 26 selected tri- and tetra-nucleotide loci were polymerase chain reaction (PCR) amplified and 18 were polymorphic. An additional six cross-species loci were amplified, and the resulting 24 loci were incorporated into eight PCR multiplexes. Multi-locus genotypes yielded an average of 61% (39%–77%) heterozygosity and 3.7 (2–6) alleles per locus. Population-level studies using the developed microsatellites will track the invasion front and monitor population-suppression dynamics. Additionally, cross-species amplification was detected in the invasive Ball, P. regius, and Northern African python, P. sebae. These markers can be used to address the hybridization potential of Burmese pythons and the larger, more aggressive P. sebae.

Ecological correlates of invasion impact for Burmese pythons in Florida.

PubMed

Reed, Robert N; Willson, John D; Rodda, Gordon H; Dorcas, Michael E

2012-09-01

An invasive population of Burmese pythons (Python molurus bivittatus) is established across several thousand square kilometers of southern Florida and appears to have caused precipitous population declines among several species of native mammals. Why has this giant snake had such great success as an invasive species when many established reptiles have failed to spread? We scored the Burmese python for each of 15 literature-based attributes relative to predefined comparison groups from a diverse range of taxa and provide a review of the natural history and ecology of Burmese pythons relevant to each attribute. We focused on attributes linked to spread and magnitude of impacts rather than establishment success. Our results suggest that attributes related to body size and generalism appeared to be particularly applicable to the Burmese python's success in Florida. The attributes with the highest scores were: high reproductive potential, low vulnerability to predation, large adult body size, large offspring size and high dietary breadth. However, attributes of ectotherms in general and pythons in particular (including predatory mode, energetic efficiency and social interactions) might have also contributed to invasion success. Although establishment risk assessments are an important initial step in prevention of new establishments, evaluating species in terms of their potential for spreading widely and negatively impacting ecosystems might become part of the means by which resource managers prioritize control efforts in environments with large numbers of introduced species. © 2012 Wiley Publishing Asia Pty Ltd, ISZS and IOZ/CAS.

Rapid Microsatellite Marker Development Using Next Generation Pyrosequencing to Inform Invasive Burmese Python—Python molurus bivittatus—Management

PubMed Central

Hunter, Margaret E.; Hart, Kristen M.

2013-01-01

Invasive species represent an increasing threat to native ecosystems, harming indigenous taxa through predation, habitat modification, cross-species hybridization and alteration of ecosystem processes. Additionally, high economic costs are associated with environmental damage, restoration and control measures. The Burmese python, Python molurus bivittatus, is one of the most notable invasive species in the US, due to the threat it poses to imperiled species and the Greater Everglades ecosystem. To address population structure and relatedness, next generation sequencing was used to rapidly produce species-specific microsatellite loci. The Roche 454 GS-FLX Titanium platform provided 6616 di-, tri- and tetra-nucleotide repeats in 117,516 sequences. Using stringent criteria, 24 of 26 selected tri- and tetra-nucleotide loci were polymerase chain reaction (PCR) amplified and 18 were polymorphic. An additional six cross-species loci were amplified, and the resulting 24 loci were incorporated into eight PCR multiplexes. Multi-locus genotypes yielded an average of 61% (39%–77%) heterozygosity and 3.7 (2–6) alleles per locus. Population-level studies using the developed microsatellites will track the invasion front and monitor population-suppression dynamics. Additionally, cross-species amplification was detected in the invasive Ball, P. regius, and Northern African python, P. sebae. These markers can be used to address the hybridization potential of Burmese pythons and the larger, more aggressive P. sebae. PMID:23449030

Assessing risks to humans from invasive Burmese pythons in Everglades National Park, Florida, USA

USGS Publications Warehouse

Reed, Robert N.; Snow, Ray W.

2014-01-01

Invasive Burmese pythons (Python molurus bivittatus) are now established across a large area of southern Florida, USA, including all of Everglades National Park (NP). The presence of these large-bodied snakes in the continental United States has attracted intense media attention, including regular reference to the possibility of these snakes preying on humans. Over the course of a decade (2003–2012), we solicited reports of apparently unprovoked strikes directed at humans in Everglades NP. We summarize the circumstances surrounding each of the 5 reported incidents, which occurred between 2006 and 2012. All strikes were directed toward biologists moving through flooded wetlands; 2 strikes resulted in minor injury and none resulted in constriction. We consider most of these strikes to be cases of “mistaken identity,” in which the python initiated a strike at a potential prey item but aborted its predatory behavior prior to constriction and ingestion. No strikes are known to have been directed at park visitors despite visitation rates averaging over one million per year during this period. We conclude that while risks to humans should not be completely discounted, the relative risk of a human being killed by a python in Everglades NP appears to be extremely low.

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

Blom, Philip Stephen; Marcillo, Omar Eduardo; Euler, Garrett Gene

InfraPy is a Python-based analysis toolkit being development at LANL. The algorithms are intended for ground-based nuclear detonation detection applications to detect, locate, and characterize explosive sources using infrasonic observations. The implementation is usable as a stand-alone Python library or as a command line driven tool operating directly on a database. With multiple scientists working on the project, we've begun using a LANL git repository for collaborative development and version control. Current and planned work on InfraPy focuses on the development of new algorithms and propagation models. Collaboration with Southern Methodist University (SMU) has helped identify bugs and limitations ofmore » the algorithms. The current focus of usage development is focused on library imports and CLI.« less

Ancient scientific basis of the "great serpent" from historical evidence.

PubMed

Stothers, Richard B

2004-06-01

Zoological data and a growing mythology contributed to ancient Western knowledge about large serpents. Yet little modern attention has been paid to the sources, transmission, and receipt in the early Middle Ages of the ancients' information concerning "dragons" and "sea serpents." Real animals--primarily pythons and whales--lie behind the ancient stories. Other animals, conflations of different animals, simple misunderstandings, and willful exaggerations are found to account for the fanciful embellishments, but primitive myths played no significant role in this process during classical times. The expedition of Alexander the Great into India (327-325 B.C.) and the Bagradas River incident in North Africa (256 B.C.) had enormous repercussions on the development of serpent lore. Credible evidence is found for the presence of ancient populations of pythons living along the North African coast west of Egypt and along the coast of the Arabian Sea between the Indus River and the Strait of Hormuz--places where they no longer exist today. The maximum sizes of ancient pythons may have been greater than those of today's specimens.

Ancient scientific basis of the "great serpent" from historical evidence

NASA Technical Reports Server (NTRS)

Stothers, Richard B.

2004-01-01

Zoological data and a growing mythology contributed to ancient Western knowledge about large serpents. Yet little modern attention has been paid to the sources, transmission, and receipt in the early Middle Ages of the ancients' information concerning "dragons" and "sea serpents." Real animals--primarily pythons and whales--lie behind the ancient stories. Other animals, conflations of different animals, simple misunderstandings, and willful exaggerations are found to account for the fanciful embellishments, but primitive myths played no significant role in this process during classical times. The expedition of Alexander the Great into India (327-325 B.C.) and the Bagradas River incident in North Africa (256 B.C.) had enormous repercussions on the development of serpent lore. Credible evidence is found for the presence of ancient populations of pythons living along the North African coast west of Egypt and along the coast of the Arabian Sea between the Indus River and the Strait of Hormuz--places where they no longer exist today. The maximum sizes of ancient pythons may have been greater than those of today's specimens.

Language Policy and Practice in the Multilingual Southern African Development Community

ERIC Educational Resources Information Center

Mooko, Theophilus

2009-01-01

This study explores the language policy and practice of the Southern African Development Community (SADC), an African regional economic organisation made up of 14 member states (Angola, Botswana, Democratic Republic of Congo, Lesotho, Madagascar, Malawi, Mauritius, Mozambique, Namibia, South Africa, Swaziland, United Republic of Tanzania, Zambia…

Honey bees (Hymenoptera: Apidae) of African origin exist in non-africanized areas of the southern United States: evidence from mitochondrial DNA

Treesearch

M.A. Pinto; W.S. Sheppard; J.S. Johnston; W.L. Rubink; R.N. Coulson; N.M. Schiff; I. Kandemir; J.C. Patton

2007-01-01

Descendents of Apis mellifera scutellata Lepeletier (Hymenoptera: Apidae) (the Africanized honey bee) arrived in the United States in 1990. Whether this was the first introduction is uncertain. A survey of feral honey bees from non-Africanized areas of the southern United States revealed three colonies (from Georgia, Texas, and New Mexico) with a...

Mechanisms of Vowel Variation in African American English.

PubMed

Holt, Yolanda Feimster

2018-02-15

This research explored mechanisms of vowel variation in African American English by comparing 2 geographically distant groups of African American and White American English speakers for participation in the African American Shift and the Southern Vowel Shift. Thirty-two male (African American: n = 16, White American controls: n = 16) lifelong residents of cities in eastern and western North Carolina produced heed,hid,heyd,head,had,hod,hawed,whod,hood,hoed,hide,howed,hoyd, and heard 3 times each in random order. Formant frequency, duration, and acoustic analyses were completed for the vowels /i, ɪ, e, ɛ, æ, ɑ, ɔ, u, ʊ, o, aɪ, aʊ, oɪ, ɝ/ produced in the listed words. African American English speakers show vowel variation. In the west, the African American English speakers are participating in the Southern Vowel Shift and hod fronting of the African American Shift. In the east, neither the African American English speakers nor their White peers are participating in the Southern Vowel Shift. The African American English speakers show limited participation in the African American Shift. The results provide evidence of regional and socio-ethnic variation in African American English in North Carolina.

Threatened southern African soils: A need for appropriate ecotoxicological risk assessment

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

Eijsackers, Herman; Reinecke, Adriaan; Reinecke, Sophie

In southern Africa arable soils are limited due to low rainfall and are threatened by anthropogenic activities like agriculture and mining making it susceptible to degradation. The aim of this study is to review the existing information available with regards to soil contamination and its possible threats towards biodiversity and quality of southern African soils. Some of the issues being addressed in this paper include the focus areas of ecotoxicological research in southern African countries, levels of contaminants in soils, the impacts of climate on soil animals and the representativity of standardised test species. In order to address this, wemore » report on a literature search, which was done to determine the main focus areas of soil ecotoxicological research, highlighting strengths and research needs in comparison to approaches elsewhere in the world. Further, to address if the risk assessment approaches of Europe and the USA are valid for southern African environmental conditions; this in the light of differences in temperature, rainfall and fauna. It is concluded that risk assessment procedures for Europe and the USA were based on non-southern African conditions making it necessary to rethink risk assessment studies; although limited, in southern Africa. We recommend future research that has to be undertaken to address these issues. This research should include investigating species sensitivities in responses to contamination and including insects likes ants and termites in ecological risk assessment studies.« less

Southern Coup: Recruiting African American Faculty Members at an Elite Private Southern Research University

ERIC Educational Resources Information Center

Barrett, Thomas Gregory; Smith, Theophus

2008-01-01

Competition for highly qualified African American faculty members among elite universities in the United States remains keen. Two of the most successful research universities at recruiting African American faculty members are located in the Southeast. Employing a conceptual framework grounded in organizational culture and climate literature, in…

21st Century African Philosophy of Adult and Human Resource Education in Southern Africa

ERIC Educational Resources Information Center

Mutamba, Charlene

2012-01-01

This paper will attempt to define a philosophy of adult education for the purpose of workforce development in Southern Africa. The different influences such as Ubuntu and communalism, indigenous education, diversity western philosophy, globalization and technology are explored in the context of the Southern African region.

Suicidality in African American Men: The Roles of Southern Residence, Religiosity, and Social Support

ERIC Educational Resources Information Center

Wingate, LaRicka R.; Bobadilla, Leonardo; Burns, Andrea B.; Cukrowicz, Kelly C.; Hernandez, Annya; Ketterman, Rita L.; Minnix, Jennifer; Petty, Scharles; Richey, J. Anthony; Sachs-Ericsson, Natalie; Stanley, Sheila; Williams, Foluso M.; Joiner, Thomas E., Jr.

2005-01-01

The rise in suicide by African Americans in the United States is directly attributable to the dramatic, nearly three-fold increase in suicide rates of African American males. Gibbs (1997) hypothesized high social support, religiosity, and southern residence are protective factors against suicidality for Black people. This hypothesis was tested…

A genomic portrait of haplotype diversity and signatures of selection in indigenous southern African populations.

PubMed

Chimusa, Emile R; Meintjies, Ayton; Tchanga, Milaine; Mulder, Nicola; Seoighe, Cathal; Seioghe, Cathal; Soodyall, Himla; Ramesar, Rajkumar

2015-03-01

We report a study of genome-wide, dense SNP (∼ 900K) and copy number polymorphism data of indigenous southern Africans. We demonstrate the genetic contribution to southern and eastern African populations, which involved admixture between indigenous San, Niger-Congo-speaking and populations of Eurasian ancestry. This finding illustrates the need to account for stratification in genome-wide association studies, and that admixture mapping would likely be a successful approach in these populations. We developed a strategy to detect the signature of selection prior to and following putative admixture events. Several genomic regions show an unusual excess of Niger-Kordofanian, and unusual deficiency of both San and Eurasian ancestry, which were considered the footprints of selection after population admixture. Several SNPs with strong allele frequency differences were observed predominantly between the admixed indigenous southern African populations, and their ancestral Eurasian populations. Interestingly, many candidate genes, which were identified within the genomic regions showing signals for selection, were associated with southern African-specific high-risk, mostly communicable diseases, such as malaria, influenza, tuberculosis, and human immunodeficiency virus/AIDs. This observation suggests a potentially important role that these genes might have played in adapting to the environment. Additionally, our analyses of haplotype structure, linkage disequilibrium, recombination, copy number variation and genome-wide admixture highlight, and support the unique position of San relative to both African and non-African populations. This study contributes to a better understanding of population ancestry and selection in south-eastern African populations; and the data and results obtained will support research into the genetic contributions to infectious as well as non-communicable diseases in the region.

A Genomic Portrait of Haplotype Diversity and Signatures of Selection in Indigenous Southern African Populations

PubMed Central

Chimusa, Emile R.; Meintjies, Ayton; Tchanga, Milaine; Mulder, Nicola; Seoighe, Cathal; Soodyall, Himla; Ramesar, Rajkumar

2015-01-01

We report a study of genome-wide, dense SNP (∼900K) and copy number polymorphism data of indigenous southern Africans. We demonstrate the genetic contribution to southern and eastern African populations, which involved admixture between indigenous San, Niger-Congo-speaking and populations of Eurasian ancestry. This finding illustrates the need to account for stratification in genome-wide association studies, and that admixture mapping would likely be a successful approach in these populations. We developed a strategy to detect the signature of selection prior to and following putative admixture events. Several genomic regions show an unusual excess of Niger-Kordofanian, and unusual deficiency of both San and Eurasian ancestry, which were considered the footprints of selection after population admixture. Several SNPs with strong allele frequency differences were observed predominantly between the admixed indigenous southern African populations, and their ancestral Eurasian populations. Interestingly, many candidate genes, which were identified within the genomic regions showing signals for selection, were associated with southern African-specific high-risk, mostly communicable diseases, such as malaria, influenza, tuberculosis, and human immunodeficiency virus/AIDs. This observation suggests a potentially important role that these genes might have played in adapting to the environment. Additionally, our analyses of haplotype structure, linkage disequilibrium, recombination, copy number variation and genome-wide admixture highlight, and support the unique position of San relative to both African and non-African populations. This study contributes to a better understanding of population ancestry and selection in south-eastern African populations; and the data and results obtained will support research into the genetic contributions to infectious as well as non-communicable diseases in the region. PMID:25811879

New insights into the history of the C-14010 lactase persistence variant in Eastern and Southern Africa.

PubMed

Macholdt, Enrico; Slatkin, Montgomery; Pakendorf, Brigitte; Stoneking, Mark

2015-04-01

Lactase persistence (LP), the ability to digest lactose into adulthood, is strongly associated with the cultural traits of pastoralism and milk-drinking among human populations, and several different genetic variants are known that confer LP. Recent studies of LP variants in Southern African populations, with a focus on Khoisan-speaking groups, found high frequencies of an LP variant (the C-14010 allele) that also occurs in Eastern Africa, and concluded that the C-14010 allele was brought to Southern Africa via a migration of pastoralists from Eastern Africa. However, this conclusion was based on indirect evidence; to date no study has jointly analyzed data on the C-14010 allele from both Southern African Khoisan-speaking groups and Eastern Africa. Here, we combine and analyze published data on the C-14010 allele in Southern and Eastern African populations, consisting of haplotypes with the C-14010 allele and four closely-linked short tandem repeat loci. Our results provide direct evidence for the previously-hypothesized Eastern African origin of the C-14010 allele in Southern African Khoisan-speaking groups. In addition, we find evidence for a separate introduction of the C-14010 allele into the Bantu-speaking Xhosa. The estimated selection intensity on the C-14010 allele in Eastern Africa is lower than that in Southern Africa, which suggests that in Eastern Africa the dietary changes conferring the fitness advantage associated with LP occurred some time after the origin of the C-14010 allele. Conversely, in Southern Africa the fitness advantage was present when the allele was introduced, as would be expected if pastoralism was introduced concomitantly. © 2014 Wiley Periodicals, Inc.

Astronomy Landscape in Africa

NASA Astrophysics Data System (ADS)

Nemaungani, Takalani

2015-01-01

The vision for astronomy in Africa is embedded in the African Space Policy of the African Union in early 2014. The vision is about positioning Africa as an emerging hub for astronomy sciences and facilities. Africa recognized the need to take advantage of its natural resource, the geographical advantage of the clear southern skies and pristine sites for astronomy. The Pan African University (PAU) initiative also presents an opportunity as a post-graduate training and research network of university nodes in five regions of Africa and supported by the African Union. The Southern African node based in South Africa concentrates on space sciences which also includes astronomy. The PAU aims to provide the opportunity for advanced graduate training and postgraduate research to high-performing African students. Objectives also include promoting mobility of students and teachers and harmonizing programs and degrees.A number of astronomy initiatives have burgeoned in the Southern African region and these include the Southern Africa Largest Optical Telescope (SALT), HESS (High Energy Stereoscopic System), the SKA (Square Kilometre Array) and the AVN (African Very Long Baseline Interferometer Network). There is a growing appetite for astronomy sciences in Africa. In East Africa, the astronomy community is well organized and is growing - the East African Astronomical society (EAAS) held its successful fourth annual conference since 2010 on 30 June to 04 July 2014 at the University of Rwanda. Centred around the 'Role of Astronomy in Socio-Economic Transformation,' this conference aimed at strengthening capacity building in Astronomy, Astrophysics and Space Science in general, while providing a forum for astronomers from the region to train young and upcoming scientists.

Updating histological data on crown initiation and crown completion ages in southern Africans.

PubMed

Reid, Donald J; Guatelli-Steinberg, Debbie

2017-04-01

To update histological data on crown initiation and completion ages in southern Africans. To evaluate implications of these data for studies that: (a) rely on these data to time linear enamel hypoplasias (LEHs), or, (b) use these data for comparison to fossil hominins. Initiation ages were calculated on 67 histological sections from southern Africans, with sample sizes ranging from one to 11 per tooth type. Crown completion ages for southern Africans were calculated in two ways. First, actual derived initiation ages were added to crown formation times for each histological section to obtain direct information on the crown completion ages of individuals. Second, average initiation ages from this study were added to average crown formation times of southern Africans from the Reid and coworkers previous studies that were based on larger samples. For earlier-initiating tooth types (all anterior teeth and first molars), there is little difference in ages of initiation and crown completion between this and previous studies. Differences increase as a function of initiation age, such that the greatest differences between this and previous studies for both initiation and crown completion ages are for the second and third molars. This study documents variation in initiation ages, particularly for later-initiating tooth types. It upholds the use of previously published histological aging charts for LEHs on anterior teeth. However, this study finds that ages of crown initiation and completion in second and third molars for this southern African sample are earlier than previously estimated. These earlier ages reduce differences between modern humans and fossil hominins for these developmental events in second and third molars. © 2017 Wiley Periodicals, Inc.

Design and production of an atlas for diplomacy in Zimbabwe and the Southern African Development Community

USGS Publications Warehouse

Crawford, T.W.; Larson, Charles R.; Granneman, Brian J.; Evans, Gayla A.; Gacke, Carolyn; Pearson, D.R.

1999-01-01

An atlas of Zimbabwe and the Southern African Development Community was designed and produced for use by American diplomats in Zimbabwe. Two copies of the bound atlas are used by the Embassy of the United States of America (U.S. Embassy) and the Mission of the U.S. Agency for International Development (USAID) in Harare, Zimbabwe, to orient visitors and discuss matters of diplomacy and development in Zimbabwe and the Southern African Development Community. The atlas contains maps derived from satellite images showing features of the physical geography of Southern Africa and Zimbabwe and plastic overlays showing rivers and lakes and manmade features, such as major roads, railroads, and cities. The atlas is an important tool that American diplomats can use to orient participants in discussions of the environment and to develop agreements for management of the environment in Zimbabwe and Southern Africa.

Complex Ancient Genetic Structure and Cultural Transitions in Southern African Populations.

PubMed

Montinaro, Francesco; Busby, George B J; Gonzalez-Santos, Miguel; Oosthuitzen, Ockie; Oosthuitzen, Erika; Anagnostou, Paolo; Destro-Bisol, Giovanni; Pascali, Vincenzo L; Capelli, Cristian

2017-01-01

The characterization of the structure of southern African populations has been the subject of numerous genetic, medical, linguistic, archaeological, and anthropological investigations. Current diversity in the subcontinent is the result of complex events of genetic admixture and cultural contact between early inhabitants and migrants that arrived in the region over the last 2000 years. Here, we analyze 1856 individuals from 91 populations, comprising novel and published genotype data, to characterize the genetic ancestry profiles of 631 individuals from 51 southern African populations. Combining both local ancestry and allele frequency based analyses, we identify a tripartite, ancient, Khoesan-related genetic structure. This structure correlates neither with linguistic affiliation nor subsistence strategy, but with geography, revealing the importance of isolation-by-distance dynamics in the area. Fine-mapping of these components in southern African populations reveals admixture and cultural reversion involving several Khoesan groups, and highlights that Bantu speakers and Coloured individuals have different mixtures of these ancient ancestries. Copyright © 2017 Montinaro et al.

Simulation and Visualization of Chaos in a Driven Nonlinear Pendulum -- An Aid to Introducing Chaotic Systems in Physics

NASA Astrophysics Data System (ADS)

Akpojotor, Godfrey; Ehwerhemuepha, Louis; Amromanoh, Ogheneriobororue

2013-03-01

The presence of physical systems whose characteristics change in a seemingly erratic manner gives rise to the study of chaotic systems. The characteristics of these systems are due to their hypersensitivity to changes in initial conditions. In order to understand chaotic systems, some sort of simulation and visualization is pertinent. Consequently, in this work, we have simulated and graphically visualized chaos in a driven nonlinear pendulum as a means of introducing chaotic systems. The results obtained which highlight the hypersensitivity of the pendulum are used to discuss the effectiveness of teaching and learning the physics of chaotic system using Python. This study is one of the many studies under the African Computational Science and Engineering Tour Project (PASET) which is using Python to model, simulate and visualize concepts, laws and phenomena in Science and Engineering to compliment the teaching/learning of theory and experiment.

Lower Lateral Cartilages: An Anatomic and Morphological Study in Noses of Black Southern Africans.

PubMed

McIntosh, Cameron N D; van Wyk, F Carl; Joubert, Gina; Seedat, Riaz Y

2017-03-01

The anatomy of the nose of different ethnic groups has been widely researched in order to facilitate a better understanding of the individual nose as a foundation for improving surgical outcomes. The only anatomical research of the lower lateral cartilages (LLCs) available to the surgeon working with an African patient is to extrapolate data from studies already published on African Americans. The aim of this descriptive cadaveric study was to assess the normal anatomy of the LLCs in noses of Black South Africans and compare this to data from studies on noses from Caucasian, Asian, Korean, and African-American populations. Ninety lower lateral cartilages of 45 cadavers of Black South Africans who did not have previous surgery or trauma to the nose were dissected. The morphological shapes and 12 standard anatomical measurements were recorded. The results were analyzed and compared to data in the literature from studies on lower lateral cartilages of Caucasian, Asian, Korean, and African-American populations. A statistically significant difference was found in terms of overall cartilage dimensions, distance from nasal rim, and morphological shapes, compared to all previously studied groups, including the African-American population. There were significant differences in cartilage dimensions between males and females. This translates to clinically significant data that is useful during reconstructive and aesthetic nasal surgery on patients with a Southern African background. This study sets norms for alar cartilages in Black Southern Africans.

Clinical nursing and midwifery research: grey literature in African countries.

PubMed

Sun, C; Dohrn, J; Omoni, G; Malata, A; Klopper, H; Larson, E

2016-03-01

This study reviewed grey literature to assess clinical nursing and midwifery research conducted in southern and eastern African countries over the past decade. The shortage of published nursing research from African countries severely limits the ability of practicing nurses and midwives to base clinical decisions on solid evidence. However, little is known regarding unpublished or unindexed clinical research ('grey literature'), a potentially rich source of information. Identifying these sources may reveal resources to assist nurses in providing evidence-based care. This scoping review of grey literature on clinical nursing and midwifery research in southern and eastern African countries helped to identify gaps in research and assess whether these gaps differ from published research. Systematic searches of grey literature were performed. Research was included if it was conducted by nurses in 1 of 25 southern or eastern African countries, between 2004 and 2014 and included patient outcomes. Data were extracted on location, institution, research topic, institutional connections and author information. Chi-square tests were performed to compare differences between indexed and non-indexed literature. We found 262 studies by 287 authors from 17 southern and eastern African countries covering 13 topics. Although all topics were also found in indexed literature and there were statistically significant differences between the number of times, fewer topics were covered in grey literature vs. indexed. Patient satisfaction and experience and traditional health practices were more likely to be published, whereas chronic disease, assault and paediatric-related research were less often published. Generally, there is a paucity of clinical nursing research in this region. This could reflect the shortage of nurses prepared to conduct research in this region. Nurses may find additional resources for evidence in the grey literature. A complete understanding of the state of nursing science in southern and eastern African countries will help nurses and midwives to understand gaps in clinical research knowledge, potentially direct their research to more critical topics, and inform funding bodies and policy-makers of the situation of nursing science in southern and eastern African countries. © 2016 International Council of Nurses.

Molecular genetic and morphological analyses of the African wild dog (Lycaon pictus).

PubMed

Girman, D J; Kat, P W; Mills, M G; Ginsberg, J R; Borner, M; Wilson, V; Fanshawe, J H; Fitzgibbon, C; Lau, L M; Wayne, R K

1993-01-01

African wild dog populations have declined precipitously during the last 100 years in eastern Africa. The possible causes of this decline include a reduction in prey abundance and habitat; disease; and loss of genetic variability accompanied by inbreeding depression. We examined the levels of genetic variability and distinctiveness among populations of African wild dogs using mitochondrial DNA (mtDNA) restriction site and sequence analyses and multivariate analysis of cranial and dental measurements. Our results indicate that the genetic variability of eastern African wild dog populations is comparable to that of southern Africa and similar to levels of variability found in other large canids. Southern and eastern populations of wild dogs show about 1% divergence in mtDNA sequence and form two monophyletic assemblages containing three mtDNA genotypes each. No genotypes are shared between the two regions. With one exception, all wild dogs examined from zoos had southern African genotypes. Morphological analysis supports the distinction of eastern and southern African wild dog populations, and we suggest they should be considered separate subspecies. An eastern African wild dog breeding program should be initiated to ensure preservation of the eastern African form and to slow the loss of genetic variability that, while not yet apparent, will inevitably occur if wild populations continue to decline. Finally, we examined the phylogenetic relationships of wild dogs to other wolf-like canids through analysis of 736 base pairs (bp) of cytochrome b sequence and showed wild dogs to belong to a phylogenetically distinct lineage of the wolf-like canids.

Enhanced curriculum intervention did not result in increased postnatal physical activity in rural, Southern, primarily African American women

USDA-ARS?s Scientific Manuscript database

Purpose. To test the impact of two home visiting curricula on postnatal physical activity in rural, Southern, African American mothers. Design. Randomized controlled trial. Setting. Three rural counties in Mississippi. Subjects. Between September 2013 and May 2016, 54 postpartum women randomized...

Embryonic development of Python sebae - I: Staging criteria and macroscopic skeletal morphogenesis of the head and limbs.

PubMed

Boughner, Julia C; Buchtová, Marcela; Fu, Katherine; Diewert, Virginia; Hallgrímsson, Benedikt; Richman, Joy M

2007-01-01

This study explores the post-ovipositional craniofacial development of the African Rock Python (Python sebae). We first describe a staging system based on external characteristics and next use whole-mount skeletal staining supplemented with Computed tomography (CT) scanning to examine skeletal development. Our results show that python embryos are in early stages of organogenesis at the time of laying, with separate facial prominences and pharyngeal clefts still visible. Limb buds are also visible. By 11 days (stage 3), the chondrocranium is nearly fully formed; however, few intramembranous bones can be detected. One week later (stage 4), many of the intramembranous upper and lower jaw bones are visible but the calvaria are not present. Skeletal elements in the limbs also begin to form. Between stages 4 (day 18) and 7 (day 44), the complete set of intramembranous bones in the jaws and calvaria develops. Hindlimb development does not progress beyond stage 6 (33 days) and remains rudimentary throughout adult life. In contrast to other reptiles, there are two rows of teeth in the upper jaw. The outer tooth row is attached to the maxillary and premaxillary bones, whereas the inner row is attached to the pterygoid and palatine bones. Erupted teeth can be seen in whole-mount stage 10 specimens and are present in an unerupted, mineralized state at stage 7. Micro-CT analysis reveals that all the young membranous bones can be recognized even out of the context of the skull. These data demonstrate intrinsic patterning of the intramembranous bones, even though they form without a cartilaginous template. In addition, intramembranous bone morphology is established prior to muscle function, which can influence bone shape through differential force application. After careful staging, we conclude that python skeletal development occurs slowly enough to observe in good detail the early stages of craniofacial skeletogenesis. Thus, reptilian animal models will offer unique opportunities for understanding the early influences that contribute to perinatal bone shape.

Embryonic development of Python sebae - II: Craniofacial microscopic anatomy, cell proliferation and apoptosis.

PubMed

Buchtová, Marcela; Boughner, Julia C; Fu, Katherine; Diewert, Virginia M; Richman, Joy M

2007-01-01

This study explores the microscopic craniofacial morphogenesis of the oviparous African rock python (Python sebae) spanning the first two-thirds of the post-oviposition period. At the time of laying, the python embryo consists of largely undifferentiated mesenchyme and epithelium with the exception of the cranial base and trabeculae cranii, which are undergoing chondrogenesis. The facial prominences are well defined and are at a late stage, close to the time when lip fusion begins. Later (11-12d), specializations in the epithelia begin to differentiate (vomeronasal and olfactory epithelia, teeth). Dental development in snakes is different from that of mammals in several aspects including an extended dental lamina with the capacity to form 4 sets of generational teeth. In addition, the ophidian olfactory system is very different from the mammalian. There is a large vomeronasal organ, a nasal cavity proper and an extraconchal space. All of these areas are lined with a greatly expanded olfactory epithelium. Intramembranous bone differentiation is taking place at stage 3 with some bones already ossifying whereas most are only represented as mesenchymal condensations. In addition to routine histological staining, PCNA immunohistochemistry reveals relatively higher levels of proliferation in the extending dental laminae, in osseous mesenchymal condensations and in the olfactory epithelia. Areas undergoing apoptosis were noted in the enamel organs of the teeth and osseous mesenchymal condensations. We propose that localized apoptosis helps to divide a single condensation into multiple ossification centres and this is a mechanism whereby novel morphology can be selected in response to evolutionary pressures. Several additional differences in head morphology between snakes and other amniotes were noted including a palatal groove separating the inner and outer row of teeth in the upper jaw, a tracheal opening within the tongue and a pharyngeal adhesion that closes off the pharynx from the oral cavity between stages 1 and 4. Our studies on these and other differences in the python will provide valuable insights into in developmental, molecular and evolutionary mechanisms of patterning.

The ''Complex Reality'' of Research Capacity Development in Mathematics Education in Southern African Development Community Countries

ERIC Educational Resources Information Center

Julie, Cyril; Mikalsen, Oyvind; Persens, Jan

2005-01-01

This paper explores how an aid-funded Ph.D.-programme in mathematics education instituted in some Southern African Development Community countries measures up to issues related to research capacity development projects. The research capacity development programme is described and reflected against mutual benefit, relevance, sustainability and…

Linguistic Struggles within and beyond the Southern African Development Community

ERIC Educational Resources Information Center

Bagwasi, Mompoloki Mmangaka

2012-01-01

This paper argues that the linguistic struggles faced by the Southern African Development Community (the SADC) represent common linguistic struggles found in Africa and the world where some languages are accused of dominating, stifling and suppressing others. However, the language situation within the SADC is interesting because it offers us a…

Reemergence of African Swine Fever in Zimbabwe, 2015.

PubMed

van Heerden, Juanita; Malan, Kerstin; Gadaga, Biko M; Spargo, Reverend M

2017-05-01

Zimbabwe is the only country in southern Africa with no reported African swine fever (ASF) outbreaks during 1993-2014. However, the 2015 discovery of genotype II ASF virus in Zimbabwe indicates the reemergence of ASF in this country and suggests that this viral genotype may be spreading through eastern and southern Africa.

Variations in Reading Achievement across 14 Southern African School Systems: Which Factors Matter?

ERIC Educational Resources Information Center

Hungi, Njora; Thuku, Florence W.

2010-01-01

In this study the authors employed a multilevel analysis procedure in order to examine the pupil and school levels factors that contributed to variation in reading achievement among Grade 6 primary school pupils in 14 southern African school systems (Botswana, Kenya, Lesotho, Malawi, Mauritius, Mozambique, Namibia, Seychelles, South Africa,…

Mechanisms of Vowel Variation in African American English

ERIC Educational Resources Information Center

Holt, Yolanda Feimster

2018-01-01

Purpose: This research explored mechanisms of vowel variation in African American English by comparing 2 geographically distant groups of African American and White American English speakers for participation in the African American Shift and the Southern Vowel Shift. Method: Thirty-two male (African American: n = 16, White American controls: n =…

The Southern African Regional Science Initiative (SAFARI 2000). Dry-Season Campaign: An Overview

NASA Technical Reports Server (NTRS)

Swap, R. J.; Annegarn, H. J.; Suttles, J. T.; Haywood, J.; Hely, C.; Hobbs, P. V.; Holben, B. N.; Ji, J.; King, M. D.; Bhartia, P. K. (Technical Monitor)

2002-01-01

The Southern African Regional Science Initiative (SAFARI 2000) is an international science project investigating the southern African earth-atmosphere-human system. The experiment was conducted over a two-year period March 1999 - March 2001. The dry season field campaign (August-Steptember 2000) was the most intensive activity and involving over 200 scientists from 18 different nations. The main objectives of this campaign were to characterize and quantify the biogenic, pyrogenic and anthropogenic aerosol and trace gas emissions and their transport and transformations in the atmosphere and to validate the NASA Earth Observing System (EOS) satellite Terra within a scientific context. Five aircraft, namely two South African Weather Service aircraft, University of Washington CV-580, the UK Meteorological Office C-130 and the NASA ER-2, with different altitude capabilities, participated in the campaign. Additional airborne sampling of southern African air masses that had moved downwind of the subcontinent was conducted by the CSIRO over Australia. Multiple observations were taken in various sectors for a variety of synoptic conditions. Flight missions were designed to maximize synchronous over-flights of the NASA TERRA satellite platform, above regional ground validation and science targets. Numerous smaller-scale ground validation activities took place throughout the region during the campaign period.

Mainstreaming biodiversity and wildlife management into climate change policy frameworks in selected east and southern African countries

PubMed Central

Nhamo, Godwell

2016-01-01

The Rio+20 outcomes document, the Future We Want, enshrines green economy as one of the platforms to attain sustainable development and calls for measures that seek to address climate change and biodiversity management. This paper audits climate change policies from selected east and southern African countries to determine the extent to which climate change legislation mainstreams biodiversity and wildlife management. A scan of international, continental, regional and national climate change policies was conducted to assess whether they include biodiversity and/or wildlife management issues. The key finding is that many climate change policy–related documents, particularly the National Adaptation Programme of Actions (NAPAs), address threats to biodiversity and wildlife resources. However, international policies like the United Nations Framework Convention on Climate Change and Kyoto Protocol do not address the matter under deliberation. Regional climate change policies such as the East African Community, Common Market for Eastern and Southern Africa and African Union address biodiversity and/or wildlife issues whilst the Southern African Development Community region does not have a stand-alone policy for climate change. Progressive countries like Rwanda, Uganda, Tanzania and Zambia have recently put in place detailed NAPAs which are mainstream responsive strategies intended to address climate change adaptation in the wildlife sector.

The genetic prehistory of southern Africa.

PubMed

Pickrell, Joseph K; Patterson, Nick; Barbieri, Chiara; Berthold, Falko; Gerlach, Linda; Güldemann, Tom; Kure, Blesswell; Mpoloka, Sununguko Wata; Nakagawa, Hirosi; Naumann, Christfried; Lipson, Mark; Loh, Po-Ru; Lachance, Joseph; Mountain, Joanna; Bustamante, Carlos D; Berger, Bonnie; Tishkoff, Sarah A; Henn, Brenna M; Stoneking, Mark; Reich, David; Pakendorf, Brigitte

2012-01-01

Southern and eastern African populations that speak non-Bantu languages with click consonants are known to harbour some of the most ancient genetic lineages in humans, but their relationships are poorly understood. Here, we report data from 23 populations analysed at over half a million single-nucleotide polymorphisms, using a genome-wide array designed for studying human history. The southern African Khoisan fall into two genetic groups, loosely corresponding to the northwestern and southeastern Kalahari, which we show separated within the last 30,000 years. We find that all individuals derive at least a few percent of their genomes from admixture with non-Khoisan populations that began ∼1,200 years ago. In addition, the East African Hadza and Sandawe derive a fraction of their ancestry from admixture with a population related to the Khoisan, supporting the hypothesis of an ancient link between southern and eastern Africa.

Unprecedented Fires in Southern Africa

NASA Technical Reports Server (NTRS)

2002-01-01

The fires that raged across southern Africa this August and September produced a thick 'river of smoke' over the region. NASA-supported studies currently underway on the event will contribute to improved air pollution policies in the region and a better understanding of its impact on climate change. This year the southern African fire season peaked in early September. The region is subject to some of the highest levels of biomass burning in the world. The heaviest burning was in western Zambia, southern Angola, northern Namibia, and northern Botswana. Some of the blazes had fire fronts 20 miles long that lasted for days. In this animation, multiple fires are burning across the southern part of the African continent in September 2000. The fires, indicated in red, were observed by the Advanced Very High Resolution Radiometer (AVHRR) instrument on board the NOAA-14 satellite. The fires generated large amounts of heat-absorbing aerosols (the dark haze), which were observed with the Earth Probe Total Ozone Mapping Spectrometer (TOMS) instrument. These observations were collected as part of a NASA-supported field campaign called SAFARI 2000 (Southern African Regional Science Initiative). The recent six-week 'dry-season' portion of this experiment was planned to coincide with the annual fires. SAFARI 2000 planners tracked the changing location of fires with daily satellite maps provided by researchers at NASA's Goddard Space Flight Center. 'Every year African biomass burning greatly exceeds the scale of the fires seen this year in the western United States,' says Robert Swap of the University of Virginia, one of the campaign organizers. 'But the southern African fire season we just observed may turn out to be an extreme one even by African standards. It was amazing how quickly this region went up in flames.' The thick haze layer from these fires was heavier than campaign participants had seen in previous field studies in the Amazon Basin and during the Kuwati oil fires. The haze aerosols sampled were more heat-absorbing than expected, which means the haze layer may have a significant warming influence on the region's atmosphere. For more information, see the press release Image courtesy NASA Goddard Space Flight Center, Science Visualization Studio

Techniques of remote sensing and GIS as tools for visualizing impact of climate change-induced flood in the southern African region.

USDA-ARS?s Scientific Manuscript database

This study employs remote sensing and Geographical Information Systems (GIS) data to visualize the impact of climate change caused by flooding in the Southern African region in order to assist decision makers’ plans for future occurrences. In pursuit of this objective, this study uses Digital Elevat...

Animal-adapted members of the Mycobacterium tuberculosis complex endemic to the southern African subregion.

PubMed

Clarke, Charlene; Van Helden, Paul; Miller, Michele; Parsons, Sven

2016-04-26

Members of the Mycobacterium tuberculosis complex (MTC) cause tuberculosis (TB) in both animals and humans. In this article, three animal-adapted MTC strains that are endemic to the southern African subregion - that is, Mycobacterium suricattae, Mycobacterium mungi, and the dassie bacillus - are reviewed with a focus on clinical and pathological presentations, geographic distribution, genotyping methods, diagnostic tools and evolution. Moreover, factors influencing the transmission and establishment of TB pathogens in novel host populations, including ecological, immunological and genetic factors of both the host and pathogen, are discussed. The risks associated with these infections are currently unknown and further studies will be required for greater understanding of this disease in the context of the southern African ecosystem.

Animal-adapted members of the Mycobacterium tuberculosis complex endemic to the southern African subregion.

PubMed

Clarke, Charlene; Van Helden, Paul; Miller, Michele; Parsons, Sven

2016-04-26

Members of the Mycobacterium tuberculosis complex (MTC) cause tuberculosis (TB) in both animals and humans. In this article, three animal-adapted MTC strains that are endemic to the southern African subregion - that is, Mycobacterium suricattae, Mycobacterium mungi, and the dassie bacillus - are reviewed with a focus on clinical and pathological presentations, geographic distribution, genotyping methods, diagnostic tools and evolution. Moreover, factors influencing the transmission and establishment of TB pathogens in novel host populations, including ecological, immunological and genetic factors of both the host and pathogen, are discussed. The risks associated with these infections are currently unknown and further studies will be required for greater understanding of this disease in the context of the southern African ecosystem.

A novel protein from the serum of Python sebae, structurally homologous with type-γ phospholipase A(2) inhibitor, displays antitumour activity.

PubMed

Donnini, Sandra; Finetti, Federica; Francese, Simona; Boscaro, Francesca; Dani, Francesca R; Maset, Fabio; Frasson, Roberta; Palmieri, Michele; Pazzagli, Mario; De Filippis, Vincenzo; Garaci, Enrico; Ziche, Marina

2011-12-01

Cytotoxic and antitumour factors have been documented in the venom of snakes, although little information is available on the identification of cytotoxic products in snake serum. In the present study, we purified and characterized a new cytotoxic factor from serum of the non-venomous African rock python (Python sebae), endowed with antitumour activity. PSS (P. sebae serum) exerted a cytotoxic activity and reduced dose-dependently the viability of several different tumour cell lines. In a model of human squamous cell carcinoma xenograft (A431), subcutaneous injection of PSS in proximity of the tumour mass reduced the tumour volume by 20%. Fractionation of PSS by ion-exchange chromatography yielded an active protein fraction, F5, which significantly reduced tumour cell viability in vitro and, strikingly, tumour growth in vivo. F5 is composed of P1 (peak 1) and P2 subunits interacting in a 1:1 stoichiometric ratio to form a heterotetramer in equilibrium with a hexameric form, which retained biological activity only when assembled. The two peptides share sequence similarity with PIP {PLI-γ [type-γ PLA(2) (phospholipase A(2)) inhibitor] from Python reticulatus}, existing as a homohexamer. More importantly, although PIP inhibits the hydrolytic activity of PLA(2), the anti-PLA(2) function of F5 is negligible. Using high-resolution MS, we covered 87 and 97% of the sequences of P1 and P2 respectively. In conclusion, in the present study we have identified and thoroughly characterized a novel protein displaying high sequence similarity to PLI-γ and possessing remarkable cytotoxic and antitumour effects that can be exploited for potential pharmacological applications.

Effects of feeding on luminal pH and morphology of the gastroesophageal junction of snakes.

PubMed

Bessler, Scott M; Secor, Stephen M

2012-10-01

At the gastroesophageal junction, most vertebrates possess a functional lower esophageal sphincter (LES) which may serve to regulate the passage of liquids and food into the stomach and prevent the reflux of gastric contents into the esophagus. Snakes seemingly lack an LES and consume meals large enough to extend anteriorly from the stomach into the esophagus thereby providing the opportunity for the reflux of gastric juices. To explore whether snakes experience or can prevent gastric reflux, we examined post-feeding changes of luminal pH of the distal esophagus and stomach, the fine scale luminal pH profile at the gastroesophageal junction, and the morphology of the gastroesophageal junction for the Burmese python (Python molurus), the African brown house snake (Lamprophis fuliginosus), and the diamondback water snake (Nerodia rhombifer). For each species fasted, there was no distension of the gastroesophageal junction and only modest changes in luminal pH from the distal esophagus into the stomach. Feeding resulted in marked distension and changes in tissue morphology of the gastroesophageal junction. Simultaneously, there was a significant decrease in luminal pH of the distal esophagus for pythons and house snakes, and for all three species a steep gradient in luminal pH decreasing across a 3-cm span from the distal edge of the esophagus into the proximal edge of the stomach. The moderate acidification of the distal most portion of the esophagus for pythons and house snakes suggests that there is some anterior movement of gastric juices across the gastroesophageal junction. Given that this modest reflux of gastric fluid is localized to the most distal region of the esophagus, snakes are apparently able to prevent and protect against acid reflux in the absence of a functional LES. Copyright © 2012 Elsevier GmbH. All rights reserved.

Under the Sun or in the Shade? Jua Kali in African Countries. National Policy Definition in Technical and Vocational Education: Beyond the Formal Sector. A Subregional Seminar for Eastern and Southern African Countries (Nairobi, Kenya, September 15-19, 1997). International project on Technical and Vocational Education (UNEVOC).

ERIC Educational Resources Information Center

United Nations Educational, Scientific, and Cultural Organization, Berlin (Germany).

This document is a comprehensive report a subregional seminar for eastern and southern African countries on the Jua Kali movement. (Jua Kali, "hot sun" in Swahili, refers to the informal or nonformal sector of the economy.) Section 1 explains the role of the International Project on Technical and Vocational Education (UNEVOC) in the…

Different Cranial Ontogeny in Europeans and Southern Africans

PubMed Central

Sardi, Marina L.; Ramírez Rozzi, Fernando V.

2012-01-01

Modern human populations differ in developmental processes and in several phenotypic traits. However, the link between ontogenetic variation and human diversification has not been frequently addressed. Here, we analysed craniofacial ontogenies by means of geometric-morphometrics of Europeans and Southern Africans, according to dental and chronological ages. Results suggest that different adult cranial morphologies between Southern Africans and Europeans arise by a combination of processes that involve traits modified during the prenatal life and others that diverge during early postnatal ontogeny. Main craniofacial changes indicate that Europeans differ from Southern Africans by increasing facial developmental rates and extending the attainment of adult size and shape. Since other studies have suggested that native subsaharan populations attain adulthood earlier than Europeans, it is probable that facial ontogeny is linked with other developmental mechanisms that control the timing of maturation in other variables. Southern Africans appear as retaining young features in adulthood. Facial ontogeny in Europeans produces taller and narrower noses, which seems as an adaptation to colder environments. The lack of these morphological traits in Neanderthals, who lived in cold environments, seems a paradox, but it is probably the consequence of a warm-adapted faces together with precocious maturation. When modern Homo sapiens migrated into Asia and Europe, colder environments might establish pressures that constrained facial growth and development in order to depart from the warm-adapted morphology. Our results provide some answers about how cranial growth and development occur in two human populations and when developmental shifts take place providing a better adaptation to environmental constraints. PMID:22558270

Phylogenetic studies of Terfezia pfeilii and Choiromyces echinulatus (Pezizales) support new genera for southern African truffles: Kalaharituber and Eremiomyces.

Treesearch

Yael Ferdman; Sharon Aviram; Nurit Roth-Bejerano; James M. Trappe; Varda. Kagan-Zur

2005-01-01

The ITS region including the 5.8S rRNA gene as well as the 5' end of the 28S rRNA gene of hypogeous Pezizaceae and Tuberaceae were studied to clarify the generic placement of two southern African desert truffles, Terfezia pfeilii and Choiromyces echinulatus. The results show that...

3 CFR - Eligibility of the Southern African Development Community To Receive Defense Articles and Defense...

Code of Federal Regulations, 2010 CFR

2010-01-01

... 3 The President 1 2010-01-01 2010-01-01 false Eligibility of the Southern African Development Community To Receive Defense Articles and Defense Services Under the Foreign Assistance Act of 1961, as Amended, and the Arms Export Control Act, as Amended Presidential Documents Other Presidential Documents Presidential Determination No. 2009-13 of...

Mammal decline, linked to invasive Burmese python, shifts host use of vector mosquito towards reservoir hosts of a zoonotic disease.

PubMed

Hoyer, Isaiah J; Blosser, Erik M; Acevedo, Carolina; Thompson, Anna Carels; Reeves, Lawrence E; Burkett-Cadena, Nathan D

2017-10-01

Invasive apex predators have profound impacts on natural communities, yet the consequences of these impacts on the transmission of zoonotic pathogens are unexplored. Collapse of large- and medium-sized mammal populations in the Florida Everglades has been linked to the invasive Burmese python, Python bivittatus Kuhl. We used historic and current data to investigate potential impacts of these community effects on contact between the reservoir hosts (certain rodents) and vectors of Everglades virus, a zoonotic mosquito-borne pathogen that circulates in southern Florida. The percentage of blood meals taken from the primary reservoir host, the hispid cotton rat, Sigmodon hispidus Say and Ord, increased dramatically (422.2%) from 1979 (14.7%) to 2016 (76.8%), while blood meals from deer, raccoons and opossums decreased by 98.2%, reflecting precipitous declines in relative abundance of these larger mammals, attributed to python predation. Overall species diversity of hosts detected in Culex cedecei blood meals from the Everglades declined by 40.2% over the same period ( H (1979) = 1.68, H (2016) = 1.01). Predictions based upon the dilution effect theory suggest that increased relative feedings upon reservoir hosts translate into increased abundance of infectious vectors, and a corresponding upsurge of Everglades virus occurrence and risk of human exposure, although this was not tested in the current study. This work constitutes the first indication that an invasive predator can increase contact between vectors and reservoirs of a human pathogen and highlights unrecognized indirect impacts of invasive predators. © 2017 The Author(s).

The Southern African Regional Science Initiative (SAFARI 2000): Overview of the Dry Season Field Campaign

NASA Technical Reports Server (NTRS)

Swap, R. J.; Annegarn, H. J.; Suttles, J. T.; Haywood, J.; Helmlinger, M. C.; Hely, C.; Hobbs, P. V.; Holben, B. N.; Ji, J.; King, M. D.

2002-01-01

The Southern African Regional Science Initiative (SAFARI 2000) is an international project investigating the earth atmosphere -human system in southern Africa. The programme was conducted over a two year period from March 1999 to March 2001. The dry season field campaign (August-September 2000) was the most intensive activity involved over 200 scientist from eighteen countries. The main objectives were to characterize and quantify biogenic, pyrogenic and anthropogenic aerosol and trace gas emissions and their transport and transformations in the atmosphere and to validate NASA's Earth Observing System's Satellite Terra within a scientific context. Five aircraft-- two South African Weather Service Aeorcommanders, the University of Washington's CV-880, the U.K. Meteorological Office's C-130, and NASA's ER-2 --with different altitude capabilities, participated in the campaign. Additional airborne sampling of southern African air masses, that had moved downwind of the subcontinent, was conducted by the CSIRO over Australia. Multiple Observations were made in various geographical sections under different synoptic conditions. Airborne missions were designed to optimize the value of synchronous over-flights of the Terra Satellite platform, above regional ground validation and science targets. Numerous smaller scale ground validation activities took place throughout the subcontinent during the campaign period.

Neo-African Literature: A History of Black Writing.

ERIC Educational Resources Information Center

Jahn, Janheinz

Chapters in this book classify the literature reflecting the overlap of African and Western cultures according to its content, stylistic features, and patterns of literary expression. Areas covered are (1) early writers of African descent; (2) the African scene--oral, Afro-Arabic, "apprentice" and "protest," and Southern Bantu literatures; (3) the…

[Transfer of exotic ticks (Acari: ixodida) on reptiles (Reptilia) imported to Poland].

PubMed

2009-01-01

In the of period 2003-2007, a total of 382 specimens of reptiles belonging to the following genera were investigated: Testudo, Iguana, Varanus, Gongylophis, Python, Spalerosophis, Psammophis. The material for the present study was a collection of reptiles owned by the "Animals" Ltd from Swietochłowice (Upper Silesia, Poland), specialising in import of exotic animals to Poland, as well as the reptile collections of private breeders. The reptiles that turned out to be the most heavily infected with ticks were the commonly bred terrarium reptiles: Varanus exanthematicus and Python regius and they were imported to Poland from Ghana, Africa. Exotic reptiles are also imported from Southern Europe, Asia and Central America. The presently reported study helped to confirm the fact of transfer of exotic ticks on reptiles to Poland. A total of 2104 tick specimens, representing all stages of development (males, females, nymphs, larvae), were collected. They represented species of the genera Amblyomma and Hyalomma. The following species were found: Amblyomma exornatum Koch, 1844, Amblyomma flavomaculatum (Lucas, 1846), Amblyomma latum Koch, 1844, Amblyomma nuttalli Dönitz, 1909, Amblyomma quadricavum Schulze, 1941, Amblyomma transversale (Lucas, 1844), Amblyomma varanense (Supino, 1897), Amblyomma spp. Koch, 1844, Hyalomma aegyptium (Linnaeus, 1758). All the species of ticks of genus Ambylomma revealed have been discovered in Poland for the first time. The overall prevalence of infection was 77.6%. The highest prevalence value (81.2%) was observed on pythons (Python regius) and (78.7%) on monitor lizards (Varanus exanthematicus). The highest number of ticks was collected from Python regius and Varanus exanthematicus. The mean infection intensity for V. exanthematicus was 7.6 ticks per host, while for P. regius the intensity reached 4.7 ticks. The most abundant tick transferred to Poland on a host was an African tick, Amblyomma latum. Fifty eight specimens of monitor lizards (V. salvator and V. exanthematicus) and 92 specimens pythons (P. regius) were examined, with detailed descriptions of where the parasite was feeding on the body of the host. Among the 434 specimens of ticks collected from the monitor lizards, the majority were attached on the host's legs (40.5%), on the trunk (29.3%), on the head (20.3%), with fewest on the tail (9.9%). Also, 430 specimens of ticks were collected from the bodies of pythons. They mostly parasitized along the whole length of the back (54.4%) and on the stomach side of the trunk (29.8%), less frequently in the area of the cloaca (5.6%), around the eyes (3.7%), in the nostril openings (0.9%) and on the remainder of the head (5.6%). On the hosts, ticks were found at different development stages, but adult development stages dominated. The most frequent were males (999 specimens), then adult females (552 specimens), nymphs (508 specimens) and larvae (45 specimens). During the research, 13 cases of anomalies of morphological structure were confirmed for ticks Amblyomma flavomaculatum, Amblyomma latum and Hyalomma aegyptium. Asymmetries and deformations of the general body shape were observed, as were anomalies concerning structures on the surface of the body and anomalies of the legs. For the first time in Poland, epidemiological tests were carried out in the direction of the infection of exotic ticks gathered from reptiles with micro-organisms which pose a threat for the health of people and animals. For this purpose, molecular techniques - polymerase chain reaction (PCR) and DNA sequencing were used. The isolates from 345 ticks, were examined for the presence of DNA of Anaplasma phagocytophilum, which is the etiological factor in human granulocytic anaplasmosis, and Rickettsia spp. from the spotted fever group, causing human rickettsiosis. This study confirmed the presence of Anaplasma phagocytophilum in two ticks of Amblyomma flavomaculatum (constituting 0.6% of all the ticks investigated) feeding on Varanus exanthematicus. None of the tick specimens, however, contained Rickettsia spp. DNA. The expanding phenomenon of the import of exotic reptiles in Poland and Central Europe is important for parasitological and epidemiological reasons and therefore requires monitoring and wide-ranging prophylactic activities to prevent the inflow of exotic parasites to Poland.

Compiling an Evidence-Based Improvement Plan for the Support of Distance-Education Students at a Southern African University

ERIC Educational Resources Information Center

Makhakhane, Bothephana; Wilkinson, Annette C.; Ndeya-Ndereya, Charity N.

2016-01-01

This article illustrates how an event guide can be used to organise, systematise and prioritise the large amount of findings from an extensive study. The study aimed to enhance student support at a distance-education institute in a Southern African country (Lesotho). In this case study an improvement-oriented evaluation of the strengths,…

Sugar Cane: A Bitter-Sweet Legacy. A Study of the Disappearing African-American Worker on the Sugar Cane Plantations in Southern Louisiana.

ERIC Educational Resources Information Center

Jones, John A., Jr.; And Others

This resource/study guide is designed to accompany the instructional video, "Sugar Cane: A Bitter-Sweet Legacy," which explores the significance of cultivating, harvesting, and refining sugar cane. It is also a brief study of the disappearing African-American workers on the sugar cane plantations in southern Louisiana. Seven main ideas…

Addressing the Issue of Gender Equity in the Presidency of the University System in the Southern African Development Community (SADC) Region

ERIC Educational Resources Information Center

Guramatunhu-Mudiwa, Precious

2010-01-01

The Southern African Development Community (SADC) is a regional economic grouping of 15 countries whose common vision is to promote economic, social and political development and growth. Arguably, sustainable growth can be realized if there is equal access to all positions of power and influence in the area, but an investigation of 117…

The Angola Low: relationship with southern African rainfall and ENSO

NASA Astrophysics Data System (ADS)

Crétat, Julien; Pohl, Benjamin; Dieppois, Bastien; Berthou, Ségolène; Pergaud, Julien

2018-05-01

The main states of the Angola Low (AL) are identified using clustering analysis applied to daily anomalous patterns of 700-hPa wind vorticity over Angola and adjacent countries from November to March for the 1980/81-2014/15 period. At the daily timescale, we examine the extent to which the main states of the AL modulate daily rainfall over southern Africa. At the interannual timescale, we assess both the relationship between the occurrence of these AL states and El Niño southern oscillation (ENSO) and the role of the AL in explaining ENSO's failure in driving southern African rainfall at times. Three reanalyses are considered to account for uncertainties induced by the scarcity of data available for assimilation over southern Africa. Three preferential states of the Angola Low are identified: AL state close to its seasonal climatology with slight zonal displacements, anomalously weak AL state and anomalously strong AL state with meridional displacements. These different states all significantly modulate daily southern African rainfall. Near-climatological AL state promotes wet rainfall anomalies over eastern subtropical southern Africa and dry rainfall anomalies over its western part. A slight westward shift in the near-climatological position of the AL leads to reversed zonal gradient in rainfall. The remaining regimes significantly modulate the meridional gradient in southern African rainfall. Anomalously weak and anomalously northward AL states promote wet rainfall anomalies over tropical southern Africa and dry rainfall anomalies over subtropical southern Africa. The reverse prevails for anomalously southward AL. At the interannual timescale, ENSO significantly modulates the seasonal occurrence of most AL states in the three reanalyses. Anomalously weak and southward AL states are more strongly correlated with regional rainfall than ENSO in all reanalyses, suggesting that accounting for AL variability may improve seasonal forecasts. Case study analysis of the major 1982/83 and 1997/98 El Niño events suggests that the weak rainfall anomalies and strong seasonal AL in 1997/98 may result from counteracting effects between ENSO and Indian Ocean coupled modes of variability.

Genetic structure of drone congregation areas of Africanized honeybees in southern Brazil.

PubMed

Collet, Thais; Cristino, Alexandre Santos; Quiroga, Carlos Fernando Prada; Soares, Ademilson Espencer Egea; Del Lama, Marco Antônio

2009-10-01

As yet, certain aspects of the Africanization process are not well understood, for example, the reproductive behavior of African and European honeybees and how the first Africanized swarms were formed and spread. Drone congregation areas (DCAs) are the ideal place to study honeybee reproduction under natural conditions since hundreds of drones from various colonies gather together in the same geographical area for mating. In the present study, we assessed the genetic structure of seven drone congregations and four commercial European-derived and Africanized apiaries in southern Brazil, employing seven microsatellite loci for this purpose. We also estimated the number of mother-colonies that drones of a specific DCA originated from. Pairwise comparison failed to reveal any population sub-structuring among the DCAs, thus indicating low mutual genetic differentiation. We also observed high genetic similarity between colonies of commercial apiaries and DCAs, besides a slight contribution from a European-derived apiary to a DCA formed nearby. Africanized DCAs seem to have a somewhat different genetic structure when compared to the European.

Testing Deceptive Honeypots

DTIC Science & Technology

2014-09-01

get install python2.7 python- openssl python-gevent libevent-dev python2.7-dev build-essential make liblapack-dev libmysqlclient-dev python-chardet...apt-get install python-dev openssl python- openssl python-pyasn1 python-twisted • apt-get install subversion • apt-get install authbind 4

Matrilineal Heritage in Southern Iberia Reveals Deep Genetic Links between Continents.

PubMed

Hernández, Candela L; Calderón, Rosario

2017-03-01

Within the Mediterranean Basin, the Iberian Peninsula has been a focus of attraction for several cultures and civilizations from its prehistory and history, making it a target territory for studying human migration patterns and peopling processes using a wide and heterogeneous spectrum of genomic markers. While its Cantabrian fringe represents the most regularly analysed area in terms of its mitochondrial diversity, the absence of monographic surveys on the maternal genetic composition of southern Iberians (i.e., Andalusians) is striking. In this work, we present a comprehensive view of various aspects of the human maternal heritage of the autochthonous Andalusian population regarding specific mitochondrial haplogroups considered key candidates to determine the genetic relationship between Europe and Africa. Data reveal that southern Iberian populations do not have genetically homogeneous mitochondrial DNA profiles, and their observed genetic affinity with north-western African populations represents strong signals of old, sustained and bidirectional human movements between the northern and southern shores of the western Mediterranean. Thorough analyses of African mtDNA haplogroups have shown that the most relevant African contribution within Iberian Peninsula could be explained as a consequence of prehistoric events. The subsequent historic episodes helped to strengthen the ties between both shores. In southern Iberia, mitochondrial and other genetic markers show that the Strait of Gibraltar together with its surrounding maritime areas should be considered a bridge between continents. More broadly, the Mediterranean Sea has acted as a transport surface, that is, as a permeable barrier to human migrations from prehistoric and historic times. In conclusion, this research contributes to our knowledge of processes that have shaped the recent human genetic history in the Mediterranean and, more specifically, of the population dynamics that the inhabitants of southern Iberia have experienced with respect to other neighbouring North African populations.

60,000 years of interactions between Central and Eastern Africa documented by major African mitochondrial haplogroup L2.

PubMed

Silva, Marina; Alshamali, Farida; Silva, Paula; Carrilho, Carla; Mandlate, Flávio; Jesus Trovoada, Maria; Černý, Viktor; Pereira, Luísa; Soares, Pedro

2015-07-27

Mitochondrial DNA (mtDNA) haplogroup L2 originated in Western Africa but is nowadays spread across the entire continent. L2 movements were previously postulated to be related to the Bantu expansion, but L2 expansions eastwards probably occurred much earlier. By reconstructing the phylogeny of L2 (44 new complete sequences) we provide insights on the complex net of within-African migrations in the last 60 thousand years (ka). Results show that lineages in Southern Africa cluster with Western/Central African lineages at a recent time scale, whereas, eastern lineages seem to be substantially more ancient. Three moments of expansion from a Central African source are associated to L2: (1) one migration at 70-50 ka into Eastern or Southern Africa, (2) postglacial movements (15-10 ka) into Eastern Africa; and (3) the southward Bantu Expansion in the last 5 ka. The complementary population and L0a phylogeography analyses indicate no strong evidence of mtDNA gene flow between eastern and southern populations during the later movement, suggesting low admixture between Eastern African populations and the Bantu migrants. This implies that, at least in the early stages, the Bantu expansion was mainly a demic diffusion with little incorporation of local populations.

60,000 years of interactions between Central and Eastern Africa documented by major African mitochondrial haplogroup L2

PubMed Central

Silva, Marina; Alshamali, Farida; Silva, Paula; Carrilho, Carla; Mandlate, Flávio; Jesus Trovoada, Maria; Černý, Viktor; Pereira, Luísa; Soares, Pedro

2015-01-01

Mitochondrial DNA (mtDNA) haplogroup L2 originated in Western Africa but is nowadays spread across the entire continent. L2 movements were previously postulated to be related to the Bantu expansion, but L2 expansions eastwards probably occurred much earlier. By reconstructing the phylogeny of L2 (44 new complete sequences) we provide insights on the complex net of within-African migrations in the last 60 thousand years (ka). Results show that lineages in Southern Africa cluster with Western/Central African lineages at a recent time scale, whereas, eastern lineages seem to be substantially more ancient. Three moments of expansion from a Central African source are associated to L2: (1) one migration at 70–50 ka into Eastern or Southern Africa, (2) postglacial movements (15–10 ka) into Eastern Africa; and (3) the southward Bantu Expansion in the last 5 ka. The complementary population and L0a phylogeography analyses indicate no strong evidence of mtDNA gene flow between eastern and southern populations during the later movement, suggesting low admixture between Eastern African populations and the Bantu migrants. This implies that, at least in the early stages, the Bantu expansion was mainly a demic diffusion with little incorporation of local populations. PMID:26211407

The Lake Tahoe Basin Land Use Simulation Model

USGS Publications Warehouse

Forney, William M.; Oldham, I. Benson

2011-01-01

This U.S. Geological Survey Open-File Report describes the final modeling product for the Tahoe Decision Support System project for the Lake Tahoe Basin funded by the Southern Nevada Public Land Management Act and the U.S. Geological Survey's Geographic Analysis and Monitoring Program. This research was conducted by the U.S. Geological Survey Western Geographic Science Center. The purpose of this report is to describe the basic elements of the novel Lake Tahoe Basin Land Use Simulation Model, publish samples of the data inputs, basic outputs of the model, and the details of the Python code. The results of this report include a basic description of the Land Use Simulation Model, descriptions and summary statistics of model inputs, two figures showing the graphical user interface from the web-based tool, samples of the two input files, seven tables of basic output results from the web-based tool and descriptions of their parameters, and the fully functional Python code.

The Politics of Black Religious Change: Disaffiliation from Black Mainline Denominations.

ERIC Educational Resources Information Center

Sherkat, Darren E.; Ellison, Christopher G.

1991-01-01

Analysis of national survey data provides support for a racial and political explanation and generational and network explanations of African-American apostasy and switching away from traditional African-American religious denominations. African-American apostates were more educated, male, single, young, wealthy, non-Southern, and urban than other…

Jungle Giants: Assessing Sustainable Harvesting in a Difficult-to-Survey Species (Python reticulatus).

PubMed

Natusch, Daniel J D; Lyons, Jessica A; Mumpuni; Riyanto, Awal; Shine, Richard

2016-01-01

Sustainability of wildlife harvests is critical but difficult to assess. Evaluations of sustainability typically combine modelling with the measurement of underlying abundances. For many taxa harvested in developing countries, however, abundances are near-impossible to survey and a lack of detailed ecological information impedes the reliability of models. In such cases, repeated surveys of the attributes of harvested individuals may provide more robust information on sustainability. If the numbers, sizes and other demographic attributes of animals taken for the commercial trade do not change over biologically significant time intervals (decades), there is a prima facie case that the harvest is indeed sustainable. Here, we report the results of examinations of > 4,200 reticulated pythons (Python reticulatus) taken for the commercial leather industry in northern and southern Sumatra, Indonesia. The numbers, mean body sizes, clutch sizes, sizes at maturity and proportion of giant specimens have not decreased between our first surveys (1995) and repeat surveys (2015). Thus, despite assumptions to the contrary, the harvest appears to be sustainable. We use our data to inform the design of future monitoring programs for this species. Our study underpins the need for robust science to inform wildlife trade policy and decision-making, and urges wildlife managers to assess sustainability of difficult-to-survey terrestrial wildlife by drawing inferences directly from the harvest itself.

Jungle Giants: Assessing Sustainable Harvesting in a Difficult-to-Survey Species (Python reticulatus)

PubMed Central

Natusch, Daniel J. D.; Lyons, Jessica A.; Mumpuni; Riyanto, Awal; Shine, Richard

2016-01-01

Sustainability of wildlife harvests is critical but difficult to assess. Evaluations of sustainability typically combine modelling with the measurement of underlying abundances. For many taxa harvested in developing countries, however, abundances are near-impossible to survey and a lack of detailed ecological information impedes the reliability of models. In such cases, repeated surveys of the attributes of harvested individuals may provide more robust information on sustainability. If the numbers, sizes and other demographic attributes of animals taken for the commercial trade do not change over biologically significant time intervals (decades), there is a prima facie case that the harvest is indeed sustainable. Here, we report the results of examinations of > 4,200 reticulated pythons (Python reticulatus) taken for the commercial leather industry in northern and southern Sumatra, Indonesia. The numbers, mean body sizes, clutch sizes, sizes at maturity and proportion of giant specimens have not decreased between our first surveys (1995) and repeat surveys (2015). Thus, despite assumptions to the contrary, the harvest appears to be sustainable. We use our data to inform the design of future monitoring programs for this species. Our study underpins the need for robust science to inform wildlife trade policy and decision-making, and urges wildlife managers to assess sustainability of difficult-to-survey terrestrial wildlife by drawing inferences directly from the harvest itself. PMID:27391138

Southern African Large Telescope (SALT) project: progress and status after 2 years

NASA Astrophysics Data System (ADS)

Meiring, Jacobus G.; Buckley, David A. H.; Lomberg, Michael C.; Stobie, Robert S.

2003-02-01

The Southern African Large Telescope (SALT) is a 10-m class optical/IR segmented mirror telescope based on the groundbreaking, low cost, Hobby-Eberly Telescope (HET) design. Approval to construct and operate SALT, which will be the largest single optical telescope in the Southern Hemisphere, was given by the South African Government in November 1999, after sufficient guarantees of matching funding from international partners were secured. Facility construction started in January 2001, and SALT is due to start operations by December 2004. SALT will enable a quantum leap in astronomical research capability in Southern Africa, and indeed the continent, where currently the largest telescope is a modest 1.9-m, dating to the 1940s. A substantial amount of design work for SALT has been completed, sourced from multiple suppliers, with ~60% South African content. South African industry is well equipped to handle the construction of most of the telescope, the exceptions being the glass ceramic mirror blanks (from LZOS in Russia), the polishing and ion figuring of these (Eastman Kodak in the USA), and fabrication of the four-element spherical aberration corrector (SAGEM in France). This paper will present (1) the scientific requirements, (2) the specified performance of SALT, (3) the basic design, with emphasis on the innovative modifications to the HET design that enable significantly improved performance, (4) the progress and status of the project, currently in its construction phase, (5) the first generation instrument suite, (6) the management and organisation of the project and (7) the international partnership in SALT.

Atmospheric Chemistry Over Southern Africa

NASA Technical Reports Server (NTRS)

Gatebe, Charles K.; Levy, Robert C.; Thompson, Anne M.

2011-01-01

During the southern African dry season, regional haze from mixed industrial pollution, biomass burning aerosol and gases from domestic and grassland fires, and biogenic sources from plants and soils is worsened by a semi-permanent atmosphere gyre over the subcontinent. These factors were a driver of several major international field campaigns in the 1990s and early 2000s, and attracted many scientists to the region. Some researchers were interested in understanding fundamental processes governing chemistry of the atmosphere and interaction with climate change. Others found favorable conditions for evaluating satellite-derived measurements of atmospheric properties and a changing land surface. With that background in mind a workshop on atmospheric chemistry was held in South Africa. Sponsored by the International Commission for Atmospheric Chemistry and Global Pollution (ICACGP; http://www.icacgp.org/), the workshop received generous support from the South African power utility, Eskom, and the Climatology Research Group of the University of the Witwatersrand, Johannesburg, South Africa. The purpose of the workshop was to review some earlier findings as well as more recent findings on southern African climate vulnerability, chemical changes due to urbanization, land-use modification, and how these factors interact. Originally proposed by John Burrows, president of ICACGP, the workshop was the first ICACGP regional workshop to study the interaction of air pollution with global chemical and climate change. Organized locally by the University of the Witwatersrand, the workshop attracted more than 60 delegates from South Africa, Mozambique, Botswana, Zimbabwe, France, Germany, Canada, and the United States. More than 30 presentations were given, exploring both retrospective and prospective aspects of the science. In several talks, attention was focused on southern African chemistry, atmospheric pollution monitoring, and climate processes as they were studied in the field campaigns such as Transport and Atmospheric Chemistry Near the Equator-Atlantic (TRACE-A), Southern African Fire-Atmosphere Research Initiative (SAFARI-92), and Southern African Regional Science Initiative (SAFARI 2000). Since those large international efforts, satellites have matured enough to enable quantifiable measurements of regional land surface, atmosphere, and ocean. In addition, global and chemical transport models have also been advanced to incorporate various data. Thus, the timing of the workshop was right for a full-fledged re-assessment of the chemistry, physics, and socio-economical impacts caused by pollution in the region, including a characterization of sources, deposition, and feedbacks with climate change.

History and origin of the HIV-1 subtype C epidemic in South Africa and the greater southern African region

PubMed Central

Wilkinson, Eduan; Engelbrecht, Susan; de Oliveira, Tulio

2015-01-01

HIV has spread at an alarming rate in South Africa, making it the country with the highest number of HIV infections. Several studies have investigated the histories of HIV-1 subtype C epidemics but none have done so in the context of social and political transformation in southern Africa. There is a need to understand how these processes affects epidemics, as socio-political transformation is a common and on-going process in Africa. Here, we genotyped strains from the start of the epidemic and applied phylodynamic techniques to determine the history of the southern Africa and South African epidemic from longitudinal sampled data. The southern African epidemic’s estimated dates of origin was placed around 1960 (95% HPD 1956–64), while dynamic reconstruction revealed strong growth during the 1970s and 80s. The South African epidemic has a similar origin, caused by multiple introductions from neighbouring countries, and grew exponentially during the 1980s and 90s, coinciding with socio-political changes in South Africa. These findings provide an indication as to when the epidemic started and how it has grown, while the inclusion of sequence data from the start of the epidemic provided better estimates. The epidemic have stabilized in recent years with the expansion of antiretroviral therapy. PMID:26574165

Vision for Astronomy in South Africa and partnership with the US

NASA Astrophysics Data System (ADS)

Nemaungani, Takalani

2014-01-01

The 2002 National Research and Development Strategy identified astronomy as a national geographic advantage. This identification was based on the historical investments in optical and, to a lesser extent, radio astronomy up to that point and the realisation that the conditions prevailing in Sutherland were among the best in the world. Since then a number of astronomy initiatives have burgeoned in the Southern African region and these include the HESS, SKA and the AVN. Currently, investments in astronomy are by far the biggest investments being made by the Department of Science and Technology (DST). South Africa’s involvement in modern astronomy dates back to 1685 when a French Astronomer, Guy Tachard, setup an observatory at the southern tip of Africa to decipher the star charts of the extreme southern sky. In 1820, a permanent observatory - the Royal Observatory - was established outside of Cape Town and astronomy has been practised continuously since then. By the late 1980s, it became clear that for South African astronomers and astrophysicists to continue conducting first class research, the acquisition of a much larger, powerful and sophisticated telescope would be necessary. This provided the impetus for a new vision to construct the largest single optical telescope in the Southern Hemisphere, eventually known as the Southern African Large Telescope (SALT). Within the last decade, the African appetite for radio astronomy initiatives has increased exponentially. This has largely been spurred by the African bid to host the SKA project and the need for African countries to work in close partnership that consequently resulted in a successful bid to co-host the SKA project and the subsequent need to ensure its effective implementation. This partnership, and the interactions related thereto, has effectively enhanced awareness around the requirements for hosting radio astronomy instrumentation and the associated benefits that could be derived in making such commitments. Consequently, there have been concerted efforts in support of various radio astronomy initiatives that sit at the cusp of the continents ambitions for the hosting of the SKA.

SADCC: challenging the "South African connection.".

PubMed

Liebenow, J G

1982-01-01

The Southern African Development Coordination Conference (SADCC) which unites 9 states with a combined population of 60 million, has as its objective the task of promoting economic development and realizing economic independence. In many respects the strain of neocolonialism that Southern Africa faces at this time is even more virulent than that facing West, Central, and East Africa. In the latter regions the surrender of political authority by colonial administrators frequently left the commercial, agricultural, and industrial interests of the European powers in continued control of the economies of the former colonies. The fate of economic development plans was determined by situations and decisions made in places distant from the African continent. In the case of Southern Africa, the withdrawal or expulsion of European colonialists has found whites in neighboring South Africa most eager to step into the economic breech. For most of the Southern African states this variant strain of the neocolonial virus creates a dual problem: the independent states acting separately have been no match for South Africa; and the acquiescence of independent African states in forging economic links with South Africa has impeded the liberation efforts of Africans in Namibia and the Republic of South Africa. Discussion focus turns to the challenges that confront SADCC; transport as the most significant factor accounting for the dependency of SADCC states upon South Africa; the role of minerals in dependency; other aspects of dependency; South Africa's proposed Constellation of States; the origins and objectives of SADCC; and dollars and donors. SADCC planning for economic liberation has been conducted against the background of a counterproposal advanced by South Africa's government, which put the Republic at the center of an expanded network of economic linkages within the entire southern African region. While being formally rejected, the Constellation of States scheme does have direct implications for 3 SADCC states. A marked characteristic of SADCC is the determination of the leaders to avoid having regional cooperation turn into a series of administrative institutions. SADCC needs to be viewed as a process, leading both to coordination of effort and stimulation of economic growth within the region. A manifestation of the SADCC process is the farming out of special projects to the member states. A 2nd manifestation of SADCC as a process has been the escalation in the number of bilateral and multilateral agreements among the SADCC countries since 1979.

An Investigation of the Migration of Africanized Honey Bees into the Southern United States

NASA Technical Reports Server (NTRS)

Navarro, Hector

1997-01-01

It is estimated that Apis mellifera scutellata, a honey bee subspecies from Africa, now extends over a 20 million square kilometer range that includes much of South America and practically all of Central America, and recently has been introduced to the southern United States. African honeybees were introduced into Brazil in 1956 by a Brazilian geneticist, Mr. Warwick Kerr. At the insistence of the Brazilian Ministry of Agriculture, in 1957, 26 colonies were accidentally released in a eucalyptus forest outside S5o Paulo. The swelling front of the bees was recorded as traveling between 80 and 500 kilometers a year. David Roubik, one of the original killer bee team members estimated that there were one trillion individual Africanized/African honey bees in Latin America. An estimate that is thought to be conservative.

Prodder's Development Annual, 1988.

ERIC Educational Resources Information Center

van der Kooy, R. J. W., Ed.

This collection of reports examines the current state of development in southern Africa, in general, and in South Africa, in particular. The introduction, "A Development Perspective of Southern Africa" (R. J. W. van der Kooy), briefly reviews the history of southern African development, and discusses purposes, approaches, and progress.…

East African and Kuunga Orogenies in Tanzania - South Kenya

NASA Astrophysics Data System (ADS)

Fritz, H.; Hauzenberger, C. A.; Tenczer, V.

2012-04-01

Tanzania and southern Kenya hold a key position for reconstructing Gondwana consolidation because here different orogen belts with different tectonic styles interfere. The older, ca. 650-620 Ma East African Orogeny resulted from the amalgamation of arc terranes in the northern Arabian-Nubian Shield (ANS) and continental collision between East African pieces and parts of the Azania terrane in the south (Collins and Pisarevsky, 2005). The change form arc suturing to continental collision settings is found in southern Kenya where southernmost arcs of the ANS conjoin with thickened continental margin suites of the Eastern Granulite Belt. The younger ca. 570-530 Ma Kuunga orogeny heads from the Damara - Zambesi - Irumide Belts (De Waele et al., 2006) over Tanzania - Mozambique to southern India and clashes with the East African orogen in southern-central Tanzania. Two transitional orogen settings may be defined, (1) that between island arcs and inverted passive continental margin within the East African Orogen and, (2) that between N-S trending East African and W-E trending Kuungan orogenies. The Neoproterozoic island arc suites of SE-Kenya are exposed as a narrow stripe between western Azania and the Eastern Granulite belt. This suture is a steep, NNW stretched belt that aligns roughly with the prominent southern ANS shear zones that converge at the southern tip of the ANS (Athi and Aswa shear zones). Oblique convergence resulted in low-vorticity sinstral shear during early phases of deformation. Syn-magmatic and syn-tectonic textures are compatible with deformation at granulite metamorphic conditions and rocks exhumed quickly during ongoing transcurrent motion. The belt is typified as wrench tectonic belt with horizontal northwards flow of rocks within deeper portions of an island arc. The adjacent Eastern Granulite Nappe experienced westward directed, subhorizontal, low-vorticity, high temperature flow at partly extreme metamorphic conditions (900°C, 1.2 to 1.4 GPa) (Fritz et al., 2009). Majority of data suggest an anticlockwise P-T loop and prolonged, slow cooling at deep crustal levels without significant exhumation. Isobaric cooling is explained by horizontal flow with rates faster than thermal equilibration of the lower crust. Those settings are found in domains of previously thinned lithosphere such as extended passive margins. Such rheolgically weak plate boundaries do not produce self-sustaining one-sided subduction but large areas of magmatic underplating that enable melt enhanced lateral flow of the lower crust. Western Granulites deformed by high-vorticity westwards thrusting at c. 550 Ma (Kuunga orogeny). Rocks exhibit clockwise P-T paths and experienced significant exhumation during isothermal decompression. Overprint between Kuungan structures and 620 Ma East African fabrics resulted in complex interference pattern within the Eastern Granulites. The three orogen portions that converge in Tanzania / Southern Kenya have different orogen styles. The southern ANS formed by transcurrent deformation of an island arc root; the Eastern Granulites by lower crustal channelized flow of a hot inverted passive margin; the Western Granulites by lower to mid crustal stacking of old and cold crustal fragments. Collins, A.S., Pisarevsky, S.A. (2005). Amalgamating eastern Gondwana: The evolution of the Circum-Indian Orogens. Earth-Science Reviews, 71, 229-270. De Waele, B., Kampunzu, A.B., Mapani, B.S.E., Tembo, F. (2006). The Mesoproterozoic Irumide belt of Zambia. Journal of African Earth Sciences, 46, 36-70 Fritz, H., Tenczer, V., Hauzenberger, C., Wallbrecher, E., Muhongo, S. (2009). Hot granulite nappes — Tectonic styles and thermal evolution of the Proterozoic granulite belts in East Africa. Tectonophysics, 477, 160-173.

Initiation and patterning of the snake dentition are dependent on Sonic hedgehog signaling.

PubMed

Buchtová, Marcela; Handrigan, Gregory R; Tucker, Abigail S; Lozanoff, Scott; Town, Liam; Fu, Katherine; Diewert, Virginia M; Wicking, Carol; Richman, Joy M

2008-07-01

Here we take the first look at cellular dynamics and molecular signaling in the developing snake dentition. We found that tooth formation differs from rodents in several respects. The majority of snake teeth bud off of a deep, ribbon-like dental lamina rather than as separate tooth germs. Prior to and after dental lamina ingrowth, we observe asymmetries in cell proliferation and extracellular matrix distribution suggesting that localized signaling by a secreted protein is involved. We cloned Sonic hedgehog from the African rock python Python sebae and traced its expression in the species as well as in two other snakes, the closely-related Python regius and the more derived corn snake Elaphe guttata (Colubridae). We found that expression of Shh is first confined to the odontogenic band and defines the position of the future dental lamina. Shh transcripts in pythons are progressively restricted to the oral epithelium on one side of the dental lamina and remain in this position throughout the prehatching period. Shh is expressed in the inner enamel epithelium and the stellate reticulum of the tooth anlagen, but is absent from the outer enamel epithelium and its derivative, the successional lamina. This suggests that signals other than Shh are responsible for replacement tooth formation. Functional studies using cyclopamine to block Hh signaling during odontogenesis prevented initiation and extension of the dental lamina into the mesenchyme, and also affected the directionality of this process. Further, blocking Hh signaling led to disruptions of the inner enamel epithelium. To explore the role of Shh in lamina extension, we looked at its expression in the premaxillary teeth, which form closer to the oral surface than elsewhere in the mouth. Oral ectodermal Shh expression in premaxillary teeth is lost soon after the teeth form reinforcing the idea that Shh is controlling the depth of the dental lamina. In summary, we have found diverse roles for Shh in patterning the snake dentition but, have excluded the participation of this signal in replacement tooth formation.

Improve projections of changes in southern African summer rainfall through comprehensive multi-timescale empirical statistical downscaling

NASA Astrophysics Data System (ADS)

Dieppois, B.; Pohl, B.; Eden, J.; Crétat, J.; Rouault, M.; Keenlyside, N.; New, M. G.

2017-12-01

The water management community has hitherto neglected or underestimated many of the uncertainties in climate impact scenarios, in particular, uncertainties associated with decadal climate variability. Uncertainty in the state-of-the-art global climate models (GCMs) is time-scale-dependant, e.g. stronger at decadal than at interannual timescales, in response to the different parameterizations and to internal climate variability. In addition, non-stationarity in statistical downscaling is widely recognized as a key problem, in which time-scale dependency of predictors plays an important role. As with global climate modelling, therefore, the selection of downscaling methods must proceed with caution to avoid unintended consequences of over-correcting the noise in GCMs (e.g. interpreting internal climate variability as a model bias). GCM outputs from the Coupled Model Intercomparison Project 5 (CMIP5) have therefore first been selected based on their ability to reproduce southern African summer rainfall variability and their teleconnections with Pacific sea-surface temperature across the dominant timescales. In observations, southern African summer rainfall has recently been shown to exhibit significant periodicities at the interannual timescale (2-8 years), quasi-decadal (8-13 years) and inter-decadal (15-28 years) timescales, which can be interpret as the signature of ENSO, the IPO, and the PDO over the region. Most of CMIP5 GCMs underestimate southern African summer rainfall variability and their teleconnections with Pacific SSTs at these three timescales. In addition, according to a more in-depth analysis of historical and pi-control runs, this bias is might result from internal climate variability in some of the CMIP5 GCMs, suggesting potential for bias-corrected prediction based empirical statistical downscaling. A multi-timescale regression based downscaling procedure, which determines the predictors across the different timescales, has thus been used to simulate southern African summer rainfall. This multi-timescale procedure shows much better skills in simulating decadal timescales of variability compared to commonly used statistical downscaling approaches.

Parasites of the African clawed frog, Xenopus laevis, in southern California, U.S.A

USGS Publications Warehouse

Kuperman, Boris I.; Matey, Victoria E.; Fisher, Richard N.; Ervin, Edward L.; Warburton, Manna L.; Bakhireva, Ludmila; Lehman, Cynthia A.

2004-01-01

A total of 230 feral African clawed frogs, Xenopus laevis, from 3 localities in southern California were examined for parasites. The following species were found: 3 species of Protozoa, Nyctotherussp., Balantidium xenopodis, Protoopalina xenopodus; 2 species of Monogenea, Protopolystoma xenopodis, Gyrdicotylus gallieni; 1 species of Digenea, Clinostomum sp. (as metacercariae); 1 species of Cestoda, Cephalochlamys namaquensis; 2 species of Nematoda, Contracaecum sp. (as larvae), Eustrongylides sp. (as larvae); and 1 species of Acanthocephala, Acanthocephalus sp. (as cystacanth). Of these, the protozoans P. xenopodus and B. xenopodis, both monogeneans, and the cestode have an African origin. Contracaecum sp., Eustrongylides sp., and Acanthocephalus sp. have not been previously reported from X. laevis.

Genetic structure of drone congregation areas of Africanized honeybees in southern Brazil

PubMed Central

2009-01-01

As yet, certain aspects of the Africanization process are not well understood, for example, the reproductive behavior of African and European honeybees and how the first Africanized swarms were formed and spread. Drone congregation areas (DCAs) are the ideal place to study honeybee reproduction under natural conditions since hundreds of drones from various colonies gather together in the same geographical area for mating. In the present study, we assessed the genetic structure of seven drone congregations and four commercial European-derived and Africanized apiaries in southern Brazil, employing seven microsatellite loci for this purpose. We also estimated the number of mother-colonies that drones of a specific DCA originated from. Pairwise comparison failed to reveal any population sub-structuring among the DCAs, thus indicating low mutual genetic differentiation. We also observed high genetic similarity between colonies of commercial apiaries and DCAs, besides a slight contribution from a European-derived apiary to a DCA formed nearby. Africanized DCAs seem to have a somewhat different genetic structure when compared to the European. PMID:21637465

The History of African Gene Flow into Southern Europeans, Levantines, and Jews

PubMed Central

Moorjani, Priya; Patterson, Nick; Hirschhorn, Joel N.; Keinan, Alon; Hao, Li; Atzmon, Gil; Burns, Edward; Ostrer, Harry; Price, Alkes L.; Reich, David

2011-01-01

Previous genetic studies have suggested a history of sub-Saharan African gene flow into some West Eurasian populations after the initial dispersal out of Africa that occurred at least 45,000 years ago. However, there has been no accurate characterization of the proportion of mixture, or of its date. We analyze genome-wide polymorphism data from about 40 West Eurasian groups to show that almost all Southern Europeans have inherited 1%–3% African ancestry with an average mixture date of around 55 generations ago, consistent with North African gene flow at the end of the Roman Empire and subsequent Arab migrations. Levantine groups harbor 4%–15% African ancestry with an average mixture date of about 32 generations ago, consistent with close political, economic, and cultural links with Egypt in the late middle ages. We also detect 3%–5% sub-Saharan African ancestry in all eight of the diverse Jewish populations that we analyzed. For the Jewish admixture, we obtain an average estimated date of about 72 generations. This may reflect descent of these groups from a common ancestral population that already had some African ancestry prior to the Jewish Diasporas. PMID:21533020

The history of African gene flow into Southern Europeans, Levantines, and Jews.

PubMed

Moorjani, Priya; Patterson, Nick; Hirschhorn, Joel N; Keinan, Alon; Hao, Li; Atzmon, Gil; Burns, Edward; Ostrer, Harry; Price, Alkes L; Reich, David

2011-04-01

Previous genetic studies have suggested a history of sub-Saharan African gene flow into some West Eurasian populations after the initial dispersal out of Africa that occurred at least 45,000 years ago. However, there has been no accurate characterization of the proportion of mixture, or of its date. We analyze genome-wide polymorphism data from about 40 West Eurasian groups to show that almost all Southern Europeans have inherited 1%-3% African ancestry with an average mixture date of around 55 generations ago, consistent with North African gene flow at the end of the Roman Empire and subsequent Arab migrations. Levantine groups harbor 4%-15% African ancestry with an average mixture date of about 32 generations ago, consistent with close political, economic, and cultural links with Egypt in the late middle ages. We also detect 3%-5% sub-Saharan African ancestry in all eight of the diverse Jewish populations that we analyzed. For the Jewish admixture, we obtain an average estimated date of about 72 generations. This may reflect descent of these groups from a common ancestral population that already had some African ancestry prior to the Jewish Diasporas.

Multilocus phylogeography of a widespread savanna-woodland-adapted rodent reveals the influence of Pleistocene geomorphology and climate change in Africa's Zambezi region.

PubMed

McDonough, Molly M; Šumbera, Radim; Mazoch, Vladimír; Ferguson, Adam W; Phillips, Caleb D; Bryja, Josef

2015-10-01

Understanding historical influences of climate and physiographic barriers in shaping patterns of biodiversity remains limited for many regions of the world. For mammals of continental Africa, phylogeographic studies, particularly for West African lineages, implicate both geographic barriers and climate oscillations in shaping small mammal diversity. In contrast, studies for southern African species have revealed conflicting phylogenetic patterns for how mammalian lineages respond to both climate change and geologic events such as river formation, especially during the Pleistocene. However, these studies were often biased by limited geographic sampling or exclusively focused on large-bodied taxa. We exploited the broad southern African distribution of a savanna-woodland-adapted African rodent, Gerbilliscus leucogaster (bushveld gerbil) and generated mitochondrial, autosomal and sex chromosome data to quantify regional signatures of climatic and vicariant biogeographic phenomena. Results indicate the most recent common ancestor for all G. leucogaster lineages occurred during the early Pleistocene. We documented six divergent mitochondrial lineages that diverged ~0.270-0.100 mya, each of which was geographically isolated during periods characterized by alterations to the course of the Zambezi River and its tributaries as well as regional 'megadroughts'. Results demonstrate the presence of a widespread lineage exhibiting demographic expansion ~0.065-0.035 mya, a time that coincides with savanna-woodland expansion across southern Africa. A multilocus autosomal perspective revealed the influence of the Kafue River as a current barrier to gene flow and regions of secondary contact among divergent mitochondrial lineages. Our results demonstrate the importance of both climatic fluctuations and physiographic vicariance in shaping the distribution of southern African biodiversity. © 2015 John Wiley & Sons Ltd.

Using uplift rates and lithosphere stress pattern for the past 200 Ma to quantify deep and shallow mantle contributions to the present-day southern African topography

NASA Astrophysics Data System (ADS)

Osei Tutu, A.; Webb, S. J.; Steinberger, B. M.; Rogozhina, I.

2017-12-01

The debate about the origin of the highlands in southern African has generated varying hypothesis, since the nominal processes for mountain building such as evidence of orogeny is not observed here at present-day. For example, some studies have suggested a pre-Paleozoic subduction under the southern Africa plate, might have caused the high topography, whiles other have proposed a large-scale buoyant flow coming from the mid-mantle over the African Large Low Share Velocity Province (LLSVP) as the source. A different school of thought is centered on a probable plume-lithosphere interaction in the early Miocene to late Pliocene. Using joint analysis of geodynamics and geophysical models with geological records; we seek to quantify both shallow and deep mantle density heterogeneities and viscosity structure to understand the tectonics of the southern Africa regional topography. We estimate uplift rates and change in lithosphere stress field for the past 200 Ma and compare with geological records considering first only shallow and deep contributions and their combined effect using a thermo-mechanical model with a free surface.

Evolution of foraging behaviour: Deep intra-generic genetic divergence between territorial and non-territorial southern African patellid limpets.

PubMed

Mmonwa, Kolobe L; Teske, Peter R; McQuaid, Christopher D; Barker, Nigel P

2017-12-01

Southern Africa is a biodiversity hotspot of patellid limpets, with three genera (Helcion, Cymbula and Scutellastra) identified and described in the region. Scutellastra is the most diverse and most frequently studied of these and, along with Cymbula, includes species with territorial and non-territorial foraging behaviours. We used three mitochondrial markers (12S rRNA, 16S rRNA and COI) and one nuclear marker (ATPSβ intron) to assess evolutionary relationships among species of Cymbula and Scutellastra with these two foraging behaviours and to identify which foraging mode is the more ancient. Maximum Likelihood and Bayesian Inference phylogenetic analyses revealed that the species sharing a foraging type are monophyletic in both genera. Territoriality is a derived character, as the clades with this foraging type are nested within a tree that otherwise comprises non-territorial taxa. These include Helcion, which was recovered as sister to the Cymbula/Scutellastra clade, and the next basal genus, Patella, which is ancestral to all southern African patellogastropods. Deep genetic divergence between the two foraging traits reflects strong adaptive effects of resource partitioning in the evolution of southern African patellid limpets. Copyright © 2017 Elsevier Inc. All rights reserved.

Trends in total ozone over southern African stations between 1979 and 1991

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

Kalicharran, S.; Diab, R.D.; Sokolic, F.

1993-12-01

Trends in total ozone for the period 1979 to 1991 over the southern African subcontinent and the southern ocean islands of Marion and Gough and the South African Antarctic base of SANAE are examined. Version 6 Total Ozone Mapping Spectrometer (TOMS) data are used. With the exception of the low latitude stations (Nairobi and Harare), where a marginally increasing trend (+0.2% and +0.3%, respectively) was observed, the other stations all exhibited a decreasing trend in total ozone over the 13 year period, ranging between -1.1 and -2.6% over most of South Africa, increasing with latitude to reach -20.6% at SANAE.more » Inter-annual fluctuations at Nairobi are dominated by a Quasi-Biennial Oscillation (QBO), with maximum ozone occurring during the westerly phase of the QBO. At the extratropical locations, ozone peaks and troughs are anti-correlated with those at Nairobi and the QBO signal is less well developed and modulated by the seasonal cycle.« less

P wave velocity of Proterozoic upper mantle beneath central and southern Asia

NASA Astrophysics Data System (ADS)

Nyblade, Andrew A.; Vogfjord, Kristin S.; Langston, Charles A.

1996-05-01

P wave velocity structure of Proterozoic upper mantle beneath central and southern Africa was investigated by forward modeling of Pnl waveforms from four moderate size earthquakes. The source-receiver path of one event crosses central Africa and lies outside the African superswell while the source-receiver paths for the other events cross Proterozoic lithosphere within southern Africa, inside the African superswell. Three observables (Pn waveshape, PL-Pn time, and Pn/PL amplitude ratio) from the Pnl waveform were used to constrain upper mantle velocity models in a grid search procedure. For central Africa, synthetic seismograms were computed for 5880 upper mantle models using the generalized ray method and wavenumber integration; synthetic seismograms for 216 models were computed for southern Africa. Successful models were taken as those whose synthetic seismograms had similar waveshapes to the observed waveforms, as well as PL-Pn times within 3 s of the observed times and Pn/PL amplitude ratios within 30% of the observed ratio. Successful models for central Africa yield a range of uppermost mantle velocity between 7.9 and 8.3 km s-1, velocities between 8.3 and 8.5 km s-1 at a depth of 200 km, and velocity gradients that are constant or slightly positive. For southern Africa, successful models yield uppermost mantle velocities between 8.1 and 8.3 km s-1, velocities between 7.9 and 8.4 km s-1 at a depth of 130 km, and velocity gradients between -0.001 and 0.001 s-1. Because velocity gradients are controlled strongly by structure at the bottoming depths for Pn waves, it is not easy to compare the velocity gradients obtained for central and southern Africa. For central Africa, Pn waves turn at depths of about 150-200 km, whereas for southern Africa they bottom at ˜100-150 km depth. With regard to the origin of the African superswell, our results do not have sufficient resolution to test hypotheses that invoke simple lithospheric reheating. However, our models are not consistent with explanations for the African superswell invoking extensive amounts of lithospheric thinning. If extensive lithospheric thinning had occurred beneath southern Africa, as suggested previously, then upper mantle P wave velocities beneath southern Africa would likely be lower than those in our models.

An Exploration of the Leadership Style Preferences among African American Women Administrators of the 1890 Cooperative Extension System

ERIC Educational Resources Information Center

Campbell, Shelvy L.

2010-01-01

The purpose of this mixed-methods study was to identify and explore the leadership style preferences among current African American Administrators of the 1890 Land-Grant Cooperative Extension system. The population used in this study was African American women administrators from eighteen mostly southern states. The researcher used a…

Engaging African American landowners in sustainable forest management

Treesearch

John Schelhas; Sarah Hitchner; Cassandra Johnson Gaither; Rory Fraser; Viniece Jennings; Amadou Diop

2016-01-01

The Sustainable Forestry and African American Land Retention Program is a comprehensive effort to address the long-standing problem of underparticipation of African Americans in forest management. We conducted rapid appraisal baseline research for pilot projects in this program in three Southern states using a carefully selected purposive sample to enhance our...

Teaching Democracy before "Brown": Civic Education in Georgia's African American Schools, 1930-1954

ERIC Educational Resources Information Center

Preston-Grimes, Patrice

2007-01-01

Research on the history of civic education in United States has rarely reflected the perspectives of African American teachers and students. Through analysis of archival data, I document how African American educators in one Southern state reported teaching civic values to students in a racially segregated society before the modern Civil Rights…

Colleges in the Making of Manhood and Masculinity: Gendered Perspectives on African American Males

ERIC Educational Resources Information Center

Dancy, T. Elon, II

2011-01-01

Using an interdisciplinary approach, this paper explores the ways in which colleges become sites that socialise African American men as gendered beings. Twenty-four African American men enrolled in 12 colleges and universities across the 19 southern and border states of America participated in this study. The purpose is to illustrate how…

African Refugee Parents' Involvement in Their Children's Schools: Barriers and Recommendations for Improvement

ERIC Educational Resources Information Center

Githembe, Purity Kanini

2009-01-01

The purpose of this study was to examine involvement of African refugee parents in the education of their elementary school children. The setting of the study was Northern and Southern Texas. African refugee parents and their children's teachers completed written surveys and also participated in interviews. In the study's mixed-method design,…

In Their Own Words: Stories from HIV-Positive African American Women

ERIC Educational Resources Information Center

Robillard, Alyssa G; Reed, Cymone; Larkey, Linda; Kohler, Connie; Ingram, Lucy A; Lewis, Kaleea; Julious, Carmen

2017-01-01

Objectives: African American women are disproportionately impacted upon by HIV, particularly in the Southern states of the USA where the percentage of new cases of HIV and the percentage of people living with HIV in the USA are highest. This study describes the lived experiences of HIV-positive African American women based on their written…

Morphology of the southern African geomagnetic field derived from observatory and repeat station survey observations: 2005-2014

NASA Astrophysics Data System (ADS)

Kotzé, P. B.; Korte, M.

2016-02-01

Geomagnetic field data from four observatories and annual field surveys between 2005 and 2015 provide a detailed description of Earth's magnetic field changes over South Africa, Namibia and Botswana on time scales of less than 1 year. The southern African area is characterized by rapid changes in the secular variation pattern and lies in close proximity to the South Atlantic Anomaly (SAA) where the geomagnetic field intensity is almost 30 % weaker than in other regions at similar latitudes around the globe. Several geomagnetic secular acceleration (SA) pulses (geomagnetic jerks) around 2007, 2010 and 2012 could be identified over the last decade in southern Africa. We present a new regional field model for declination and horizontal and vertical intensity over southern Africa (Southern African REGional (SAREG)) which is based on field survey and observatory data and covering the time interval from 2005 to 2014, i.e. including the period between 2010 and 2013 when no low Earth-orbiting vector field satellite data are available. A comparative evaluation between SAREG and global field models like CHAOS-5, the CHAMP, Orsted and SAC-C model of the Earth's magnetic field and International Geomagnetic Reference Field (IGRF-12) reveals that a simple regional field model based on a relatively dense ground network is able to provide a realistic representation of the geomagnetic field in this area. We particularly note that a global field model like CHAOS-5 does not always indicate similar short-period patterns in the field components as revealed by observatory data, while representing the general secular variation reasonably well during the time interval without near-Earth satellite vector field data. This investigation further shows the inhomogeneous occurrence and distribution of secular variation impulses in the different geomagnetic field components and at different locations in southern African.

Histories of forced sex and health outcomes among Southern African lesbian and bisexual women: a cross-sectional study.

PubMed

Sandfort, Theo; Frazer, M Somjen; Matebeni, Zethu; Reddy, Vasu; Southey-Swartz, Ian

2015-01-01

Experiences of forced sex have been shown to be prevalent in Southern Africa. Negative outcomes of forced sex have been documented in general populations of women and men and include alcohol abuse, drug use, mental health problems, mental distress, sexual health problems and poor overall health. This study is the first to examine experiences of forced sex and associated health problems among lesbian and bisexual women in Southern Africa. This study is based on data collected as part of a collaborative endeavor involving various Southern African community-based organizations. Lesbian and bisexual women in four Southern African countries participated in a cross-sectional survey, for a total study sample of 591. Nearly one-third of participants had been forced to have sex at some time in their lives. Thirty-one percent of all women reported to have experienced forced sex at least once in their life: 14.9% reported forced sex by men only; 6.6% reported forced sex by women only; 9.6% had had forced sexual experiences with both men and women. Participants experienced forced sex by men as more serious than forced sex by women; forced sex by women was more likely to involve intimate partners compared to forced sex by men. Participants who experienced forced sex by men were more likely to report drug problems, mental distress and lower sense of belonging. Forced sex by women was associated with drinking problems and mental distress. Having experienced forced sex by both men and women was associated with lower sense of belonging to the LGBT community, drug use problem and mental distress. The findings indicate that forced sex among Southern African women is a serious issue that needs further exploration. Clinicians should be made aware of the prevalence and possible consequences of forced sex among lesbian and bisexual women. Policies and community interventions should be designed to address this problem.

East African Rift Valley, Kenya

NASA Technical Reports Server (NTRS)

1990-01-01

This rare, cloud free view of the East African Rift Valley, Kenya (1.5N, 35.5E) shows a clear view of the Turkwell River Valley, an offshoot of the African REift System. The East African Rift is part of a vast plate fracture which extends from southern Turkey, through the Red Sea, East Africa and into Mozambique. Dark green patches of forests are seen along the rift margin and tea plantations occupy the cooler higher ground.

Climate and southern Africa's water-energy-food nexus

NASA Astrophysics Data System (ADS)

Conway, Declan; van Garderen, Emma Archer; Deryng, Delphine; Dorling, Steve; Krueger, Tobias; Landman, Willem; Lankford, Bruce; Lebek, Karen; Osborn, Tim; Ringler, Claudia; Thurlow, James; Zhu, Tingju; Dalin, Carole

2015-09-01

In southern Africa, the connections between climate and the water-energy-food nexus are strong. Physical and socioeconomic exposure to climate is high in many areas and in crucial economic sectors. Spatial interdependence is also high, driven, for example, by the regional extent of many climate anomalies and river basins and aquifers that span national boundaries. There is now strong evidence of the effects of individual climate anomalies, but associations between national rainfall and gross domestic product and crop production remain relatively weak. The majority of climate models project decreases in annual precipitation for southern Africa, typically by as much as 20% by the 2080s. Impact models suggest these changes would propagate into reduced water availability and crop yields. Recognition of spatial and sectoral interdependencies should inform policies, institutions and investments for enhancing water, energy and food security. Three key political and economic instruments could be strengthened for this purpose: the Southern African Development Community, the Southern African Power Pool and trade of agricultural products amounting to significant transfers of embedded water.

Antiquity of the South Atlantic Anomaly and evidence for top-down control on the geodynamo.

PubMed

Tarduno, John A; Watkeys, Michael K; Huffman, Thomas N; Cottrell, Rory D; Blackman, Eric G; Wendt, Anna; Scribner, Cecilia A; Wagner, Courtney L

2015-07-28

The dramatic decay of dipole geomagnetic field intensity during the last 160 years coincides with changes in Southern Hemisphere (SH) field morphology and has motivated speculation of an impending reversal. Understanding these changes, however, has been limited by the lack of longer-term SH observations. Here we report the first archaeomagnetic curve from southern Africa (ca. 1000-1600 AD). Directions change relatively rapidly at ca. 1300 AD, whereas intensities drop sharply, at a rate greater than modern field changes in southern Africa, and to lower values. We propose that the recurrence of low field strengths reflects core flux expulsion promoted by the unusual core-mantle boundary (CMB) composition and structure beneath southern Africa defined by the African large low shear velocity province (LLSVP). Because the African LLSVP and CMB structure are ancient, this region may have been a steady site for flux expulsion, and triggering of geomagnetic reversals, for millions of years.

Spectroscopical Study of Faint Southern Cepheids with Southern African Large Telescope (salt). First Results.

NASA Astrophysics Data System (ADS)

Usenko, I. A.; Kniazev, A. Yu.; Kovtyukh, V. V.; Belik, S. I.; Berdnikov, L. N.

First Cepheids observations using echelle-spectrograph HRS fed by Southern African Large Telescope (SALT) were realized during 2016. All spectra have been obtained in the medium resoltion mode (R≍ 31000-41000) wth high S/N ratio near 50-220. All data were processed using package developed by authors based on the standard system of astronomical data reduction MIDAS. Using new echelle data we found the atmosphere parameters and chemical composition for 30 faint Cepheids of southern hemisphere, where for the most of theses stars these results we obtained for the first time. 28 stars are Cepheids after the first-dredge up stage, while ASAS 075842-25336.1 and ASAS 1131714-6605.0 having remarkable Li I 6707.8 Å absorption line and anomalous CNO and Na content could be consider as first crossing of the Cepheids instability strip.

Access to What? Creating a Composite Measure of Educational Quantity and Educational Quality for 11 African Countries

ERIC Educational Resources Information Center

Spaull, Nicholas; Taylor, Stephen

2015-01-01

The aim of the current study is to create a composite statistic of educational quantity and educational quality by combining household data (Demographic and Health Survey) on grade completion and survey data (Southern and Eastern African Consortium for Monitoring Educational Quality) on cognitive outcomes for 11 African countries: Kenya, Lesotho,…

“Sunshine, sweat, and tears”: African-American ties to land and forests in the south

Treesearch

John Schelhas; Sarah Hitchner; Cassandra Johnson Gaither; Viniece Jennings

2017-01-01

The Sustainable Forestry and African American Land Retention Program is a comprehensive effort to address the longstanding problem of under-participation of African Americans in forest management. This report describes the results of rapid appraisal baseline research for pilot projects in this program in three Southern States. The research used a carefully selected...

The History and Future of the Southern Bible Institute: A Post-Secondary School of Biblical Studies for African Americans

ERIC Educational Resources Information Center

Cooks, Michael

2010-01-01

The United States of America has a long history in higher education, but one area of its history not exhausted through research involves higher education for African Americans. Specifically, higher education for African Americans in the area of theology or biblical studies presents numerous opportunities for further research. Soon after the…

Implications for Lithospheric Reheating beneath the African Superswell from P nl Wave Propagation in Central and Southern Africa,

DTIC Science & Technology

1995-08-14

characterized by a lid structure with a constant velocity. There appears to be little evidence for (1) mantle velocity gradients beneath southern Africa that...therefore conclude that there is little evidence for (1) a mantle lid beneath central Africa containing a positive velocity gradient or (2).a low velocity... Fucks , M.A. Khan, P.K.H. Maguire, W.D. Mooney, U. Achauer, P.M. Davis, R.P. Meyer, L.W. Braile, 1.0. Nyambok, and G.A. Thompson, The East African rift

Data reductions and data quality for the high resolution spectrograph on the Southern African Large Telescope

NASA Astrophysics Data System (ADS)

Crawford, S. M.; Crause, Lisa; Depagne, Éric; Ilkiewicz, Krystian; Schroeder, Anja; Kuhn, Rudolph; Hettlage, Christian; Romero Colmenaro, Encarni; Kniazev, Alexei; Väisänen, Petri

2016-08-01

The High Resolution Spectrograph (HRS) on the Southern African Large Telescope (SALT) is a dual beam, fiber-fed echelle spectrograph providing high resolution capabilities to the SALT observing community. We describe the available data reduction tools and the procedures put in place for regular monitoring of the data quality from the spectrograph. Data reductions are carried out through the pyhrs package. The data characteristics and instrument stability are reported as part of the SALT Dashboard to help monitor the performance of the instrument.

The roles of spirituality in the relationship between traumatic life events, mental health, and drug use among African American women from one southern state.

PubMed

Staton-Tindall, Michele; Duvall, Jamieson; Stevens-Watkins, Danelle; Oser, Carrie B

2013-09-01

This study examines the role of spirituality as a moderator of the relationship between traumatic life experiences, mental health, and drug use in a sample of African American women. It was hypothesized that there would be an inverse relationship overall between spirituality and mental health and drug use among this sample of African American women. Secondly, was expected that spirituality would moderate the relationship between traumatic life events and mental health and drug use. African American women (n = 206) were recruited from the community and from probation officers in three urban areas of a southern state, and face-to-face interviews were completed. Findings indicated that there was a main effect for spirituality (as measured by existential well-being on the Spiritual Well-Being Scale) and traumatic life events, mental health, and alcohol use. In addition, spirituality was a significant moderator of the relationship between traumatic life events and cocaine use. Discussion and implications for African American women are included.

Phylogeographic Patterns in Africa and High Resolution Delineation of Genetic Clades in the Lion (Panthera leo)

NASA Astrophysics Data System (ADS)

Bertola, L. D.; Jongbloed, H.; van der Gaag, K. J.; de Knijff, P.; Yamaguchi, N.; Hooghiemstra, H.; Bauer, H.; Henschel, P.; White, P. A.; Driscoll, C. A.; Tende, T.; Ottosson, U.; Saidu, Y.; Vrieling, K.; de Iongh, H. H.

2016-08-01

Comparative phylogeography of African savannah mammals shows a congruent pattern in which populations in West/Central Africa are distinct from populations in East/Southern Africa. However, for the lion, all African populations are currently classified as a single subspecies (Panthera leo leo), while the only remaining population in Asia is considered to be distinct (Panthera leo persica). This distinction is disputed both by morphological and genetic data. In this study we introduce the lion as a model for African phylogeography. Analyses of mtDNA sequences reveal six supported clades and a strongly supported ancestral dichotomy with northern populations (West Africa, Central Africa, North Africa/Asia) on one branch, and southern populations (North East Africa, East/Southern Africa and South West Africa) on the other. We review taxonomies and phylogenies of other large savannah mammals, illustrating that similar clades are found in other species. The described phylogeographic pattern is considered in relation to large scale environmental changes in Africa over the past 300,000 years, attributable to climate. Refugial areas, predicted by climate envelope models, further confirm the observed pattern. We support the revision of current lion taxonomy, as recognition of a northern and a southern subspecies is more parsimonious with the evolutionary history of the lion.

Phylogeographic Patterns in Africa and High Resolution Delineation of Genetic Clades in the Lion (Panthera leo).

PubMed

Bertola, L D; Jongbloed, H; van der Gaag, K J; de Knijff, P; Yamaguchi, N; Hooghiemstra, H; Bauer, H; Henschel, P; White, P A; Driscoll, C A; Tende, T; Ottosson, U; Saidu, Y; Vrieling, K; de Iongh, H H

2016-08-04

Comparative phylogeography of African savannah mammals shows a congruent pattern in which populations in West/Central Africa are distinct from populations in East/Southern Africa. However, for the lion, all African populations are currently classified as a single subspecies (Panthera leo leo), while the only remaining population in Asia is considered to be distinct (Panthera leo persica). This distinction is disputed both by morphological and genetic data. In this study we introduce the lion as a model for African phylogeography. Analyses of mtDNA sequences reveal six supported clades and a strongly supported ancestral dichotomy with northern populations (West Africa, Central Africa, North Africa/Asia) on one branch, and southern populations (North East Africa, East/Southern Africa and South West Africa) on the other. We review taxonomies and phylogenies of other large savannah mammals, illustrating that similar clades are found in other species. The described phylogeographic pattern is considered in relation to large scale environmental changes in Africa over the past 300,000 years, attributable to climate. Refugial areas, predicted by climate envelope models, further confirm the observed pattern. We support the revision of current lion taxonomy, as recognition of a northern and a southern subspecies is more parsimonious with the evolutionary history of the lion.

Phylogeographic Patterns in Africa and High Resolution Delineation of Genetic Clades in the Lion (Panthera leo)

PubMed Central

Bertola, L. D.; Jongbloed, H.; van der Gaag, K. J.; de Knijff, P.; Yamaguchi, N.; Hooghiemstra, H.; Bauer, H.; Henschel, P.; White, P. A.; Driscoll, C. A.; Tende, T.; Ottosson, U.; Saidu, Y.; Vrieling, K.; de Iongh, H. H.

2016-01-01

Comparative phylogeography of African savannah mammals shows a congruent pattern in which populations in West/Central Africa are distinct from populations in East/Southern Africa. However, for the lion, all African populations are currently classified as a single subspecies (Panthera leo leo), while the only remaining population in Asia is considered to be distinct (Panthera leo persica). This distinction is disputed both by morphological and genetic data. In this study we introduce the lion as a model for African phylogeography. Analyses of mtDNA sequences reveal six supported clades and a strongly supported ancestral dichotomy with northern populations (West Africa, Central Africa, North Africa/Asia) on one branch, and southern populations (North East Africa, East/Southern Africa and South West Africa) on the other. We review taxonomies and phylogenies of other large savannah mammals, illustrating that similar clades are found in other species. The described phylogeographic pattern is considered in relation to large scale environmental changes in Africa over the past 300,000 years, attributable to climate. Refugial areas, predicted by climate envelope models, further confirm the observed pattern. We support the revision of current lion taxonomy, as recognition of a northern and a southern subspecies is more parsimonious with the evolutionary history of the lion. PMID:27488946

Alkaloids of the South African Amaryllidaceae: a review.

PubMed

Nair, Jerald J; Bastida, Jaume; Codina, Caries; Viladomat, Francesc; van Staden, Johannes

2013-09-01

The plant family Amaryllidaceae is known for its horticultural and ornamental appeal as well as its medicinal value. In relation to these characteristics, trade in Amaryllid flower varieties (especially daffodils) is a multi-million dollar revenue generator for the floriculture industry. Of greater significance are the medicinal attributes of the family, which has already spawned the Alzheimer's prescription drug galanthamine, a potent and selective inhibitor of the enzyme acetylcholinesterase, of significance in the progression of neurodegeneration associated with motor neuron diseases, with annual global sales of around $150 million. Furthermore, it is anticipated that an anticancer drug target related to the Amaryllidaceae alkaloid pancratistatin, presently under advanced clinical evaluation, will enter commercial circulation within the next decade. Members of the Amaryllidaceae are distributed through both tropical and subtropical regions of the globe, but are of prominence within three distinct geographical locations, including Andean South America, the Mediterranean basin, and southern Africa. The southern African zone is known to harbor at least a third of the worldwide complement of around 1000 species, many of which are widely utilized in the traditional medicinal practices of the indigenous people of the region. Given its therapeutic and economic value, its natural abundance in the southern African region, coupled to its widespread usage in ethnic medicine, the family Amaryllidaceae provides a diverse and accessible platform for phytochemical based drug discovery. A consolidation of its traditional usage as well as its chemical and pharmacological profiles will thus guide efforts aimed at maximizing this potential. In undertaking this survey of the Amaryllidaceae of southern African, we aimed to achieve these goals.

Solar Spectral Radiative Forcing During the Southern African Regional Science Initiative

NASA Technical Reports Server (NTRS)

Pilewskie, P.; Pommier, J.; Bergstrom, R.; Gore, W.; Howard, S.; Rabbette, M.; Schmid, B.; Hobbs, P. V.; Tsay, S. C.

2003-01-01

During the dry season component of the Southern African Regional Science Initiative (SAFARI) in late winter 2000, the net solar spectral irradiance was measured at flight levels throughout biomass burning haze layers. From these measurements, the flux divergence, fractional absorption, instantaneous heating rate, and absorption efficiency were derived. Two cases are examined: on 24 August 2000 off the coast of Mozambique in the vicinity of Inhaca Island and on 6 September 2000 in a very thick continental haze layer over Mongu, Zambia. The measured absolute absorption was substantially higher for the case over Mongu where the measured midvisible optical depth exceeded unity. Instantaneous heating from aerosol absorption was 4 K d(sup -1) over Mongu, Zambia and 1.5 K d(sup -1) near Inhaca Island, Mozambique. However, the spectral absorption efficiency was nearly identical for both cases. Although the observations over Inhaca Island preceded the river of smoke from the southern African continent by nearly 2 weeks, the evidence here suggests a continental influence in the lower tropospheric aerosol far from source regions of burning.

The Nubian Complex of Dhofar, Oman: an African middle stone age industry in Southern Arabia.

PubMed

Rose, Jeffrey I; Usik, Vitaly I; Marks, Anthony E; Hilbert, Yamandu H; Galletti, Christopher S; Parton, Ash; Geiling, Jean Marie; Cerný, Viktor; Morley, Mike W; Roberts, Richard G

2011-01-01

Despite the numerous studies proposing early human population expansions from Africa into Arabia during the Late Pleistocene, no archaeological sites have yet been discovered in Arabia that resemble a specific African industry, which would indicate demographic exchange across the Red Sea. Here we report the discovery of a buried site and more than 100 new surface scatters in the Dhofar region of Oman belonging to a regionally-specific African lithic industry--the late Nubian Complex--known previously only from the northeast and Horn of Africa during Marine Isotope Stage 5, ∼128,000 to 74,000 years ago. Two optically stimulated luminescence age estimates from the open-air site of Aybut Al Auwal in Oman place the Arabian Nubian Complex at ∼106,000 years ago, providing archaeological evidence for the presence of a distinct northeast African Middle Stone Age technocomplex in southern Arabia sometime in the first half of Marine Isotope Stage 5.

The Nubian Complex of Dhofar, Oman: An African Middle Stone Age Industry in Southern Arabia

PubMed Central

Rose, Jeffrey I.; Usik, Vitaly I.; Marks, Anthony E.; Hilbert, Yamandu H.; Galletti, Christopher S.; Parton, Ash; Geiling, Jean Marie; Černý, Viktor; Morley, Mike W.; Roberts, Richard G.

2011-01-01

Despite the numerous studies proposing early human population expansions from Africa into Arabia during the Late Pleistocene, no archaeological sites have yet been discovered in Arabia that resemble a specific African industry, which would indicate demographic exchange across the Red Sea. Here we report the discovery of a buried site and more than 100 new surface scatters in the Dhofar region of Oman belonging to a regionally-specific African lithic industry - the late Nubian Complex - known previously only from the northeast and Horn of Africa during Marine Isotope Stage 5, ∼128,000 to 74,000 years ago. Two optically stimulated luminescence age estimates from the open-air site of Aybut Al Auwal in Oman place the Arabian Nubian Complex at ∼106,000 years ago, providing archaeological evidence for the presence of a distinct northeast African Middle Stone Age technocomplex in southern Arabia sometime in the first half of Marine Isotope Stage 5. PMID:22140561

Approaching Southern Theory: Explorations of Gender in South African Education

ERIC Educational Resources Information Center

Epstein, Debbie; Morrell, Robert

2012-01-01

This article draws on the five other papers from South Africa in this issue of "Gender and Education" to consider how Southern theory has been developed and is developing in relation to gender and education in South Africa. We argue that Southern theory is not an on-the-shelf solution to global geopolitical inequalities but a work in…

77 FR 7968 - Semiannual Regulatory Agenda

Federal Register 2010, 2011, 2012, 2013, 2014

2012-02-13

...; Constrictor Species From Python, Boa, and Eunectes Genera. National Park Service--Proposed Rule Stage... Evaluation; Constrictor Species From Python, Boa, and Eunectes Genera Legal Authority: 18 U.S.C. 42 Abstract... wildlife under the Lacey Act: Indian python (including Burmese python), reticulated python, Northern...

Trend in proportions of missed children during polio supplementary immunization activities in the African Region: evidence from independent monitoring data 2010-2012.

PubMed

Okeibunor, Joseph; Gasasira, Alex; Mihigo, Richard; Salla, Mbaye; Poy, Alain; Orkeh, Godwin; Shaba, Keith; Nshimirimana, Deo

2014-02-19

This is a comparative analysis of independent monitoring data collected between 2010 and 2012, following the implementation of supplementary immunization activities (SIAs) in countries in the three sub regional blocs of World Health Organization in the African Region. The sub regional blocs are Central Africa, West Africa, East and Southern Africa. In addition to the support for SIAs, the Central and West African blocs, threatened with importation and re-establishment of polio transmission received intensive coordination through weekly teleconferences. The later, East and Southern African bloc with low polio threats was not engaged in the intensive coordination through teleconferences. The key indicator of the success of SIAs is the proportion of children missed during SIAs. The results showed that generally there was a decrease in the proportion of children missed during SIAs in the region, from 7.94% in 2010 to 5.95% in 2012. However, the decrease was mainly in the Central and West African blocs. The East and Southern African bloc had countries with as much as 25% missed children. In West Africa and Central Africa, where more coordinated SIAs were conducted, there were progressive and consistent drops, from close to 20-10% at the maximum. At the country and local levels, steps were undertaken to ameliorate situation of low immunization uptake. Wherever an area is observed to have low coverage, local investigations were conducted to understand reasons for low coverage, plans to improve coverage are made and implemented in a coordinated manner. Lessons learned from close monitoring of polio eradication SIAs are will be applied to other campaigns being conducted in the African Region to accelerate control of other vaccine preventable diseases including cerebrospinal meningitis A, measles and yellow fever. Copyright © 2013 Elsevier Ltd. All rights reserved.

Monitoring the performance of the Southern African Large Telescope

NASA Astrophysics Data System (ADS)

Hettlage, Christian; Coetzee, Chris; Väisänen, Petri; Romero Colmenero, Encarni; Crawford, Steven M.; Kotze, Paul; Rabe, Paul; Hulme, Stephen; Brink, Janus; Maartens, Deneys; Browne, Keith; Strydom, Ockert; De Bruyn, David

2016-07-01

The efficient operation of a telescope requires awareness of its performance on a daily and long-term basis. This paper outlines the Fault Tracker, WebSAMMI and the Dashboard used by the Southern African Large Telescope (SALT) to achieve this aim. Faults are mostly logged automatically, but the Fault Tracker allows users to add and edit faults. The SALT Astronomer and SALT Operator record weather conditions and telescope usage with WebSAMMI. Various efficiency metrics are shown for different time periods on the Dashboard. A kiosk mode for displaying on a public screen is included. Possible applications for other telescopes are discussed.

Marsh rabbit mortalities tie pythons to the precipitous decline of mammals in the Everglades

USGS Publications Warehouse

McCleery, Robert A.; Sovie, Adia; Reed, Robert N.; Cunningham, Mark W.; Hunter, Margaret E.; Hart, Kristen M.

2015-01-01

To address the ongoing debate over the impact of invasive species on native terrestrial wildlife, we conducted a large-scale experiment to test the hypothesis that invasive Burmese pythons (Python molurus bivittatus) were a cause of the precipitous decline of mammals in Everglades National Park (ENP). Evidence linking pythons to mammal declines has been indirect and there are reasons to question whether pythons, or any predator, could have caused the precipitous declines seen across a range of mammalian functional groups. Experimentally manipulating marsh rabbits, we found that pythons accounted for 77% of rabbit mortalities within 11 months of their translocation to ENP and that python predation appeared to preclude the persistence of rabbit populations in ENP. On control sites, outside of the park, no rabbits were killed by pythons and 71% of attributable marsh rabbit mortalities were classified as mammal predations. Burmese pythons pose a serious threat to the faunal communities and ecological functioning of the Greater Everglades Ecosystem, which will probably spread as python populations expand their range.

Ethnic Identity and Regional Differences in Mental Health in a National Sample of African American Young Adults.

PubMed

Williams, Monnica T; Duque, Gerardo; Wetterneck, Chad T; Chapman, L Kevin; DeLapp, Ryan C T

2018-04-01

Prior research has found that a strong positive ethnic identity is a protective factor against anxiety and depression in African Americans. In this study, ethnic identity is examined in a geographically representative sample of African American young adults (n = 242), using the Multigroup Ethnic Identity Measure (MEIM) (Phinney in J Adolescent Res 7:156-76, 15). The two-factor structure of the measure (Roberts et al. in J Early Adolescence 19:301-22, 1) was analyzed using a structural equation model and displayed an acceptable fit only when multiple error terms were correlated. A multigroup confirmatory factor analysis revealed measurement equivalence of the two-factor structure between African Americans from Southern and non-Southern regions of the USA. We found that significantly higher levels of ethnic identity were present among African American in the South compared to other regions, and region significantly predicted total ethnic identity scores in a linear regression, even when controlling for gender, age, urbanicity, and years of education. Furthermore, among African Americans, living in the South was significantly correlated with less help-seeking for diagnosed depression, anxiety, and/or obsessive-compulsive disorder, where help-seeking was defined as obtaining a diagnosis by a professional. The role of ethnic identity and social support are discussed in the context of African American mental health.

Hunter-gatherer genomic diversity suggests a southern African origin for modern humans

PubMed Central

Henn, Brenna M.; Gignoux, Christopher R.; Jobin, Matthew; Granka, Julie M.; Macpherson, J. M.; Kidd, Jeffrey M.; Rodríguez-Botigué, Laura; Ramachandran, Sohini; Hon, Lawrence; Brisbin, Abra; Lin, Alice A.; Underhill, Peter A.; Comas, David; Kidd, Kenneth K.; Norman, Paul J.; Parham, Peter; Bustamante, Carlos D.; Mountain, Joanna L.; Feldman, Marcus W.

2011-01-01

Africa is inferred to be the continent of origin for all modern human populations, but the details of human prehistory and evolution in Africa remain largely obscure owing to the complex histories of hundreds of distinct populations. We present data for more than 580,000 SNPs for several hunter-gatherer populations: the Hadza and Sandawe of Tanzania, and the ≠Khomani Bushmen of South Africa, including speakers of the nearly extinct N|u language. We find that African hunter-gatherer populations today remain highly differentiated, encompassing major components of variation that are not found in other African populations. Hunter-gatherer populations also tend to have the lowest levels of genome-wide linkage disequilibrium among 27 African populations. We analyzed geographic patterns of linkage disequilibrium and population differentiation, as measured by FST, in Africa. The observed patterns are consistent with an origin of modern humans in southern Africa rather than eastern Africa, as is generally assumed. Additionally, genetic variation in African hunter-gatherer populations has been significantly affected by interaction with farmers and herders over the past 5,000 y, through both severe population bottlenecks and sex-biased migration. However, African hunter-gatherer populations continue to maintain the highest levels of genetic diversity in the world. PMID:21383195

mtDNA control-region sequence variation suggests multiple independent origins of an "Asian-specific" 9-bp deletion in sub-Saharan Africans.

PubMed Central

Soodyall, H.; Vigilant, L.; Hill, A. V.; Stoneking, M.; Jenkins, T.

1996-01-01

The intergenic COII/tRNA(Lys) 9-bp deletion in human mtDNA, which is found at varying frequencies in Asia, Southeast Asia, Polynesia, and the New World, was also found in 81 of 919 sub-Saharan Africans. Using mtDNA control-region sequence data from a subset of 41 individuals with the deletion, we identified 22 unique mtDNA types associated with the deletion in Africa. A comparison of the unique mtDNA types from sub-Saharan Africans and Asians with the 9-bp deletion revealed that sub-Saharan Africans and Asians have sequence profiles that differ in the locations and frequencies of variant sites. Both phylogenetic and mismatch-distribution analysis suggest that 9-bp deletion arose independently in sub-Saharan Africa and Asia and that the deletion has arisen more than once in Africa. Within Africa, the deletion was not found among Khoisan peoples and was rare to absent in western and southwestern African populations, but it did occur in Pygmy and Negroid populations from central Africa and in Malawi and southern African Bantu-speakers. The distribution of the 9-bp deletion in Africa suggests that the deletion could have arisen in central Africa and was then introduced to southern Africa via the recent "Bantu expansion." PMID:8644719

The Role of African Easterly Wave on Dust Transport and the Interaction Between Saharan Dust Layer and Atlantic ITCZ During Boreal Summer

NASA Technical Reports Server (NTRS)

Kim, Kyu-Myong; Lau, William K-M

2011-01-01

Saharan dust outbreaks not only transport large amount of dust to the northern Atlantic Ocean, but also alter African easterly jet and wave activities along the jet by changing north-south temperature gradient. Recent modeling and observational studies show that during periods of enhance outbreaks, rainfall on the northern part of ITCZ increases in conjunction with a northward shift of ITCZ toward the dust layer. In this paper, we study the radiative forcing of Saharan dust and its interactions with the Atlantic Inter-tropical Convergence Zone (ITCZ), through African easterly waves (AEW), African easterly jet (AEJ), using the Terra/Aqua observations as well as MERRA data. Using band pass filtered EOF analysis, we find that African easterly waves propagating westward along two principal tracks, centered at 15-25N and 5-10N respectively. The easterly waves in the northern track are slower, with propagation speed of 9 ms-1, and highly correlated with major dust outbreak over North Africa. On the other hand, easterly waves along the southern track are faster with propagating speed of 10 ms-1, and are closely tied to rainfall/cloud variations along the Atlantic ITCZ. Dust transport along the southern track leads rainfall/cloud anomalies in the same region by one or two days, suggesting the southern tracks of dust outbreak are regions of strong interaction between Saharan dust layer and Atlantic ITCZ. Possible linkage between two tracks of easterly waves, as well as the long-term change of easterly wave activities and dust outbreaks, are also discussed.

Antiquity of the South Atlantic Anomaly and evidence for top-down control on the geodynamo

PubMed Central

Tarduno, John A.; Watkeys, Michael K.; Huffman, Thomas N.; Cottrell, Rory D.; Blackman, Eric G.; Wendt, Anna; Scribner, Cecilia A.; Wagner, Courtney L.

2015-01-01

The dramatic decay of dipole geomagnetic field intensity during the last 160 years coincides with changes in Southern Hemisphere (SH) field morphology and has motivated speculation of an impending reversal. Understanding these changes, however, has been limited by the lack of longer-term SH observations. Here we report the first archaeomagnetic curve from southern Africa (ca. 1000–1600 AD). Directions change relatively rapidly at ca. 1300 AD, whereas intensities drop sharply, at a rate greater than modern field changes in southern Africa, and to lower values. We propose that the recurrence of low field strengths reflects core flux expulsion promoted by the unusual core–mantle boundary (CMB) composition and structure beneath southern Africa defined by the African large low shear velocity province (LLSVP). Because the African LLSVP and CMB structure are ancient, this region may have been a steady site for flux expulsion, and triggering of geomagnetic reversals, for millions of years. PMID:26218786

Full Genome Sequencing Reveals New Southern African Territories Genotypes Bringing Us Closer to Understanding True Variability of Foot-and-Mouth Disease Virus in Africa

PubMed Central

Lasecka-Dykes, Lidia; Wright, Caroline F.; Di Nardo, Antonello; Logan, Grace; Mioulet, Valerie; Jackson, Terry; Tuthill, Tobias J.; Knowles, Nick J.; King, Donald P.

2018-01-01

Foot-and-mouth disease virus (FMDV) causes a highly contagious disease of cloven-hooved animals that poses a constant burden on farmers in endemic regions and threatens the livestock industries in disease-free countries. Despite the increased number of publicly available whole genome sequences, FMDV data are biased by the opportunistic nature of sampling. Since whole genomic sequences of Southern African Territories (SAT) are particularly underrepresented, this study sequenced 34 isolates from eastern and southern Africa. Phylogenetic analyses revealed two novel genotypes (that comprised 8/34 of these SAT isolates) which contained unusual 5′ untranslated and non-structural encoding regions. While recombination has occurred between these sequences, phylogeny violation analyses indicated that the high degree of sequence diversity for the novel SAT genotypes has not solely arisen from recombination events. Based on estimates of the timing of ancestral divergence, these data are interpreted as being representative of un-sampled FMDV isolates that have been subjected to geographical isolation within Africa by the effects of the Great African Rinderpest Pandemic (1887–1897), which caused a mass die-out of FMDV-susceptible hosts. These findings demonstrate that further sequencing of African FMDV isolates is likely to reveal more unusual genotypes and will allow for better understanding of natural variability and evolution of FMDV. PMID:29652800

Mitochondrial DNA variation of domestic sheep (Ovis aries) in Kenya.

PubMed

Resende, Adriana; Gonçalves, Joana; Muigai, Anne W T; Pereira, Filipe

2016-06-01

The history of domestic sheep (Ovis aries) in Africa remains largely unknown. After being first introduced from the Near East, sheep gradually spread through the African continent with pastoral societies. The eastern part of Africa was important either for the first diffusion of sheep southward or for putative secondary introductions from the Arabian Peninsula or southern Asia. We analysed mitochondrial DNA control region sequences of 91 domestic sheep from Kenya and found a high diversity of matrilines from the widespread haplogroup B, whereas only a single individual from haplogroup A was detected. Our phylogeography analyses of more than 500 available mitochondrial DNA sequences also identified ancestral haplotypes that were probably first introduced in Africa and are now widely distributed. Moreover, we found no evidence of an admixture between East and West African sheep. The presence of shared haplotypes in eastern and ancient southern African sheep suggests the possible southward movement of sheep along the eastern part of Africa. Finally, we found no evidence of an extensive introduction of sheep from southern Asia into Africa via the Indian Ocean trade. The overall findings on the phylogeography of East African domestic sheep set the grounds for understanding the origin and subsequent movements of sheep in Africa. The richness of maternal lineages in Kenyan breeds is of prime importance for future conservation and breeding programmes. © 2016 Stichting International Foundation for Animal Genetics.

Interdisciplinary Environmental Summer Study Abroad in Southern Africa as a Mechanism for the Development of an International Research and Education Consortium

NASA Astrophysics Data System (ADS)

Swap, R. J.; Sabea, H.; Annegarn, H.; Ford, C.; Netshandama-Funyufunyu, V.; Omara-Ojungu, P.; Vaz, K.; Ribeiro, N.; Twine, W.; Terni, C.; Estes, L.

2005-12-01

We describe an interdisciplinary course for non-specialist undergraduates in which the students experience firsthand issues of regional environmental complexity and have the unique opportunity to gain insight into the role the environment plays in shaping the people and culture of southern Africa. Undergraduates receive 3 hours of credit both in Environmental Science and Anthropology for the ``People, Culture and Environment of Southern Africa" study abroad program. The program is an intensive introduction to the physical geography, history and culture of the region and involves an intensive blend of in-class lectures and field trips with daily debriefing discussions. Over the duration of the 30 day program, students are exposed to elements of geology, ecology, hydrology and atmospheric science and how the interconnectedness of these different aspects of the physical environment help shape the history of the people and their culture in the region. Information about logistics and course development as well as to how this summer study abroad program has contributed to the development and expansion of the Southern Africa Virginia Networks and Associations (SAVANA) consortium will be detailed. The program builds upon more than 12 years of relationships between UVA faculty and their southern African colleagues developed during the course of several regional scale research programs with the most recent being the Southern African Regional Science Initiative - SAFARI 2000. Students enrolled with the UVA program are joined by their counterparts and interact with faculty from institutional partners both in the classroom and in the field. Participants operate out of four major locations: Johannesburg, RSA (Univ. of the Witwatersrand); Thohoyondou, RSA (Univ. of Venda); Maputo, MOZ (Univ. of Eduardo Mondlane); and Acornhoek, RSA (Univ. of the Witwatersrand - Rural Facility). Class size is limited to 15 students from UVA and about 6 SAVANA consortium students. This pairing with SAVANA students provides a unique, `round-the clock' learning experience for both U.S. and southern African students. Program participants have come from a variety of student backgrounds and majors including: Anthropology, African American Affairs, Architecture, Biology, English, Environmental Thought and Practice, Environmental Science, History, International Relations, Political Science, Psychology, Sociology and Women's Studies. Many course alumni have participated in Peace Corps, Teach for America, Americorps as well as to volunteer in South Africa or have pursued graduate degrees often related to various aspects of their experience.

Reptile trade and the risk of exotic tick introductions into southern South American countries.

PubMed

González-Acuña, D; Beldoménico, P M; Venzal, J M; Fabry, M; Keirans, J E; Guglielmone, A A

2005-01-01

Ticks exotic for the Neotropical region were found on Python regius imported into Argentina and Chile. All ticks (7 males and 3 females) were classified as Amblyomma latum Koch, 1844 ( = Aponomma latum). Additionally, four lots comprising 18 males of the Argentinean tortoise tick, Amblyomma argentinae Neumann, 1904, were found on a terrestrial tortoise, Chelonoidis chilensis, and on three terrestrial tortoises (probably C. chilensis) imported to Uruguay presumably from Argentina). These findings alert us to the risk of expanding the distribution of reptile parasites and their diseases into regions previously free of these parasites.

Building from within: pastoral insights into community resources and assets.

PubMed

Ford, Cassandra D

2013-01-01

To explore perceptions of community pastors regarding the extent of community resources and assets in a rural, Southern, African American community. Utilizing a qualitative, descriptive design, interviews were conducted with six African American pastors. Interviews were conducted using a semi-structured interview guide based on an assets-oriented approach. Pastors discussed various resources and assets, probable within the community that may be considered as support for program development. Key themes included: (1) community strengths, (2) community support, and (3) resources for a healthy lifestyle. The church was identified, throughout the interviews, as a primary source of strength and support for community members. In this study of African American pastors, various perceptions of community resources were identified. Findings indicate that a sample, rural, Southern, African American community has a wealth of resources and assets, but additional resources related to health promotion are still necessary to produce optimal results. Specific programs to prevent chronic conditions such as cardiovascular disease can provide an effective means for addressing related health disparities. Programs implemented through churches can reach large numbers of individuals in the community and provide an important source of sustainable efforts to improve the health of African Americans. © 2013 Wiley Periodicals, Inc.

African American Women Aspiring to the Superintendency: Lived Experiences and Barriers

ERIC Educational Resources Information Center

Angel, Roma B.; Killacky, Jim; Johnson, Patricia R.

2013-01-01

Focused on the absence of a viable population of African American women in the superintendency, this study addressed barriers described by 10 credentialed, district-level Southern women who hold advanced education degrees coupled with years of leadership experience. This phenomenological study used interview methodology to uncover the lived…

Rurality and African American Perspectives on Children's Mental Health Services

ERIC Educational Resources Information Center

Mukolo, Abraham; Heflinger, Craig Anne

2011-01-01

The combined effect of race and place of residence on caregivers' perceptions of children's mental health services is underresearched. Differences in caregiver strain, barriers-to-care endorsement, and provider satisfaction are examined among 175 rural and urban African American caregivers from one Southern state whose children received Medicaid…

Competency Development of Southern African Housing Officers

ERIC Educational Resources Information Center

Dunn, Munita; Dunkel, Norbert W.

2013-01-01

The Report on the Ministerial Committee for the Review of the Provision of Student Housing at South African Universities (Department of Higher Education and Training, 2011) has provided a comprehensive review of residences across several housing functional areas. In one of the residence management and administration recommendations it stated,…

Cultural Mistrust, Academic Outcome Expectations, and Outcome Values among African American Adolescent Men

ERIC Educational Resources Information Center

Irving, Miles Anthony; Hudley, Cynthia

2005-01-01

This study measured the relationship between outcome expectations, outcome value, and cultural mistrust among African American male high school students (N = 75) attending an urban, Southern California school. We hypothesized that a negative perception of the dominant culture would negatively affect academic outcome expectations and academic…

Educational Policies and Priorities for Rural Women in Southern Africa.

ERIC Educational Resources Information Center

Mutanyatta, J. N. S.

Despite their significant role in African economies, women are still the victims of poverty, illiteracy, discrimination, and powerlessness. Most African countries are classified as "low" on the Human Development Index and exhibit a relationship between per capita gross domestic product and the adult literacy rate. Rural women appear to…

Habitat-specific shaping of proliferation and neuronal differentiation in adult hippocampal neurogenesis of wild rodents

PubMed Central

Cavegn, Nicole; van Dijk, R. Maarten; Menges, Dominik; Brettschneider, Helene; Phalanndwa, Mashudu; Chimimba, Christian T.; Isler, Karin; Lipp, Hans-Peter; Slomianka, Lutz; Amrein, Irmgard

2013-01-01

Daily life of wild mammals is characterized by a multitude of attractive and aversive stimuli. The hippocampus processes complex polymodal information associated with such stimuli and mediates adequate behavioral responses. How newly generated hippocampal neurons in wild animals contribute to hippocampal function is still a subject of debate. Here, we test the relationship between adult hippocampal neurogenesis (AHN) and habitat types. To this end, we compare wild Muridae species of southern Africa [Namaqua rock mouse (Micaelamys namaquensis), red veld rat (Aethomys chrysophilus), highveld gerbil (Tatera brantsii), and spiny mouse (Acomys spinosissimus)] with data from wild European Muridae [long-tailed wood mice (Apodemus sylvaticus), pygmy field mice (Apodemus microps), yellow-necked wood mice (Apodemus flavicollis), and house mice (Mus musculus domesticus)] from previous studies. The pattern of neurogenesis, expressed in normalized numbers of Ki67- and Doublecortin(DCX)-positive cells to total granule cells (GCs), is similar for the species from a southern African habitat. However, we found low proliferation, but high neuronal differentiation in rodents from the southern African habitat compared to rodents from the European environment. Within the African rodents, we observe additional regulatory and morphological traits in the hippocampus. Namaqua rock mice with previous pregnancies showed lower AHN compared to males and nulliparous females. The phylogenetically closely related species (Namaqua rock mouse and red veld rat) show a CA4, which is not usually observed in murine rodents. The specific features of the southern environment that may be associated with the high number of young neurons in African rodents still remain to be elucidated. This study provides the first evidence that a habitat can shape adult neurogenesis in rodents across phylogenetic groups. PMID:23616743

Rapid identification of apolipoprotein E genotypes by high-resolution melting analysis in Chinese Han and African Fang populations.

PubMed

Zhan, Xiu-Hui; Zha, Guang-Cai; Jiao, Ji-Wei; Yang, Li-Ye; Zhan, Xiao-Fen; Chen, Jiang-Tao; Xie, Dong-DE; Eyi, Urbano Monsuy; Matesa, Rocio Apicante; Obono, Maximo Miko Ondo; Ehapo, Carlos Sala; Wei, Er-Jia; Zheng, Yu-Zhong; Yang, Hui; Lin, Min

2015-02-01

Apolipoprotein E (APOE) gene polymorphism can affect APOE gene transcription, serum lipid levels and repair of tissue damage, which could place individuals at serious risk of cardiovascular disease or certain infectious diseases. Recently, high-resolution melting (HRM) analysis was reported to be a simple, inexpensive, accurate and sensitive method for the genotyping or/and scanning of rare mutations. For this reason, an HRM analysis was used in the present study for APOE genotyping in the Southern Chinese Han and African Fang populations. A total of 100 healthy Southern Chinese Han and 175 healthy African Fang individuals attended the study. Polymerase chain reaction-DNA sequencing was used as a reference method for the genotyping of these samples. The six APOE genotypes could all be rapidly and efficiently identified by HRM analysis, and 100% concordance was found between the HRM analysis and the reference method. The allele frequencies of APOE in the Southern Chinese Han population were 7.0, 87.5 and 5.5% for ɛ2, ɛ3 and ɛ4, respectively. In the African Fang population, the allele frequencies of APOE were 24.3, 65.7 and 10.0% for ɛ2, ɛ3 and ɛ4, respectively. A statistically significant difference was found between the allele frequencies between the populations (P<0.05). In conclusion, the present study revealed the molecular characterization of APOE gene polymorphism in the Han population from the Chaozhou region of Southern China and the Fang population from Equatorial Guinea. The findings of the study indicated that HRM analysis could be used as an accurate and sensitive method for the rapid screening and identification of APOE genotypes in prospective clinical and population genetic analyses.

Report on the observed response of Javan lutungs (Trachypithecus auratus mauritius) upon encountering a reticulated python (Python reticulatus).

PubMed

Tsuji, Yamato; Prayitno, Bambang; Suryobroto, Bambang

2016-04-01

We observed an encounter between a reticulated python (Python reticulatus) and a group of wild Javan lutungs (Trachypithecus auratus mauritius) at the Pangandaran Nature Reserve, West Java, Indonesia. A python (about 2 m in length) moved toward a group of lutungs in the trees. Upon seeing the python, an adult male and several adult female lutungs began to emit alarm calls. As the python approached, two adult and one sub-adult female jumped onto a branch near the python and began mobbing the python by shaking the branch. During the mobbing, other individuals in the group (including an adult lutung male) remained nearby but did not participate. The python then rolled into a ball-like shape and stopped moving, at which point the lutungs moved away. The total duration of the encounter was about 40 min, during which time the lutungs stopped feeding and grooming. Group cohesiveness during and after the encounter was greater than that before the encounter, indicating that lutungs adjust their daily activity in response to potential predation risk.

Marsh rabbit mortalities tie pythons to the precipitous decline of mammals in the Everglades.

PubMed

McCleery, Robert A; Sovie, Adia; Reed, Robert N; Cunningham, Mark W; Hunter, Margaret E; Hart, Kristen M

2015-04-22

To address the ongoing debate over the impact of invasive species on native terrestrial wildlife, we conducted a large-scale experiment to test the hypothesis that invasive Burmese pythons (Python molurus bivittatus) were a cause of the precipitous decline of mammals in Everglades National Park (ENP). Evidence linking pythons to mammal declines has been indirect and there are reasons to question whether pythons, or any predator, could have caused the precipitous declines seen across a range of mammalian functional groups. Experimentally manipulating marsh rabbits, we found that pythons accounted for 77% of rabbit mortalities within 11 months of their translocation to ENP and that python predation appeared to preclude the persistence of rabbit populations in ENP. On control sites, outside of the park, no rabbits were killed by pythons and 71% of attributable marsh rabbit mortalities were classified as mammal predations. Burmese pythons pose a serious threat to the faunal communities and ecological functioning of the Greater Everglades Ecosystem, which will probably spread as python populations expand their range. © 2015 The Author(s) Published by the Royal Society. All rights reserved.

Marsh rabbit mortalities tie pythons to the precipitous decline of mammals in the Everglades

PubMed Central

McCleery, Robert A.; Sovie, Adia; Reed, Robert N.; Cunningham, Mark W.; Hunter, Margaret E.; Hart, Kristen M.

2015-01-01

To address the ongoing debate over the impact of invasive species on native terrestrial wildlife, we conducted a large-scale experiment to test the hypothesis that invasive Burmese pythons (Python molurus bivittatus) were a cause of the precipitous decline of mammals in Everglades National Park (ENP). Evidence linking pythons to mammal declines has been indirect and there are reasons to question whether pythons, or any predator, could have caused the precipitous declines seen across a range of mammalian functional groups. Experimentally manipulating marsh rabbits, we found that pythons accounted for 77% of rabbit mortalities within 11 months of their translocation to ENP and that python predation appeared to preclude the persistence of rabbit populations in ENP. On control sites, outside of the park, no rabbits were killed by pythons and 71% of attributable marsh rabbit mortalities were classified as mammal predations. Burmese pythons pose a serious threat to the faunal communities and ecological functioning of the Greater Everglades Ecosystem, which will probably spread as python populations expand their range. PMID:25788598

Fine-Scale Human Population Structure in Southern Africa Reflects Ecogeographic Boundaries

PubMed Central

Uren, Caitlin; Kim, Minju; Martin, Alicia R.; Bobo, Dean; Gignoux, Christopher R.; van Helden, Paul D.; Möller, Marlo; Hoal, Eileen G.; Henn, Brenna M.

2016-01-01

Recent genetic studies have established that the KhoeSan populations of southern Africa are distinct from all other African populations and have remained largely isolated during human prehistory until ∼2000 years ago. Dozens of different KhoeSan groups exist, belonging to three different language families, but very little is known about their population history. We examine new genome-wide polymorphism data and whole mitochondrial genomes for >100 South Africans from the ≠Khomani San and Nama populations of the Northern Cape, analyzed in conjunction with 19 additional southern African populations. Our analyses reveal fine-scale population structure in and around the Kalahari Desert. Surprisingly, this structure does not always correspond to linguistic or subsistence categories as previously suggested, but rather reflects the role of geographic barriers and the ecology of the greater Kalahari Basin. Regardless of subsistence strategy, the indigenous Khoe-speaking Nama pastoralists and the N|u-speaking ≠Khomani (formerly hunter-gatherers) share ancestry with other Khoe-speaking forager populations that form a rim around the Kalahari Desert. We reconstruct earlier migration patterns and estimate that the southern Kalahari populations were among the last to experience gene flow from Bantu speakers, ∼14 generations ago. We conclude that local adoption of pastoralism, at least by the Nama, appears to have been primarily a cultural process with limited genetic impact from eastern Africa. PMID:27474727

A resolution congratulating the Southern Baptist Convention for electing Reverend Fred Luter, Jr., as the president of the Southern Baptist Convention, acknowledging Reverend Luter's unique role as the first African-American leader of the Southern Baptist Convention, and honoring the commitment of the Southern Baptist Convention to an inclusive faith-based community and society.

THOMAS, 112th Congress

Sen. Landrieu, Mary L. [D-LA

2012-06-29

Senate - 11/30/2012 Resolution agreed to in Senate without amendment and with a preamble by Unanimous Consent. (All Actions) Tracker: This bill has the status Agreed to in SenateHere are the steps for Status of Legislation:

Marketing University Education: The Southern African Experience.

ERIC Educational Resources Information Center

Maringe, Felix; Foskett, Nick

2002-01-01

Examined the perceptions of university marketers in southern Africa. Found a varying awareness of the significance of marketing, with more mature institutions exhibiting more developed marketing orientations. Strategies ranged from marketing as public relations to marketing as sales, with universities in South Africa the only ones demonstrating a…

Intervention Induced Changes on Parenting Practices, Youth Self-Pride and Sexual Norms to Reduce HIV-Related Behaviors among Rural African American Youths

ERIC Educational Resources Information Center

Murry, Velma McBride; Berkel, Cady; Chen, Yi-fu; Brody, Gene H.; Gibbons, Frederick X.; Gerrard, Meg

2011-01-01

AIDS is the leading killer of African Americans between the ages of 25 and 44, many of whom became infected when they were teenagers or young adults. The disparity in HIV infection rate among African Americans youth residing in rural Southern regions of the United States suggests that there is an urgent need to identify ways to promote early…

Respiratory disease in ball pythons (Python regius) experimentally infected with ball python nidovirus.

PubMed

Hoon-Hanks, Laura L; Layton, Marylee L; Ossiboff, Robert J; Parker, John S L; Dubovi, Edward J; Stenglein, Mark D

2018-04-01

Circumstantial evidence has linked a new group of nidoviruses with respiratory disease in pythons, lizards, and cattle. We conducted experimental infections in ball pythons (Python regius) to test the hypothesis that ball python nidovirus (BPNV) infection results in respiratory disease. Three ball pythons were inoculated orally and intratracheally with cell culture isolated BPNV and two were sham inoculated. Antemortem choanal, oroesophageal, and cloacal swabs and postmortem tissues of infected snakes were positive for viral RNA, protein, and infectious virus by qRT-PCR, immunohistochemistry, western blot and virus isolation. Clinical signs included oral mucosal reddening, abundant mucus secretions, open-mouthed breathing, and anorexia. Histologic lesions included chronic-active mucinous rhinitis, stomatitis, tracheitis, esophagitis and proliferative interstitial pneumonia. Control snakes remained negative and free of clinical signs throughout the experiment. Our findings establish a causal relationship between nidovirus infection and respiratory disease in ball pythons and shed light on disease progression and transmission. Copyright © 2017 The Authors. Published by Elsevier Inc. All rights reserved.

Race, African ancestry, and Helicobacter pylori infection in a low-income United States population

PubMed Central

Epplein, Meira; Signorello, Lisa B.; Zheng, Wei; Peek, Richard M.; Michel, Angelika; Williams, Scott M.; Pawlita, Michael; Correa, Pelayo; Cai, Qiuyin; Blot, William J.

2011-01-01

Background Gastric cancer incidence in African Americans is twice that of whites, and differing prevalence of Helicobacter pylori strain-specific isolates may help explain the disparity. Methods Serum levels of antibodies to each of 15 Helicobacter pylori proteins were assessed using multiplex serology for a sample of 689 African American and white participants from the Southern Community Cohort Study. African and European admixture was estimated using a panel of 276 ancestry genetic markers, with “low”, “medium”, and “high” categories of African ancestry defined as <85%, 85-95%, and ≥95%. Results The majority (79%) of our study population were sero-positive for Helicobacter pylori. African American race was associated with a 2- to 6-fold increased odds for sero-positivity to 8 Helicobacter pylori proteins, including the cancer-associated virulence constituents CagA (odds ratio, 6.4; 95% confidence interval, 4.5-9.1), and VacA (odds ratio, 2.3; 95% confidence interval, 1.5-3.5). Compared to whites, African Americans of low, medium, and high African ancestry had 1.6-, 4.1-, and 5.2-fold increased odds of sero-positivity to Helicobacter pylori, primarily related to CagA sero-positive strains, for which increasing African ancestry led to 2.5-, 9.6-, and 13.1-fold increased odds. Among African Americans alone, compared to those of low African ancestry, African Americans of medium and high African ancestry had 2.5- and 3.4-fold increased odds of sero-positivity to Helicobacter pylori, and 3.5-and 4.9-fold increased odds of CagA sero-positive Helicobacter pylori strains. Conclusions Host genetic variation and/or lifestyle factors associated with African ancestry contribute to the likelihood of infection with Helicobacter pylori, particularly its virulent strains, in this low-income U.S. southern population. Impact Our findings that low-income African Americans of high African ancestry have a particularly high prevalence of antibodies against Helicobacter pylori provides a framework for further research into better detection and prevention of gastric cancer in this population. PMID:21357376

Ultrasound imaging of the anterior section of the eye of five different snake species.

PubMed

Lauridsen, Henrik; Da Silva, Mari-Ann O; Hansen, Kasper; Jensen, Heidi M; Warming, Mads; Wang, Tobias; Pedersen, Michael

2014-12-30

Nineteen clinically normal snakes: six ball pythons (Python regius), six Burmese pythons (Python bivittatus), one Children's python (Antaresia childreni), four Amazon tree boas (Corallus hortulanus), and two Malagasy ground boas (Acrantophis madagascariensis) were subjected to ultrasound imaging with 21 MHz (ball python) and 50 MHz (ball python, Burmese python, Children's python, Amazon tree boa, Malagasy ground boa) transducers in order to measure the different structures of the anterior segment in clinically normal snake eyes with the aim to review baseline values for clinically important ophthalmic structures. The ultrasonographic measurements included horizontal spectacle diameter, spectacle thickness, depth of sub-spectacular space and corneal thickness. For comparative purposes, a formalin-fixed head of a Burmese python was subjected to micro computed tomography. In all snakes, the spectacle was thinner than the cornea. There was significant difference in spectacle diameter, and spectacle and corneal thickness between the Amazon tree boa and the Burmese and ball pythons. There was no difference in the depth of the sub-spectacular space. The results obtained in the Burmese python with the 50 MHz transducer were similar to the results obtained with micro computed tomography. Images acquired with the 21 MHz transducer included artifacts which may be misinterpreted as ocular structures. Our measurements of the structures in the anterior segment of the eye can serve as orientative values for snakes examined for ocular diseases. In addition, we demonstrated that using a high frequency transducer minimizes the risk of misinterpreting artifacts as ocular structures.

Comments on the paper of Bodin et al. (2010). Journal of African Earth Sciences, 58, pp. 489-506

NASA Astrophysics Data System (ADS)

Tlig, Saïd

2016-06-01

Bodin et al. (2010) produced an important paper in the Journal of African Earth Sciences. The main goals of this paper were: (1) the petrological and sedimentological treatment of the upper Jurassic and Cretaceous series in southern Tunisia and northern Ghadames Basin including the Hamada El Hamra area and Nafussah Mountain of Libya; (2) the reconstruction of tectonic controls on deposition and basin-fill; (3) the correlation of poorly dated lithostratigraphic columns, poor in diagnostic fauna, from northwestern Libya to southern Tunisia; and (4) the comparison between the authors' findings and assignments of global eustatic and plate tectonic events.

Kalahari Tectonic Landforms and Processes Beyond the Okavango Graben

NASA Astrophysics Data System (ADS)

Eckardt, F. D.; Flügel, T.; Cotterill, W.; Rowe, C. D.; McFarlane, M.

2014-12-01

The southern African Kalahari basin is generally regarded as a stable shield area which is subject to neotectonic modification along western branches of the East African Rift System (EARS) with much focus having been given to the Okavango Graben and its associated geomorphology. In this study, we look for surface expressions that are indicative of recent to on-going tectonic modification beyond the Okavango region. A number of landforms can be highlighted. These include drainage lines in north eastern Namibia which are aligned along a "horsetail" fracture system, interpreted as the response to an apparent incipient rifting extending west of the Okavango Graben and Gumare fault line. The second region of interest, in north eastern Botswana, is known to house a second lesser graben, centred along the Ntwetwe panhandle but with a wider surface manifestation than previously noted. We can demonstrate that the area north of the Makgadikgadi has been modified by "piano key" type fault blocks. And thirdly, structural modifications to linear dune ridges of the southern central Kalahari manifest faulting, shearing and rotation. These observations raise questions about the extent of tectonic processes operating across the southern African interior and attribute additional processes to Kalahari landforms.

Impact of immigration on HIV-1 molecular epidemiology in West Africa, Maghreb and Southern Europe.

PubMed

Miri, Lamia; Wakrim, Lahcen; Kassar, Hassène; Hemminki, Kari; Khyatti, Meriem

2014-01-01

There is global concern about the relation between international migration and the course of the AIDS epidemic. Maghreb is a North African region, which lies between sub-Saharan Africa and Europe. It has been turned recently into a region of immigration, since there are more and more flows of West African migrants hoping to reach European countries. Here we provide an overview on HIV-1 molecular epidemiology particularly in West African countries, Maghreb (Morocco, Algeria, Tunisia) and southern European countries (Spain, France, and Italy). The studies conducted in several countries of the region revealed different features of HIV-1 molecular epidemiology, especially for the distribution of viral subtypes and for transmitted drug resistance profiles. Furthermore, migration from West Africa to Europe seems to be a potential source of non-B subtype mobility to Maghreb and eventually to southern Europe, where HIV-1 non-B variants significantly increased in the last 10 to 15 years. As genetic differences between subtypes might impact the drug resistance pathways, it is important to provide continuous surveillance programs for the early detection of new variants spreading in the population before they become more prevalent, and to identify resistance profiles in different infected populations, especially migrants.

The Southern Manifesto: A Doctrine of Resistance 60 Years Later

ERIC Educational Resources Information Center

Brown Henderson, Cheryl; Brown, Steven M.

2016-01-01

This article illustrates the historic relationship between the "Brown v. Board of Education" decision and the school choice movement. It will discuss the immediate push back to Brown particularly from Southern states that were resistant to desegregating public schools; a move that would provide African-American parents with educational…

Yellow Fever Outbreak, Southern Sudan, 2003

PubMed Central

Onyango, Clayton O.; Grobbelaar, Antoinette A.; Gibson, Georgina V.F.; Sang, Rosemary C.; Sow, Abdourahmane; Swanepoel, Robert

2004-01-01

In May 2003, an outbreak of fatal hemorrhagic fever, caused by yellow fever virus, occurred in southern Sudan. Phylogenetic analysis showed that the virus belonged to the East African genotype, which supports the contention that yellow fever is endemic in East Africa with the potential to cause large outbreaks in humans. PMID:15498174

THE WEIGHT OF SUCCESS: THE BODY MASS INDEX AND ECONOMIC WELL-BEING IN SOUTHERN AFRICA.

PubMed

Wittenberg, Martin

2013-10-01

We show that body mass increases with economic resources among most Southern Africans, although not all. Among Black South Africans the relationship is non-decreasing over virtually the entire range of incomes/wealth. Furthermore in this group other measures of "success" (e.g., employment and education) are also associated with increases in body mass. This is true in both 1998 (the Demographic and Health Survey) and 2008 (National Income Dynamics Survey). A similar relationship holds among residents of Lesotho, Swaziland, Mozambique, Malawi, and Namibia. This suggests that body mass can be used as a crude measure of well-being. This allows us to examine the vexed question in South African labor economics whether there is involuntary unemployment. The fact that the unemployed are lighter than the employed, even when we control for household fixed effects, suggests that they are not choosing this state.

THE WEIGHT OF SUCCESS: THE BODY MASS INDEX AND ECONOMIC WELL-BEING IN SOUTHERN AFRICA

PubMed Central

Wittenberg, Martin

2015-01-01

We show that body mass increases with economic resources among most Southern Africans, although not all. Among Black South Africans the relationship is non-decreasing over virtually the entire range of incomes/wealth. Furthermore in this group other measures of “success” (e.g., employment and education) are also associated with increases in body mass. This is true in both 1998 (the Demographic and Health Survey) and 2008 (National Income Dynamics Survey). A similar relationship holds among residents of Lesotho, Swaziland, Mozambique, Malawi, and Namibia. This suggests that body mass can be used as a crude measure of well-being. This allows us to examine the vexed question in South African labor economics whether there is involuntary unemployment. The fact that the unemployed are lighter than the employed, even when we control for household fixed effects, suggests that they are not choosing this state. PMID:26199456

A New Python Library for Spectroscopic Analysis with MIDAS Style

NASA Astrophysics Data System (ADS)

Song, Y.; Luo, A.; Zhao, Y.

2013-10-01

The ESO MIDAS is a system for astronomers to analyze data which many astronomers are using. Python is a high level script language and there are many applications for astronomical data process. We are releasing a new Python library which realizes some MIDAS commands in Python. People can use it to write a MIDAS style Python code. We call it PydasLib. It is a Python library based on ESO MIDAS functions, which is easily used by astronomers who are familiar with the usage of MIDAS.

Pan-African Genetic Structure in the African Buffalo (Syncerus caffer): Investigating Intraspecific Divergence

PubMed Central

Smitz, Nathalie; Berthouly, Cécile; Cornélis, Daniel; Heller, Rasmus; Van Hooft, Pim; Chardonnet, Philippe; Caron, Alexandre; Prins, Herbert; van Vuuren, Bettine Jansen; De Iongh, Hans; Michaux, Johan

2013-01-01

The African buffalo (Syncerus caffer) exhibits extreme morphological variability, which has led to controversies about the validity and taxonomic status of the various recognized subspecies. The present study aims to clarify these by inferring the pan-African spatial distribution of genetic diversity, using a comprehensive set of mitochondrial D-loop sequences from across the entire range of the species. All analyses converged on the existence of two distinct lineages, corresponding to a group encompassing West and Central African populations and a group encompassing East and Southern African populations. The former is currently assigned to two to three subspecies (S. c. nanus, S. c. brachyceros, S. c. aequinoctialis) and the latter to a separate subspecies (S. c. caffer). Forty-two per cent of the total amount of genetic diversity is explained by the between-lineage component, with one to seventeen female migrants per generation inferred as consistent with the isolation-with-migration model. The two lineages diverged between 145 000 to 449 000 years ago, with strong indications for a population expansion in both lineages, as revealed by coalescent-based analyses, summary statistics and a star-like topology of the haplotype network for the S. c. caffer lineage. A Bayesian analysis identified the most probable historical migration routes, with the Cape buffalo undertaking successive colonization events from Eastern toward Southern Africa. Furthermore, our analyses indicate that, in the West-Central African lineage, the forest ecophenotype may be a derived form of the savanna ecophenotype and not vice versa, as has previously been proposed. The African buffalo most likely expanded and diverged in the late to middle Pleistocene from an ancestral population located around the current-day Central African Republic, adapting morphologically to colonize new habitats, hence developing the variety of ecophenotypes observed today. PMID:23437100

Successfully Navigating through College: Voices of African American Males

ERIC Educational Resources Information Center

Anumba, Ethel

2015-01-01

The purpose of this study was to identify the factors that facilitated college persistence and retention among African American males who were enrolled in an undergraduate program at two four-year public universities in Southern California. This research addressed the growing problem of college attrition among Black males by conducting an in-depth…

Reflections of Academic Experiences from Formerly Incarcerated African American Males

ERIC Educational Resources Information Center

Jeffers, Adam R.

2017-01-01

This research examines academic experiences of African American males (ages 18-25) who attended urban schools in southern California. The participants were incarcerated for at least one year prior to being housed in a pre-release program where they reflected on their academic experiences and perceptions of the school environment. The participants'…

Application of Seasat Altimetry to Tectonic Studies of Fracture Zones in the Southern Oceans

DTIC Science & Technology

1987-06-01

separation of the Indian, African and Antartic plates. More accurate poles describing the development of the Southwest Indian Ocean during the Cretaceous to...directions and rates across the common boundaries of the African, Indian, Antartic and South American plate system. It is 250 from the poles calculated

Adaptation of a Cancer Clinical Trials Education Program for African American and Latina/o Community Members

ERIC Educational Resources Information Center

Pelto, Debra J.; Sadler, Georgia Robins; Njoku, Ogo; Rodriguez, Maria Carina; Villagra, Cristina; Malcarne, Vanessa L.; Riley, Natasha E.; Behar, Alma I.; Jandorf, Lina

2016-01-01

The pilot study reported in this article culturally and linguistically adapted an educational intervention to promote cancer clinical trials (CCTs) participation among Latinas/os and African Americans. The single-session slide presentation with embedded videos, originally developed through a campus-community partnership in Southern California, was…

African International Doctoral Students in New Zealand: Englishes, Doctoral Writing and Intercultural Supervision

ERIC Educational Resources Information Center

Doyle, Stephanie; Manathunga, Catherine; Prinsen, Gerard; Tallon, Rachel; Cornforth, Sue

2018-01-01

While the experiences of international doctoral students, especially those from Asian countries, have been well researched, fewer studies have explored the experiences of African students in Southern countries like Australia and Aotearoa/New Zealand. This article reports on doctoral writing and student and supervisor perspectives on English…

Unilateral microphthalmia or anophthalmia in eight pythons (Pythonidae).

PubMed

Da Silva, Mari-Ann O; Bertelsen, Mads F; Wang, Tobias; Pedersen, Michael; Lauridsen, Henrik; Heegaard, Steffen

2015-01-01

To provide morphological descriptions of microphthalmia or anophthalmia in eight pythons using microcomputerized tomography (μCT), magnetic resonance imaging (MRI), and histopathology. Seven Burmese pythons (Python bivittatus) and one ball python (P. regius) with clinically normal right eyes and an abnormal or missing left eye. At the time of euthanasia, four of the eight snakes underwent necropsy. Hereafter, the heads of two Burmese pythons and one ball python were examined using μCT, and another Burmese python was subjected to MRI. Following these procedures, the heads of these four pythons along with the heads of an additional three Burmese pythons were prepared for histology. All eight snakes had left ocular openings seen as dermal invaginations between 0.2 and 2.0 mm in diameter. They also had varying degrees of malformations of the orbital bones and a limited presence of nervous, glandular, and muscle tissue in the posterior orbit. Two individuals had small but identifiable eyes. Furthermore, remnants of the pigmented embryonic framework of the hyaloid vessels were found in the anophthalmic snakes. Necropsies revealed no other macroscopic anomalies. Eight pythons with unilateral left-sided microphthalmia or anophthalmia had one normal eye and a left orbit with malformed or incompletely developed ocular structures along with remnants of fetal structures. These cases lend further information to a condition that is often seen in snakes, but infrequently described. © 2014 American College of Veterinary Ophthalmologists.

Africa burning: A thematic analysis of the Southern African Regional Science Initiative (SAFARI 2000)

NASA Astrophysics Data System (ADS)

Swap, Robert J.; Annegarn, Harold J.; Suttles, J. Timothy; King, Michael D.; Platnick, Steven; Privette, Jeffrey L.; Scholes, Robert J.

2003-07-01

The Southern African Regional Science Initiative (SAFARI 2000) was a major surface, airborne, and spaceborne field campaign carried out in southern Africa in 2000 and 2001 that addressed a broad range of phenomena related to land-atmosphere interactions and the biogeochemical functioning of the southern African system. This paper presents a thematic analysis and integration of the Journal of Geophysical Research SAFARI 2000 Special Issue, presenting key findings of an intensive field campaign over southern Africa in August and September of 2000. The integrating themes deal with surface emissions characterization; airborne characterizations of aerosols and trace gases; regional haze and trace gas characterization; and radiant measurements by surface, aircraft, and remote sensing platforms. Enhanced regional fuel loads associated with the moist La Niña phase of the El Niño-Southern Oscillation (ENSO) cycle produced above average biomass burning emissions, which consequently dominated all other aerosol and trace gas emissions during the dry season. Southward transport of a broad plume of smoke originating in equatorial Africa and exiting off the east coast toward the Indian Ocean (the river of smoke) is attributed to unusual synoptic airflows associated the ENSO phase. New and revised biogenic and pyrogenic emission factors are reported, including a number of previously unreported oxygenated organic compounds and inorganic compounds from biomass combustion. Emission factors are scaled up to regional emission surfaces for biogenic species utilizing species specific and light-dependent emission factors. Fire scar estimates reveal contradictory information on the timing of the peak and extent of the biomass-burning season. Integrated tall stack coordinated measurements (between ground, airborne and remotely sensing platforms) of upwelling and downwelling radiation in massive thick aerosol layers covering much of southern Africa yield consistent estimates of large negative forcing for both surface and top of atmosphere radiative forcing. Radiation calculations are supported by novel information on chemical speciation and internal aerosol particle structure. The overall conclusion is that SAFARI 2000, as an integrating theme, has been able to give significant new insights into the regional scale biogeochemical cycling of southern Africa and contributed in important ways to the validation of remote sensing instruments on board the NASA Terra spacecraft.

Pythons in Burma: Short-tailed python (Reptilia: Squamata)

USGS Publications Warehouse

Zug, George R.; Gotte, Steve W.; Jacobs, Jeremy F.

2011-01-01

Short-tailed pythons, Python curtus species group, occur predominantly in the Malayan Peninsula, Sumatra, and Borneo. The discovery of an adult female in Mon State, Myanmar, led to a review of the distribution of all group members (spot-mapping of all localities of confirmed occurrence) and an examination of morphological variation in P. brongersmai. The resulting maps demonstrate a limited occurrence of these pythons within peninsular Malaya, Sumatra, and Borneo with broad absences in these regions. Our small samples limit the recognition of regional differentiation in the morphology of P. brongersmai populations; however, the presence of unique traits in the Myanmar python and its strong allopatry indicate that it is a unique genetic lineage, and it is described as Python kyaiktiyo new species.

North African savanna fires and atmospheric carbon dioxide

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

Iacobellis, S.F.; Frouni, Razafimpaniolo, H.

1994-04-20

The effect of north African savanna fires on atmospheric CO{sub 2} is investigated using a tracer transport model. The model uses winds from operational numerical weather prediction analyses and provides CO{sub 2} concentrations as a function of space and time. After a spin-up period of several years, biomass-burning sources are added, and model experiments are run for an additional year, utilizing various estimates of CO{sub 2} sources. The various model experiments show that biomass burning in the north African savannas significantly affects CO{sub 2} concentrations in South America. The effect is more pronounced during the period from January through March,more » when biomass burning in South America is almost nonexistent. During this period, atmospheric CO{sub 2} concentrations in parts of South America typically may increase by 0.5 to 0.75 ppm at 970 mbar, the average pressure of the lowest model layer. These figures are above the probable uncertainty level, as model runs with biomass-burning sources estimated from independent studies using distinct data sets and techniques indicate. From May through September, when severe biomass burning occurs in South America, the effect of north African savanna fires over South America has become generally small at 970 mbar, but north of the equator it may be of the same magnitude or larger than the effect of South American fires. The CO{sub 2} concentration increase in the extreme northern and southern portions of South America, however, is mostly due to southern African fires, whose effect may be 2-3 times larger than the effect of South American fires at 970 mbar. Even in the central part of the continent, where local biomass-burning emissions are maximum, southern African fires contribute to at least 15% of the CO{sub 2} concentration increase at 970 mbar. 20 refs., 15 figs., 1 tab.« less

Biochemical validation of food frequency questionnaire-estimated carotenoid, alpha-tocopherol, and folate intakes among African Americans and non-Hispanic Whites in the Southern Community Cohort Study.

PubMed

Signorello, Lisa B; Buchowski, Maciej S; Cai, Qiuyin; Munro, Heather M; Hargreaves, Margaret K; Blot, William J

2010-02-15

Few food frequency questionnaires (FFQs) have been developed specifically for use among African Americans, and reports of FFQ performance among African Americans or low-income groups assessed using biochemical indicators are scarce. The authors conducted a validation study within the Southern Community Cohort Study to evaluate FFQ-estimated intakes of alpha-carotene, beta-carotene, beta-cryptoxanthin, lutein/zeaxanthin, lycopene, folate, and alpha-tocopherol in relation to blood levels of these nutrients. Included were 255 nonsmoking participants (125 African Americans, 130 non-Hispanic whites) who provided a blood sample at the time of study enrollment and FFQ administration in 2002-2004. Levels of biochemical indicators of each micronutrient (alpha-tocopherol among women only) significantly increased with increasing FFQ-estimated intake (adjusted correlation coefficients: alpha-carotene, 0.35; beta-carotene, 0.28; beta-cryptoxanthin, 0.35; lutein/zeaxanthin, 0.28; lycopene, 0.15; folate, 0.26; alpha-tocopherol, 0.26 among women; all P's < 0.05). Subjects in the top decile of FFQ intake had blood levels that were 27% (lycopene) to 178% (beta-cryptoxanthin) higher than those of subjects in the lowest decile. Satisfactory FFQ performance was noted even for participants with less than a high school education. Some variation was noted in the FFQ's ability to predict blood levels for subgroups defined by race, sex, and other characteristics, but overall the Southern Community Cohort Study FFQ appears to generate useful dietary exposure rankings in the cohort.

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

SmartImport.py is a Python source-code file that implements a replacement for the standard Python module importer. The code is derived from knee.py, a file in the standard Python diestribution , and adds functionality to improve the performance of Python module imports in massively parallel contexts.

A Measurement Invariance Examination of the Revised Child Anxiety and Depression Scale in a Southern Sample: Differential Item Functioning between African American and Caucasian Youth

ERIC Educational Resources Information Center

Trent, Lindsay Rae; Buchanan, Erin; Ebesutani, Chad; Ale, Chelsea M.; Heiden, Laurie; Hight, Terry L.; Damon, John D.; Young, John

2013-01-01

This study examined the psychometric properties of the Revised Child Anxiety and Depression Scale in a large sample of youth from the Southern United States. The authors aimed to determine (a) if the established six-factor Revised Child Anxiety and Depression Scale structure could be replicated in this Southern sample and (b) if scores were…

Detection of nidoviruses in live pythons and boas.

PubMed

Marschang, Rachel E; Kolesnik, Ekaterina

2017-02-09

Nidoviruses have recently been described as a putative cause of severe respiratory disease in pythons in the USA and Europe. The objective of this study was to establish the use of a conventional PCR for the detection of nidoviruses in samples from live animals and to extend the list of susceptible species. A PCR targeting a portion of ORF1a of python nidoviruses was used to detect nidoviruses in diagnostic samples from live boas and pythons. A total of 95 pythons, 84 boas and 22 snakes of unknown species were included in the study. Samples tested included oral swabs and whole blood. Nidoviruses were detected in 27.4% of the pythons and 2.4% of the boas tested. They were most commonly detected in ball pythons (Python [P.] regius) and Indian rock pythons (P. molurus), but were also detected for the first time in other python species, including Morelia spp. and Boa constrictor. Oral swabs were most commonly tested positive. The PCR described here can be used for the detection of nidoviruses in oral swabs from live snakes. These viruses appear to be relatively common among snakes in captivity in Europe and screening for these viruses should be considered in the clinical work-up. Nidoviruses are believed to be an important cause of respiratory disease in pythons, but can also infect boas. Detection of these viruses in live animals is now possible and can be of interest both in diseased animals as well as in quarantine situations.

Evidence for a Nascent Rift in South Sudan: Westward Extension of the East African Rift System?

NASA Astrophysics Data System (ADS)

Maceira, M.; Van Wijk, J. W.; Coblentz, D. D.; Modrak, R. T.

2013-12-01

Joint inversion of seismic and gravity data of eastern Africa reveals a low seismic wave velocity arm stretching from the southern Main Ethiopian rift westward in an east-west direction that has not been noticed in earlier work. The zone of low velocities is located in the upper mantle and is not overlain by a known structural rift expression. We analyzed the local pattern of seismicity and the stresses in the African plate to interpret this low velocity arm. The zone of low velocities is located within the Central African Fold Belt, which dissects the northern and southern portions of the African continent. It is seismically active with small to intermediate sized earthquakes occurring in the crust. Seven earthquake solutions indicate (oblique) normal faulting and low-angle normal faulting with a NS to NNW-SSE opening direction, as well as strike-slip faulting. This pattern of deformation is typically associated with rifting. The present day stress field in northeastern Africa reveals a tensional state of stress at the location of the low velocity arm with an opening direction that corresponds to the earthquake data. We propose that the South Sudan low velocity zone and seismic center are part of an undeveloped, nascent rift arm. The arm stretches from the East African Rift system westward.

With or without us? An audit of disability research in the southern African region

PubMed Central

Mji, Gubela; Gcaza, Siphokazi

2014-01-01

Background Disability research in the global South has not received significant critical consideration as to how it can be used to challenge the oppression and marginalisation of people with disabilities in low-income and middle-income countries. The Southern Africa Federation of the Disabled (SAFOD) embarked on a programme to use research to influence policy and practice relating to people with disabilities in Southern Africa, and commissioned an audit on research expertise in the region. In this article, a research audit is reported on and situated in a framework of emancipatory research. Objectives This article sets out to describe a preliminary audit of disability research in the southern African region and to draw conclusions about the current state of disability research in the region and make recommendations. Method The research method entailed working with disability researchers in the ten SAFOD member countries and utilising African disability networks hosted on electronic media. Disability researchers working in the region completed 87 questionnaires, which were reviewed through a thematic analysis. Results The discussion of results provides a consideration of definitions of disability; the understanding of disability rights, research topics and methodologies; the participation of people with disabilities in research; and the challenges and opportunities for using research to inform disability activism. Conclusion The conclusion highlights critical issues for future research in the region, and considers how a disability researcher database can be used as a tool for disability organisations to prioritise research that serves a disability rights agenda. PMID:28730009

(Re)creating Spaces for "uMunthu": Postcolonial Theory and Environmental Education in Southern Africa

ERIC Educational Resources Information Center

Kayira, Jean

2015-01-01

Colonialism goes beyond territorial conquest: it affects one's epistemological stance, worldviews and perceptions. Although most African countries gained independence in the 1960s, the impacts of colonialism continue to be present through modern-day globalization as a form of neocolonialism. Education systems in many countries in southern Africa…

Report on Information Systems Workshop (Njiro Hill, Arusha, Tanzania, May 19-31, 1980).

ERIC Educational Resources Information Center

Inganji, Francis, Ed.

With a view to improving information systems and services in Eastern, Central, and Southern Africa, this Information Systems Workshop was organized by the East and Southern African Management Institute (ESAMI) with assistance from the Coordinating Centre for Regional Information Training (CRIT). The specific aims of the workshop were to acquaint…

Genetics and southern African prehistory: an archaeological view.

PubMed

Mitchell, Peter

2010-01-01

Southern African populations speaking languages that are often - but inaccurately - grouped together under the label 'Khoisan' are an important focus of molecular genetic research, not least in tracking the early stages of human genetic diversification. This paper reviews these studies from an archaeological standpoint, concentrating on modern human origins, the introduction of pastoralism to southern Africa and admixture between the region's indigenous foragers and incoming Bantu-speaking farmers. To minimise confusion and facilitate correlation with anthropological, linguistic and archaeological data it emphasises the need to use ethnolinguistic labels accurately and with due regard for the particular histories of individual groups. It also stresses the geographically and culturally biased nature of the genetic studies undertaken to date, which employ data from only a few 'Khoisan' groups. Specific topics for which the combined deployment of genetic and archaeological methods would be particularly useful include the early history of Ju-Hoan- and Tuu-speaking hunter-gatherers, the expansion of Khoe-speaking populations, the chronology of genetic exchange between hunter-gatherers and farmers, and the origins of the Sotho/Tswana- and Nguni-speaking populations that dominate much of southern Africa today.

PyMOOSE: Interoperable Scripting in Python for MOOSE

PubMed Central

Ray, Subhasis; Bhalla, Upinder S.

2008-01-01

Python is emerging as a common scripting language for simulators. This opens up many possibilities for interoperability in the form of analysis, interfaces, and communications between simulators. We report the integration of Python scripting with the Multi-scale Object Oriented Simulation Environment (MOOSE). MOOSE is a general-purpose simulation system for compartmental neuronal models and for models of signaling pathways based on chemical kinetics. We show how the Python-scripting version of MOOSE, PyMOOSE, combines the power of a compiled simulator with the versatility and ease of use of Python. We illustrate this by using Python numerical libraries to analyze MOOSE output online, and by developing a GUI in Python/Qt for a MOOSE simulation. Finally, we build and run a composite neuronal/signaling model that uses both the NEURON and MOOSE numerical engines, and Python as a bridge between the two. Thus PyMOOSE has a high degree of interoperability with analysis routines, with graphical toolkits, and with other simulators. PMID:19129924

African American Adolescents' Future Education Orientation: Associations with Self-Efficacy, Ethnic Identity, and Perceived Parental Support

ERIC Educational Resources Information Center

Kerpelman, Jennifer L.; Eryigit, Suna; Stephens, Carolyn J.

2008-01-01

The current study, using data from 374 African American students (59.4% female) in grades 7-12 attending a rural, southern county public school, addressed associations of self-efficacy, ethnic identity and parental support with "future education orientation." Both gender and current level of achievement distinguished adolescents with…

Influences on Adolescent African American Females' Global Self-Esteem: Body Image and Ethnic Identity

ERIC Educational Resources Information Center

Turnage, Barbara F.

2004-01-01

This study of 105 senior high school Southern African American adolescent females examined the relationship between global self-esteem, appearance evaluation (body image), and ethnic identity. As predicted, the relationship between global self-esteem, appearance evaluation (r = 0.46, p less than 0.001), and ethnic identity (r = 40, p less than…

Unique songs of African wood-owls (Strix woodfordii) in the Democratic Republic of Congo.

Treesearch

B.G. Marcot

2007-01-01

Statistical analysis of African wood-owl (Strix woodfordii) song spectrograms suggest a significantly different song type in Democratic Republic of Congo (DRC), central Africa, than elsewhere in eastern or southern Africa. Songs of DRC owls tend to be consistently shorter in duration and more monotone in overall frequency range. The first note is...

Lessons from the Workplace: Writing and Oral Communication in Three African American Families.

ERIC Educational Resources Information Center

Chapman, Constance

A study examined the ways in which members of low-income Southern African-American families deal with writing in their everyday lives. Three families headed by single parents participated in the study. The researcher resided with each family for 2 months, following the adults to their workplaces, sharing chores and leisure activities, and…

Developing a Cancer Prevention Programme for African-American Daughters and Mothers

ERIC Educational Resources Information Center

Annang, Lucy; Spencer, S. Melinda; Jackson, Dawnyéa; Rosemond, Tiara N.; Best, Alicia L.; Williams, Leah R.; Carlos, Bethany

2015-01-01

Objective: To describe how nominal group technique was used to inform the development of a breast and cervical cancer awareness programme for African-American adult daughters and mothers. Design: A qualitative approach using nominal group technique. Setting: A mid-sized city in the Southern USA. Method: Nominal group technique was used with 30…

Sexual Health Discussions between African-American Mothers and Mothers of Latino Descent and Their Children

ERIC Educational Resources Information Center

Murray, Ashley; Ellis, Monica U.; Castellanos, Ted; Gaul, Zaneta; Sutton, Madeline Y.; Sneed, Carl D.

2014-01-01

We examined approaches used by African-American mothers and mothers of Latino descent for informal sex-related discussions with their children to inform sexually transmitted infection (STI)/HIV intervention development efforts. We recruited mothers (of children aged 12-15) from youth service agencies and a university in southern California.…

Prototyping the graphical user interface for the operator of the Cherenkov Telescope Array

NASA Astrophysics Data System (ADS)

Sadeh, I.; Oya, I.; Schwarz, J.; Pietriga, E.

2016-07-01

The Cherenkov Telescope Array (CTA) is a planned gamma-ray observatory. CTA will incorporate about 100 imaging atmospheric Cherenkov telescopes (IACTs) at a Southern site, and about 20 in the North. Previous IACT experiments have used up to five telescopes. Subsequently, the design of a graphical user interface (GUI) for the operator of CTA involves new challenges. We present a GUI prototype, the concept for which is being developed in collaboration with experts from the field of Human-Computer Interaction (HCI). The prototype is based on Web technology; it incorporates a Python web server, Web Sockets and graphics generated with the d3.js Javascript library.

Southern African Phanerozoic Carbonatites: Perspectives on Their Sources and Petrogeneses

NASA Astrophysics Data System (ADS)

Janney, P. E.; Ogungbuyi, P. I.; Marageni, M.; Harris, C.; Reid, D. L.

2017-12-01

Found worldwide, carbonatites are particularly numerous in southern Africa and reflect one expression of abundant intraplate alkaline magmatism of Proterozoic to Paleogene age in the region. Phanerozoic southern African carbonatites tend to be concentrated near the margins of the continent (especially the western margin), and near the East African Rift, and often occur in discrete magmatic lineations also containing kimberlites, melilitites, nephelinites and differentiated silica-undersaturated rocks such as phonolites and syenites. We present a synthesis of geochemical and radiogenic and stable isotope results for southern African carbonatites, including new trace element and isotope data from four Phanerozoic carbonatite complexes in South Africa and Namibia: Marinkas Quellen (MQ; southernmost Namibia, ≈525 Ma), Saltpeterkop (SPK; near Sutherland, South Africa, 74 Ma), Zandkopsdrift (ZKD; near Garies, South Africa, 55 Ma, a major REE deposit in development), and Dicker Willem (DW; near Aus, southern Namibia, 49 Ma). All are located in the Early-mid Proterozoic Namaqua-Natal mobile belt. These carbonatite complexes are each associated with linear, NE-SW oriented magmatic provinces, i.e., the Kuboos-Bremen Line of felsic alkaline intrusions and ultramafic lamprophyres (MQ); the Western Cape olivine melilitite province (SPK); the Namaqualand-Bushmanland-Warmbad province of olivine melilitites and kimberlites (ZKD) and the Schwarzeberg-Klinghardt-Gibeon swarm of nephelinites, phonolites and kimberlites (DW), the latter three provinces are of Paleogene to Late Cretaceous age and are clearly age progressive. Each of the four carbonatite complexes contain silica-undersaturated igneous rocks such as potassic trachyte (MQ, SPK & DW), alkaline lamprophyre (ZKD), ijolite (MQ & DW) and olivine melilitite (ZKD and SPK). Most also contain hybrid silicate-carbonate igneous rocks with <35 wt.% SiO2 and ≥20 wt.% CO2 such as nepheline sövite (DW), aillikite (ZKD) and other carbonated ultramafic lamprophyre types (SPK) that could represent magmas parental to the carbonatites. Like the magmatic provinces that host them, the carbonatites span a range of isotopic compositions from strong HIMU to EM1. We will present a model of carbonatite origin and source evolution related to lithospheric setting.

The influence of El Niño-Southern Oscillation regimes on eastern African vegetation and its future implications under the RCP8.5 warming scenario

NASA Astrophysics Data System (ADS)

Fer, Istem; Tietjen, Britta; Jeltsch, Florian; Wolff, Christian

2017-09-01

The El Niño-Southern Oscillation (ENSO) is the main driver of the interannual variability in eastern African rainfall, with a significant impact on vegetation and agriculture and dire consequences for food and social security. In this study, we identify and quantify the ENSO contribution to the eastern African rainfall variability to forecast future eastern African vegetation response to rainfall variability related to a predicted intensified ENSO. To differentiate the vegetation variability due to ENSO, we removed the ENSO signal from the climate data using empirical orthogonal teleconnection (EOT) analysis. Then, we simulated the ecosystem carbon and water fluxes under the historical climate without components related to ENSO teleconnections. We found ENSO-driven patterns in vegetation response and confirmed that EOT analysis can successfully produce coupled tropical Pacific sea surface temperature-eastern African rainfall teleconnection from observed datasets. We further simulated eastern African vegetation response under future climate change as it is projected by climate models and under future climate change combined with a predicted increased ENSO intensity. Our EOT analysis highlights that climate simulations are still not good at capturing rainfall variability due to ENSO, and as we show here the future vegetation would be different from what is simulated under these climate model outputs lacking accurate ENSO contribution. We simulated considerable differences in eastern African vegetation growth under the influence of an intensified ENSO regime which will bring further environmental stress to a region with a reduced capacity to adapt effects of global climate change and food security.

Developing FAITHH: Methods to Develop a Faith-Based HIV Stigma-Reduction Intervention in the Rural South.

PubMed

Bradley, Erin L P; Sutton, Madeline Y; Cooks, Eric; Washington-Ball, Brittney; Gaul, Zaneta; Gaskins, Susan; Payne-Foster, Pamela

2018-01-01

Human immunodeficiency virus (HIV) disproportionately affects Blacks/African Americans, particularly those residing in the southern United States. HIV-related stigma adversely affects strategies to successfully engage people in HIV education, prevention, and care. Interventions targeting stigma reduction are vital as additional tools to move toward improved outcomes with HIV prevention and care, consistent with national goals. Faith institutions in the South have been understudied as partners in HIV stigma-reduction efforts, and some at-risk, Black/African American communities are involved with southern faith institutions. We describe the collaborative effort with rural, southern faith leaders from various denominations to develop and pilot test Project Faith-based Anti-stigma Initiative Towards Healing HIV/AIDS (FAITHH), an HIV stigma-reduction intervention that built on strategies previously used with other nonrural, Black/African American faith communities. The eight-module intervention included educational materials, myth-busting exercises to increase accurate HIV knowledge, role-playing, activities to confront stigma, and opportunities to develop and practice delivering a sermon about HIV that included scripture-based content and guidance. Engaging faith leaders facilitated the successful tailoring of the intervention, and congregation members were willing participants in the research process in support of increased HIV awareness, prevention, and care.

Assessment of the health impact of occupational risk in Africa: current situation and methodological issues.

PubMed

Loewenson, R

1999-09-01

This paper presents information from the current monitoring systems in Africa, mainly Southern Africa, for occupational illness and injury and discusses the quality of the reported data in estimating the health impact of occupational risk. The paper presents and discusses the current profile of reported injury and fatalities for those countries for which data are available, in particular for the countries of the Southern African Development Community. These data indicate that the reported annual injury rates for wage workers in the Southern African Development Community region range widely from 0.35 to 49.42 injuries per 1,000 workers, and reported occupational fatality in the region ranges from 0.85 to 21.6 fatalities per 100,000 workers. Despite wide variability in reported rates (probably caused by variability in coverage and accuracy of reporting systems), transport, agriculture, mining and, to a lesser extent, construction consistently make up about three-quarters of all fatalities, with vehicle- or transport-related causes accounting for high proportions of fatal accidents. The paper identifies and discusses major sources and direction of bias and error in the reported data and suggests approaches for a better assessment of the health impact of occupational illness, injury, and mortality in African countries.

Delivering Lifelong Learning for Sustainable Development in Southern Africa: Problems and Prospects

ERIC Educational Resources Information Center

Maruatona, Tonic L.

2012-01-01

Southern African Development Community (SADC) nations in principle endorse lifelong learning (LLL) as a useful framework for sustainable development. However, in spite of the rhetoric, only a few member states such as South Africa, Botswana and Namibia have officially endorsed LLL in their educational policies. The sub-region is plagued by social…

Internationalisation of Higher Education in Southern Africa with South Africa as a Major Exporter

ERIC Educational Resources Information Center

Kwaramba, Marko

2012-01-01

This study investigates the extent to which South Africa has strategically marketed its educational services and positioned itself as the educational hub of Southern Africa. The analysis reveals that South African universities' export of higher education services has been modeled in line with three of the four modes of supply identified in World…

Students Writing Race at Southern Public Women's Colleges, 1884-1945

ERIC Educational Resources Information Center

Gold, David

2010-01-01

Scholars have long debated the complicity of Southern white women after the Civil War in helping create a racialist and racist regional identity and denying or delaying civil rights for African Americans. These studies have largely focused on the activities of elite white women property owners, club members, and writers. Yet few scholars have…

Recruitment and Retention of Non-Caucasian Faculty in Southern Community Colleges: A Phenomenological Study

ERIC Educational Resources Information Center

Sampson, Kristina

2017-01-01

The increase in enrollment of African American, Hispanic, and Asian students in community colleges in the Southern parts of the United States of America sparked an interest in researching the hiring of non-Caucasian faculty in similar institutions and regions. This phenomenological study sought to unveil the personal experiences of non-Caucasian…

Ancient west Eurasian ancestry in southern and eastern Africa.

PubMed

Pickrell, Joseph K; Patterson, Nick; Loh, Po-Ru; Lipson, Mark; Berger, Bonnie; Stoneking, Mark; Pakendorf, Brigitte; Reich, David

2014-02-18

The history of southern Africa involved interactions between indigenous hunter-gatherers and a range of populations that moved into the region. Here we use genome-wide genetic data to show that there are at least two admixture events in the history of Khoisan populations (southern African hunter-gatherers and pastoralists who speak non-Bantu languages with click consonants). One involved populations related to Niger-Congo-speaking African populations, and the other introduced ancestry most closely related to west Eurasian (European or Middle Eastern) populations. We date this latter admixture event to ∼900-1,800 y ago and show that it had the largest demographic impact in Khoisan populations that speak Khoe-Kwadi languages. A similar signal of west Eurasian ancestry is present throughout eastern Africa. In particular, we also find evidence for two admixture events in the history of Kenyan, Tanzanian, and Ethiopian populations, the earlier of which involved populations related to west Eurasians and which we date to ∼2,700-3,300 y ago. We reconstruct the allele frequencies of the putative west Eurasian population in eastern Africa and show that this population is a good proxy for the west Eurasian ancestry in southern Africa. The most parsimonious explanation for these findings is that west Eurasian ancestry entered southern Africa indirectly through eastern Africa.

Ancient west Eurasian ancestry in southern and eastern Africa

PubMed Central

Pickrell, Joseph K.; Patterson, Nick; Loh, Po-Ru; Lipson, Mark; Berger, Bonnie; Stoneking, Mark; Pakendorf, Brigitte; Reich, David

2014-01-01

The history of southern Africa involved interactions between indigenous hunter–gatherers and a range of populations that moved into the region. Here we use genome-wide genetic data to show that there are at least two admixture events in the history of Khoisan populations (southern African hunter–gatherers and pastoralists who speak non-Bantu languages with click consonants). One involved populations related to Niger–Congo-speaking African populations, and the other introduced ancestry most closely related to west Eurasian (European or Middle Eastern) populations. We date this latter admixture event to ∼900–1,800 y ago and show that it had the largest demographic impact in Khoisan populations that speak Khoe–Kwadi languages. A similar signal of west Eurasian ancestry is present throughout eastern Africa. In particular, we also find evidence for two admixture events in the history of Kenyan, Tanzanian, and Ethiopian populations, the earlier of which involved populations related to west Eurasians and which we date to ∼2,700–3,300 y ago. We reconstruct the allele frequencies of the putative west Eurasian population in eastern Africa and show that this population is a good proxy for the west Eurasian ancestry in southern Africa. The most parsimonious explanation for these findings is that west Eurasian ancestry entered southern Africa indirectly through eastern Africa. PMID:24550290

Humoral regulation of heart rate during digestion in pythons (Python molurus and Python regius).

PubMed

Enok, Sanne; Simonsen, Lasse Stærdal; Pedersen, Signe Vesterskov; Wang, Tobias; Skovgaard, Nini

2012-05-15

Pythons exhibit a doubling of heart rate when metabolism increases several times during digestion. Pythons, therefore, represent a promising model organism to study autonomic cardiovascular regulation during the postprandial state, and previous studies show that the postprandial tachycardia is governed by a release of vagal tone as well as a pronounced stimulation from nonadrenergic, noncholinergic (NANC) factors. Here we show that infusion of plasma from digesting donor pythons elicit a marked tachycardia in fasting snakes, demonstrating that the NANC factor resides in the blood. Injections of the gastrin and cholecystokinin receptor antagonist proglumide had no effect on double-blocked heart rate or blood pressure. Histamine has been recognized as a NANC factor in the early postprandial period in pythons, but the mechanism of its release has not been identified. Mast cells represent the largest repository of histamine in vertebrates, and it has been speculated that mast cells release histamine during digestion. Treatment with the mast cell stabilizer cromolyn significantly reduced postprandial heart rate in pythons compared with an untreated group but did not affect double-blocked heart rate. While this study indicates that histamine induces postprandial tachycardia in pythons, its release during digestion is not stimulated by gastrin or cholecystokinin nor is its release from mast cells a stimulant of postprandial tachycardia.

Prostate cancer community collaboration and partnership: education, awareness, recruitment, and outreach to southern African-American males.

PubMed

Hughes, Gail D; Sellers, Denethia B; Fraser, Lionel; Teague, Robert; Knight, Bern'Nadette

2007-01-01

Prostate cancer is a significant health problem for African-American men intensified by low participation in screenings, clinical trials, and prospective cohort studies. Ten focus groups were conducted with African-American males and their female partners/spouses. Perceptions and knowledge about prostate cancer, as well as willingness to participate in screening and research studies were measured. Participants had a basic level of knowledge about prostate cancer, and the importance of education was a unified theme. Dialogue with targeted African-American men and their partners/spouses may increase awareness and retention in medical research, while influencing health promotion, education and behavior.

Enslaved Africans and doctors in South Carolina.

PubMed

Goodson, Martia Graham

2003-03-01

This interpretation of the relationship between enslavement and American medicine in 19th century South Carolina reveals the intimacy that existed between Africans enslaved in that state and the doctors who practiced and taught there. Enslaved Africans were resourceful and reliable medical figures in the slave community. Their knowledge of medical botany permeated the slave quarters and plantation hospitals and was appropriated into southern medical knowledge. The trajectories of the careers of three South Carolina physicians are tied to their practice around and on the enslaved. The beginnings of gynecological surgery are linked to 1840s experimentation on enslaved African women performed by one of them.

An intuitive Python interface for Bioconductor libraries demonstrates the utility of language translators.

PubMed

Gautier, Laurent

2010-12-21

Computer languages can be domain-related, and in the case of multidisciplinary projects, knowledge of several languages will be needed in order to quickly implements ideas. Moreover, each computer language has relative strong points, making some languages better suited than others for a given task to be implemented. The Bioconductor project, based on the R language, has become a reference for the numerical processing and statistical analysis of data coming from high-throughput biological assays, providing a rich selection of methods and algorithms to the research community. At the same time, Python has matured as a rich and reliable language for the agile development of prototypes or final implementations, as well as for handling large data sets. The data structures and functions from Bioconductor can be exposed to Python as a regular library. This allows a fully transparent and native use of Bioconductor from Python, without one having to know the R language and with only a small community of translators required to know both. To demonstrate this, we have implemented such Python representations for key infrastructure packages in Bioconductor, letting a Python programmer handle annotation data, microarray data, and next-generation sequencing data. Bioconductor is now not solely reserved to R users. Building a Python application using Bioconductor functionality can be done just like if Bioconductor was a Python package. Moreover, similar principles can be applied to other languages and libraries. Our Python package is available at: http://pypi.python.org/pypi/rpy2-bioconductor-extensions/.

Black Degrees Matter: A Phenomenological Study of Southern Californians with HBCU Bachelors' and Mainstream Institutional Graduate Degrees in California

ERIC Educational Resources Information Center

Boykin, Keyna Kirklen Cobb

2017-01-01

Historically Black Colleges and Universities (HBCUs) were established with the main objective of identifying and empowering people of African descent. Over the years, these institutions have grown, enrolling 16% of Black high school graduates and during graduation, almost 20% of African-American graduates. Using a qualitative study design, the…

Learning through South-South Development: Cuban-African Partnerships in Sport and Physical Education

ERIC Educational Resources Information Center

Darnell, Simon C.; Huish, Robert

2017-01-01

Since the 1990s, Cuba has offered scholarships to students from low-resource countries to attend the Escuela Internacional de Educación Física y Deporte (EIEFD) for a six-year degree in sport, physical education, and coaching. Drawing on the experiences of EIEFD graduates from four Southern African countries (Zambia, South Africa, Mozambique, and…

Black Competition and White Vengeance: Legal Execution of Blacks as Social Control in the Cotton South, 1890 to 1929.

ERIC Educational Resources Information Center

Tolnay, Stewart E.; And Others

1992-01-01

Reports on study of economic and social data from 400 counties in cotton-growing areas of southern United States between 1890 and 1929. Finds economic and political competition between white and African-American cotton growers led to racial discrimination and legal executions of African Americans. Asserts legal executions declined when political…

Selecting Communication Channels for Substance Misuse Prevention with At-Risk African-American Emerging Adults Living in the Southern United States

ERIC Educational Resources Information Center

Tucker, Jalie A.; Cheong, JeeWon; Chandler, Susan D.

2016-01-01

Natural health information sources used by African-American emerging adults were investigated to identify sources associated with high and low substance-related risk. Participants (110 males, 234 females; M age = 18.9 years) were recruited using respondent-driven sampling, and structured interviews assessed substance use, sources of health…

Research from the Global South: The Important Role of Context in International Research Activities

ERIC Educational Resources Information Center

Bryant, Katie

2014-01-01

Researchers from various disciplines have become interested in the supposedly extreme differences in rates of research between academics situated in the Global North and South, specifically those on the African continent. Yet, having worked as a researcher and a writing coach in the context of one university in the southern African region for the…

Orogen styles in the East African Orogen: A review of the Neoproterozoic to Cambrian tectonic evolution.

PubMed

Fritz, H; Abdelsalam, M; Ali, K A; Bingen, B; Collins, A S; Fowler, A R; Ghebreab, W; Hauzenberger, C A; Johnson, P R; Kusky, T M; Macey, P; Muhongo, S; Stern, R J; Viola, G

2013-10-01

The East African Orogen, extending from southern Israel, Sinai and Jordan in the north to Mozambique and Madagascar in the south, is the world́s largest Neoproterozoic to Cambrian orogenic complex. It comprises a collage of individual oceanic domains and continental fragments between the Archean Sahara-Congo-Kalahari Cratons in the west and Neoproterozoic India in the east. Orogen consolidation was achieved during distinct phases of orogeny between ∼850 and 550 Ma. The northern part of the orogen, the Arabian-Nubian Shield, is predominantly juvenile Neoproterozoic crust that formed in and adjacent to the Mozambique Ocean. The ocean closed during a protracted period of island-arc and microcontinent accretion between ∼850 and 620 Ma. To the south of the Arabian Nubian Shield, the Eastern Granulite-Cabo Delgado Nappe Complex of southern Kenya, Tanzania and Mozambique was an extended crust that formed adjacent to theMozambique Ocean and experienced a ∼650-620 Ma granulite-facies metamorphism. Completion of the nappe assembly around 620 Ma is defined as the East African Orogeny and was related to closure of the Mozambique Ocean. Oceans persisted after 620 Ma between East Antarctica, India, southern parts of the Congo-Tanzania-Bangweulu Cratons and the Zimbabwe-Kalahari Craton. They closed during the ∼600-500 Ma Kuungan or Malagasy Orogeny, a tectonothermal event that affected large portions of southern Tanzania, Zambia, Malawi, Mozambique, Madagascar and Antarctica. The East African and Kuungan Orogenies were followed by phases of post-orogenic extension. Early ∼600-550 Ma extension is recorded in the Arabian-Nubian Shield and the Eastern Granulite-Cabo Delgado Nappe Complex. Later ∼550-480 Ma extension affected Mozambique and southern Madagascar. Both extension phases, although diachronous,are interpreted as the result of lithospheric delamination. Along the strike of the East African Orogen, different geodynamic settings resulted in the evolution of distinctly different orogen styles. The Arabian-Nubian Shield is an accretion-type orogen comprising a stack of thin-skinned nappes resulting from the oblique convergence of bounding plates. The Eastern Granulite-Cabo Delgado Nappe Complex is interpreted as a hot- to ultra-hot orogen that evolved from a formerly extended crust. Low viscosity lower crust resisted one-sided subduction, instead a sagduction-type orogen developed. The regions of Tanzania and Madagascar affected by the Kuungan Orogeny are considered a Himalayan-type orogen composed of partly doubly thickened crust.

Orogen styles in the East African Orogen: A review of the Neoproterozoic to Cambrian tectonic evolution☆

PubMed Central

Fritz, H.; Abdelsalam, M.; Ali, K.A.; Bingen, B.; Collins, A.S.; Fowler, A.R.; Ghebreab, W.; Hauzenberger, C.A.; Johnson, P.R.; Kusky, T.M.; Macey, P.; Muhongo, S.; Stern, R.J.; Viola, G.

2013-01-01

The East African Orogen, extending from southern Israel, Sinai and Jordan in the north to Mozambique and Madagascar in the south, is the world́s largest Neoproterozoic to Cambrian orogenic complex. It comprises a collage of individual oceanic domains and continental fragments between the Archean Sahara–Congo–Kalahari Cratons in the west and Neoproterozoic India in the east. Orogen consolidation was achieved during distinct phases of orogeny between ∼850 and 550 Ma. The northern part of the orogen, the Arabian–Nubian Shield, is predominantly juvenile Neoproterozoic crust that formed in and adjacent to the Mozambique Ocean. The ocean closed during a protracted period of island-arc and microcontinent accretion between ∼850 and 620 Ma. To the south of the Arabian Nubian Shield, the Eastern Granulite–Cabo Delgado Nappe Complex of southern Kenya, Tanzania and Mozambique was an extended crust that formed adjacent to theMozambique Ocean and experienced a ∼650–620 Ma granulite-facies metamorphism. Completion of the nappe assembly around 620 Ma is defined as the East African Orogeny and was related to closure of the Mozambique Ocean. Oceans persisted after 620 Ma between East Antarctica, India, southern parts of the Congo–Tanzania–Bangweulu Cratons and the Zimbabwe–Kalahari Craton. They closed during the ∼600–500 Ma Kuungan or Malagasy Orogeny, a tectonothermal event that affected large portions of southern Tanzania, Zambia, Malawi, Mozambique, Madagascar and Antarctica. The East African and Kuungan Orogenies were followed by phases of post-orogenic extension. Early ∼600–550 Ma extension is recorded in the Arabian–Nubian Shield and the Eastern Granulite–Cabo Delgado Nappe Complex. Later ∼550–480 Ma extension affected Mozambique and southern Madagascar. Both extension phases, although diachronous,are interpreted as the result of lithospheric delamination. Along the strike of the East African Orogen, different geodynamic settings resulted in the evolution of distinctly different orogen styles. The Arabian–Nubian Shield is an accretion-type orogen comprising a stack of thin-skinned nappes resulting from the oblique convergence of bounding plates. The Eastern Granulite–Cabo Delgado Nappe Complex is interpreted as a hot- to ultra-hot orogen that evolved from a formerly extended crust. Low viscosity lower crust resisted one-sided subduction, instead a sagduction-type orogen developed. The regions of Tanzania and Madagascar affected by the Kuungan Orogeny are considered a Himalayan-type orogen composed of partly doubly thickened crust. PMID:27065752

Orogen styles in the East African Orogen: A review of the Neoproterozoic to Cambrian tectonic evolution

NASA Astrophysics Data System (ADS)

Fritz, H.; Abdelsalam, M.; Ali, K. A.; Bingen, B.; Collins, A. S.; Fowler, A. R.; Ghebreab, W.; Hauzenberger, C. A.; Johnson, P. R.; Kusky, T. M.; Macey, P.; Muhongo, S.; Stern, R. J.; Viola, G.

2013-10-01

The East African Orogen, extending from southern Israel, Sinai and Jordan in the north to Mozambique and Madagascar in the south, is the world´s largest Neoproterozoic to Cambrian orogenic complex. It comprises a collage of individual oceanic domains and continental fragments between the Archean Sahara-Congo-Kalahari Cratons in the west and Neoproterozoic India in the east. Orogen consolidation was achieved during distinct phases of orogeny between ∼850 and 550 Ma. The northern part of the orogen, the Arabian-Nubian Shield, is predominantly juvenile Neoproterozoic crust that formed in and adjacent to the Mozambique Ocean. The ocean closed during a protracted period of island-arc and microcontinent accretion between ∼850 and 620 Ma. To the south of the Arabian Nubian Shield, the Eastern Granulite-Cabo Delgado Nappe Complex of southern Kenya, Tanzania and Mozambique was an extended crust that formed adjacent to theMozambique Ocean and experienced a ∼650-620 Ma granulite-facies metamorphism. Completion of the nappe assembly around 620 Ma is defined as the East African Orogeny and was related to closure of the Mozambique Ocean. Oceans persisted after 620 Ma between East Antarctica, India, southern parts of the Congo-Tanzania-Bangweulu Cratons and the Zimbabwe-Kalahari Craton. They closed during the ∼600-500 Ma Kuungan or Malagasy Orogeny, a tectonothermal event that affected large portions of southern Tanzania, Zambia, Malawi, Mozambique, Madagascar and Antarctica. The East African and Kuungan Orogenies were followed by phases of post-orogenic extension. Early ∼600-550 Ma extension is recorded in the Arabian-Nubian Shield and the Eastern Granulite-Cabo Delgado Nappe Complex. Later ∼550-480 Ma extension affected Mozambique and southern Madagascar. Both extension phases, although diachronous,are interpreted as the result of lithospheric delamination. Along the strike of the East African Orogen, different geodynamic settings resulted in the evolution of distinctly different orogen styles. The Arabian-Nubian Shield is an accretion-type orogen comprising a stack of thin-skinned nappes resulting from the oblique convergence of bounding plates. The Eastern Granulite-Cabo Delgado Nappe Complex is interpreted as a hot- to ultra-hot orogen that evolved from a formerly extended crust. Low viscosity lower crust resisted one-sided subduction, instead a sagduction-type orogen developed. The regions of Tanzania and Madagascar affected by the Kuungan Orogeny are considered a Himalayan-type orogen composed of partly doubly thickened crust.

A modern Python interface for the Generic Mapping Tools

NASA Astrophysics Data System (ADS)

Uieda, L.; Wessel, P.

2017-12-01

Figures generated by The Generic Mapping Tools (GMT) are present in countless publications across the Earth sciences. The command-line interface of GMT lends the tool its flexibility but also creates a barrier to entry for begginers. Meanwhile, adoption of the Python programming language has grown across the scientific community. This growth is largely due to the simplicity and low barrier to entry of the language and its ecosystem of tools. Thus, it is not surprising that there have been at least three attempts to create Python interfaces for GMT: gmtpy (github.com/emolch/gmtpy), pygmt (github.com/ian-r-rose/pygmt), and PyGMT (github.com/glimmer-cism/PyGMT). None of these projects are currently active and, with the exception of pygmt, they do not use the GMT Application Programming Interface (API) introduced in GMT 5. The two main Python libraries for plotting data on maps are the matplotlib Basemap toolkit (matplotlib.org/basemap) and Cartopy (scitools.org.uk/cartopy), both of which rely on matplotlib (matplotlib.org) as the backend for generating the figures. Basemap is known to have limitations and is being discontinued. Cartopy is an improvement over Basemap but is still bound by the speed and memory constraints of matplotlib. We present a new Python interface for GMT (GMT/Python) that makes use of the GMT API and of new features being developed for the upcoming GMT 6 release. The GMT/Python library is designed according to the norms and styles of the Python community. The library integrates with the scientific Python ecosystem by using the "virtual files" from the GMT API to implement input and output of Python data types (numpy "ndarray" for tabular data and xarray "Dataset" for grids). Other features include an object-oriented interface for creating figures, the ability to display figures in the Jupyter notebook, and descriptive aliases for GMT arguments (e.g., "region" instead of "R" and "projection" instead of "J"). GMT/Python can also serve as a backend for developing new high-level interfaces, which can help make GMT more accessible to beginners and more intuitive for Python users. GMT/Python is an open-source project hosted on Github (github.com/GenericMappingTools/gmt-python) and is in early stages of development. A first release will accompany the release of GMT 6, which is expected for early 2018.

Duke Engineering explores huge African Power Project

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

Newman, P.

1994-10-14

Duke Engineering & Services and the African Republic of Uganda have entered into a memorandum of understanding to explore the feasibility of installing one or more hydropower plants along the Nile River and building a 2,000 mile transmission line through southern Africa. The project`s participants say they envision a southern African electricity grid connecting all countries in the region. A team comprised of officials from DE&S, Edlow and SAD-ELEC will conduct a six-month, two-part study on the feasibility of linking the existing grid system in the region. The first part of the study will look at the feasibility of installingmore » one or more independent hydropower plants along the Nile and other rivers in Uganda. The second part will explore the design, construction and operation of a transmission system to interconnect Uganda, through neighboring countries to the south and east, to the Republic of South Africa. The site for the proposed hydroelectric plant will determine the route of the transmission line.« less

Growth and fatbody cycles in feral populations of the African clawed frog, Xenopus laevis (Pipidae), in California with comments on reproduction

USGS Publications Warehouse

McCoid, M.J.; Fritts, T.H.

1989-01-01

Feral populations of the African clawed frog (Xenopus laevis) exist in several areas of southern California. By following the first cohort of progeny produced by African clawed frogs at a recently colonized site, data on the growth rates and age at first maturity were obtained in field conditions. Females reached maturity at an earlier age than males, grew faster than males, and attained body lengths up to 25% larger than males. Larger females were capable of producing larger numbers of eggs than small females and, therefore, had greater reproductive potential. The relatively stable ambient temperatures of southern California contributed to the possibility of reproduction of clawed frogs during all but the coolest periods of the year. Cycles detected in the mass of fatbodies suggested that nutrients were mobilized from fat prior to and during ovulation. The amount of fat in females varied widely, but fat in males tended to accumulate as the males grew during the study period.

Growth and fat-body cycles in feral populations of the African clawed frog, Xenopus laevis (Pipidae), in California with comments on reproduction

USGS Publications Warehouse

McCoid, Michael J.; Fritts, Thomas H.

1989-01-01

Feral populations of the African clawed frog (Xenopus laevis) exist in several areas of southern California. By following the first cohort of progeny produced by African clawed frogs at a recently colonized site, data on the growth rates and age at first maturity were obtained in field conditions. Females reached maturity at an earlier age than males, grew faster than males, and attained body lengths up to 25% larger than males. Larger females were capable of producing larger numbers of eggs than small females and, therefore, had greater reproductive potential. The relatively stable ambient temperatures of southern California contributed to the possibility of reproduction of clawed frogs during all but the coolest periods of the year. Cycles detected in the mass of fatbodies suggested that nutrients were mobilized from fat prior to and during ovulation. The amount of fat in females varies widely, but fat in males tended to accumulate as the males grew during the study period.

Clean Air Slots Amid Dense Atmospheric Pollution in Southern Africa

NASA Technical Reports Server (NTRS)

Hobbs, Peter V.

2003-01-01

During the flights of the University of Washington's Convair-580 in the Southern African Regional Science Initiative (SAFARI 2000) in southern Africa, a phenomenon was observed that has not been reported previously. This was the occurrence of thin layers of remarkably clean air, sandwiched between heavily polluted air, which persisted for many hours during the day. Photographs are shown of these clean air slots (CAS), and particle concentrations and light scattering coefficients in and around such slot are presented. An explanation is proposed for the propensity of CAS to form in southern Africa during the dry season.

PyMidas: Interface from Python to Midas

NASA Astrophysics Data System (ADS)

Maisala, Sami; Oittinen, Tero

2014-01-01

PyMidas is an interface between Python and MIDAS, the major ESO legacy general purpose data processing system. PyMidas allows a user to exploit both the rich legacy of MIDAS software and the power of Python scripting in a unified interactive environment. PyMidas also allows the usage of other Python-based astronomical analysis systems such as PyRAF.

Endocardial fibrosarcoma in a reticulated python (Python reticularis).

PubMed

Gumber, Sanjeev; Nevarez, Javier G; Cho, Doo-Youn

2010-11-01

A female, reticulated python (Python reticularis) of unknown age was presented with a history of lethargy, weakness, and distended coelom. Physical examination revealed severe dystocia and stomatitis. The reticulated python was euthanized due to a poor clinical prognosis. Postmortem examination revealed marked distention of the reproductive tract with 26 eggs (10-12 cm in diameter), pericardial effusion, and a slightly firm, pale tan mass (3-4 cm in diameter) adhered to the endocardium at the base of aorta. Based on histopathologic and transmission electron microscopic findings, the diagnosis of endocardial fibrosarcoma was made.

Leveraging Python Interoperability Tools to Improve Sapphire's Usability

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

Gezahegne, A; Love, N S

2007-12-10

The Sapphire project at the Center for Applied Scientific Computing (CASC) develops and applies an extensive set of data mining algorithms for the analysis of large data sets. Sapphire's algorithms are currently available as a set of C++ libraries. However many users prefer higher level scripting languages such as Python for their ease of use and flexibility. In this report, we evaluate four interoperability tools for the purpose of wrapping Sapphire's core functionality with Python. Exposing Sapphire's functionality through a Python interface would increase its usability and connect its algorithms to existing Python tools.

Pyteomics--a Python framework for exploratory data analysis and rapid software prototyping in proteomics.

PubMed

Goloborodko, Anton A; Levitsky, Lev I; Ivanov, Mark V; Gorshkov, Mikhail V

2013-02-01

Pyteomics is a cross-platform, open-source Python library providing a rich set of tools for MS-based proteomics. It provides modules for reading LC-MS/MS data, search engine output, protein sequence databases, theoretical prediction of retention times, electrochemical properties of polypeptides, mass and m/z calculations, and sequence parsing. Pyteomics is available under Apache license; release versions are available at the Python Package Index http://pypi.python.org/pyteomics, the source code repository at http://hg.theorchromo.ru/pyteomics, documentation at http://packages.python.org/pyteomics. Pyteomics.biolccc documentation is available at http://packages.python.org/pyteomics.biolccc/. Questions on installation and usage can be addressed to pyteomics mailing list: pyteomics@googlegroups.com.

Python in Astronomy 2016

NASA Astrophysics Data System (ADS)

Jenness, Tim; Robitaille, Thomas; Tollerud, Erik; Mumford, Stuart; Cruz, Kelle

2016-04-01

The second Python in Astronomy conference will be held from 21-25 March 2016 at the University of Washington eScience Institute in Seattle, WA, USA. Similarly to the 2015 meeting (which was held at the Lorentz Center), we are aiming to bring together researchers, Python developers, users, and educators. The conference will include presentations, tutorials, unconference sessions, and coding sprints. In addition to sharing information about state-of-the art Python Astronomy packages, the workshop will focus on improving interoperability between astronomical Python packages, providing training for new open-source contributors, and developing educational materials for Python in Astronomy. The meeting is therefore not only aimed at current developers, but also users and educators who are interested in being involved in these efforts.

A faith-based community partnership to address HIV/AIDS in the southern United States: implementation, challenges, and lessons learned.

PubMed

Abara, Winston; Coleman, Jason D; Fairchild, Amanda; Gaddist, Bambi; White, Jacob

2015-02-01

Though race and region are not by themselves risk factors for HIV infection, regional and racial disparities exist in the burden of HIV/AIDS in the US. Specifically, African Americans in the southern US appear to bear the brunt of this burden due to a complex set of upstream factors like structural and cultural influences that do not facilitate HIV/AIDS awareness, HIV testing, or sexual risk-reduction techniques while perpetuating HIV/AIDS-related stigma. Strategies proposed to mitigate the burden among this population have included establishing partnerships and collaborations with non-traditional entities like African American churches and other faith-based organizations. Though efforts to partner with the African American church are not necessarily novel, most of these efforts do not present a model that focuses on building the capacity of the African American church to address these upstream factors and sustain these interventions. This article will describe Project Fostering AIDS Initiatives That Heal (F.A.I.T.H), a faith-based model for successfully developing, implementing, and sustaining locally developed HIV/AIDS prevention interventions in African American churches in South Carolina. This was achieved by engaging the faith community and the provision of technical assistance, grant funding and training for project personnel. Elements of success, challenges, and lessons learned during this process will also be discussed.

The extent of burning in African savanna

NASA Technical Reports Server (NTRS)

Cahoon, D. R. JR.; Levine, J. S.; Cofer, W. R. Iii; Stocks, B. J.

1994-01-01

The temporal and spatial distribution of African savanna grassland fires has been examined, and the areal extent of these fires has been estimated for the subequatorial African continent. African savanna fires have been investigated using remote sensing techniques and imagery collected by low-light sensors on Defense Meteorological Satellite Program (DMSP) satellites and by the Advanced Very High Resolution Radiometer (AVHRR) which is aboard polar orbiting National Oceanic and Atmospheric Administration (NOAA) satellites. DMSP imagery has been used to map the evolution of savanna burning over all of the African continent and the analysis of AVHRR imagery has been used to estimate the areal extent of the burning in the southern hemispheric African savannas. The work presented primarily reflects the analysiscompleted for the year 1987. However, comparisons have been made with other years and the representativeness of the 1987 analysis is discussed.

Predicting East African spring droughts using Pacific and Indian Ocean sea surface temperature indices

USGS Publications Warehouse

Funk, Christopher C.; Hoell, Andrew; Shukla, Shraddhanand; Blade, Ileana; Liebmann, Brant; Roberts, Jason B.; Robertson, Franklin R.

2014-01-01

In southern Ethiopia, Eastern Kenya, and southern Somalia poor boreal spring rains in 1999, 2000, 2004, 2007, 2008, 2009 and 2011 contributed to severe food insecurity and high levels of malnutrition. Predicting rainfall deficits in this region on seasonal and decadal time frames can help decision makers support disaster risk reduction while guiding climate-smart adaptation and agricultural development. Building on recent research that links more frequent droughts to a stronger Walker Circulation, warming in the Indo-Pacific warm pool, and an increased western Pacific sea surface temperature (SST) gradient, we explore the dominant modes of East African rainfall variability, links between these modes and sea surface temperatures, and a simple index-based monitoring-prediction system suitable for drought early warning.

An intuitive Python interface for Bioconductor libraries demonstrates the utility of language translators

PubMed Central

2010-01-01

Background Computer languages can be domain-related, and in the case of multidisciplinary projects, knowledge of several languages will be needed in order to quickly implements ideas. Moreover, each computer language has relative strong points, making some languages better suited than others for a given task to be implemented. The Bioconductor project, based on the R language, has become a reference for the numerical processing and statistical analysis of data coming from high-throughput biological assays, providing a rich selection of methods and algorithms to the research community. At the same time, Python has matured as a rich and reliable language for the agile development of prototypes or final implementations, as well as for handling large data sets. Results The data structures and functions from Bioconductor can be exposed to Python as a regular library. This allows a fully transparent and native use of Bioconductor from Python, without one having to know the R language and with only a small community of translators required to know both. To demonstrate this, we have implemented such Python representations for key infrastructure packages in Bioconductor, letting a Python programmer handle annotation data, microarray data, and next-generation sequencing data. Conclusions Bioconductor is now not solely reserved to R users. Building a Python application using Bioconductor functionality can be done just like if Bioconductor was a Python package. Moreover, similar principles can be applied to other languages and libraries. Our Python package is available at: http://pypi.python.org/pypi/rpy2-bioconductor-extensions/ PMID:21210978

Low densities of drifting litter in the African sector of the Southern Ocean.

PubMed

Ryan, Peter G; Musker, Seth; Rink, Ariella

2014-12-15

Only 52 litter items (>1cm diameter) were observed in 10,467 km of at-sea transects in the African sector of the Southern Ocean. Litter density north of the Subtropical Front (0.58 items km(-2)) was less than in the adjacent South Atlantic Ocean (1-6 items km(-2)), but has increased compared to the mid-1980s. Litter density south of the Subtropical Front was an order of magnitude less than in temperate waters (0.032 items km(-2)). There was no difference in litter density between sub-Antarctic and Antarctic waters either side of the Antarctic Polar Front. Most litter was made of plastic (96%). Fishery-related debris comprised a greater proportion of litter south of the Subtropical Front (33%) than in temperate waters (13%), where packaging dominated litter items (68%). The results confirm that the Southern Ocean is the least polluted ocean in terms of drifting debris and suggest that most debris comes from local sources. Copyright © 2014 Elsevier Ltd. All rights reserved.

Child maltreatment in rural southern counties: Another perspective on race, poverty and child welfare.

PubMed

Smith, Brenda D; Kay, Emma Sophia; Pressley, Tracy D

2018-06-01

Building on research that has identified community characteristics associated with child maltreatment, this study investigates the adequacy and equity of the child welfare response at the county level. The study focuses on states in the U.S. south with demographic characteristics that make it possible to disentangle county racial composition from county rurality. County-level child maltreatment data were merged with data from the U.S. Census and other publicly-available sources for the 354 counties in four southern states. Results from multiple regression models indicated that, despite a greater preponderance of risk factors typically associated with child maltreatment, rural, majority African-American counties had lower rates of reported and substantiated child maltreatment compared to other southern counties. Cross-sectional results were consistent across three years: 2012, 2013, and 2014. The findings suggest that children and families in rural, majority African-American counties in the South may not be receiving adequate or equitable responses from the formal child welfare system. Copyright © 2018 Elsevier Ltd. All rights reserved.

Consumption of bird eggs by invasive Burmese Pythons in Florida

USGS Publications Warehouse

Dove, Carla J.; Reed, Robert N.; Snow, Ray W.

2012-01-01

Burmese Pythons (Python molurus bivittatus or P. bivittatus) have been reported to consume 25 species of adult birds in Everglades National Park, Florida (Dove et al. 2011), but until now no records documented this species eating bird eggs. Here we report three recent cases of bird-egg consumption by Burmese Pythons and discuss egg-eating in basal snakes.

Acariasis on pet Burmese python, Python molurus bivittatus in Malaysia.

PubMed

Mariana, A; Vellayan, S; Halimaton, I; Ho, T M

2011-03-01

To identify the acari present on pet Burmese pythons in Malaysia and to determine whether there is any potential public health risk related to handling of the snakes. Two sub-adult Burmese pythons kept as pets for a period of about 6 to 7 months by different owners, were brought to an exotic animal practice for treatment. On a complete medical examination, some ticks and mites (acari) were detected beneath the dorsal and ventral scales along body length of the snakes. Ticks were directly identified and mites were mounted prior to identification. A total of 12 ticks represented by 3 males, 2 females and 7 nymphal stages of Rhipicephalus sanguineus (R. sanguineus) were extracted from the first python while the other one was with 25 female Ophionyssus natricis (O. natricis) mesostigmatid mites. Only adult female mites were found. These mites are common ectoparasites of Burmese pythons. Both the acarine species found on the Burmese pythons are known vectors of pathogens. This is the first record that R. sanguineus has been reported from a pet Burmese python in Malaysia. Copyright © 2011 Hainan Medical College. Published by Elsevier B.V. All rights reserved.

The Discovery of XY Sex Chromosomes in a Boa and Python.

PubMed

Gamble, Tony; Castoe, Todd A; Nielsen, Stuart V; Banks, Jaison L; Card, Daren C; Schield, Drew R; Schuett, Gordon W; Booth, Warren

2017-07-24

For over 50 years, biologists have accepted that all extant snakes share the same ZW sex chromosomes derived from a common ancestor [1-3], with different species exhibiting sex chromosomes at varying stages of differentiation. Accordingly, snakes have been a well-studied model for sex chromosome evolution in animals [1, 4]. A review of the literature, however, reveals no compelling support that boas and pythons possess ZW sex chromosomes [2, 5]. Furthermore, phylogenetic patterns of facultative parthenogenesis in snakes and a sex-linked color mutation in the ball python (Python regius) are best explained by boas and pythons possessing an XY sex chromosome system [6, 7]. Here we demonstrate that a boa (Boa imperator) and python (Python bivittatus) indeed possess XY sex chromosomes, based on the discovery of male-specific genetic markers in both species. We use these markers, along with transcriptomic and genomic data, to identify distinct sex chromosomes in boas and pythons, demonstrating that XY systems evolved independently in each lineage. This discovery highlights the dynamic evolution of vertebrate sex chromosomes and further enhances the value of snakes as a model for studying sex chromosome evolution. Copyright © 2017 Elsevier Ltd. All rights reserved.

Python in the NERSC Exascale Science Applications Program for Data

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

Ronaghi, Zahra; Thomas, Rollin; Deslippe, Jack

We describe a new effort at the National Energy Re- search Scientific Computing Center (NERSC) in performance analysis and optimization of scientific Python applications targeting the Intel Xeon Phi (Knights Landing, KNL) many- core architecture. The Python-centered work outlined here is part of a larger effort called the NERSC Exascale Science Applications Program (NESAP) for Data. NESAP for Data focuses on applications that process and analyze high-volume, high-velocity data sets from experimental/observational science (EOS) facilities supported by the US Department of Energy Office of Science. We present three case study applications from NESAP for Data that use Python. These codesmore » vary in terms of “Python purity” from applications developed in pure Python to ones that use Python mainly as a convenience layer for scientists without expertise in lower level programming lan- guages like C, C++ or Fortran. The science case, requirements, constraints, algorithms, and initial performance optimizations for each code are discussed. Our goal with this paper is to contribute to the larger conversation around the role of Python in high-performance computing today and tomorrow, highlighting areas for future work and emerging best practices« less

Responses of python gastrointestinal regulatory peptides to feeding

PubMed Central

Secor, Stephen M.; Fehsenfeld, Drew; Diamond, Jared; Adrian, Thomas E.

2001-01-01

In the Burmese python (Python molurus), the rapid up-regulation of gastrointestinal (GI) function and morphology after feeding, and subsequent down-regulation on completing digestion, are expected to be mediated by GI hormones and neuropeptides. Hence, we examined postfeeding changes in plasma and tissue concentrations of 11 GI hormones and neuropeptides in the python. Circulating levels of cholecystokinin (CCK), glucose-dependent insulinotropic peptide (GIP), glucagon, and neurotensin increase by respective factors of 25-, 6-, 6-, and 3.3-fold within 24 h after feeding. In digesting pythons, the regulatory peptides neurotensin, somatostatin, motilin, and vasoactive intestinal peptide occur largely in the stomach, GIP and glucagon in the pancreas, and CCK and substance P in the small intestine. Tissue concentrations of CCK, GIP, and neurotensin decline with feeding. Tissue distributions and molecular forms (as determined by gel-permeation chromatography) of many python GI peptides are similar or identical to those of their mammalian counterparts. The postfeeding release of GI peptides from tissues, and their concurrent rise in plasma concentrations, suggests that they play a role in regulating python-digestive responses. These large postfeeding responses, and similarities of peptide structure with mammals, make pythons an attractive model for studying GI peptides. PMID:11707600

Caring Is Activism: Black Southern Womanist Teachers Theorizing and the Careers of Kathleen Crosby and Bertha Maxwell-Roddey, 1946-1986

ERIC Educational Resources Information Center

Ramsey, Sonya

2012-01-01

This article, based on archival research and oral interviews, examines the personal and professional impact of desegregation on African American teachers in an urban southern setting by focusing on the life stories of two public school teachers, Kathleen Crosby and Bertha Maxwell-Roddey. Both taught in segregated schools, helped to desegregate…

The Need for Policy Framework in Maintaining Quality in Open and Distance Education Programmes in Southern Africa

ERIC Educational Resources Information Center

Braimoh, Dele; Lekoko, Rebecca

2005-01-01

The ideals of education for all as proposed by UNESCO (2000) cannot be achieved without tapping into all the existing educational delivery systems. Open and distance education system has caught the attention of a number of Southern African Universities as a viable and "Siamese" twin of the conventional education in achieving flexibility,…

An Examination of the Vocational Education and Training Reform Debate in Southern Africa

ERIC Educational Resources Information Center

McGrath, Simon; Akoojee, Salim; Gewer, Anthony; Mabizela, Mahlubi; Mbele, Nimrod; Roberts, Jennifer

2006-01-01

This paper explores the role that vocational education and training (VET) can play in Southern African responses to major socio-economic challenges. It argues that this role will be most pronounced if it is articulated within a broader educational and economic vision that is shared by a range of stakeholders in society and supported by an adequate…

Middle and late Pleistocene Middle Stone Age lithic technology from Pinnacle Point 13B (Mossel Bay, Western Cape Province, South Africa).

PubMed

Thompson, Erin; Williams, Hope M; Minichillo, Tom

2010-01-01

Excavations at a complex of caves and open air sites at Pinnacle Point, Mossel Bay, Southern Africa have uncovered rich stratified assemblages of Middle Stone Age materials, including those from Pinnacle Point Cave 13B (PP13B) that comprises the first modernly excavated assemblage in southern Africa to be securely dated to the Middle Pleistocene. We report here on the complete excavated lithic artifact assemblage from PP13B. Both technological and typological analyses of the complete assemblage were performed. The assemblage-scale analysis allows for intrasite comparison as well as comparison of the PP13B assemblage with other sites from the region. No size-related pattern of change over time was observed within the PP13B assemblage, although there is significant evidence for varying strategies of lithic reduction between excavation areas within the cave. Comparison with other material from the Southern African MSA suggests that there is significant inter- and intra-site variability in the Southern African Middle Stone Age, even between portions of assemblages that are roughly contemporaneous. Copyright © 2010 Elsevier Ltd. All rights reserved.

Fatty acids identified in the Burmese python promote beneficial cardiac growth.

PubMed

Riquelme, Cecilia A; Magida, Jason A; Harrison, Brooke C; Wall, Christopher E; Marr, Thomas G; Secor, Stephen M; Leinwand, Leslie A

2011-10-28

Burmese pythons display a marked increase in heart mass after a large meal. We investigated the molecular mechanisms of this physiological heart growth with the goal of applying this knowledge to the mammalian heart. We found that heart growth in pythons is characterized by myocyte hypertrophy in the absence of cell proliferation and by activation of physiological signal transduction pathways. Despite high levels of circulating lipids, the postprandial python heart does not accumulate triglycerides or fatty acids. Instead, there is robust activation of pathways of fatty acid transport and oxidation combined with increased expression and activity of superoxide dismutase, a cardioprotective enzyme. We also identified a combination of fatty acids in python plasma that promotes physiological heart growth when injected into either pythons or mice.

Perceptions of stakeholder groups about the participation of African American family forest landowners in federal landowner assistance programs

Treesearch

Puneet Dwivedi; Arundhati Jagadish; John Schelhas

2016-01-01

This study examines perceptions of three stakeholder groups (African American Family Forest Landowner, Government Agency, and Nonprofit) regarding federal landowner assistance programs in the southern United States by combining a SWOT (strength, weakness, opportunity, and threat) analysis with the AHP (analytical hierarchy process). Factors with the highest priority...

Academic Performance Differences among Male and Female African American Students: An Urban High School Study

ERIC Educational Resources Information Center

Simmons, Livia A.

2010-01-01

The purpose of this study was to examine differences between male and female African American high school students in an urban setting. The participants were from a senior academy located in a Southern state. Of the 270 participants in the study, 76 were seniors, 89 were juniors, 95 were sophomores, and 10 were freshmen. The gender composition…

Designing an Effective Sexuality Education Curriculum for Schools: Lessons Gleaned from the South(ern) African Literature

ERIC Educational Resources Information Center

Wood, Lesley; Rolleri, Lori A.

2014-01-01

Sexuality education forms part of the national school curricula of most sub-Saharan African countries, yet risk-related sexual behaviour among young people continues to fuel the HIV pandemic in this part of the world. One of the arguments put forward to explain why sexuality education seems to have had little impact on sexual risk-taking is that…

Production of Landsat ETM+ reference imagery of burned areas within Southern African savannahs: comparison of methods and application to MODIS

Treesearch

A. M. S. Smith; N. A. Drake; M. J. Wooster; A. T. Hudak; Z. A. Holden; C. J. Gibbons

2007-01-01

Accurate production of regional burned area maps are necessary to reduce uncertainty in emission estimates from African savannah fires. Numerous methods have been developed that map burned and unburned surfaces. These methods are typically applied to coarse spatial resolution (1 km) data to produce regional estimates of the area burned, while higher spatial resolution...

Plea to African heads-of-state: join the fight.

PubMed

Tyson, R

1997-10-01

Uganda's president, Yoweri Museveni, is the only African head-of-state who has led an all-out, extended campaign against AIDS, and Uganda is the only African country to realize a decline in HIV rates since the epidemic began spreading across central and southern Africa in the 1980s. While South Africa's President Nelson Mandela has spoken about AIDS in international forums, his country's programs against AIDS are in disarray. Rather than adopt a position of leadership against HIV/AIDS, African leaders have most often tried to cover up or ignore the AIDS threat. Zimbabwe and Nigeria are briefly discussed as examples. More than 100 delegates attended the HIV/AIDS workshop at the fourth African-African American Summit held in Harare, July 1997. After listening for 2 days to medical experts describe how the epidemic is destroying African economies and social structures, task force members called upon leaders of the 40 sub-Saharan African countries to acknowledge the threat of AIDS in their countries and to fight against the epidemic.

Stars and Seasons in Southern Africa

NASA Astrophysics Data System (ADS)

Snedegar, K. V.

Although the indigenous people of Southern Africa traditionally viewed the sky as a place quite apart from the Earth, they believed celestial phenomena to be natural signs united with those of the Earth in a harmonious synchronicity. There is no substantial evidence that the precolonial Africans imagined a casual relationship between celestial bodies and the seasonal patterns of life on Earth. They did, however, recognize a coincidental relationship. The traditional African cosmos, then, worked as a noetic principle unifying the observed motions of celestial bodies, the sequence of seasons, and the behavior of plants and animals. Such a cosmos, with local peculiarities, was widely understood in Southern Africa before the end of the last century. By the early 20th century European colonial paradigms had largely obliterated this African worldview. This paper will offer a partial reconstruction. Pre-colonial South African people viewed time as a sequence of discrete natural events; through annual repetition these events served as a guide for proper human action. The South Africans analyzed the passage of time in terms of the motions of celestial bodies, the maturation of beneficial plants, and the mating patterns of animals. The rightful course of human life was seen to fit within the seasonal context of these natural phenomena. The visibility of conspicuous stars and asterisms marked significant times of year. For instance, the Lovedu people greeted the dawn rising of Canopus with joy: "The boy has come out." The star was a signal for rainmaking and boys' initiation ceremonies to proceed. The Venda constellation Thutlwa, the giraffes, comprises α and β Crucis and α and β Centauri. In October Thutlwa skims the trees of the evening horizon. The Venda Thutlwa literally means 'rising above the trees,' an allusion to the majestic vegetarian creatures and the stars advising the people to be done with their spring planting. This paper will describe stellar associations with other creatures: wild dogs, warthogs, wildebeests, swallows, cuckoos and cicadas. In each case the visibility of a star will synchronize with a behavior of the associated species. Together, stars and species informed man of the order and unity of an African cosmos — a worldview that must have been as satisfying as it was beautiful.

First record of invasive Burmese Python oviposition and brooding inside an anthropogenic structure

USGS Publications Warehouse

Hanslowe, Emma; Falk, Bryan; Collier, Michelle A. M.; Josimovich, Jillian; Rahill, Thomas; Reed, Robert

2016-01-01

We discovered an adult female Python bivittatus (Burmese Python) coiled around a clutch of 25 eggs in a cement culvert in Flamingo, FL, in Everglades National Park. To our knowledge, this is the first record of an invasive Burmese Python laying eggs and brooding inside an anthropogenic structure in Florida. A 92% hatch-success rate suggests that the cement culvert provided suitable conditions for oviposition, embryonic development, and hatching. Given the plenitude of such anthropogenic structures across the landscape, available sites for oviposition and brooding may not be limiting for the invasive Burmese Python population.

Re-imagining a Stata/Python Combination

NASA Technical Reports Server (NTRS)

Fiedler, James

2013-01-01

At last year's Stata Conference, I presented some ideas for combining Stata and the Python programming language within a single interface. Two methods were presented: in one, Python was used to automate Stata; in the other, Python was used to send simulated keystrokes to the Stata GUI. The first method has the drawback of only working in Windows, and the second can be slow and subject to character input limits. In this presentation, I will demonstrate a method for achieving interaction between Stata and Python that does not suffer these drawbacks, and I will present some examples to show how this interaction can be useful.

Problems and Prospects in the Cultural History of South African Astronomy

NASA Astrophysics Data System (ADS)

Smedegar, K.

2007-07-01

The inauguration of the Southern African Large Telescope (SALT) is an auspicious moment for reflection on South African astronomical history, the manner in which this heritage has been represented in the past, and how it might best be represented in the future. It is now appropriate to reassess the history of Euro pean astronomy in South Africa, confronting rather than ignoring issues of national identity, scientific politics, and racism. There are also wide opportunities for scholarship on South African archaeoastronomy and indigenous knowledge systems, with potential applications to culturally relevant basic science education. In the case of astronomy, reconciliation to a rich if troubled history will only come to pass when the science is not only pursued in South Africa, but when its heritage pertains to all South Africans.

Striving to be in the profession and of It: the African American experience in physical education and kinesiology.

PubMed

Wiggins, David K; Wiggins, Brenda P

2011-06-01

This study analyzes the experiences of African Americans in the physical education and kinesiology profession since the late 1850s. Using a variety of primary and secondary source material, we place special emphasis on the experiences of African American physical educators in higher education and in the American Alliance for Health, Physical Education, Recreation and Dance and its southern, regional, and state chapters. Apparent from this examination is that African Americans have experienced various forms of racially discriminatory practices in physical education and kinesiology and have found it extraordinarily difficult to assume leader ship positions in the profession and be acknowledged for their scholarly and academic accomplishments.

Religiosity and Sexual Risk Behaviors Among African American Cocaine Users in the Rural South

PubMed Central

Montgomery, Brooke E.E.; Stewart, Katharine E.; Yeary, Karen H.K.; Cornell, Carol E.; Pulley, LeaVonne; Corwyn, Robert; Ounpraseuth, Songthip T.

2014-01-01

Purpose Racial and geographic disparities in human immunodeficency virus (HIV) are dramatic and drug use is a significant contributor to HIV risk. Within the rural South, African Americans who use drugs are at extremely high risk. Due to the importance of religion within African American and rural Southern communities, it can be a key element of culturally-targeted health promotion with these populations. Studies have examined religion’s relationship with sexual risk in adolescent populations, but few have examined specific religious behaviors and sexual risk behaviors among drug-using African American adults. This study examined the relationship between well-defined dimensions of religion and specific sexual behaviors among African Americans who use cocaine living in the rural southern United States. Methods Baseline data from a sexual risk reduction intervention for African Americans who use cocaine living in rural Arkansas (N = 205) were used to conduct bivariate and multivariate analyses examining the association between multiple sexual risk behaviors and key dimensions of religion including religious preference, private and public religious participation, religious coping, and God-based, congregation-based, and church leader-based religious support. Findings After adjusting individualized network estimator weights based on the recruitment strategy, different dimensions of religion had inverse relationships with sexual risk behavior, including church leadership support with number of unprotected vaginal/anal sexual encounter and positive religious coping with number of sexual partners and with total number of vaginal/anal sexual encounters. Conclusion Results suggest that specific dimensions of religion may have protective effects on certain types of sexual behavior, which may have important research implications. PMID:24575972

Python erythrocytes are resistant to α-hemolysin from Escherichia coli.

PubMed

Larsen, Casper K; Skals, Marianne; Wang, Tobias; Cheema, Muhammad U; Leipziger, Jens; Praetorius, Helle A

2011-12-01

α-Hemolysin (HlyA) from Escherichia coli lyses mammalian erythrocytes by creating nonselective cation pores in the membrane. Pore insertion triggers ATP release and subsequent P2X receptor and pannexin channel activation. Blockage of either P2X receptors or pannexin channels reduces HlyA-induced hemolysis. We found that erythrocytes from Python regius and Python molurus are remarkably resistant to HlyA-induced hemolysis compared to human and Trachemys scripta erythrocytes. HlyA concentrations that induced maximal hemolysis of human erythrocytes did not affect python erythrocytes, but increasing the HlyA concentration 40-fold did induce hemolysis. Python erythrocytes were more resistant to osmotic stress than human erythrocytes, but osmotic stress tolerance per se did not confer HlyA resistance. Erythrocytes from T. scripta, which showed higher osmotic resistance than python erythrocytes, were as susceptible to HlyA as human erythrocytes. Therefore, we tested whether python erythrocytes lack the purinergic signalling known to amplify HlyA-induced hemolysis in human erythrocytes. P. regius erythrocytes increased intracellular Ca²⁺ concentration and reduced cell volume when exposed to 3 mM ATP, indicating the presence of a P2X₇-like receptor. In addition, scavenging extracellular ATP or blocking P2 receptors or pannexin channels reduced the HlyA-induced hemolysis. We tested whether the low HlyA sensitivity resulted from low affinity of HlyA to the python erythrocyte membrane. We found comparable incorporation of HlyA into human and python erythrocyte membranes. Taken together, the remarkable HlyA resistance of python erythrocytes was not explained by increased osmotic resistance, lack of purinergic hemolysis amplification, or differences in HlyA affinity.

MEG and EEG data analysis with MNE-Python.

PubMed

Gramfort, Alexandre; Luessi, Martin; Larson, Eric; Engemann, Denis A; Strohmeier, Daniel; Brodbeck, Christian; Goj, Roman; Jas, Mainak; Brooks, Teon; Parkkonen, Lauri; Hämäläinen, Matti

2013-12-26

Magnetoencephalography and electroencephalography (M/EEG) measure the weak electromagnetic signals generated by neuronal activity in the brain. Using these signals to characterize and locate neural activation in the brain is a challenge that requires expertise in physics, signal processing, statistics, and numerical methods. As part of the MNE software suite, MNE-Python is an open-source software package that addresses this challenge by providing state-of-the-art algorithms implemented in Python that cover multiple methods of data preprocessing, source localization, statistical analysis, and estimation of functional connectivity between distributed brain regions. All algorithms and utility functions are implemented in a consistent manner with well-documented interfaces, enabling users to create M/EEG data analysis pipelines by writing Python scripts. Moreover, MNE-Python is tightly integrated with the core Python libraries for scientific comptutation (NumPy, SciPy) and visualization (matplotlib and Mayavi), as well as the greater neuroimaging ecosystem in Python via the Nibabel package. The code is provided under the new BSD license allowing code reuse, even in commercial products. Although MNE-Python has only been under heavy development for a couple of years, it has rapidly evolved with expanded analysis capabilities and pedagogical tutorials because multiple labs have collaborated during code development to help share best practices. MNE-Python also gives easy access to preprocessed datasets, helping users to get started quickly and facilitating reproducibility of methods by other researchers. Full documentation, including dozens of examples, is available at http://martinos.org/mne.

Pycellerator: an arrow-based reaction-like modelling language for biological simulations.

PubMed

Shapiro, Bruce E; Mjolsness, Eric

2016-02-15

We introduce Pycellerator, a Python library for reading Cellerator arrow notation from standard text files, conversion to differential equations, generating stand-alone Python solvers, and optionally running and plotting the solutions. All of the original Cellerator arrows, which represent reactions ranging from mass action, Michales-Menten-Henri (MMH) and Gene-Regulation (GRN) to Monod-Wyman-Changeaux (MWC), user defined reactions and enzymatic expansions (KMech), were previously represented with the Mathematica extended character set. These are now typed as reaction-like commands in ASCII text files that are read by Pycellerator, which includes a Python command line interface (CLI), a Python application programming interface (API) and an iPython notebook interface. Cellerator reaction arrows are now input in text files. The arrows are parsed by Pycellerator and translated into differential equations in Python, and Python code is automatically generated to solve the system. Time courses are produced by executing the auto-generated Python code. Users have full freedom to modify the solver and utilize the complete set of standard Python tools. The new libraries are completely independent of the old Cellerator software and do not require Mathematica. All software is available (GPL) from the github repository at https://github.com/biomathman/pycellerator/releases. Details, including installation instructions and a glossary of acronyms and terms, are given in the Supplementary information. © The Author 2015. Published by Oxford University Press. All rights reserved. For Permissions, please e-mail: journals.permissions@oup.com.

MEG and EEG data analysis with MNE-Python

PubMed Central

Gramfort, Alexandre; Luessi, Martin; Larson, Eric; Engemann, Denis A.; Strohmeier, Daniel; Brodbeck, Christian; Goj, Roman; Jas, Mainak; Brooks, Teon; Parkkonen, Lauri; Hämäläinen, Matti

2013-01-01

Magnetoencephalography and electroencephalography (M/EEG) measure the weak electromagnetic signals generated by neuronal activity in the brain. Using these signals to characterize and locate neural activation in the brain is a challenge that requires expertise in physics, signal processing, statistics, and numerical methods. As part of the MNE software suite, MNE-Python is an open-source software package that addresses this challenge by providing state-of-the-art algorithms implemented in Python that cover multiple methods of data preprocessing, source localization, statistical analysis, and estimation of functional connectivity between distributed brain regions. All algorithms and utility functions are implemented in a consistent manner with well-documented interfaces, enabling users to create M/EEG data analysis pipelines by writing Python scripts. Moreover, MNE-Python is tightly integrated with the core Python libraries for scientific comptutation (NumPy, SciPy) and visualization (matplotlib and Mayavi), as well as the greater neuroimaging ecosystem in Python via the Nibabel package. The code is provided under the new BSD license allowing code reuse, even in commercial products. Although MNE-Python has only been under heavy development for a couple of years, it has rapidly evolved with expanded analysis capabilities and pedagogical tutorials because multiple labs have collaborated during code development to help share best practices. MNE-Python also gives easy access to preprocessed datasets, helping users to get started quickly and facilitating reproducibility of methods by other researchers. Full documentation, including dozens of examples, is available at http://martinos.org/mne. PMID:24431986

Relapsing fever causative agent in Southern Iran is a closely related species to East African borreliae.

PubMed

Naddaf, Saied Reza; Ghazinezhad, Behnaz; Kazemirad, Elham; Cutler, Sally Jane

2017-10-01

We obtained two blood samples from relapsing fever patients residing in Jask County, Hormozgan Province, southern Iran in 2013. Sequencing of a partial fragment of glpQ from two samples, and further characterization of one of them by analyzing flaB gene, and 16S-23S spacer (IGS) revealed the greatest sequence identity with East African borreliae, Borrelia recurrentis, and Borrelia duttonii, and Borrelia microti from Iran. Phylogenetic analyses of glpQ, flaB, and concatenated sequences (glpQ, flab, and IGS) clustered these sequences amongst East African Relapsing fever borreliae and B. microti from Iran. However, the more discriminatory IGS disclosed a unique 8-bp signature (CAGCCTAA) separating these from B. microti and indeed other relapsing fever borreliae. In southern Iran, relapsing fever cases are mostly from localities in which O. erraticus ticks, the notorious vector of B. microti, prevail. There are chances that this argasid tick serves as a host and vector of several closely related species or ecotypes including the one we identified in the present study. The distribution of this Borrelia species remains to be elucidated, but it is assumed to be endemic to lowland areas of the Hormozgan Province, as well as Sistan va Baluchistan in the southeast and South Khorasan (in Persian: Khorasan-e Jonobi) in the east of Iran. Copyright © 2017 Elsevier GmbH. All rights reserved.

Genomic evidence for an African expansion of anatomically modern humans by a Southern route.

PubMed

Ghirotto, Silvia; Penso-Dolfin, Luca; Barbujani, Guido

2011-08-01

There is general agreement among scientists about a recent (less than 200,000 yrs ago) African origin of anatomically modern humans, whereas there is still uncertainty about whether, and to what extent, they admixed with archaic populations, which thus may have contributed to the modern populations' gene pools. Data on cranial morphology have been interpreted as suggesting that, before the main expansion from Africa through the Near East, anatomically modern humans may also have taken a Southern route from the Horn of Africa through the Arabian peninsula to India, Melanesia and Australia, about 100,000 yrs ago. This view was recently supported by archaeological findings demonstrating human presence in Eastern Arabia >90,000 yrs ago. In this study we analyzed genetic variation at 111,197 nuclear SNPs in nine populations (Kurumba, Chenchu, Kamsali, Madiga, Mala, Irula, Dalit, Chinese, Japanese), chosen because their genealogical relationships are expected to differ under the alternative models of expansion (single vs. multiple dispersals). We calculated correlations between genomic distances, and geographic distances estimated under the alternative assumptions of a single dispersal, or multiple dispersals, and found a significantly stronger association for the multiple dispersal model. If confirmed, this result would cast doubts on the possibility that some non-African populations (i.e., those whose ancestors expanded through the Southern route) may have had any contacts with Neandertals.

Upper mantle structure beneath southern African cratons from seismic finite-frequency P- and S-body wave tomography

NASA Astrophysics Data System (ADS)

Youssof, M.; Thybo, H.; Artemieva, I. M.; Levander, A.

2015-06-01

We present a 3D high-resolution seismic model of the southern African cratonic region from teleseismic tomographic inversion of the P- and S-body wave dataset recorded by the Southern African Seismic Experiment (SASE). Utilizing 3D sensitivity kernels, we invert traveltime residuals of teleseismic body waves to calculate velocity anomalies in the upper mantle down to a 700 km depth with respect to the ak135 reference model. Various resolution tests allow evaluation of the extent of smearing effects and help defining the optimum inversion parameters (i.e., damping and smoothness) for regularizing the inversion calculations. The fast lithospheric keels of the Kaapvaal and Zimbabwe cratons reach depths of 300-350 km and 200-250 km, respectively. The paleo-orogenic Limpopo Belt is represented by negative velocity perturbations down to a depth of ˜ 250 km, implying the presence of chemically fertile material with anomalously low wave speeds. The Bushveld Complex has low velocity down to ˜ 150 km, which is attributed to chemical modification of the cratonic mantle. In the present model, the finite-frequency sensitivity kernels allow to resolve relatively small-scale anomalies, such as the Colesberg Magnetic Lineament in the suture zone between the eastern and western blocks of the Kaapvaal Craton, and a small northern block of the Kaapvaal Craton, located between the Limpopo Belt and the Bushveld Complex.

Dog rabies data reported to multinational organizations from Southern and Eastern African countries.

PubMed

Beyene, Tariku Jibat; Mourits, Monique C M; Hogeveen, Henk

2017-06-08

Rabies is one of the viral diseases with the highest case fatality rate in humans. The main transmission route to humans is through bites, especially of infected dogs. Decisions on the allocation of resources to control and reduce the socio-economic impacts of rabies require reliable data. Several national, regional and international organizations have been gathering rabies data for more than a decade. The objective of this paper was to examine the consistencies in the number of dog rabies cases reported to different multinational organizations by Southern and Eastern African countries and to explore the presence of any time trend among the reported rabies data. Data was systematically extracted from the databases of the Southern and Eastern African Rabies Group-SEARG and the World Organization for Animal Health/World animal health information-OIE/WAHID. Despite differences in entities by which data have been reported to the two organisations, reported numbers were significantly correlated (Spearman's rho = 0.52, P < 0.001). The reported data did not indicate the presence of any trend in the number of reported dog rabies outbreaks. Inconsistencies in the reported numbers were observed between the databases, possibly due to the fact that human and animal health authorities report separately to the organisations involved in addition to the use of indefinite definitions of report categories set by report receiving organizations.

Diet Quality and Physical Activity Outcome Improvements Resulting From a Church-Based Diet and Supervised Physical Activity Intervention for Rural, Southern, African American Adults: Delta Body and Soul III.

PubMed

Thomson, Jessica L; Goodman, Melissa H; Tussing-Humphreys, Lisa

2015-09-01

We assessed the effects of a 6-month, church-based, diet and supervised physical activity intervention, conducted between 2011 and 2012, on improving diet quality and increasing physical activity of Southern, African American adults. Using a quasi-experimental design, eight self-selected, eligible churches were assigned to intervention or control. Assessments included dietary, physical activity, anthropometric, and clinical measures. Mixed model regression analysis and McNemar's test were used to determine if within and between group differences were significant. Cohen's d effect sizes for selected outcomes also were computed and compared with an earlier, lower dose intervention. Retention rates were 84% (102/122) for control and 76% (219/287) for intervention participants. Diet quality components, including fruits, vegetables, discretionary calories, and total quality, improved significantly in the intervention group. Strength/flexibility physical activity also increased in the intervention group, while both aerobic and strength/flexibility physical activity significantly decreased in the control group. Effect sizes for selected health outcomes were larger in the current intervention as compared to an earlier, less intense iteration of the study. Results suggest that more frequent education sessions as well as supervised group physical activity may be key components to increasing the efficacy of behavioral lifestyle interventions in rural, Southern, African American adults. © 2015 Society for Public Health Education.

North African savanna fires and atmospheric carbon dioxide

NASA Technical Reports Server (NTRS)

Iacobellis, Sam F.; Frouin, Robert; Razafimpanilo, Herisoa; Somerville, Richard C. J.; Piper, Stephen C.

1994-01-01

The effect of north African savanna fires on atmospheric CO2 is investigated using a tracer transport model. The model uses winds from operational numerical weather prediction analyses and provides CO2 concentrations as a function of space and time. After a spin-up period of several years, biomass-burning sources are added, and model experiments are run for an additional year, utilizing various estimates of CO2 sources. The various model experiments show that biomass burning in the north African savannas significantly affects CO2 concentrations in South America. The effect is more pronounced during the period from January through March, when biomass burning in South America is almost nonexistent. During this period, atmospheric CO2 concentrations in parts of South America typically may increase by 0.5 to 0.75 ppm at 970 mbar, the average pressure of the lowest model layer. These figures are above the probable uncertainty level, as model runs with biomass-burning sources estimated from independent studies using distinct data sets and techniques indicate. From May through September, when severe biomass burning occurs in South America, the effect of north African savanna fires over South America has become generally small at 970 mbar, but north of the equator it may be of the same magnitude or larger than the effect of South American fires. The CO2 concentration increase in the extreme northern and southern portions of South America, however, is mostly due to southern African fires, whose effect may be 2-3 times larger than the effect of South American fires at 970 mbar. Even in the central part of the continent, where local biomass-burning emissions are maximum, southern African fires contribute to at least 15% of the CO2 concentration increase at 970 mbar. At higher levels in the atmosphere, less CO2 emitted by north African savanna fires reaches South America, and at 100 mbar no significant amount of CO2 is transported across the Atlantic Ocean. The vertical structure of the CO2 concentration increase due to biomass burning differs substantially, depending on whether sources are local or remote. A prominent maximum of CO2 concentration increase in the lower layers characterizes the effect of local sources, whereas a more homogeneous profile of CO2 concentration increase characterizes the effect of remote sources. The results demonstrate the strong remote effects of African biomoass burning which, owing to the general circulation of the atmosphere, are felt as far away as South America.

ERDC MSRC Resource. High Performance Computing for the Warfighter. Fall 2006

DTIC Science & Technology

2006-01-01

to as Aggregated Combat Modeling, putting us at the campaign level).” Incorporating UIT within DAC The DAC system is written in Python and uses...API calls with two Python classes, UITConnectionFactory and UITConnection. UITConnectionFactory supports Kerberos authentication and establishes a...API calls within these Python classes, we insulated the DAC code from the Python SOAP interface requirements and details of the ERDC MSRC Resource

Stata Hybrids: Updates and Ideas

NASA Technical Reports Server (NTRS)

Fieldler, James

2014-01-01

At last year's Stata conference I presented two projects for using Python with Stata: a plugin that embeds the Python programming language within Stata and code for using Stata data sets in Python. In this talk I will describe some small improvements being made to these projects, and I will present other ideas for combining tools with Stata. Some of these ideas use Python, some use JavaScript and a web browser.

Facultative thermogenesis during brooding is not the norm among pythons.

PubMed

Brashears, Jake; DeNardo, Dale F

2015-08-01

Facultative thermogenesis is often attributed to pythons in general despite limited comparative data available for the family. While all species within Pythonidae brood their eggs, only two species are known to produce heat to enhance embryonic thermal regulation. By contrast, a few python species have been reported to have insignificant thermogenic capabilities. To provide insight into potential phylogenetic, morphological, and ecological factors influencing thermogenic capability among pythons, we measured metabolic rates and clutch-environment temperature differentials at two environmental temperatures-python preferred brooding temperature (31.5 °C) and a sub-optimal temperature (25.5 °C)-in six species of pythons, including members of two major phylogenetic branches currently devoid of data on the subject. We found no evidence of facultative thermogenesis in five species: Aspidites melanocephalus, A. ramsayi, Morelia viridis, M. spilota cheynei, and Python regius. However, we found that Bothrochilus boa had a thermal metabolic sensitivity indicative of facultative thermogenesis (i.e., a higher metabolic rate at the lower temperature). However, its metabolic rate was quite low and technical challenges prevented us from measuring temperature differential to make conclusions about facultative endothermy in this species. Regardless, our data combined with existing literature demonstrate that facultative thermogenesis is not as widespread among pythons as previously thought.

Challenges to a molecular approach to prey identification in the Burmese python, Python molurus bivittatus

USGS Publications Warehouse

Falk, Bryan; Reed, Robert N.

2015-01-01

Molecular approaches to prey identification are increasingly useful in elucidating predator–prey relationships, and we aimed to investigate the feasibility of these methods to document the species identities of prey consumed by invasive Burmese pythons in Florida. We were particularly interested in the diet of young snakes, because visual identification of prey from this size class has proven difficult. We successfully extracted DNA from the gastrointestinal contents of 43 young pythons, as well as from several control samples, and attempted amplification of DNA mini-barcodes, a 130-bp region of COX1. Using a PNA clamp to exclude python DNA, we found that prey DNA was not present in sufficient quality for amplification of this locus in 86% of our samples. All samples from the GI tracts of young pythons contained only hair, and the six samples we were able to identify to species were hispid cotton rats. This suggests that young Burmese pythons prey predominantly on small mammals and that prey diversity among snakes of this size class is low. We discuss prolonged gastrointestinal transit times and extreme gastric breakdown as possible causes of DNA degradation that limit the success of a molecular approach to prey identification in Burmese pythons

Perceived value in food selection when dining out: comparison of African Americans and Euro-Americans.

PubMed

Vinci, Debra M; Philipp, Steven F

2007-06-01

This descriptive study compares African Americans' and Euro-Americans' perceived value of food selection pertaining to cost, portion size, and meal satisfaction when eating away from home. A stratified sample was drawn from a southern U.S. metropolitan area (N= 1,011; 486 African American, 525 Euro-American). Analysis showed no difference between African-American and Euro-American adults by sex or how often they dined out. These two groups significantly differed across years of education, age, and answering 14 of 18 rated statements on value perceptions. African-Americans' value perceptions were influenced more by lower cost foods and larger portion sizes than those of Euro-Americans. For meal satisfaction, African Americans were more likely to agree with statements that indicate preferring foods high in energy and low in essential micronutrient density. This study supports the need for more investigation.

Hemodynamic consequences of cardiac malformations in two juvenile ball pythons (Python regius).

PubMed

Jensen, Bjarke; Wang, Tobias

2009-12-01

Two cases of bifid ventricles and cardiac malformations in juvenile ball python (Python regius) were investigated by blood pressure measurements and macro- and microscopic sectioning. A study of a normal ball python was included for reference. In both cases, all cardiac chambers were enlarged and abnormally shaped. Internal assessment of the ventricles revealed a pronounced defect of the muscular ridge, which normally is responsible for separating the systemic and pulmonary circuits. Consistent with the small muscular ridge, systolic pressures were identical in the pulmonary and systemic arteries, but, the snakes, nevertheless, lived to reach body weights severalfold of their hatchling weight.

Practical Approach for Hyperspectral Image Processing in Python

NASA Astrophysics Data System (ADS)

Annala, L.; Eskelinen, M. A.; Hämäläinen, J.; Riihinen, A.; Pölönen, I.

2018-04-01

Python is a very popular programming language among data scientists around the world. Python can also be used in hyperspectral data analysis. There are some toolboxes designed for spectral imaging, such as Spectral Python and HyperSpy, but there is a need for analysis pipeline, which is easy to use and agile for different solutions. We propose a Python pipeline which is built on packages xarray, Holoviews and scikit-learn. We have developed some of own tools, MaskAccessor, VisualisorAccessor and a spectral index library. They also fulfill our goal of easy and agile data processing. In this paper we will present our processing pipeline and demonstrate it in practice.

The evolution of a Gondwanan collisional orogen: A structural and geochronological appraisal from the Southern Granulite Terrane, South India

NASA Astrophysics Data System (ADS)

Plavsa, Diana; Collins, Alan S.; Foden, John D.; Clark, Chris

2015-05-01

Gondwana amalgamated along a suite of Himalayan-scale collisional orogens, the roots of which lace the continents of Africa, South America, and Antarctica. The Southern Granulite Terrane of India is a generally well-exposed, exhumed, Gondwana-forming orogen that preserves a record of the tectonic evolution of the eastern margin of the East African Orogen during the Ediacaran-Cambrian (circa 600-500 Ma) as central Gondwana formed. The deformation associated with the closure of the Mozambique Ocean and collision of the Indian and East African/Madagascan cratonic domains is believed to have taken place along the southern margin of the Salem Block (the Palghat-Cauvery Shear System, PCSS) in the Southern Granulite Terrane. Investigation of the structural fabrics and the geochronology of the high-grade shear zones within the PCSS system shows that the Moyar-Salem-Attur shear zone to the north of the PCSS system is early Paleoproterozoic in age and associated with dextral strike-slip motion, while the Cauvery shear zone (CSZ) to the south of the PCSS system can be loosely constrained to circa 740-550 Ma and is associated with dip-slip dextral transpression and north side-up motion. To the south of the proposed suture zone (the Cauvery shear zone), the structural fabrics of the Northern Madurai Block suggest four deformational events (D1-D4), some of which are likely to be contemporaneous. The timing of high pressure-ultrahigh temperature metamorphism and deformation (D1-D3) in the Madurai Block (here interpreted as the southern extension of Azania) is constrained to circa 550-500 Ma and interpreted as representing collisional orogeny and subsequent orogenic collapse of the eastern margin of the East African Orogen. The disparity in the nature of the structural fabrics and the timing of the deformation in the Salem and the Madurai Blocks suggest that the two experienced distinct tectonothermal events prior to their amalgamation along the Cauvery shear zone during the Ediacaran/Cambrian.

Pizza.py Toolkit

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

Plimpton, Steve; Jones, Matt; Crozier, Paul

2006-01-01

Pizza.py is a loosely integrated collection of tools, many of which provide support for the LAMMPS molecular dynamics and ChemCell cell modeling packages. There are tools to create input files. convert between file formats, process log and dump files, create plots, and visualize and animate simulation snapshots. Software packages that are wrapped by Pizza.py. so they can invoked from within Python, include GnuPlot, MatLab, Raster3d. and RasMol. Pizza.py is written in Python and runs on any platform that supports Python. Pizza.py enhances the standard Python interpreter in a few simple ways. Its tools are Python modules which can be invokedmore » interactively, from scripts, or from GUIs when appropriate. Some of the tools require additional Python packages to be installed as part of the users Python. Others are wrappers on software packages (as listed above) which must be available on the users system. It is easy to modify or extend Pizza.py with new functionality or new tools, which need not have anything to do with LAMMPS or ChemCell.« less

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

Hart, William Eugene

These slides describe different strategies for installing Python software. Although I am a big fan of Python software development, robust strategies for software installation remains a challenge. This talk describes several different installation scenarios. The Good: the user has administrative privileges - Installing on Windows with an installer executable, Installing with Linux application utility, Installing a Python package from the PyPI repository, and Installing a Python package from source. The Bad: the user does not have administrative privileges - Using a virtual environment to isolate package installations, and Using an installer executable on Windows with a virtual environment. The Ugly:more » the user needs to install an extension package from source - Installing a Python extension package from source, and PyCoinInstall - Managing builds for Python extension packages. The last item referring to PyCoinInstall describes a utility being developed for the COIN-OR software, which is used within the operations research community. COIN-OR includes a variety of Python and C++ software packages, and this script uses a simple plug-in system to support the management of package builds and installation.« less

Herbalism and divination in southern Malawi.

PubMed

Morris, B

1986-01-01

Although contemporary anthropological studies of African medical systems have indicated their pluralistic and complex nature, many studies still suggest a stark contrast between folk and cosmopolitan medicine, implying that ethnomedicine is primarily concerned with mystical causation. The present paper outlines ethnomedical practices in southern Malawi, stressing the distinctiveness of herbalists and diviners, and the important role of herbal remedies in the empirical treatment of all illnesses.

Empowering Women for Development through Community-Driven Sustainable Programmes: A Response to Traditional Patriarchal Power in the Southern African Region

ERIC Educational Resources Information Center

Braimoh, Dele; Lekoko, Rebecca; Alade, Eunice B.

2004-01-01

In the Southern Africa region, the act of prejudice against women mostly occurs where patriarchal power reigns. This type of power is felt in areas such as inheritance right, division of labour, access to political and economic resources and legal and social matters. Other areas of discrimination against women include access to educational and…

Land - Ocean Climate Linkages and the Human Evolution - New ICDP and IODP Drilling Initiatives in the East African Rift Valley and SW Indian Ocean

NASA Astrophysics Data System (ADS)

Zahn, R.; Feibel, C.; Co-Pis, Icdp/Iodp

2009-04-01

The past 5 Ma were marked by systematic shifts towards colder climates and concomitant reorganizations in ocean circulation and marine heat transports. Some of the changes involved plate-tectonic shifts such as the closure of the Panamanian Isthmus and restructuring of the Indonesian archipelago that affected inter-ocean communications and altered the world ocean circulation. These changes induced ocean-atmosphere feedbacks with consequences for climates globally and locally. Two new ICDP and IODP drilling initiatives target these developments from the perspectives of marine and terrestrial palaeoclimatology and the human evolution. The ICDP drilling initiative HSPDP ("Hominid Sites and Paleolakes Drilling Project"; ICDP ref. no. 10/07) targets lacustrine depocentres in Ethiopia (Hadar) and Kenya (West Turkana, Olorgesailie, Magadi) to retrieve sedimentary sequences close to the places and times where various species of hominins lived over currently available outcrop records. The records will provide a spatially resolved record of the East African environmental history in conjunction with climate variability at orbital (Milankovitch) and sub-orbital (ENSO decadal) time scales. HSPDP specifically aims at (1) compiling master chronologies for outcrops around each of the depocentres; (2) assessing which aspects of the paleoenvironmental records are a function of local origin (hydrology, hydrogeology) and which are linked with regional or larger-scale signals; (3) correlating broad-scale patterns of hominin phylogeny with the global beat of climate variability and (4) correlating regional shifts in the hominin fossil and archaeological record with more local patterns of paleoenvironmental change. Ultimately the aim is to test hypotheses that link physical and cultural adaptations in the course of the hominin evolution to local environmental change and variability. The IODP initiative SAFARI ("Southern African Climates, Agulhas Warm Water Transports and Retroflection, and Interocean Exchanges"; IODP ref. no. 702-full) aims at deciphering the late Neogene ocean history of the SW Indian Ocean. SAFARI specifically targets the Agulhas Current in the SW Indian Ocean that constitutes the strongest western boundary current in the southern hemisphere oceans. The Current transports warm and saline surface waters from the tropical Indian Ocean to the southern tip of Africa. Exchanges with the atmosphere influence eastern and southern African climates including individual weather systems such as extra-tropical cyclone formation in the region and rainfall patterns. Ocean models further suggest the "leakage" of Agulhas water around South Africa into the Atlantic potentially modulates the Atlantic meridional overturning circulation (MOC) with consequences for climate globally. The SAFARI drilling initiative aims to retrieve a suite of long drill cores along the southeast African margin and in the Indian-Atlantic ocean gateway. SAFARI will shed light on the history of Agulhas Current warm water transports along the southeast African margin during the late Neogene and its linking with ocean-climate developments. Specific objectives of SAFARI are to test (1) the sensitivity of the Agulhas Current to changing climates of the Plio/Pleistocene, including upstream forcing linked with equatorial Indian Ocean changes and Indonesian Throughflow; (2) the Current's influence on eastern and southern Africa climates, including rain fall patterns and vegetation changes; (3) buoyancy transfer to the Atlantic by Agulhas leakage around southern Africa, and (4) the contribution of variable Agulhas Leakage to shifts of the Atlantic MOC during episodes of major ocean and climate reorganizations of the past 5 Ma. These studies will provide insight into the Current's influence on eastern and southern African terrestrial climates, including its possible impact on the late Neogene evolution of large mammals including hominids. The ICDP and IODP drilling campaigns will enable us to establish the linkages between the ocean climatology of the SW Indian and terrestrial climates of Eastern Africa during key periods of global climate change. Combining the ICDP records of East African terrestrial climate at key hominin sites with IODP records of marine climate variability at the SE African continental margin will help to test if pulses of hominin evolutionary innovation were linked with periods of enhanced variability of local terrestrial environments and marine climatology of the Indian Ocean. * co-PIs of the ICDP initiative HSPDP are A.S. Cohen, R. Arrowsmith, A.K. Behrensmeyer, C. Feibel, R. Johnson, Z. Kubsa, D. Olago, R. Potts, R. Renaut * co-PIs of the IODP initiative SAFARI are R. Zahn, I. Hall, R. Schneider, M. Á. Bárcena, S. Barker, A. Biastoch, Chr. Charles, J. Compton, R. Cowling, P. Diz, L. Dupont, J.-A. Flores, S. Goldstein, S. Hemming, K. Holmgren, J. Lee-Thorp, G. Knorr, C. Lear, A. Mazaud, G. Mortyn, F. Peeters, B. Preu, R. Rickaby, J. Rogers, A. Rosell-Mele, Chr. Reason, V. Spiess, M. Trauth, G. Uenzelmann-Neben, S. Weldeab, P. Ziveri

Evaluation of a Faith-Based Culturally Relevant Program for African American Substance Users at Risk for HIV in the Southern United States

ERIC Educational Resources Information Center

MacMaster, Samuel A.; Jones, Jenny L.; Rasch, Randolph F. R.; Crawford, Sharon L.; Thompson, Stephanie; Sanders, Edwin C., II

2007-01-01

Objective: This article provides an evaluation of a federally funded faith-based program that serves African Americans who use heroin and cocaine and are at risk for HIV/AIDS in Nashville, Tennessee. Methods: Data were collected from 163 individuals at baseline and 6- and 12-month follow-up interviews. A subset of participants (n = 51) completed…

"Deserving To Go Further": Philanthropic Fellowships, African American Women, and the Development of Higher Educational Leadership in the South, 1930-1954.

ERIC Educational Resources Information Center

Beilke, Jayne R.

This paper is part of a larger study of southern African American women who were awarded fellowship awards by the Julius Rosenwald Fund and the General Education Board (GEB) for the purpose of graduate study at northern universities prior to school desegregation. An examination of their professional histories suggests that the women faced a glass…

The nature and location of the suture zone in the Rokelide orogen, Sierra Leone: Geochemical evidence

NASA Astrophysics Data System (ADS)

Lytwyn, Jennifer; Burke, Kevin; Culver, Stephen

2006-12-01

The boundaries of the West African Craton mark the location of a continuous suture zone that records Neoproterozoic to Early Cambrian oceanic closure. The western part of the circum-West African suture zone extends through the line of outcrop of the Mauritanide, Bassaride and Rokelide mountain belts. Our geochemical analyses are consistent with the idea that igneous and metamorphic rocks of the Rokelide and Southern Mauritanide mountain belts of West Africa occupy a suture zone that records the closing of a Neoproterozoic to Early Cambrian ocean basin during the Pan-African orogeny and final assembly of Gondwana. The closing of that basin was marked by the collision between Archean rocks of the Leo massif of the West African Craton and reactivated Archean and Paleoproterozoic rocks that now outcrop nearer to the coast of Africa in Sierra Leone and Liberia. Within the Rokelides, the geochemistry of the Kasewe Hills volcanic rocks and Marampa amphibolite indicate that remnants of an arc system are caught up in the suture zone. The geochemistry of Guingan schists that outcrop along strike of the Rokelides is compatible with the idea that the metamorphosed equivalents of the Marampa and Kasewe Hills arc volcanic rocks extend through the Bassarides and into the Southern Mauritanides.

Python for Ecology

EPA Science Inventory

Python is a high-level scripting language that is becoming increasingly popular for scientific computing. This all-day workshop is designed to introduce the basics of Python programming to ecologists. Some scripting/programming experience is recommended (e.g. familiarity with R)....

Automating Disk Forensic Processing with SleuthKit, XML and Python

DTIC Science & Technology

2009-05-01

1 Automating Disk Forensic Processing with SleuthKit, XML and Python Simson L. Garfinkel Abstract We have developed a program called fiwalk which...files themselves. We show how it is relatively simple to create automated disk forensic applications using a Python module we have written that reads...software that the portable device may contain. Keywords: Computer Forensics; XML; Sleuth Kit; Python I. INTRODUCTION In recent years we have found many

Python Scripts for Automation of Current-Voltage Testing of Semiconductor Devices (FY17)

DTIC Science & Technology

2017-01-01

ARL-TR-7923 ● JAN 2017 US Army Research Laboratory Python Scripts for Automation of Current- Voltage Testing of Semiconductor...manual device-testing procedures is reduced or eliminated through automation. This technical report includes scripts written in Python , version 2.7, used ...nothing. 3.1.9 Exit Program The script exits the entire program. Line 505, sys.exit(), uses the sys package that comes with Python to exit system

Pybel: a Python wrapper for the OpenBabel cheminformatics toolkit

PubMed Central

O'Boyle, Noel M; Morley, Chris; Hutchison, Geoffrey R

2008-01-01

Background Scripting languages such as Python are ideally suited to common programming tasks in cheminformatics such as data analysis and parsing information from files. However, for reasons of efficiency, cheminformatics toolkits such as the OpenBabel toolkit are often implemented in compiled languages such as C++. We describe Pybel, a Python module that provides access to the OpenBabel toolkit. Results Pybel wraps the direct toolkit bindings to simplify common tasks such as reading and writing molecular files and calculating fingerprints. Extensive use is made of Python iterators to simplify loops such as that over all the molecules in a file. A Pybel Molecule can be easily interconverted to an OpenBabel OBMol to access those methods or attributes not wrapped by Pybel. Conclusion Pybel allows cheminformaticians to rapidly develop Python scripts that manipulate chemical information. It is open source, available cross-platform, and offers the power of the OpenBabel toolkit to Python programmers. PMID:18328109

Pybel: a Python wrapper for the OpenBabel cheminformatics toolkit.

PubMed

O'Boyle, Noel M; Morley, Chris; Hutchison, Geoffrey R

2008-03-09

Scripting languages such as Python are ideally suited to common programming tasks in cheminformatics such as data analysis and parsing information from files. However, for reasons of efficiency, cheminformatics toolkits such as the OpenBabel toolkit are often implemented in compiled languages such as C++. We describe Pybel, a Python module that provides access to the OpenBabel toolkit. Pybel wraps the direct toolkit bindings to simplify common tasks such as reading and writing molecular files and calculating fingerprints. Extensive use is made of Python iterators to simplify loops such as that over all the molecules in a file. A Pybel Molecule can be easily interconverted to an OpenBabel OBMol to access those methods or attributes not wrapped by Pybel. Pybel allows cheminformaticians to rapidly develop Python scripts that manipulate chemical information. It is open source, available cross-platform, and offers the power of the OpenBabel toolkit to Python programmers.

Python to learn programming

NASA Astrophysics Data System (ADS)

Bogdanchikov, A.; Zhaparov, M.; Suliyev, R.

2013-04-01

Today we have a lot of programming languages that can realize our needs, but the most important question is how to teach programming to beginner students. In this paper we suggest using Python for this purpose, because it is a programming language that has neatly organized syntax and powerful tools to solve any task. Moreover it is very close to simple math thinking. Python is chosen as a primary programming language for freshmen in most of leading universities. Writing code in python is easy. In this paper we give some examples of program codes written in Java, C++ and Python language, and we make a comparison between them. Firstly, this paper proposes advantages of Python language in relation to C++ and JAVA. Then it shows the results of a comparison of short program codes written in three different languages, followed by a discussion on how students understand programming. Finally experimental results of students' success in programming courses are shown.

Comparative analysis of the L, M, and S RNA segments of Crimean-Congo haemorrhagic fever virus isolates from southern Africa.

PubMed

Goedhals, Dominique; Bester, Phillip A; Paweska, Janusz T; Swanepoel, Robert; Burt, Felicity J

2015-05-01

Crimean-Congo haemorrhagic fever virus (CCHFV) is a member of the Bunyaviridae family with a tripartite, negative sense RNA genome. This study used predictive software to analyse the L (large), M (medium), and S (small) segments of 14 southern African CCHFV isolates. The OTU-like cysteine protease domain and the RdRp domain of the L segment are highly conserved among southern African CCHFV isolates. The M segment encodes the structural glycoproteins, GN and GC, and the non-structural glycoproteins which are post-translationally cleaved at highly conserved furin and subtilase SKI-1 cleavage sites. All of the sites previously identified were shown to be conserved among southern African CCHFV isolates. The heavily O-glycosylated N-terminal variable mucin-like domain of the M segment shows the highest sequence variability of the CCHFV proteins. Five transmembrane domains are predicted in the M segment polyprotein resulting in three regions internal to and three regions external to the membrane across the G(N), NS(M) and G(C) glycoproteins. The corroboration of conserved genome domains and sequence identity among geographically diverse isolates may assist in the identification of protein function and pathogenic mechanisms, as well as the identification of potential targets for antiviral therapy and vaccine design. As detailed functional studies are lacking for many of the CCHFV proteins, identification of functional domains by prediction of protein structure, and identification of amino acid level similarity to functionally characterised proteins of related viruses or viruses with similar pathogenic mechanisms are a necessary step for selection of areas for further study. © 2015 Wiley Periodicals, Inc.

Indicators of climate change for the African continent derived from radiosondes

NASA Astrophysics Data System (ADS)

Añel, J. A.; Gimeno, L.; Tesouro, M.; de La Torre, L.; Nieto, R.; Ribera, P.; García, R.; Hernández, E.

2003-04-01

Here we study the interannual variability of different parameters calculated from radiosonde data in the African continent. Data used in the analysis were a subset of the National Climatic Data Center Upper Air Digital Files of the National Oceanic and Atmospheric Administration (USA) (CARDS). This work show the climatic trends in the studied region during the period and from 1973 to 1998). Results show that radiosonde stations were useful for this analysis in the African continent. Main oscillations and the relationship with the Northern Annular Mode and El Niño-Southern Oscillation were also studied.

A sociocultural stress and coping model for mental health outcomes among African American caregivers in Southern California.

PubMed

Knight, B G; Silverstein, M; McCallum, T J; Fox, L S

2000-05-01

A sociocultural stress and coping model to explain emotional distress among caregivers of family members who have dementia across ethnic and cultural groups is presented and explored in a sample of 41 African American and 128 non-African American caregivers. In this sample, African American caregivers reported lower levels of burden but equal levels of depression and anxiety. In the structural equation model, previous reports that African Americans' lower appraisal of caregiving as burdensome resulted in lower levels of emotional distress were confirmed. However, in this model, this pathway was counterbalanced by a tendency of African American caregivers to use emotion-focused coping and, therefore, increase emotional distress. African American caregivers were also younger and in poorer health, factors which tend to increase both burden and emotional distress outcomes. As suggested by the sociocultural stress and coping model, the influences of ethnic group variables on stress and coping processes are complex and multidirectional.

Influences on day-to-day self-management of type 2 diabetes among African-American women: spirituality, the multi-caregiver role, and other social context factors.

PubMed

Samuel-Hodge, C D; Headen, S W; Skelly, A H; Ingram, A F; Keyserling, T C; Jackson, E J; Ammerman, A S; Elasy, T A

2000-07-01

Many African-American women are affected by diabetes and its complications, and culturally appropriate lifestyle interventions that lead to improvements in glycemic control are urgently needed. The aim of this qualitative study was to identify culturally relevant psychosocial issues and social context variables influencing lifestyle behaviors--specifically diet and physical activity--of southern African-American women with diabetes. We conducted 10 focus group interviews with 70 southern African-American women with type 2 diabetes. Group interviews were audiotaped and transcripts were coded using qualitative data analysis software. A panel of reviewers analyzed the coded responses for emerging themes and trends. The dominant and most consistent themes that emerged from these focus groups were 1) spirituality as an important factor in general health, disease adjustment, and coping; 2) general life stress and multi-caregiving responsibilities interfering with daily disease management; and 3) the impact of diabetes manifested in feelings of dietary deprivation, physical and emotional "tiredness," "worry," and fear of diabetes complications. Our findings suggest that influences on diabetes self-management behaviors of African-American women may be best understood from a sociocultural and family context. Interventions to improve self-management for this population should recognize the influences of spirituality, general life stress, multi-caregiving responsibilities, and the psychological impact of diabetes. These findings suggest that family-centered and church-based approaches to diabetes care interventions are appropriate.

PyEEG: an open source Python module for EEG/MEG feature extraction.

PubMed

Bao, Forrest Sheng; Liu, Xin; Zhang, Christina

2011-01-01

Computer-aided diagnosis of neural diseases from EEG signals (or other physiological signals that can be treated as time series, e.g., MEG) is an emerging field that has gained much attention in past years. Extracting features is a key component in the analysis of EEG signals. In our previous works, we have implemented many EEG feature extraction functions in the Python programming language. As Python is gaining more ground in scientific computing, an open source Python module for extracting EEG features has the potential to save much time for computational neuroscientists. In this paper, we introduce PyEEG, an open source Python module for EEG feature extraction.

PyEEG: An Open Source Python Module for EEG/MEG Feature Extraction

PubMed Central

Bao, Forrest Sheng; Liu, Xin; Zhang, Christina

2011-01-01

Computer-aided diagnosis of neural diseases from EEG signals (or other physiological signals that can be treated as time series, e.g., MEG) is an emerging field that has gained much attention in past years. Extracting features is a key component in the analysis of EEG signals. In our previous works, we have implemented many EEG feature extraction functions in the Python programming language. As Python is gaining more ground in scientific computing, an open source Python module for extracting EEG features has the potential to save much time for computational neuroscientists. In this paper, we introduce PyEEG, an open source Python module for EEG feature extraction. PMID:21512582

Computational Analysis of Candidate Disease Genes and Variants for Salt-Sensitive Hypertension in Indigenous Southern Africans

PubMed Central

Tiffin, Nicki; Meintjes, Ayton; Ramesar, Rajkumar; Bajic, Vladimir B.; Rayner, Brian

2010-01-01

Multiple factors underlie susceptibility to essential hypertension, including a significant genetic and ethnic component, and environmental effects. Blood pressure response of hypertensive individuals to salt is heterogeneous, but salt sensitivity appears more prevalent in people of indigenous African origin. The underlying genetics of salt-sensitive hypertension, however, are poorly understood. In this study, computational methods including text- and data-mining have been used to select and prioritize candidate aetiological genes for salt-sensitive hypertension. Additionally, we have compared allele frequencies and copy number variation for single nucleotide polymorphisms in candidate genes between indigenous Southern African and Caucasian populations, with the aim of identifying candidate genes with significant variability between the population groups: identifying genetic variability between population groups can exploit ethnic differences in disease prevalence to aid with prioritisation of good candidate genes. Our top-ranking candidate genes include parathyroid hormone precursor (PTH) and type-1angiotensin II receptor (AGTR1). We propose that the candidate genes identified in this study warrant further investigation as potential aetiological genes for salt-sensitive hypertension. PMID:20886000

Helium isotopes at Rungwe Volcanic Province, Tanzania, and the origin of East African Plateaux

NASA Astrophysics Data System (ADS)

Hilton, D. R.; Halldórsson, S. A.; Barry, P. H.; Fischer, T. P.; de Moor, J. M.; Ramirez, C. J.; Mangasini, F.; Scarsi, P.

2011-11-01

We report helium isotope ratios (3He/4He) of lavas and tephra of the Rungwe Volcanic Province (RVP) in southern Tanzania. Values as high as 15RA (RA = air 3He/4He) far exceed typical upper mantle values, and are the first observation of plume-like ratios south of the Turkana Depression which separates the topographic highs of the Ethiopia and Kenya domes. The African Superplume - a tilted low-velocity seismic anomaly extending to the core-mantle boundary beneath southern Africa - is the likely source of these high 3He/4He ratios. High 3He/4He ratios at RVP together with similarly-high values along the Main Ethiopian Rift and in Afar provide compelling evidence that the African Superplume is a feature that extends through the 670-km seismic discontinuity and provides dynamic support - either as a single plume or via multiple upwellings - for the two main topographic features of the East Africa Rift System as well as heat and mass to drive continuing rift-related magmatism.

BoF - Python in Astronomy

NASA Astrophysics Data System (ADS)

Barrett, P. E.

This BoF will be chaired by Paul Barrett and will begin with an introduction to Python in astronomy, be followed by reports of current Python projects, and conclude with a discussion about the current state of Python in astronomy. The introduction will give a brief overview of the language, highlighting modules, resources, and aspects of the language that are important to scientific programming and astronomical data analysis. The closing discussion will provide an opportunity for questions and comments.

Africanization in the United States: replacement of feral European honeybees (Apis mellifera L.) by an African hybrid swarm.

PubMed

Pinto, M Alice; Rubink, William L; Patton, John C; Coulson, Robert N; Johnston, J Spencer

2005-08-01

The expansion of Africanized honeybees from South America to the southwestern United States in <50 years is considered one of the most spectacular biological invasions yet documented. In the American tropics, it has been shown that during their expansion Africanized honeybees have low levels of introgressed alleles from resident European populations. In the United States, it has been speculated, but not shown, that Africanized honeybees would hybridize extensively with European honeybees. Here we report a continuous 11-year study investigating temporal changes in the genetic structure of a feral population from the southern United States undergoing Africanization. Our microsatellite data showed that (1) the process of Africanization involved both maternal and paternal bidirectional gene flow between European and Africanized honeybees and (2) the panmitic European population was replaced by panmitic mixtures of A. m. scutellata and European genes within 5 years after Africanization. The post-Africanization gene pool (1998-2001) was composed of a diverse array of recombinant classes with a substantial European genetic contribution (mean 25-37%). Therefore, the resulting feral honeybee population of south Texas was best viewed as a hybrid swarm.

iss055e000039

NASA Image and Video Library

2018-02-28

iss055e000039 (Feb. 28, 2018) --- A waxing gibbous moon was pictured above the Earth's limb as the International Space Station orbited over the southern Indian Ocean just southwest of the African continent.

iss055e000034

NASA Image and Video Library

2018-02-28

iss055e000034 (Feb. 28, 2018) --- A waxing gibbous moon was pictured above the Earth's limb as the International Space Station orbited over the southern Indian Ocean just southwest of the African continent.

iss055e000030

NASA Image and Video Library

2018-02-28

iss055e000030 (Feb. 28, 2018) --- A waxing gibbous moon was pictured above the Earth's limb as the International Space Station orbited over the southern Indian Ocean just southwest of the African continent.

iss055e000043

NASA Image and Video Library

2018-02-28

iss055e000043 (Feb. 28, 2018) --- A waxing gibbous moon was pictured above the Earth's limb as the International Space Station orbited over the southern Indian Ocean just southwest of the African continent.

The Role of African Easterly Wave on Dust Transport and the Interaction Between Saharan Dust Layer and Atlantic ITCZ During Boreal Summer

NASA Technical Reports Server (NTRS)

Lau, William K. M.; Kim, Kyu-Myong

2012-01-01

In this paper, we investigate the relationships among Saharan dust outbreak and transport, African easterly waves (AEW), African easterly jet (AEJ) and associated convective activities of Atlantic Intertropical Convergence Zone (ITCZ) using Cloudsat-Calipso, MODIS and MERRA data. We find that a major Saharan dust outbreak is associated with the formation of a westward propagating strong cyclone around 15-25N over the western part northern Saharan. The strong cyclonic flow mobilizes and lifts the dust from the desert surface to a high elevation. As the cyclone propagate westward, it transports a thick elevated dust layer between 900 -500 hPa from the African continent to the eastern Atlantic. Cloudiness is reduced within the warm, dry dusty layer, but enhanced underneath it, possibly due to the presence of a shallow inversion layer over the marine boundary layer. The dust outbreak is linked to enhanced deep convection in the northern part of Atlantic ITCZ, abutting the southern flank of the dust layer, and a strengthening of the northward flank of the AEJ. As the dust layer spreads westward, it loses elevation and becomes increasing diffused as it reaches the central and western Atlantic. Using band pass filtered EOF analysis of MERRA winds, we find that AEWs propagating westward along two principal tracks, centered at 15-25N and 5-10N respectively. The easterly waves in the northern track are highly correlated with major dust outbreak over North Africa and associated with slower moving systems, with a quasi-periodicity of 6-9 day. On the other hand, easterly waves along the southern track are faster, with quasi-periodicity of 3-5 days. These faster easterly waves are closely tied to rainfall/cloud variations along the Atlantic ITCZ. Dust transport along the southern track by the faster waves generally leads rainfall/cloud anomalies in the same region by one or two days, suggesting the southern tracks of dust outbreak are regions of strong interaction between Saharan dust layer and Atlantic ITCZ.

Short-term benefits from central unit commitment and dispatch: Application to the Southern African Power Pool

NASA Astrophysics Data System (ADS)

Bowen, Brian Hugh

1998-12-01

Electricity utilities in the Southern African region are conscious that gains could be made from more economically efficient trading but have had no tools with which to analyze the effects of a change in policy. This research is the first to provide transparent quantitative techniques to quantify the impacts of new trading arrangements in this region. The study poses a model of the recently formed Southern African Power Pool, built with the collaboration of the region's national utilities to represent each country's demand and generation/transmission system. The multi-region model includes commitment and dispatch from diverse hydrothermal sources over a vast area. Economic gains are determined by comparing the total costs under free-trade conditions with those from the existing fixed-trade bilateral arrangements. The objective function minimizes production costs needed to meet total demand, subject to each utility's constraints for thermal and hydro generation, transmission, load balance and losses. Linearized thermal cost functions are used along with linearized input output hydropower plant curves and hydrothermal on/off status variables to formulate a mixed-integer programming problem. Results from the modeling show that moving to optimal trading patterns could save between 70 million and 130 million per year. With free-trade policies the quantity of power flow between utilities is doubled and maximum usage is made of the hydropower stations thus reducing costs and fuel use. In electricity exporting countries such as Zambia and Mozambique gains from increased trade are achieved which equal 16% and 18% respectively of the value of their total manufactured exports. A sensitivity analysis is conducted on the possible effects of derating generation, derating transmission and reducing water inflows but gains remain large. Maximum economic gains from optimal trading patterns can be achieved by each country allowing centralized control through the newly founded SAPP coordination center. Using standard mixed integer programming solvers makes the cost of such modeling activity easily affordable to each utility in the Southern African pool. This research provides the utilities with the modeling tools to quantify the gains from increased trade and thereby furthers a move towards greater efficiency, faster economic growth and reduced use of fossil fuels.

Urbanization may limit impacts of an invasive predator on native mammal diversity

USGS Publications Warehouse

Reichert, Brian E.; Sovie, Adia R.; Udell, Brad J.; Hart, Kristen M.; Borkhataria, Rena R.; Bonneau, Mathieu; Reed, Robert; McCleery, Robert A.

2017-01-01

AimOur understanding of the effects of invasive species on faunal diversity is limited in part because invasions often occur in modified landscapes where other drivers of community diversity can exacerbate or reduce the net impacts of an invader. Furthermore, rigorous assessments of the effects of invasive species on native communities that account for variation in sampling, species-specific detection and occurrence of rare species are lacking. Invasive Burmese pythons (Python molurus bivittatus) may be causing declines in medium- to large-sized mammals throughout the Greater Everglades Ecosystem (GEE); however, other factors such as urbanization, habitat changes and drastic alteration in water flow may also be influential in structuring mammal communities. The aim of this study was to gain an understanding of how mammal communities simultaneously facing invasive predators and intensively human-altered landscapes are influenced by these drivers and their interactions.LocationFlorida, USA.MethodsWe used data from trail cameras and scat searches with a hierarchical community model that accounts for undetected species to determine the relative influence of introduced Burmese pythons, urbanization, local hydrology, habitat types and interactive effects between pythons and urbanization on mammal species occurrence, site-level species richness, and turnover.ResultsPython density had significant negative effects on all species except coyotes. Despite these negative effects, occurrence of some generalist species increased significantly near urban areas. At the community level, pythons had the greatest impact on species richness, while turnover was greatest along the urbanization gradient where communities were increasingly similar as distance to urbanization decreased.Main conclusionsWe found evidence for an antagonistic interaction between pythons and urbanization where the impacts of pythons were reduced near urban development. Python-induced changes to mammal communities may be mediated near urban development, but elsewhere in the GEE, pythons are likely causing a fundamental restructuring of the food web, declines in ecosystem function, and creating complex and unpredictable cascading effects.

Pythons metabolize prey to fuel the response to feeding.

PubMed Central

Starck, J. Matthias; Moser, Patrick; Werner, Roland A.; Linke, Petra

2004-01-01

We investigated the energy source fuelling the post-feeding metabolic upregulation (specific dynamic action, SDA) in pythons (Python regius). Our goal was to distinguish between two alternatives: (i) snakes fuel SDA by metabolizing energy depots from their tissues; or (ii) snakes fuel SDA by metabolizing their prey. To characterize the postprandial response of pythons we used transcutaneous ultrasonography to measure organ-size changes and respirometry to record oxygen consumption. To discriminate unequivocally between the two hypotheses, we enriched mice (= prey) with the stable isotope of carbon (13C). For two weeks after feeding we quantified the CO2 exhaled by pythons and determined its isotopic 13C/12C signature. Ultrasonography and respirometry showed typical postprandial responses in pythons. After feeding, the isotope ratio of the exhaled breath changed rapidly to values that characterized enriched mouse tissue, followed by a very slow change towards less enriched values over a period of two weeks after feeding. We conclude that pythons metabolize their prey to fuel SDA. The slowly declining delta13C values indicate that less enriched tissues (bone, cartilage and collagen) from the mouse become available after several days of digestion. PMID:15255044

Pynamic: the Python Dynamic Benchmark

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

Lee, G L; Ahn, D H; de Supinksi, B R

2007-07-10

Python is widely used in scientific computing to facilitate application development and to support features such as computational steering. Making full use of some of Python's popular features, which improve programmer productivity, leads to applications that access extremely high numbers of dynamically linked libraries (DLLs). As a result, some important Python-based applications severely stress a system's dynamic linking and loading capabilities and also cause significant difficulties for most development environment tools, such as debuggers. Furthermore, using the Python paradigm for large scale MPI-based applications can create significant file IO and further stress tools and operating systems. In this paper, wemore » present Pynamic, the first benchmark program to support configurable emulation of a wide-range of the DLL usage of Python-based applications for large scale systems. Pynamic has already accurately reproduced system software and tool issues encountered by important large Python-based scientific applications on our supercomputers. Pynamic provided insight for our system software and tool vendors, and our application developers, into the impact of several design decisions. As we describe the Pynamic benchmark, we will highlight some of the issues discovered in our large scale system software and tools using Pynamic.« less

Experimentally derived salinity tolerance of hatchling Burmese pythons (Python molurus bivittatus) from the Everglades, Florida (USA)

USGS Publications Warehouse

Hart, Kristen M.; Schofield, Pamela J.; Gregoire, Denise R.

2012-01-01

In a laboratory setting, we tested the ability of 24 non-native, wild-caught hatchling Burmese pythons (Python molurus bivittatus) collected in the Florida Everglades to survive when given water containing salt to drink. After a one-month acclimation period in the laboratory, we grouped snakes into three treatments, giving them access to water that was fresh (salinity of 0, control), brackish (salinity of 10), or full-strength sea water (salinity of 35). Hatchlings survived about one month at the highest marine salinity and about five months at the brackish-water salinity; no control animals perished during the experiment. These results are indicative of a "worst-case scenario", as in the laboratory we denied access to alternate fresh-water sources that may be accessible in the wild (e.g., through rainfall). Therefore, our results may underestimate the potential of hatchling pythons to persist in saline habitats in the wild. Because of the effect of different salinity regimes on survival, predictions of ultimate geographic expansion by non-native Burmese pythons that consider salt water as barriers to dispersal for pythons may warrant re-evaluation, especially under global climate change and associated sea-level-rise scenarios.

Experimentally derived salinity tolerance of hatchling Burmese pythons (Python molurus bivittatus) from the Everglades, Florida (USA)

USGS Publications Warehouse

Hart, K.M.; Schofield, P.J.; Gregoire, D.R.

2012-01-01

In a laboratory setting, we tested the ability of 24 non-native, wild-caught hatchling Burmese pythons (Python molurus bivittatus) collected in the Florida Everglades to survive when given water containing salt to drink. After a one-month acclimation period in the laboratory, we grouped snakes into three treatments, giving them access to water that was fresh (salinity of 0, control), brackish (salinity of 10), or full-strength sea water (salinity of 35). Hatchlings survived about one month at the highest marine salinity and about five months at the brackish-water salinity; no control animals perished during the experiment. These results are indicative of a "worst-case scenario", as in the laboratory we denied access to alternate fresh-water sources that may be accessible in the wild (e.g., through rainfall). Therefore, our results may underestimate the potential of hatchling pythons to persist in saline habitats in the wild. Because of the effect of different salinity regimes on survival, predictions of ultimate geographic expansion by non-native Burmese pythons that consider salt water as barriers to dispersal for pythons may warrant re-evaluation, especially under global climate change and associated sea-level-rise scenarios. ?? 2011.

Diet quality and physical activity outcome improvements resulting from a church-based diet and supervised physical activity intervention for rural, southern, Africian American adults: Delta Body and Soul III

USDA-ARS?s Scientific Manuscript database

We assessed the effects of a 6-month, church¬-based, diet and supervised physical activity intervention, conducted between 2011 and ¬2012, on improving diet quality and increasing physical activity of southern, African American adults. Using a quasi¬-experimental design, 8 self-selected, eligible c...

Former Principals' Perceptions of the Effectiveness of the Educational Leadership Constituent Council (ELCC) Standards on Raising the Performance of African American Males on the State High School Graduation Test (GHSGT)

ERIC Educational Resources Information Center

Ficklin, Henry Clay

2010-01-01

The purpose of this study was to investigate the perceptions of former principals on the effect of the Educational Leadership Constituent Council (ELCC) standards in raising the performance of African American males on standardized tests, specifically the State High School Graduation Test (SHSGT) in a southern school district. Since the…

Accelerating wave propagation modeling in the frequency domain using Python

NASA Astrophysics Data System (ADS)

Jo, Sang Hoon; Park, Min Jun; Ha, Wan Soo

2017-04-01

Python is a dynamic programming language adopted in many science and engineering areas. We used Python to simulate wave propagation in the frequency domain. We used the Pardiso matrix solver to solve the impedance matrix of the wave equation. Numerical examples shows that Python with numpy consumes longer time to construct the impedance matrix using the finite element method when compared with Fortran; however we could reduce the time significantly to be comparable to that of Fortran using a simple Numba decorator.

HOPE: Just-in-time Python compiler for astrophysical computations

NASA Astrophysics Data System (ADS)

Akeret, Joel; Gamper, Lukas; Amara, Adam; Refregier, Alexandre

2014-11-01

HOPE is a specialized Python just-in-time (JIT) compiler designed for numerical astrophysical applications. HOPE focuses on a subset of the language and is able to translate Python code into C++ while performing numerical optimization on mathematical expressions at runtime. To enable the JIT compilation, the user only needs to add a decorator to the function definition. By using HOPE, the user benefits from being able to write common numerical code in Python while getting the performance of compiled implementation.

Southern African ancient genomes estimate modern human divergence to 350,000 to 260,000 years ago.

PubMed

Schlebusch, Carina M; Malmström, Helena; Günther, Torsten; Sjödin, Per; Coutinho, Alexandra; Edlund, Hanna; Munters, Arielle R; Vicente, Mário; Steyn, Maryna; Soodyall, Himla; Lombard, Marlize; Jakobsson, Mattias

2017-11-03

Southern Africa is consistently placed as a potential region for the evolution of Homo sapiens We present genome sequences, up to 13x coverage, from seven ancient individuals from KwaZulu-Natal, South Africa. The remains of three Stone Age hunter-gatherers (about 2000 years old) were genetically similar to current-day southern San groups, and those of four Iron Age farmers (300 to 500 years old) were genetically similar to present-day Bantu-language speakers. We estimate that all modern-day Khoe-San groups have been influenced by 9 to 30% genetic admixture from East Africans/Eurasians. Using traditional and new approaches, we estimate the first modern human population divergence time to between 350,000 and 260,000 years ago. This estimate increases the deepest divergence among modern humans, coinciding with anatomical developments of archaic humans into modern humans, as represented in the local fossil record. Copyright © 2017 The Authors, some rights reserved; exclusive licensee American Association for the Advancement of Science. No claim to original U.S. Government Works.

Implications of Nubian-Like Core Reduction Systems in Southern Africa for the Identification of Early Modern Human Dispersals

PubMed Central

Phillips, Natasha

2015-01-01

Lithic technologies have been used to trace dispersals of early human populations within and beyond Africa. Convergence in lithic systems has the potential to confound such interpretations, implying connections between unrelated groups. Due to their reductive nature, stone artefacts are unusually prone to this chance appearance of similar forms in unrelated populations. Here we present data from the South African Middle Stone Age sites Uitpanskraal 7 and Mertenhof suggesting that Nubian core reduction systems associated with Late Pleistocene populations in North Africa and potentially with early human migrations out of Africa in MIS 5 also occur in southern Africa during early MIS 3 and with no clear connection to the North African occurrence. The timing and spatial distribution of their appearance in southern and northern Africa implies technological convergence, rather than diffusion or dispersal. While lithic technologies can be a critical guide to human population flux, their utility in tracing early human dispersals at large spatial and temporal scales with stone artefact types remains questionable. PMID:26125972

A new approach developed to study variability in North African dust transport routes over the Atlantic during 2001-2015

NASA Astrophysics Data System (ADS)

Meng, L.; Gao, H. W.; Yu, Y.; Yao, X. H.; Gao, Y.; Zhang, C.; Fan, Lei

2017-10-01

We investigated the variability in the North African dust transport routes over the Atlantic (NAD routes) by extracting the dust transport central axis using Moderate Resolution Imaging Spectroradiometer aerosol data for 2001-2015. The results showed that the NAD routes can be classified into two regimes, a southern route centered at the southernmost position of 6.08 ± 1.12°N during November to March and a northern route centered at the northernmost position of 18.21 ± 1.04°N during April to October. In the southern route, large intervariation was correlated with the Intertropical Convergence Zone (ITCZ) and North Atlantic Oscillation (NAO), but the ITCZ and NAO jointly explained only 38% of the variation. In the northern route, the ITCZ alone explained 67% of the intervariation. The extracted trends during 2001-2015 exhibited a northward shift of 1.68° for the southern route and of 0.52° for the northern route. The causes for the shift were also examined.

Variations in Reading Achievement Across 14 Southern African School Systems: Which Factors Matter?

NASA Astrophysics Data System (ADS)

Hungi, Njora; Thuku, Florence W.

2010-02-01

In this study the authors employed a multilevel analysis procedure in order to examine the pupil and school levels factors that contributed to variation in reading achievement among Grade 6 primary school pupils in 14 southern African school systems (Botswana, Kenya, Lesotho, Malawi, Mauritius, Mozambique, Namibia, Seychelles, South Africa, Swaziland, Tanzania, Uganda, Zambia, and Zanzibar). The data for this study were collected in 2002 as part of a major project known as the Southern and Eastern Africa Consortium for Monitoring Educational Quality (SACMEQ) that sought to examine the quality of education offered in primary schools in these countries. The most important factors affecting variation in pupil achievement across most of these school systems were grade repetition, pupil socioeconomic background, speaking the language of instruction at home, and Pupil age. South Africa, Uganda and Namibia were among the school systems with the largest between-school variation while Seychelles and Mauritius had the largest within-school variation. Low social equity in reading achievement was evident in Mauritius, Seychelles and Tanzania. Policy implications of the findings are discussed.

Water security for productive economies: Applying an assessment framework in southern Africa

NASA Astrophysics Data System (ADS)

Holmatov, Bunyod; Lautze, Jonathan; Manthrithilake, Herath; Makin, Ian

2017-08-01

Achieving water security has emerged as a major objective in Africa, yet an analytical or diagnostic framework for assessing water security in African countries is not known to exist. This paper applies one key dimension of the 2016 Asian Development Bank's (ADB) Asian Water Development Outlook (AWDO) to assess levels of water security for productive economies in countries of the Southern African Development Community (SADC). Economic aspects of water security cover four areas: economic activities in the broad sense, agriculture, electricity, and industry. Water security in each area is measured through application of a set of indicators; results of indicator application are then aggregated to determine economic water security at a country-level. Results show that economic water security in SADC is greatest in the Seychelles and South Africa, and lowest in Madagascar and Malawi. Opportunities for strengthening economic water security in the majority of SADC countries exist through improving agricultural water productivity, strengthening resilience, and expanding sustainable electricity generation. More profoundly, this paper suggests that there is clear potential and utility in applying approaches used elsewhere to assess economic water security in southern Africa.

CyNEST: a maintainable Cython-based interface for the NEST simulator

PubMed Central

Zaytsev, Yury V.; Morrison, Abigail

2014-01-01

NEST is a simulator for large-scale networks of spiking point neuron models (Gewaltig and Diesmann, 2007). Originally, simulations were controlled via the Simulation Language Interpreter (SLI), a built-in scripting facility implementing a language derived from PostScript (Adobe Systems, Inc., 1999). The introduction of PyNEST (Eppler et al., 2008), the Python interface for NEST, enabled users to control simulations using Python. As the majority of NEST users found PyNEST easier to use and to combine with other applications, it immediately displaced SLI as the default NEST interface. However, developing and maintaining PyNEST has become increasingly difficult over time. This is partly because adding new features requires writing low-level C++ code intermixed with calls to the Python/C API, which is unrewarding. Moreover, the Python/C API evolves with each new version of Python, which results in a proliferation of version-dependent code branches. In this contribution we present the re-implementation of PyNEST in the Cython language, a superset of Python that additionally supports the declaration of C/C++ types for variables and class attributes, and provides a convenient foreign function interface (FFI) for invoking C/C++ routines (Behnel et al., 2011). Code generation via Cython allows the production of smaller and more maintainable bindings, including increased compatibility with all supported Python releases without additional burden for NEST developers. Furthermore, this novel approach opens up the possibility to support alternative implementations of the Python language at no cost given a functional Cython back-end for the corresponding implementation, and also enables cross-compilation of Python bindings for embedded systems and supercomputers alike. PMID:24672470

Cosmic Microwave Background Anisotropy Measurement from Python V

NASA Astrophysics Data System (ADS)

Coble, K.; Dodelson, S.; Dragovan, M.; Ganga, K.; Knox, L.; Kovac, J.; Ratra, B.; Souradeep, T.

2003-02-01

We analyze observations of the microwave sky made with the Python experiment in its fifth year of operation at the Amundsen-Scott South Pole Station in Antarctica. After modeling the noise and constructing a map, we extract the cosmic signal from the data. We simultaneously estimate the angular power spectrum in eight bands ranging from large (l~40) to small (l~260) angular scales, with power detected in the first six bands. There is a significant rise in the power spectrum from large to smaller (l~200) scales, consistent with that expected from acoustic oscillations in the early universe. We compare this Python V map to a map made from data taken in the third year of Python. Python III observations were made at a frequency of 90 GHz and covered a subset of the region of the sky covered by Python V observations, which were made at 40 GHz. Good agreement is obtained both visually (with a filtered version of the map) and via a likelihood ratio test.

Scripting MODFLOW model development using Python and FloPy

USGS Publications Warehouse

Bakker, Mark; Post, Vincent E. A.; Langevin, Christian D.; Hughes, Joseph D.; White, Jeremy; Starn, Jeffrey; Fienen, Michael N.

2016-01-01

Graphical user interfaces (GUIs) are commonly used to construct and postprocess numerical groundwater flow and transport models. Scripting model development with the programming language Python is presented here as an alternative approach. One advantage of Python is that there are many packages available to facilitate the model development process, including packages for plotting, array manipulation, optimization, and data analysis. For MODFLOW-based models, the FloPy package was developed by the authors to construct model input files, run the model, and read and plot simulation results. Use of Python with the available scientific packages and FloPy facilitates data exploration, alternative model evaluations, and model analyses that can be difficult to perform with GUIs. Furthermore, Python scripts are a complete, transparent, and repeatable record of the modeling process. The approach is introduced with a simple FloPy example to create and postprocess a MODFLOW model. A more complicated capture-fraction analysis with a real-world model is presented to demonstrate the types of analyses that can be performed using Python and FloPy.

Size, but not experience, affects the ontogeny of constriction performance in ball pythons (Python regius).

PubMed

Penning, David A; Dartez, Schuyler F

2016-03-01

Constriction is a prey-immobilization technique used by many snakes and is hypothesized to have been important to the evolution and diversification of snakes. However, very few studies have examined the factors that affect constriction performance. We investigated constriction performance in ball pythons (Python regius) by evaluating how peak constriction pressure is affected by snake size, sex, and experience. In one experiment, we tested the ontogenetic scaling of constriction performance and found that snake diameter was the only significant factor determining peak constriction pressure. The number of loops applied in a coil and its interaction with snake diameter did not significantly affect constriction performance. Constriction performance in ball pythons scaled differently than in other snakes that have been studied, and medium to large ball pythons are capable of exerting significantly higher pressures than those shown to cause circulatory arrest in prey. In a second experiment, we tested the effects of experience on constriction performance in hatchling ball pythons over 10 feeding events. By allowing snakes in one test group to gain constriction experience, and manually feeding snakes under sedation in another test group, we showed that experience did not affect constriction performance. During their final (10th) feedings, all pythons constricted similarly and with sufficiently high pressures to kill prey rapidly. At the end of the 10 feeding trials, snakes that were allowed to constrict were significantly smaller than their non-constricting counterparts. © 2016 Wiley Periodicals, Inc.

High genetic connectivity among estuarine populations of the riverbream Acanthopagrus vagus along the southern African coast

NASA Astrophysics Data System (ADS)

Oosthuizen, Carel J.; Cowley, Paul D.; Kyle, Scotty R.; Bloomer, Paulette

2016-12-01

Physical and/or physiological constraints are assumed to isolate fish populations confined to or dependent on estuarine habitats. Strong isolation by distance is thus expected to affect connectivity. Such structuring has important implications for sustainable utilisation and replenishment of estuarine stocks that are heavily exploited. Here we present a preliminary investigation of the phylogenetic relationships of the riverbream (Acanthopagrus species) along the southern African coast and the geographic genetic structure of what appears to be a locally endemic species or lineage. Mitochondrial DNA (mtDNA) cytochrome b sequences support the notion that the species occurring along the southern African coast is A. vagus and not A. berda as previously thought. Yet, the taxonomy of this widespread Indo-West Pacific species or species-complex requires more in-depth investigation. No genetic differentiation was detected among estuarine populations of A. vagus based on the analyses of mtDNA ND2 gene sequences and 10 polymorphic nuclear microsatellite markers. The star-like genealogy and statistical analyses are consistent with a recent population expansion event. Spatial analyses of microsatellite genotypes fail to reject the null hypothesis of panmixia, indicative of a recent population expansion or ongoing gene flow between different estuaries. The northern localities were identified as containing most of the observed variation. This study not only provides insight into the phylogenetic relationship of A. vagus relative to other Acanthopagrus species but also sheds light on the demographic history and contemporary gene flow of the species.

The WITS Atlas: A Black Southern African dental atlas for permanent tooth formation and emergence.

PubMed

Esan, Temitope A; Schepartz, Lynne A

2018-05-01

Current dental maturity charts, such as the widely applied London atlas, do not take into consideration advanced tooth emergence and formation patterns observed in children of African ancestry. The result is inaccurate age estimation in Southern Africa, a region where there is great forensic and anthropological need for reliable age estimation. To develop a population-specific atlas of permanent tooth emergence and formation for age estimation of Black Southern Africans. Using data from a cross-sectional study of 642 school children aged 5-20 years, panoramic radiographs taken during routine dental examination in a mobile treatment van were analyzed using the Demirjian method of eight (A-H) tooth formation stages. Tables of the stages of tooth development for each tooth, including the third molars, were generated separately for age cohorts and by sex. The most frequently occurring (modal) stage of tooth formation was considered the signature developmental stage for the age. The relationship of the third molar occlusal surfaces with occlusal tables on the radiographs were checked and compared with the findings recorded during intra oral examination. Comparison with the London atlas shows that at age 9.5 years, the canine and premolar emergence are at least one year ahead and the third molar formation completes four years earlier in the WITS Atlas. Similarities in advancement in tooth formation and emergence across sub-Saharan Africa suggest that the WITS Atlas can be used for those populations as well. © 2018 Wiley Periodicals, Inc.

78 FR 44275 - Semiannual Regulatory Agenda

Federal Register 2010, 2011, 2012, 2013, 2014

2013-07-23

... 1018-AV68 Evaluation; Constrictor Species From Python, Boa, and Eunectes Genera. National Park Service... Species From Python, Boa, and Eunectes Genera Legal Authority: 18 U.S.C. 42 Abstract: We are making a... Lacey Act: Reticulated python, DeSchauensee's anaconda, green anaconda, and Beni anaconda. The boa...

The Great Migration and African-American Genomic Diversity

PubMed Central

Barakatt, Maxime; Gignoux, Christopher R.; Errington, Jacob; Blot, William J.; Bustamante, Carlos D.; Kenny, Eimear E.; Williams, Scott M.; Aldrich, Melinda C.; Gravel, Simon

2016-01-01

We present a comprehensive assessment of genomic diversity in the African-American population by studying three genotyped cohorts comprising 3,726 African-Americans from across the United States that provide a representative description of the population across all US states and socioeconomic status. An estimated 82.1% of ancestors to African-Americans lived in Africa prior to the advent of transatlantic travel, 16.7% in Europe, and 1.2% in the Americas, with increased African ancestry in the southern United States compared to the North and West. Combining demographic models of ancestry and those of relatedness suggests that admixture occurred predominantly in the South prior to the Civil War and that ancestry-biased migration is responsible for regional differences in ancestry. We find that recent migrations also caused a strong increase in genetic relatedness among geographically distant African-Americans. Long-range relatedness among African-Americans and between African-Americans and European-Americans thus track north- and west-bound migration routes followed during the Great Migration of the twentieth century. By contrast, short-range relatedness patterns suggest comparable mobility of ∼15–16km per generation for African-Americans and European-Americans, as estimated using a novel analytical model of isolation-by-distance. PMID:27232753

First Miocene rodent from Lebanon provides the 'missing link' between Asian and African gundis (Rodentia: Ctenodactylidae).

PubMed

López-Antoñanzas, Raquel; Knoll, Fabien; Maksoud, Sibelle; Azar, Dany

2015-08-07

Ctenodactylinae (gundis) is a clade of rodents that experienced, in Miocene time, their greatest diversification and widest distribution. They expanded from the Far East, their area of origin, to Africa, which they entered from what would become the Arabian Peninsula. Questions concerning the origin of African Ctenodactylinae persist essentially because of a poor fossil record from the Miocene of Afro-Arabia. However, recent excavations in the Late Miocene of Lebanon have yielded a key taxon for our understanding of these issues. Proafricanomys libanensis nov. gen. nov. sp. shares a variety of dental characters with both the most primitive and derived members of the subfamily. A cladistic analysis demonstrates that this species is the sister taxon to a clade encompassing all but one of the African ctenodactylines, plus a southern European species of obvious African extraction. As such, Proafricanomys provides the 'missing link' between the Asian and African gundis.

First Miocene rodent from Lebanon provides the 'missing link' between Asian and African gundis (Rodentia: Ctenodactylidae)

PubMed Central

López-Antoñanzas, Raquel; Knoll, Fabien; Maksoud, Sibelle; Azar, Dany

2015-01-01

Ctenodactylinae (gundis) is a clade of rodents that experienced, in Miocene time, their greatest diversification and widest distribution. They expanded from the Far East, their area of origin, to Africa, which they entered from what would become the Arabian Peninsula. Questions concerning the origin of African Ctenodactylinae persist essentially because of a poor fossil record from the Miocene of Afro-Arabia. However, recent excavations in the Late Miocene of Lebanon have yielded a key taxon for our understanding of these issues. Proafricanomys libanensis nov. gen. nov. sp. shares a variety of dental characters with both the most primitive and derived members of the subfamily. A cladistic analysis demonstrates that this species is the sister taxon to a clade encompassing all but one of the African ctenodactylines, plus a southern European species of obvious African extraction. As such, Proafricanomys provides the 'missing link' between the Asian and African gundis. PMID:26250050

Transport of Biomass Burning Emissions from Southern Africa

NASA Technical Reports Server (NTRS)

Sinha, Parikhit; Jaegle,Lyatt; Hobbs, Peter V.; Liang, Qing

2004-01-01

The transport of biomass burning emissions from southern Africa to the neighboring Atlantic and Indian Oceans during the dry season (May-October) of 2000 is characterized using ground, ozonesonde, and aircraft measurements of carbon monoxide (CO) and ozone (O3) in and around southern Africa, together with the GEOS-CHEM global model of tropospheric chemistry. The model shows a positive bias of approximately 20% for CO and a negative bias of approximately 10-25% for O3 at oceanic sites downwind of fire emissions. Near areas of active fire emissions the model shows a negative bias of approximately 60% and approximately 30% for CO and O3, respectively, likely due to the coarse spatial (2 deg. x 2.5 deg.) and temporal (monthly) resolution of the model compared to that of active fires. On average, from 1994 to 2000, approximately 60 Tg of carbon monoxide (CO) from biomass burning in southern Africa was transported eastward to the Indian Ocean across the latitude band 0 deg. -60 S during the 6 months of the dry season. Over the same time period, approximately 40 Tg of CO from southern African biomass burning was transported westward to the Atlantic Ocean over the latitudes 0 deg. -20 S during the 6-month dry season, but most of that amount was transported back eastward over higher latitudes to the south (21 deg. -60 S). Eastward transport of biomass burning emissions from southern Africa enhances CO concentrations by approximately 4- 13 ppbv per month over the southern subtropical Indian Ocean during the dry season, with peak enhancements in September. Carbon monoxide from southern African and South American biomass burning is seen in the model simulations as far away as Australia, contributing approximately 8 ppbv and approximately 12-15 ppbv CO, respectively, and thus explaining the approximately 20- 25 ppbv observed enhancement of CO over Melbourne in mid-September 2000.

Blood parasites in reptiles imported to Germany.

PubMed

Halla, Ursula; Ursula, Halla; Korbel, Rüdiger; Rüdiger, Korbel; Mutschmann, Frank; Frank, Mutschmann; Rinder, Monika; Monika, Rinder

2014-12-01

Though international trade is increasing, the significance of imported reptiles as carriers of pathogens with relevance to animal and human health is largely unknown. Reptiles imported to Germany were therefore investigated for blood parasites using light microscopy, and the detected parasites were morphologically characterized. Four hundred ten reptiles belonging to 17 species originating from 11 Asian, South American and African countries were included. Parasites were detected in 117 (29%) of individual reptiles and in 12 species. Haemococcidea (Haemogregarina, Hepatozoon, Schellackia) were found in 84% of snakes (Python regius, Corallus caninus), 20% of lizards (Acanthocercus atricollis, Agama agama, Kinyongia fischeri, Gekko gecko) and 50% of turtles (Pelusios castaneus). Infections with Hematozoea (Plasmodium, Sauroplasma) were detected in 14% of lizards (Acanthocercus atricollis, Agama agama, Agama mwanzae, K. fischeri, Furcifer pardalis, Xenagama batillifera, Acanthosaura capra, Physignathus cocincinus), while those with Kinetoplastea (Trypanosoma) were found in 9% of snakes (Python regius, Corallus caninus) and 25 % of lizards (K. fischeri, Acanthosaura capra, G. gecko). Nematoda including filarial larvae parasitized in 10% of lizards (Agama agama, Agama mwanzae, K. fischeri, Fu. pardalis, Physignathus cocincinus). Light microscopy mostly allowed diagnosis of the parasites' genus, while species identification was not possible because of limited morphological characteristics available for parasitic developmental stages. The investigation revealed a high percentage of imported reptiles being carriers of parasites while possible vectors and pathogenicity are largely unknown so far. The spreading of haemoparasites thus represents an incalculable risk for pet reptiles, native herpetofauna and even human beings.

Sequencing the genome of the Burmese python (Python molurus bivittatus) as a model for studying extreme adaptations in snakes.

PubMed

Castoe, Todd A; de Koning, Jason A P; Hall, Kathryn T; Yokoyama, Ken D; Gu, Wanjun; Smith, Eric N; Feschotte, Cédric; Uetz, Peter; Ray, David A; Dobry, Jason; Bogden, Robert; Mackessy, Stephen P; Bronikowski, Anne M; Warren, Wesley C; Secor, Stephen M; Pollock, David D

2011-07-28

The Consortium for Snake Genomics is in the process of sequencing the genome and creating transcriptomic resources for the Burmese python. Here, we describe how this will be done, what analyses this work will include, and provide a timeline.

SpiceyPy, a Python Wrapper for SPICE

NASA Astrophysics Data System (ADS)

Annex, A.

2017-06-01

SpiceyPy is an open source Python wrapper for the NAIF SPICE toolkit. It is available for macOS, Linux, and Windows platforms and for Python versions 2.7.x and 3.x as well as Anaconda. SpiceyPy can be installed by running: “pip install spiceypy.”

GillesPy: A Python Package for Stochastic Model Building and Simulation.

PubMed

Abel, John H; Drawert, Brian; Hellander, Andreas; Petzold, Linda R

2016-09-01

GillesPy is an open-source Python package for model construction and simulation of stochastic biochemical systems. GillesPy consists of a Python framework for model building and an interface to the StochKit2 suite of efficient simulation algorithms based on the Gillespie stochastic simulation algorithms (SSA). To enable intuitive model construction and seamless integration into the scientific Python stack, we present an easy to understand, action-oriented programming interface. Here, we describe the components of this package and provide a detailed example relevant to the computational biology community.

Double valvular insufficiency in a Burmese python (Python molurus bivittatus, Linnaeus, 1758) suffering from concomitant bacterial pneumonia.

PubMed

Schilliger, Lionel; Tréhiou-Sechi, Emilie; Petit, Amandine M P; Misbach, Charlotte; Chetboul, Valérie

2010-12-01

Ultrasonography, and, to a lesser extent, echocardiography are now well-established, noninvasive, and painless diagnostic tools in herpetologic medicine. Various cardiac lesions have been previously described in reptiles, but valvulopathy is rarely documented in these animals and, consequently, is poorly understood. In this report, sinoatrial and atrioventricular insufficiencies were diagnosed in a 5-yr-old captive dyspneic Burmese python (Python molurus bivittatus) on the basis of echocardiographic and Doppler examination. This case report is the first to document Doppler assessment of valvular regurgitations in a reptile.

GillesPy: A Python Package for Stochastic Model Building and Simulation

PubMed Central

Abel, John H.; Drawert, Brian; Hellander, Andreas; Petzold, Linda R.

2017-01-01

GillesPy is an open-source Python package for model construction and simulation of stochastic biochemical systems. GillesPy consists of a Python framework for model building and an interface to the StochKit2 suite of efficient simulation algorithms based on the Gillespie stochastic simulation algorithms (SSA). To enable intuitive model construction and seamless integration into the scientific Python stack, we present an easy to understand, action-oriented programming interface. Here, we describe the components of this package and provide a detailed example relevant to the computational biology community. PMID:28630888

Report on the ''ESO Python Boot Camp — Pilot Version''

NASA Astrophysics Data System (ADS)

Dias, B.; Milli, J.

2017-03-01

The Python programming language is becoming very popular within the astronomical community. Python is a high-level language with multiple applications including database management, handling FITS images and tables, statistical analysis, and more advanced topics. Python is a very powerful tool both for astronomical publications and for observatory operations. Since the best way to learn a new programming language is through practice, we therefore organised a two-day hands-on workshop to share expertise among ESO colleagues. We report here the outcome and feedback from this pilot event.

The Python ARM Radar Toolkit (Py-ART), a library for working with weather radar data in the Python programming language

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

Helmus, Jonathan J.; Collis, Scott M.

The Python ARM Radar Toolkit is a package for reading, visualizing, correcting and analysing data from weather radars. Development began to meet the needs of the Atmospheric Radiation Measurement Climate Research Facility and has since expanded to provide a general-purpose framework for working with data from weather radars in the Python programming language. The toolkit is built on top of libraries in the Scientific Python ecosystem including NumPy, SciPy, and matplotlib, and makes use of Cython for interfacing with existing radar libraries written in C and to speed up computationally demanding algorithms. As a result, the source code for themore » toolkit is available on GitHub and is distributed under a BSD license.« less

NEURON and Python.

PubMed

Hines, Michael L; Davison, Andrew P; Muller, Eilif

2009-01-01

The NEURON simulation program now allows Python to be used, alone or in combination with NEURON's traditional Hoc interpreter. Adding Python to NEURON has the immediate benefit of making available a very extensive suite of analysis tools written for engineering and science. It also catalyzes NEURON software development by offering users a modern programming tool that is recognized for its flexibility and power to create and maintain complex programs. At the same time, nothing is lost because all existing models written in Hoc, including graphical user interface tools, continue to work without change and are also available within the Python context. An example of the benefits of Python availability is the use of the xml module in implementing NEURON's Import3D and CellBuild tools to read MorphML and NeuroML model specifications.

NEURON and Python

PubMed Central

Hines, Michael L.; Davison, Andrew P.; Muller, Eilif

2008-01-01

The NEURON simulation program now allows Python to be used, alone or in combination with NEURON's traditional Hoc interpreter. Adding Python to NEURON has the immediate benefit of making available a very extensive suite of analysis tools written for engineering and science. It also catalyzes NEURON software development by offering users a modern programming tool that is recognized for its flexibility and power to create and maintain complex programs. At the same time, nothing is lost because all existing models written in Hoc, including graphical user interface tools, continue to work without change and are also available within the Python context. An example of the benefits of Python availability is the use of the xml module in implementing NEURON's Import3D and CellBuild tools to read MorphML and NeuroML model specifications. PMID:19198661

GenomeDiagram: a python package for the visualization of large-scale genomic data.

PubMed

Pritchard, Leighton; White, Jennifer A; Birch, Paul R J; Toth, Ian K

2006-03-01

We present GenomeDiagram, a flexible, open-source Python module for the visualization of large-scale genomic, comparative genomic and other data with reference to a single chromosome or other biological sequence. GenomeDiagram may be used to generate publication-quality vector graphics, rastered images and in-line streamed graphics for webpages. The package integrates with datatypes from the BioPython project, and is available for Windows, Linux and Mac OS X systems. GenomeDiagram is freely available as source code (under GNU Public License) at http://bioinf.scri.ac.uk/lp/programs.html, and requires Python 2.3 or higher, and recent versions of the ReportLab and BioPython packages. A user manual, example code and images are available at http://bioinf.scri.ac.uk/lp/programs.html.

The Python ARM Radar Toolkit (Py-ART), a library for working with weather radar data in the Python programming language

DOE PAGES

Helmus, Jonathan J.; Collis, Scott M.

2016-07-18

The Python ARM Radar Toolkit is a package for reading, visualizing, correcting and analysing data from weather radars. Development began to meet the needs of the Atmospheric Radiation Measurement Climate Research Facility and has since expanded to provide a general-purpose framework for working with data from weather radars in the Python programming language. The toolkit is built on top of libraries in the Scientific Python ecosystem including NumPy, SciPy, and matplotlib, and makes use of Cython for interfacing with existing radar libraries written in C and to speed up computationally demanding algorithms. As a result, the source code for themore » toolkit is available on GitHub and is distributed under a BSD license.« less

Leveraging Comparative Genomics to Identify and Functionally Characterize Genes Associated with Sperm Phenotypes in Python bivittatus (Burmese Python)

PubMed Central

Rutllant, Josep

2016-01-01

Comparative genomics approaches provide a means of leveraging functional genomics information from a highly annotated model organism's genome (such as the mouse genome) in order to make physiological inferences about the role of genes and proteins in a less characterized organism's genome (such as the Burmese python). We employed a comparative genomics approach to produce the functional annotation of Python bivittatus genes encoding proteins associated with sperm phenotypes. We identify 129 gene-phenotype relationships in the python which are implicated in 10 specific sperm phenotypes. Results obtained through our systematic analysis identified subsets of python genes exhibiting associations with gene ontology annotation terms. Functional annotation data was represented in a semantic scatter plot. Together, these newly annotated Python bivittatus genome resources provide a high resolution framework from which the biology relating to reptile spermatogenesis, fertility, and reproduction can be further investigated. Applications of our research include (1) production of genetic diagnostics for assessing fertility in domestic and wild reptiles; (2) enhanced assisted reproduction technology for endangered and captive reptiles; and (3) novel molecular targets for biotechnology-based approaches aimed at reducing fertility and reproduction of invasive reptiles. Additional enhancements to reptile genomic resources will further enhance their value. PMID:27200191

In Silico Analysis of Gene Expression Network Components Underlying Pigmentation Phenotypes in the Python Identified Evolutionarily Conserved Clusters of Transcription Factor Binding Sites

PubMed Central

2016-01-01

Color variation provides the opportunity to investigate the genetic basis of evolution and selection. Reptiles are less studied than mammals. Comparative genomics approaches allow for knowledge gained in one species to be leveraged for use in another species. We describe a comparative vertebrate analysis of conserved regulatory modules in pythons aimed at assessing bioinformatics evidence that transcription factors important in mammalian pigmentation phenotypes may also be important in python pigmentation phenotypes. We identified 23 python orthologs of mammalian genes associated with variation in coat color phenotypes for which we assessed the extent of pairwise protein sequence identity between pythons and mouse, dog, horse, cow, chicken, anole lizard, and garter snake. We next identified a set of melanocyte/pigment associated transcription factors (CREB, FOXD3, LEF-1, MITF, POU3F2, and USF-1) that exhibit relatively conserved sequence similarity within their DNA binding regions across species based on orthologous alignments across multiple species. Finally, we identified 27 evolutionarily conserved clusters of transcription factor binding sites within ~200-nucleotide intervals of the 1500-nucleotide upstream regions of AIM1, DCT, MC1R, MITF, MLANA, OA1, PMEL, RAB27A, and TYR from Python bivittatus. Our results provide insight into pigment phenotypes in pythons. PMID:27698666

Molecular identification of python species: development and validation of a novel assay for forensic investigations.

PubMed

Ciavaglia, Sherryn A; Tobe, Shanan S; Donnellan, Stephen C; Henry, Julianne M; Linacre, Adrian M T

2015-05-01

Python snake species are often encountered in illegal activities and the question of species identity can be pertinent to such criminal investigations. Morphological identification of species of pythons can be confounded by many issues and molecular examination by DNA analysis can provide an alternative and objective means of identification. Our paper reports on the development and validation of a PCR primer pair that amplifies a segment of the mitochondrial cytochrome b gene that has been suggested previously as a good candidate locus for differentiating python species. We used this DNA region to perform species identification of pythons, even when the template DNA was of poor quality, as might be the case with forensic evidentiary items. Validation tests are presented to demonstrate the characteristics of the assay. Tests involved the cross-species amplification of this marker in non-target species, minimum amount of DNA template required, effects of degradation on product amplification and a blind trial to simulate a casework scenario that provided 100% correct identity. Our results demonstrate that this assay performs reliably and robustly on pythons and can be applied directly to forensic investigations where the presence of a species of python is in question. Copyright © 2014 Elsevier Ireland Ltd. All rights reserved.

In Silico Analysis of Gene Expression Network Components Underlying Pigmentation Phenotypes in the Python Identified Evolutionarily Conserved Clusters of Transcription Factor Binding Sites.

PubMed

Irizarry, Kristopher J L; Bryden, Randall L

2016-01-01

Color variation provides the opportunity to investigate the genetic basis of evolution and selection. Reptiles are less studied than mammals. Comparative genomics approaches allow for knowledge gained in one species to be leveraged for use in another species. We describe a comparative vertebrate analysis of conserved regulatory modules in pythons aimed at assessing bioinformatics evidence that transcription factors important in mammalian pigmentation phenotypes may also be important in python pigmentation phenotypes. We identified 23 python orthologs of mammalian genes associated with variation in coat color phenotypes for which we assessed the extent of pairwise protein sequence identity between pythons and mouse, dog, horse, cow, chicken, anole lizard, and garter snake. We next identified a set of melanocyte/pigment associated transcription factors (CREB, FOXD3, LEF-1, MITF, POU3F2, and USF-1) that exhibit relatively conserved sequence similarity within their DNA binding regions across species based on orthologous alignments across multiple species. Finally, we identified 27 evolutionarily conserved clusters of transcription factor binding sites within ~200-nucleotide intervals of the 1500-nucleotide upstream regions of AIM1, DCT, MC1R, MITF, MLANA, OA1, PMEL, RAB27A, and TYR from Python bivittatus . Our results provide insight into pigment phenotypes in pythons.

Leveraging Comparative Genomics to Identify and Functionally Characterize Genes Associated with Sperm Phenotypes in Python bivittatus (Burmese Python).

PubMed

Irizarry, Kristopher J L; Rutllant, Josep

2016-01-01

Comparative genomics approaches provide a means of leveraging functional genomics information from a highly annotated model organism's genome (such as the mouse genome) in order to make physiological inferences about the role of genes and proteins in a less characterized organism's genome (such as the Burmese python). We employed a comparative genomics approach to produce the functional annotation of Python bivittatus genes encoding proteins associated with sperm phenotypes. We identify 129 gene-phenotype relationships in the python which are implicated in 10 specific sperm phenotypes. Results obtained through our systematic analysis identified subsets of python genes exhibiting associations with gene ontology annotation terms. Functional annotation data was represented in a semantic scatter plot. Together, these newly annotated Python bivittatus genome resources provide a high resolution framework from which the biology relating to reptile spermatogenesis, fertility, and reproduction can be further investigated. Applications of our research include (1) production of genetic diagnostics for assessing fertility in domestic and wild reptiles; (2) enhanced assisted reproduction technology for endangered and captive reptiles; and (3) novel molecular targets for biotechnology-based approaches aimed at reducing fertility and reproduction of invasive reptiles. Additional enhancements to reptile genomic resources will further enhance their value.

"I Feel I Am Really Pleading the Cause of My Own People": US Southern White Students' Study of African-American History and Culture in the 1930s through Art and the Senses

ERIC Educational Resources Information Center

Woyshner, Christine

2018-01-01

In the 1930s there emerged an initiative to teach black history and culture to white students, which pre-dates more widespread efforts of the post-Second World War era. This article analyses student work--considering sight, sound and text--and investigates what white students learned about African-American history and culture. Curriculum history…

Contested Narratives: South African and Cuban military action in Angola (1987-1988)

DTIC Science & Technology

2016-05-26

monograph is to explore how Cuba and the Republic of South Africa used tactical actions in southern Angola to pursue their strategic objectives in the...each state’s pursuit of its strategic objectives. 15. SUBJECT TERMS South African Border War, Cuito Cuanavale, Angola, Namibia, South Africa , Cuba...Williams, US Army, 45 pages. The purpose of this monograph is to explore how Cuba and the Republic of South Africa used tactical actions in

Mapping and discriminating the Pan-African granitoids in the Hoggar (southern Algeria) using Landsat 7 ETM+ data and airborne geophysics

NASA Astrophysics Data System (ADS)

Zerrouk, Siham; Bendaoud, Abderrahmane; Hamoudi, Mohamed; Liégeois, Jean Paul; Boubekri, Hichem; El Khaznadji, Riad Ben

2017-03-01

This study presents a multidisciplinary approach to discriminate and map different types and generations of Pan-African granitoids in the Hoggar, southern Algeria, using remote sensing and airborne geophysics in close correlation with previous works and established geological maps. RGB (Red, Green, Blue) combinations of band ratios; principal component analysis (PCA) and image classification for Landsat 7 ETM+ (Enhanced Thematic Mapper Plus), allow spatial discrimination and mapping of granitoid rocks of the studied area (200*350 km). This area extend over four contrasted Pan-African terranes (In Tedeini, Iskel, Tefedest and Laouni terranes, the two latter belong to the LATEA (Laouni-Azrou-n-Fad-Tefedest-Egéré-Aleksod-Assodé-Issalane) metacraton. The airborne magnetic intensity provides a wide range of responses from high values (youngest granitoids) to low values (volcano-sedimentary and gneissic country-rocks). Radiometric data, displaying radioelements concentration, discriminate efficiently the late alkaline granitoids (high values), the calk-alkaline granitoids (intermediate values) and the Tonalite-Trondhjemite-Granodiorite series (low values). This study led to the establishment of a more accurate geological map where the geochemical characteristics of the Pan-African granitoids are determined, including plutons not yet studied, especially in the poorly known In Tedeini terrane, and brings new constraints for the geodynamic development of the Tuareg Shield, which includes the Hoggar.

Estimates of the topographic uplift of the Southern African Plateau from the African Superswell through petrologically-consistent thermo-chemical modelling of the geoid, SHF, Rayleigh and Love dispersion curves and MT data

NASA Astrophysics Data System (ADS)

Jones, Alan G.; Afonso, Juan Carlos; Fullea, Javier

2015-04-01

The deep mantle African Superswell is thought to cause up to 500 m of the uplift of the Southern African Plateau. We investigate this phenomenon through stochastic thermo-chemical inversion modelling of the geoid, surface heat flow, Rayleigh and Love dispersion curves and MT data, in a manner that is fully petrologically-consistent. We invert for a three layer crustal velocity, density and thermal structure, but assume the resistivity layering (based on prior inversion of the MT data alone). Inversions are performed using an improved Delayed Rejection and Adaptive Metropolis (DRAM) type Markov chain Monte Carlo (MCMC) algorithm. We demonstrate that a single layer lithosphere can fit most of the data, but not the MT responses. We further demonstrate that modelling the seismic data alone, without the constraint of requiring reasonable oxide chemistry or of fitting the geoid, permits wildly acceptable elevations and with very poorly defined lithosphere-asthenosphere boundary (LAB). We parameterise the lithosphere into three layers, and bound the permitted oxide chemistry of each layer consistent with known chemical layering. We find acceptable models, from 5 million tested in each case, that fit all responses and yield a posteriori elevation distributions centred on 900-950 m, suggesting dynamic support from the lower mantle of some 400 m.

Impacts of the ENSO Modoki and other Tropical Indo-Pacific Climate-Drivers on African Rainfall

PubMed Central

Preethi, B.; Sabin, T. P.; Adedoyin, J. A.; Ashok, K.

2015-01-01

The study diagnoses the relative impacts of the four known tropical Indo-Pacific drivers, namely, El Niño Southern Oscillation (ENSO), ENSO Modoki, Indian Ocean Dipole (IOD), and Indian Ocean Basin-wide mode (IOBM) on African seasonal rainfall variability. The canonical El Niño and El Niño Modoki are in general associated with anomalous reduction (enhancement) of rainfall in southern (northern) hemispheric regions during March-May season. However, both the El Niño flavours anomalously reduce the northern hemispheric rainfall during June-September. Interestingly, during boreal spring and summer, in many regions, the Indian Ocean drivers have influences opposite to those from tropical Pacific drivers. On the other hand, during the October-December season, the canonical El Niño and/or positive IOD are associated with an anomalous enhancement of rainfall in the Eastern Africa, while the El Niño Modoki events are associated with an opposite impact. In addition to the Walker circulation changes, the Indo-Pacific drivers influence the African rainfall through modulating jet streams. During boreal summer, the El Niño Modoki and canonical El Niño (positive IOD) tend to weaken (strengthen) the tropical easterly jet, and result in strengthening (weakening) and southward shift of African easterly jet. This anomalously reduces (enhances) rainfall in the tropical north, including Sahelian Africa. PMID:26567458

Impacts of the ENSO Modoki and other Tropical Indo-Pacific Climate-Drivers on African Rainfall.

PubMed

Preethi, B; Sabin, T P; Adedoyin, J A; Ashok, K

2015-11-16

The study diagnoses the relative impacts of the four known tropical Indo-Pacific drivers, namely, El Niño Southern Oscillation (ENSO), ENSO Modoki, Indian Ocean Dipole (IOD), and Indian Ocean Basin-wide mode (IOBM) on African seasonal rainfall variability. The canonical El Niño and El Niño Modoki are in general associated with anomalous reduction (enhancement) of rainfall in southern (northern) hemispheric regions during March-May season. However, both the El Niño flavours anomalously reduce the northern hemispheric rainfall during June-September. Interestingly, during boreal spring and summer, in many regions, the Indian Ocean drivers have influences opposite to those from tropical Pacific drivers. On the other hand, during the October-December season, the canonical El Niño and/or positive IOD are associated with an anomalous enhancement of rainfall in the Eastern Africa, while the El Niño Modoki events are associated with an opposite impact. In addition to the Walker circulation changes, the Indo-Pacific drivers influence the African rainfall through modulating jet streams. During boreal summer, the El Niño Modoki and canonical El Niño (positive IOD) tend to weaken (strengthen) the tropical easterly jet, and result in strengthening (weakening) and southward shift of African easterly jet. This anomalously reduces (enhances) rainfall in the tropical north, including Sahelian Africa.

Exploring Crustal Structure and Mantle Seismic Anisotropy Associated with the Incipient Southern and Southwestern Branches of the East African Rift System

NASA Astrophysics Data System (ADS)

Yu, Y.; Reed, C. A.; Gao, S. S.; Liu, K. H.; Massinque, B.; Mdala, H. S.; Chindandali, P. R. N.; Moidaki, M.; Mutamina, D. M.

2014-12-01

In spite of numerous geoscientific studies, the mechanisms responsible for the initiation and development of continental rifts are still poorly understood. The key information required to constrain various geodynamic models on rift initiation can be derived from the crust/mantle structure and anisotropy beneath incipient rifts such as the Southern and Southwestern branches of the East African Rift System. As part of a National Science Foundation funded interdisciplinary project, 50 PASSCAL broadband seismic stations were deployed across the Malawi, Luangwa, and Okavango rift zones from the summer of 2012 to the summer of 2014. Preliminary results from these 50 SAFARI (Seismic Arrays for African Rift Initiation) and adjacent stations are presented utilizing shear-wave splitting (SWS) and P-S receiver function techniques. 1109 pairs of high-quality SWS measurements, consisting of fast polarization orientations and splitting times, have been obtained from a total of 361 seismic events. The results demonstrate dominantly NE-SW fast orientations throughout Botswana as well as along the northwestern flank of the Luangwa rift valley. Meanwhile, fast orientations beneath the eastern Luangwa rift flank rotate from NNW to NNE along the western border of the Malawi rift. Stations located alongside the western Malawi rift border faults yield ENE fast orientations, with stations situated in Mozambique exhibiting more E-W orientations. In the northern extent of the study region, fast orientations parallel the trend of the Rukwa and Usangu rift basins. Receiver function results reveal that, relative to the adjacent Pan-African mobile belts, the Luangwa rift zone has a thin (30 to 35 km) crust. The crustal thickness within the Okavango rift basin is highly variable. Preliminary findings indicate a northeastward thinning along the southeast Okavango border fault system congruent with decreasing extension toward the southwest. The Vp/Vs measurements in the Okavango basin are roughly 1.75 on average, suggesting an unmodified crustal composition, while those of the Luangwa and southern Malawi rift zones are relatively high, probably suggesting ancient or ongoing magmatic emplacement. The Pan-African mobile belts enveloping the rift zones are mostly characterized by more felsic and thicker crust.

The environmental context for the origins of modern human diversity: a synthesis of regional variability in African climate 150,000-30,000 years ago.

PubMed

Blome, Margaret Whiting; Cohen, Andrew S; Tryon, Christian A; Brooks, Alison S; Russell, Joellen

2012-05-01

We synthesize African paleoclimate from 150 to 30 ka (thousand years ago) using 85 diverse datasets at a regional scale, testing for coherence with North Atlantic glacial/interglacial phases and northern and southern hemisphere insolation cycles. Two major determinants of circum-African climate variability over this time period are supported by principal components analysis: North Atlantic sea surface temperature (SST) variations and local insolation maxima. North Atlantic SSTs correlated with the variability found in most circum-African SST records, whereas the variability of the majority of terrestrial temperature and precipitation records is explained by local insolation maxima, particularly at times when solar radiation was intense and highly variable (e.g., 150-75 ka). We demonstrate that climates varied with latitude, such that periods of relatively increased aridity or humidity were asynchronous across the northern, eastern, tropical and southern portions of Africa. Comparisons of the archaeological, fossil, or genetic records with generalized patterns of environmental change based solely on northern hemisphere glacial/interglacial cycles are therefore imprecise. We compare our refined climatic framework to a database of 64 radiometrically-dated paleoanthropological sites to test hypotheses of demographic response to climatic change among African hominin populations during the 150-30 ka interval. We argue that at a continental scale, population and climate changes were asynchronous and likely occurred under different regimes of climate forcing, creating alternating opportunities for migration into adjacent regions. Our results suggest little relation between large scale demographic and climate change in southern Africa during this time span, but strongly support the hypothesis of hominin occupation of the Sahara during discrete humid intervals ~135-115 ka and 105-75 ka. Hominin populations in equatorial and eastern Africa may have been buffered from the extremes of climate change by locally steep altitudinal and rainfall gradients and the complex and variable effects of increased aridity on human habitat suitability in the tropics. Our data are consistent with hominin migrations out of Africa through varying exit points from ~140-80 ka. Copyright © 2012 Elsevier Ltd. All rights reserved.

Photodermatitis and photokeratoconjunctivitis in a ball python (Python regius) and a blue-tongue skink (Tiliqua spp.).

PubMed

Gardiner, David W; Baines, Frances M; Pandher, Karamjeet

2009-12-01

A male ball python (Python regius) and a female blue tongue skink (Tiliqua spp.) of unknown age were evaluated for anorexia, lethargy, excessive shedding, corneal opacity (python), and weight loss (skink) of approximately three weeks' duration. These animals represented the worst affected animals from a private herpetarium where many animals exhibited similar signs. At necropsy, the python had bilateral corneal opacity and scattered moderate dysecdysis. The skink had mild dysecdysis, poor body condition, moderate intestinal nematodiasis, and mild liver atrophy. Microscopic evaluation revealed epidermal erosion and ulceration, with severe epidermal basal cell degeneration and necrosis, and superficial dermatitis (python and skink). Severe bilateral ulcerative keratoconjunctivitis with bacterial colonization was noted in the ball python. Microscopic findings within the skin and eyes were suggestive of ultraviolet (UV) radiation damage or of photodermatitis and photokeratoconjunctivitis. Removal of the recently installed new lamps from the terrariums of the surviving reptiles resulted in resolution of clinical signs. Evaluation of a sample lamp of the type associated with these cases revealed an extremely high UV output, including very-short-wavelength UVB, neither found in natural sunlight nor emitted by several other UVB lamps unassociated with photokeratoconjunctivitis. Exposure to high-intensity and/or inappropriate wavelengths of UV radiation may be associated with significant morbidity, and even mortality, in reptiles. Veterinarians who are presented with reptiles with ocular and/or cutaneous disease of unapparent cause should fully evaluate the specifics of the vivarium light sources. Further research is needed to determine the characteristics of appropriate and of toxic UV light for reptiles kept in captivity.

Identification and Characterization of Two Closely Related Unclassifiable Endogenous Retroviruses in Pythons (Python molurus and Python curtus)

PubMed Central

Huder, Jon B.; Böni, Jürg; Hatt, Jean-Michel; Soldati, Guido; Lutz, Hans; Schüpbach, Jörg

2002-01-01

Boid inclusion body disease (BIBD) is a fatal disorder of boid snakes that is suspected to be caused by a retrovirus. In order to identify this agent, leukocyte cultures (established from Python molurus specimens with symptoms of BIBD or kept together with such diseased animals) were assessed for reverse transcriptase (RT) activity. Virus from cultures exhibiting high RT activity was banded on sucrose density gradients, and the RT peak fraction was subjected to highly efficient procedures for the identification of unknown particle-associated retroviral RNA. A 7-kb full retroviral sequence was identified, cloned, and sequenced. This virus contained intact open reading frames (ORFs) for gag, pro, pol, and env, as well as another ORF of unknown function within pol. Phylogenetic analysis showed that the virus is distantly related to viruses from both the B and D types and the mammalian C type but cannot be classified. It is present as a highly expressed endogenous retrovirus in all P. molurus individuals; a closely related, but much less expressed virus was found in all tested Python curtus individuals. All other boid snakes tested, including Python regius, Python reticulatus, Boa constrictor, Eunectes notaeus, and Morelia spilota, were virus negative, independent of whether they had BIBD or not. Virus isolated from P. molurus could not be transmitted to the peripheral blood mononuclear cells of B. constrictor or P. regius. Thus, there is no indication that this novel virus, which we propose to name python endogenous retrovirus (PyERV), is causally linked with BIBD. PMID:12097574

Ultrasonographic anatomy of the coelomic organs of boid snakes (Boa constrictor imperator, Python regius, Python molurus molurus, and Python curtus).

PubMed

Banzato, Tommaso; Russo, Elisa; Finotti, Luca; Milan, Maria C; Gianesella, Matteo; Zotti, Alessandro

2012-05-01

To determine the ultrasonographic features of the coelomic organs of healthy snakes belonging to the Boidae and Pythonidae families. 16 ball pythons (Python regius; 7 males, 8 females, and 1 sexually immature), 10 Indian rock pythons (Python molurus molurus; 5 males, 4 females, and 1 sexually immature), 12 Python curtus (5 males and 7 females), and 8 boa constrictors (Boa constrictor imperator; 4 males and 4 females). All snakes underwent complete ultrasonographic evaluation of the coelomic cavity; chemical restraint was not necessary. A dorsolateral approach to probe placement was chosen to increase image quality and to avoid injury to the snakes and operators. Qualitative and quantitative observations were recorded. The liver, stomach, gallbladder, pancreas, small and large intestines, kidneys, cloaca, and scent glands were identified in all snakes. The hemipenes were identified in 10 of the 21 (48%) male snakes. The spleen was identified in 5 of the 46 (11%) snakes, and ureters were identified in 6 (13%). In 2 sexually immature snakes, the gonads were not visible. One (2%) snake was gravid, and 7 (15%) had small amounts of free fluid in the coelomic cavity. A significant positive correlation was identified between several measurements (diameter and thickness of scent glands, gastric and pyloric walls, and colonic wall) and body length (snout to vent) and body weight. The study findings can be used as an atlas of the ultrasonographic anatomy of the coelomic cavity in healthy boid snakes. Ultrasonography was reasonably fast to perform and was well tolerated in conscious snakes.

Environmental change in subtropical southern Africa since the Last Glacial Maximum: a case study from Etosha Pan

NASA Astrophysics Data System (ADS)

Mauz, Barbara

2014-05-01

Millennial-scale climate shifts described by Heinrich Events and Dansgard-Oeschger Cycles occurred in the Northern and Southern Hemispheres asynchronously. It has been suggested that combined influence of the oceanic bipolar seesaw and the southward displacement of the south hemisphere (SH) westerlies, both linked to northern stadials, allowed the high southern latitudes to warm as a result of melting and collapse of NH ice sheets (Denton et al. 2010). For tropical southern Africa most terrestrial records delivering observational data for such climate scenario are derived from east African rift valley lakes (e.g. Olaka et al., 2010) but further to the west data are sparse. Here we report about a palaeoclimate proxy extracted from Etosha Pan, a vast endorheic plain in southern west Africa. It is situated at the southern border of tropical Africa, at the eastern border of the coastal area influenced by the Benguela current and at the western border of inland Africa influenced by the Indian Ocean. It is therefore supposed to be sensitive to climate change and provides the opportunity to link its lake record with the drastic hydrological changes that occurred in east African rift-valley lakes during deglaciation. Using OSL dating and sediment analysis to constrain lake shorelines of perennial lakes in time and space, we found high lake levels during the late Pleistocene and a drastic drop shortly after 10 ka. This lake water-level reconstruction is not in line with the histories of ITCZ migration and strength of Benguela current upwelling. We confirm that the linkages between the evolution of the Etosha Pan and the climate mechanisms driving hydrological changes in subtropical southwest Africa are poorly resolved and need further investigation. The paper discusses these findings in the context of SH palaeoclimate records.

Scraping EDGAR with Python

ERIC Educational Resources Information Center

Ashraf, Rasha

2017-01-01

This article presents Python codes that can be used to extract data from Securities and Exchange Commission (SEC) filings. The Python program web crawls to obtain URL paths for company filings of required reports, such as Form 10-K. The program then performs a textual analysis and counts the number of occurrences of words in the filing that…

On Parallel Software Engineering Education Using Python

ERIC Educational Resources Information Center

Marowka, Ami

2018-01-01

Python is gaining popularity in academia as the preferred language to teach novices serial programming. The syntax of Python is clean, easy, and simple to understand. At the same time, it is a high-level programming language that supports multi programming paradigms such as imperative, functional, and object-oriented. Therefore, by default, it is…

Satiety and eating patterns in two species of constricting snakes.

PubMed

Nielsen, Torben P; Jacobsen, Magnus W; Wang, Tobias

2011-01-10

Satiety has been studied extensively in mammals, birds and fish but very little information exists on reptiles. Here we investigate time-dependent satiation in two species of constricting snakes, ball pythons (Python regius) and yellow anacondas (Eunectes notaeus). Satiation was shown to depend on both fasting time and prey size. In the ball pythons fed with mice of a relative prey mass RPM (mass of the prey/mass of the snake×100) of 15%, we observed a satiety response that developed between 6 and 12h after feeding, but after 24h pythons regained their appetite. With an RPM of 10% the pythons kept eating throughout the experiment. The anacondas showed a non-significant tendency for satiety to develop between 6 and 12h after ingesting a prey of 20% RPM. Unlike pythons, anacondas remained satiated after 24h. Handling time (from strike until prey swallowed) increased with RPM. We also found a significant decrease in handling time between the first and the second prey and a positive correlation between handling time and the mass of the snake. 2010 Elsevier Inc. All rights reserved.

Scripting MODFLOW Model Development Using Python and FloPy.

PubMed

Bakker, M; Post, V; Langevin, C D; Hughes, J D; White, J T; Starn, J J; Fienen, M N

2016-09-01

Graphical user interfaces (GUIs) are commonly used to construct and postprocess numerical groundwater flow and transport models. Scripting model development with the programming language Python is presented here as an alternative approach. One advantage of Python is that there are many packages available to facilitate the model development process, including packages for plotting, array manipulation, optimization, and data analysis. For MODFLOW-based models, the FloPy package was developed by the authors to construct model input files, run the model, and read and plot simulation results. Use of Python with the available scientific packages and FloPy facilitates data exploration, alternative model evaluations, and model analyses that can be difficult to perform with GUIs. Furthermore, Python scripts are a complete, transparent, and repeatable record of the modeling process. The approach is introduced with a simple FloPy example to create and postprocess a MODFLOW model. A more complicated capture-fraction analysis with a real-world model is presented to demonstrate the types of analyses that can be performed using Python and FloPy. © 2016, National Ground Water Association.

Homing of invasive Burmese pythons in South Florida: evidence for map and compass senses in snakes

PubMed Central

Pittman, Shannon E.; Hart, Kristen M.; Cherkiss, Michael S.; Snow, Ray W.; Fujisaki, Ikuko; Smith, Brian J.; Mazzotti, Frank J.; Dorcas, Michael E.

2014-01-01

Navigational ability is a critical component of an animal's spatial ecology and may influence the invasive potential of species. Burmese pythons (Python molurus bivittatus) are apex predators invasive to South Florida. We tracked the movements of 12 adult Burmese pythons in Everglades National Park, six of which were translocated 21–36 km from their capture locations. Translocated snakes oriented movement homeward relative to the capture location, and five of six snakes returned to within 5 km of the original capture location. Translocated snakes moved straighter and faster than control snakes and displayed movement path structure indicative of oriented movement. This study provides evidence that Burmese pythons have navigational map and compass senses and has implications for predictions of spatial spread and impacts as well as our understanding of reptile cognitive abilities. PMID:24647727

Homing of invasive Burmese pythons in South Florida: evidence for map and compass senses in snakes

USGS Publications Warehouse

Pittman, Shannon E.; Hart, Kristen M.; Cherkiss, Michael S.; Snow, Ray W.; Fujisaki, Ikuko; Mazzotti, Frank J.; Dorcas, Michael E.

2014-01-01

Navigational ability is a critical component of an animal's spatial ecology and may influence the invasive potential of species. Burmese pythons (Python molurus bivittatus) are apex predators invasive to South Florida. We tracked the movements of 12 adult Burmese pythons in Everglades National Park, six of which were translocated 21–36 km from their capture locations. Translocated snakes oriented movement homeward relative to the capture location, and five of six snakes returned to within 5 km of the original capture location. Translocated snakes moved straighter and faster than control snakes and displayed movement path structure indicative of oriented movement. This study provides evidence that Burmese pythons have navigational map and compass senses and has implications for predictions of spatial spread and impacts as well as our understanding of reptile cognitive abilities.

Predators in training: operant conditioning of novel behavior in wild Burmese pythons (Python molurus bivitattus).

PubMed

Emer, Sherri A; Mora, Cordula V; Harvey, Mark T; Grace, Michael S

2015-01-01

Large pythons and boas comprise a group of animals whose anatomy and physiology are very different from traditional mammalian, avian and other reptilian models typically used in operant conditioning. In the current study, investigators used a modified shaping procedure involving successive approximations to train wild Burmese pythons (Python molurus bivitattus) to approach and depress an illuminated push button in order to gain access to a food reward. Results show that these large, wild snakes can be trained to accept extremely small food items, associate a stimulus with such rewards via operant conditioning and perform a contingent operant response to gain access to a food reward. The shaping procedure produced robust responses and provides a mechanism for investigating complex behavioral phenomena in massive snakes that are rarely studied in learning research.

Isolation and identification of bacterial populations of zoonotic importance from captive non-venomous snakes in Malaysia.

PubMed

Abba, Yusuf; Ilyasu, Yusuf Maina; Noordin, Mustapha Mohamed

2017-07-01

Captivity of non-venomous snakes such as python and boa are common in zoos, aquariums and as pets in households. Poor captivity conditions expose these reptiles to numerous pathogens which may result in disease conditions. The purpose of this study was to investigate the common bacteria isolated from necropsied captive snakes in Malaysia over a five year period. A total of 27 snake carcasses presented for necropsy at the Universiti Putra Malaysia (UPM) were used in this survey. Samples were aseptically obtained at necropsy from different organs/tissues (lung, liver, heart, kindey, oesophagus, lymph node, stomach, spinal cord, spleen, intestine) and cultured onto 5% blood and McConkey agar, respectively. Gram staining, morphological evaluation and biochemical test such as oxidase, catalase and coagulase were used to tentatively identify the presumptive bacterial isolates. Pythons had the highest number of cases (81.3%) followed by anaconda (14.8%) and boa (3.7%). Mixed infection accounted for 81.5% in all snakes and was highest in pythons (63%). However, single infection was only observed in pythons (18.5%). A total of 82.7%, 95.4% and 100% of the bacterial isolates from python, anaconda and boa, respectively were gram negative. Aeromonas spp was the most frequently isolated bacteria in pythons and anaconda with incidences of 25 (18%) and 8 (36.6%) with no difference (p > 0.05) in incidence, respectively, while Salmonella spp was the most frequently isolated in boa and significantly higher (p < 0.05) than in python and anaconda. Bacteria species were most frequently isolated from the kidney of pythons 35 (25.2%), intestines of anacondas 11 (50%) and stomach of boa 3 (30%). This study showed that captive pythons harbored more bacterial species than anaconda or boa. Most of the bacterial species isolated from these snakes have public health importance and have been incriminated in human infections worldwide. Copyright © 2017 Elsevier Ltd. All rights reserved.

Selected regulation of gastrointestinal acid-base secretion and tissue metabolism for the diamondback water snake and Burmese python.

PubMed

Secor, Stephen M; Taylor, Josi R; Grosell, Martin

2012-01-01

Snakes exhibit an apparent dichotomy in the regulation of gastrointestinal (GI) performance with feeding and fasting; frequently feeding species modestly regulate intestinal function whereas infrequently feeding species rapidly upregulate and downregulate intestinal function with the start and completion of each meal, respectively. The downregulatory response with fasting for infrequently feeding snakes is hypothesized to be a selective attribute that reduces energy expenditure between meals. To ascertain the links between feeding habit, whole-animal metabolism, and GI function and metabolism, we measured preprandial and postprandial metabolic rates and gastric and intestinal acid-base secretion, epithelial conductance and oxygen consumption for the frequently feeding diamondback water snake (Nerodia rhombifer) and the infrequently feeding Burmese python (Python molurus). Independent of body mass, Burmese pythons possess a significantly lower standard metabolic rate and respond to feeding with a much larger metabolic response compared with water snakes. While fasting, pythons cease gastric acid and intestinal base secretion, both of which are stimulated with feeding. In contrast, fasted water snakes secreted gastric acid and intestinal base at rates similar to those of digesting snakes. We observed no difference between fasted and fed individuals for either species in gastric or intestinal transepithelial potential and conductance, with the exception of a significantly greater gastric transepithelial potential for fed pythons at the start of titration. Water snakes experienced no significant change in gastric or intestinal metabolism with feeding. Fed pythons, in contrast, experienced a near-doubling of gastric metabolism and a tripling of intestinal metabolic rate. For fasted individuals, the metabolic rate of the stomach and small intestine was significantly lower for pythons than for water snakes. The fasting downregulation of digestive function for pythons is manifested in a depressed gastric and intestinal metabolism, which selectively serves to reduce basal metabolism and hence promote survival between infrequent meals. By maintaining elevated GI performance between meals, fasted water snakes incur the additional cost of tissue activity, which is expressed in a higher standard metabolic rate.

Python-Based Applications for Hydrogeological Modeling

NASA Astrophysics Data System (ADS)

Khambhammettu, P.

2013-12-01

Python is a general-purpose, high-level programming language whose design philosophy emphasizes code readability. Add-on packages supporting fast array computation (numpy), plotting (matplotlib), scientific /mathematical Functions (scipy), have resulted in a powerful ecosystem for scientists interested in exploratory data analysis, high-performance computing and data visualization. Three examples are provided to demonstrate the applicability of the Python environment in hydrogeological applications. Python programs were used to model an aquifer test and estimate aquifer parameters at a Superfund site. The aquifer test conducted at a Groundwater Circulation Well was modeled with the Python/FORTRAN-based TTIM Analytic Element Code. The aquifer parameters were estimated with PEST such that a good match was produced between the simulated and observed drawdowns. Python scripts were written to interface with PEST and visualize the results. A convolution-based approach was used to estimate source concentration histories based on observed concentrations at receptor locations. Unit Response Functions (URFs) that relate the receptor concentrations to a unit release at the source were derived with the ATRANS code. The impact of any releases at the source could then be estimated by convolving the source release history with the URFs. Python scripts were written to compute and visualize receptor concentrations for user-specified source histories. The framework provided a simple and elegant way to test various hypotheses about the site. A Python/FORTRAN-based program TYPECURVEGRID-Py was developed to compute and visualize groundwater elevations and drawdown through time in response to a regional uniform hydraulic gradient and the influence of pumping wells using either the Theis solution for a fully-confined aquifer or the Hantush-Jacob solution for a leaky confined aquifer. The program supports an arbitrary number of wells that can operate according to arbitrary schedules. The python wrapper invokes the underlying FORTRAN layer to compute transient groundwater elevations and processes this information to create time-series and 2D plots.

Assessing the Change in Rainfall Characteristics and Trends for the Southern African ITCZ Region

NASA Astrophysics Data System (ADS)

Baumberg, Verena; Weber, Torsten; Helmschrot, Jörg

2015-04-01

Southern Africa is strongly influenced by the movement and intensity of the Intertropical Convergence Zone (ITCZ) thus determining the climate in this region with distinct seasonal and inter-annual rainfall dynamics. The amount and variability of rainfall affect the various ecosystems by controlling the hydrological system, regulating water availability and determining agricultural practices. Changes in rainfall characteristics potentially caused by climate change are of uppermost relevance for both ecosystem functioning and human well-being in this region and, thus, need to be investigated. To analyse the rainfall variability governed by the ITCZ in southern Africa, observational daily rainfall datasets with a high spatial resolution of 0.25° x 0.25° (about 28 km x 28 km) from satellite-based Tropical Rainfall Measuring Mission (TRMM) and Global Land Data Assimilation System (GLDAS) are used. These datasets extend from 1998 to 2008 and 1948 to 2010, respectively, and allow for the assessment of rainfall characteristics over different spatial and temporal scales. Furthermore, a comparison of TRMM and GLDAS and, where available, with observed data will be made to determine the differences of both datasets. In order to quantify the intra- and inner-annual variability of rainfall, the amount of total rainfall, duration of rainy seasons and number of dry spells along with further indices are calculated from the observational datasets. Over the southern African ITCZ region, the rainfall characteristics change moving from wetter north to the drier south, but also from west to east, i.e. the coast to the interior. To address expected spatial and temporal variabilities, the assessment of changes in the rainfall parameters will be carried out for different transects in zonal and meridional directions over the region affected by the ITCZ. Revealing trends over more than 60 years, the results will help to identify and understand potential impacts of climate change on rainfall characteristics for the southern African ITCZ region. The findings of this study will feed into various ecosystem assessment and biodiversity change studies in Angola and Zambia.

Second-Generation Outcomes of the Great Migration.

PubMed

Alexander, J Trent; Leibbrand, Christine; Massey, Catherine; Tolnay, Stewart

2017-12-01

The mass migration of African Americans out of the South during the first two-thirds of the twentieth century represents one of the most significant internal migration flows in U.S. Those undertaking the Great Migration left the South in search of a better life, and their move transformed the cultural, social, and political dynamics of African American life specifically and U.S. society more generally. Recent research offers conflicting evidence regarding the migrants' success in translating their geographic mobility into economic mobility. Due in part to the lack of a large body of longitudinal data, almost all studies of the Great Migration have focused on the migrants themselves, usually over short periods of their working lives. Using longitudinally linked census data, we take a broader view, investigating the long-term economic and social effects of the Great Migration on the migrants' children. Our results reveal modest but statistically significant advantages in education, income, and poverty status for the African American children of the Great Migration relative to the children of southerners who remained in the South. In contrast, second-generation white migrants experienced few benefits from migrating relative to southern or northern stayers.

Mantle Structure Beneath East Africa and Zambia from Body Wave Tomography

NASA Astrophysics Data System (ADS)

Mulibo, G.; Nyblade, A.; Tugume, F.

2011-12-01

In this study, P and S travel time residuals from teleseismic earthquakes recorded on over 60 temporary AfricaArray seismic stations deployed in Uganda, Kenya, Tanzania and Zambia between 2007 and 2011 are being inverted, together with travel time residuals from previous deployments, for a 3D image of mantle wave speeds variations extending to a depth of 1200 km. Preliminary results show that at depths of 200 km of less, low wave speed anomalies are well developed beneath the Eastern and Western Branches of the East African Rift System. At deep depths, the low wave speed anomalies focus under the center and southern part of the East African Plateau and extend into the transition zone. At transition zone depths and within the top part of the lower mantle, the low wave speed anomaly shifts to the southwest beneath Zambia, indicating that the low wave speed anomaly is continuous across the transition zone and that it extends into the lower mantle. This result suggests that the upper mantle low wave speed anomaly beneath East Africa is connected to the African superplume anomaly in the lower mantle beneath southern Africa.

Vaccine Potential of Two Previously Uncharacterized African Swine Fever Virus Isolates from Southern Africa and Heterologous Cross Protection of an Avirulent European Isolate.

PubMed

Souto, R; Mutowembwa, P; van Heerden, J; Fosgate, G T; Heath, L; Vosloo, W

2016-04-01

African swine fever (ASF) is a mostly fatal viral infection of domestic pigs for which there is no vaccine available. The disease is endemic to most of sub-Saharan Africa, causes severe losses and threatens food security in large parts of the continent. Naturally occurring attenuated ASF viruses have been tested as vaccine candidates, but protection was variable depending on the challenge virus. In this study, the virulence of two African isolates, one from a tick vector and the other from an indigenous pig, was determined in domestic pigs to identify a potential vaccine strain for southern Africa. Neither isolate was suitable as the tick isolate was moderately virulent and the indigenous pig virus was highly virulent. The latter was subsequently used as heterologous challenge in pigs first vaccinated with a naturally attenuated isolate previously isolated in Portugal. Although a statistically significant reduction in death rate and virus load was observed compared with unvaccinated pigs post-challenge, all pigs succumbed to infection and died. © 2014 The Authors. Transboundary and Emerging Diseases Published by Blackwell Verlag GmbH.

pymzML--Python module for high-throughput bioinformatics on mass spectrometry data.

PubMed

Bald, Till; Barth, Johannes; Niehues, Anna; Specht, Michael; Hippler, Michael; Fufezan, Christian

2012-04-01

pymzML is an extension to Python that offers (i) an easy access to mass spectrometry (MS) data that allows the rapid development of tools, (ii) a very fast parser for mzML data, the standard data format in MS and (iii) a set of functions to compare or handle spectra. pymzML requires Python2.6.5+ and is fully compatible with Python3. The module is freely available on http://pymzml.github.com or pypi, is published under LGPL license and requires no additional modules to be installed. christian@fufezan.net.

Myiasis by Megaselia scalaris (Diptera: Phoridae) in a python affected by pulmonitis.

PubMed

Vanin, S; Mazzariol, S; Menandro, M L; Lafisca, A; Turchetto, M

2013-01-01

Myiases are caused by the presence of maggots in vertebrate tissues and organs. Myiases have been studied widely in humans, farm animals, and pets, whereas reports of myiasis in reptiles are scarce. We describe a case of myiasis caused by the Megaselia scalaris (Loew) in an Indian python (Python molurus bivittatus, Kuhl) (Ophida: Boidae). The python, 15 yr old, born and reared in a terrarium in the mainland of Venice (Italy), was affected by diffuse, purulent pneumonia caused by Burkholderia cepacia. The severe infestation of maggots found in the lungs during an autopsy indicated at a myiasis.

75 FR 79444 - Unblocking of Specially Designated Nationals and Blocked Persons Pursuant to Executive Order...

Federal Register 2010, 2011, 2012, 2013, 2014

2010-12-20

... intimidation in that country, and to political and economic instability in the southern African region. The...); Child of Dumiso Dabengwa (individual) [ZIMBABWE] LESABE, Thenjiwe; DOB 5 Jan 1933; Politburo Committee...

Mantle Flow Implications across Easter and Southern Africa from Shear Wave Splitting Measurements

NASA Astrophysics Data System (ADS)

Ramirez, C.; Nyblade, A.; Bagley, B. C.; Mulibo, G. D.; Tugume, F.; Wysession, M. E.; Wiens, D.; van der Meijde, M.

2015-12-01

In this study, we present new shear wave splitting results from broadband seismic stations in Botswana and Namibia, and combine them with previous results from stations in Kenya, Uganda, Tanzania, Malawi, Zambia, South Africa, Mozambique, Zimbabwe, and Angola to further examine the pattern of seismic anisotropy across southern Africa. The new results come from stations in northern Namibia and Botswana, which help to fill in large gaps in data coverage. Our preliminary results show that fast polarization directions overall trend in a NE orientation. The most noticeable measurements that deviate from this pattern are located around the Archean Tanzania Craton in eastern Africa. The general NE pattern of fast polarization directions is attributed to mantle flow linked to the African superplume. Smaller scale variations from this general direction can be explained by shape anisotropy in the lithosphere in magmatic regions in the East African rift system and to fossil anisotropy in the Precambrian lithosphere.

Self-esteem matters: racial & gender differences among rural southern adolescents.

PubMed

Hendricks, C S; Tavakoli, A; Hendricks, D L; Harter, N R; Campbell, K P; L'Ecuyer, R I; Geddings, A A; Hackett, D; Byrd, L; Mathis, D

2001-12-01

Self-esteem does matter! It matters so much that Oprah dedicated an entire issue of "O" magazine to address the subject. "It's a woman's most treasured possession" (Winfrey, 2000a). Self-esteem has a profound influence on adolescent health promotion behaviors. This study contributes to understanding the role self-esteem plays in the behavior of adolescents. Utilizing a secondary data analysis, race and gender self-esteem differences among adolescents were investigated. The sample of 1,237 students (46% African-American and 52% White) from rural southern areas consisted of 744 females and 493 males. Self-esteem was assessed using the Miller Self-esteem Questionnaire (SEQ). The Hendricks Perceptual Health Promoting Determinants Model (HPHD) provided the theoretical framework for the study. The results of the study revealed a statistically significant difference in various aspects of self-esteem according to race and gender. African-Americans and males had a higher self-esteem which is consistent with many prior studies.

Effects of meal size, clutch, and metabolism on the energy efficiencies of juvenile Burmese pythons, Python molurus.

PubMed

Cox, Christian L; Secor, Stephen M

2007-12-01

We explored meal size and clutch (i.e., genetic) effects on the relative proportion of ingested energy that is absorbed by the gut (apparent digestive efficiency), becomes available for metabolism and growth (apparent assimilation efficiency), and is used for growth (production efficiency) for juvenile Burmese pythons (Python molurus). Sibling pythons were fed rodent meals equaling 15%, 25%, and 35% of their body mass and individuals from five different clutches were fed rodent meals equaling 25% of their body mass. For each of 11-12 consecutive feeding trials, python body mass was recorded and feces and urate of each snake was collected, dried, and weighed. Energy contents of meals (mice and rats), feces, urate, and pythons were determined using bomb calorimetry. For siblings fed three different meal sizes, growth rate increased with larger meals, but there was no significant variation among the meal sizes for any of the calculated energy efficiencies. Among the three meal sizes, apparent digestive efficiency, apparent assimilation efficiency, and production efficiency averaged 91.0%, 84.7%, and 40.7%, respectively. In contrast, each of these energy efficiencies varied significantly among the five different clutches. Among these clutches production efficiency was negatively correlated with standard metabolic rate (SMR). Clutches containing individuals with low SMR were therefore able to allocate more of ingested energy into growth.

Clinical and histologic effects of intracardiac administration of propofol for induction of anesthesia in ball pythons (Python regius).

PubMed

McFadden, Michael S; Bennett, R Avery; Reavill, Drury R; Ragetly, Guillaume R; Clark-Price, Stuart C

2011-09-15

To assess the clinical differences between induction of anesthesia in ball pythons with intracardiac administration of propofol and induction with isoflurane in oxygen and to assess the histologic findings over time in hearts following intracardiac administration of propofol. Prospective randomized study. 30 hatchling ball pythons (Python regius). Anesthesia was induced with intracardiac administration of propofol (10 mg/kg [4.5 mg/lb]) in 18 ball pythons and with 5% isoflurane in oxygen in 12 ball pythons. Induction time, time of anesthesia, and recovery time were recorded. Hearts from snakes receiving intracardiac administration of propofol were evaluated histologically 3, 7, 14, 30, and 60 days following propofol administration. Induction time with intracardiac administration of propofol was significantly shorter than induction time with 5% isoflurane in oxygen. No significant differences were found in total anesthesia time. Recovery following intracardiac administration of propofol was significantly longer than recovery following induction of anesthesia with isoflurane in oxygen. Heart tissue evaluated histologically at 3, 7, and 14 days following intracardiac administration of propofol had mild inflammatory changes, and no histopathologic lesions were seen 30 and 60 days following propofol administration. Intracardiac injection of propofol in snakes is safe and provides a rapid induction of anesthesia but leads to prolonged recovery, compared with that following induction with isoflurane. Histopathologic lesions in heart tissues following intracardiac injection of propofol were mild and resolved after 14 days.

pyPaSWAS: Python-based multi-core CPU and GPU sequence alignment.

PubMed

Warris, Sven; Timal, N Roshan N; Kempenaar, Marcel; Poortinga, Arne M; van de Geest, Henri; Varbanescu, Ana L; Nap, Jan-Peter

2018-01-01

Our previously published CUDA-only application PaSWAS for Smith-Waterman (SW) sequence alignment of any type of sequence on NVIDIA-based GPUs is platform-specific and therefore adopted less than could be. The OpenCL language is supported more widely and allows use on a variety of hardware platforms. Moreover, there is a need to promote the adoption of parallel computing in bioinformatics by making its use and extension more simple through more and better application of high-level languages commonly used in bioinformatics, such as Python. The novel application pyPaSWAS presents the parallel SW sequence alignment code fully packed in Python. It is a generic SW implementation running on several hardware platforms with multi-core systems and/or GPUs that provides accurate sequence alignments that also can be inspected for alignment details. Additionally, pyPaSWAS support the affine gap penalty. Python libraries are used for automated system configuration, I/O and logging. This way, the Python environment will stimulate further extension and use of pyPaSWAS. pyPaSWAS presents an easy Python-based environment for accurate and retrievable parallel SW sequence alignments on GPUs and multi-core systems. The strategy of integrating Python with high-performance parallel compute languages to create a developer- and user-friendly environment should be considered for other computationally intensive bioinformatics algorithms.

Southern Africa: A Study of the Educational Systems of Botswana, Lesotho, South Africa, Southwest Africa/Namibia and Swaziland with an Addendum on Zimbabwe-Rhodesia: A Guide to the Academic Placement of Students in Educational Institutions of the United States.

ERIC Educational Resources Information Center

Cranmer, David J.; Woolston, Valerie A.

The educational systems of Southern African countries are described, and guidelines concerning the placement of students who wish to study in U.S. institutions are provided. Information is provided on educational levels (primary, secondary, and higher education); and types of programs (technical/vocational education, teacher training, and…

Review of the SAFARI 2000 RC-10 Aerial Photography

NASA Technical Reports Server (NTRS)

Myers, Jeff; Shelton, Gary; Annegarn, Harrold; Peterson, David L. (Technical Monitor)

2001-01-01

This presentation will review the aerial photography collected by the NASA ER-2 aircraft during the SAFARI (Southern African Regional Science Initiative) year 2000 campaign. It will include specifications on the camera and film, and will show examples of the imagery. It will also detail the extent of coverage, and the procedures to obtain film products from the South African government. Also included will be some sample applications of aerial photography for various environmental applications, and its use in augmenting other SAFARI data sets.

The Effect of China’s Scramble for Resources and African Resource Nationalism on the Supply of Strategic Southern African Minerals: What Can the United States Do?

DTIC Science & Technology

2010-01-01

strategic partnerships, national security planning (and theater security cooperation) and US Africa Command (AFRICOM) in securing long term access to...A potential constraint on the supply of strategic minerals is the lack of a US industrial policy and contingency plans in case the flow of... planning for various contingencies, particularly for the 2020s and beyond. The region contains high concentrations of platinum group metals (PGMs

Microstructure-mediated Optical Effects in Southern African Snakes

NASA Astrophysics Data System (ADS)

Singh, Ishan; Alexander, Graham

2017-03-01

The scales of the African Viper Bitis arietans were tested for optical effects. Spectral intensity was recorded at incident angles over the visible spectrum for dark, pale, and ventral scale regions. The lowest spectral intensity recordings were associated with scales which have the greatest level of micro-structuring. Our results indicate that scale appearance in B. arietans is a product of microstructure-mediated optical effects. The optical effect may play a role in improving the ecological performance of the snake in its natural environment.

Lion (Panthera leo) populations are declining rapidly across Africa, except in intensively managed areas.

PubMed

Bauer, Hans; Chapron, Guillaume; Nowell, Kristin; Henschel, Philipp; Funston, Paul; Hunter, Luke T B; Macdonald, David W; Packer, Craig

2015-12-01

We compiled all credible repeated lion surveys and present time series data for 47 lion (Panthera leo) populations. We used a Bayesian state space model to estimate growth rate-λ for each population and summed these into three regional sets to provide conservation-relevant estimates of trends since 1990. We found a striking geographical pattern: African lion populations are declining everywhere, except in four southern countries (Botswana, Namibia, South Africa, and Zimbabwe). Population models indicate a 67% chance that lions in West and Central Africa decline by one-half, while estimating a 37% chance that lions in East Africa also decline by one-half over two decades. We recommend separate regional assessments of the lion in the World Conservation Union (IUCN) Red List of Threatened Species: already recognized as critically endangered in West Africa, our analysis supports listing as regionally endangered in Central and East Africa and least concern in southern Africa. Almost all lion populations that historically exceeded ∼ 500 individuals are declining, but lion conservation is successful in southern Africa, in part because of the proliferation of reintroduced lions in small, fenced, intensively managed, and funded reserves. If management budgets for wild lands cannot keep pace with mounting levels of threat, the species may rely increasingly on these southern African areas and may no longer be a flagship species of the once vast natural ecosystems across the rest of the continent.

Variability of the extent of the Hadley circulation in the southern hemisphere: a regional perspective

NASA Astrophysics Data System (ADS)

Nguyen, H.; Hendon, H. H.; Lim, E.-P.; Boschat, G.; Maloney, E.; Timbal, B.

2018-01-01

In order to understand the regional impacts of variations in the extent of the Hadley circulation in the Southern Hemisphere, regional Hadley circulations are defined in three sectors centered on the main tropical heat sources over Africa, Asia-Pacific (Maritime Continent) and the Americas. These regional circulations are defined by computing a streamfunction from the divergent component of the meridional wind. A major finding from this study is that year-to-year variability in the extent of the hemispheric Hadley circulation in the Southern Hemisphere is primarily governed by variations of the extent of the Hadley circulation in the Asia-Pacific sector, especially during austral spring and summer when there is little co-variability with the African sector, and the American sector exhibits an out of phase behavior. An expanded Hadley circulation in the Southern Hemisphere (both hemispherically and in the Asia-Pacific sector) is associated with La Niña conditions and a poleward expansion of the tropical wet zone in the Asia-Pacific sector. While La Niña also promotes expansion in the American and African sectors during austral winter, these tropical conditions tend to promote contraction in the two sectors during austral summer as a result of compensating convergence over the Americas and Africa sectors: a process driven by variations in the Walker circulation and Rossby wave trains emanating from the tropical Indian Ocean.

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.

pyMOOGi - python wrapper for MOOG

NASA Astrophysics Data System (ADS)

Adamow, Monika M.

2017-06-01

pyMOOGi is a python wrapper for MOOG. It allows to use MOOG in a classical, interactive way, but with all graphics handled by python libraries. Some MOOG features have been redesigned, like plotting with abfind driver. Also, new funtions have been added, like automatic rescaling of stellar spectrum for synth driver. pyMOOGi is an open source project.

Short telomeres in hatchling snakes: erythrocyte telomere dynamics and longevity in tropical pythons.

PubMed

Ujvari, Beata; Madsen, Thomas

2009-10-16

Telomere length (TL) has been found to be associated with life span in birds and humans. However, other studies have demonstrated that TL does not affect survival among old humans. Furthermore, replicative senescence has been shown to be induced by changes in the protected status of the telomeres rather than the loss of TL. In the present study we explore whether age- and sex-specific telomere dynamics affect life span in a long-lived snake, the water python (Liasis fuscus). Erythrocyte TL was measured using the Telo TAGGG TL Assay Kit (Roche). In contrast to other vertebrates, TL of hatchling pythons was significantly shorter than that of older snakes. However, during their first year of life hatchling TL increased substantially. While TL of older snakes decreased with age, we did not observe any correlation between TL and age in cross-sectional sampling. In older snakes, female TL was longer than that of males. When using recapture as a proxy for survival, our results do not support that longer telomeres resulted in an increased water python survival/longevity. In fish high telomerase activity has been observed in somatic cells exhibiting high proliferation rates. Hatchling pythons show similar high somatic cell proliferation rates. Thus, the increase in TL of this group may have been caused by increased telomerase activity. In older humans female TL is longer than that of males. This has been suggested to be caused by high estrogen levels that stimulate increased telomerase activity. Thus, high estrogen levels may also have caused the longer telomeres in female pythons. The lack of correlation between TL and age among old snakes and the fact that longer telomeres did not appear to affect python survival do not support that erythrocyte telomere dynamics has a major impact on water python longevity.

Expression of venom gene homologs in diverse python tissues suggests a new model for the evolution of snake venom.

PubMed

Reyes-Velasco, Jacobo; Card, Daren C; Andrew, Audra L; Shaney, Kyle J; Adams, Richard H; Schield, Drew R; Casewell, Nicholas R; Mackessy, Stephen P; Castoe, Todd A

2015-01-01

Snake venom gene evolution has been studied intensively over the past several decades, yet most previous studies have lacked the context of complete snake genomes and the full context of gene expression across diverse snake tissues. We took a novel approach to studying snake venom evolution by leveraging the complete genome of the Burmese python, including information from tissue-specific patterns of gene expression. We identified the orthologs of snake venom genes in the python genome, and conducted detailed analysis of gene expression of these venom homologs to identify patterns that differ between snake venom gene families and all other genes. We found that venom gene homologs in the python are expressed in many different tissues outside of oral glands, which illustrates the pitfalls of using transcriptomic data alone to define "venom toxins." We hypothesize that the python may represent an ancestral state prior to major venom development, which is supported by our finding that the expansion of venom gene families is largely restricted to highly venomous caenophidian snakes. Therefore, the python provides insight into biases in which genes were recruited for snake venom systems. Python venom homologs are generally expressed at lower levels, have higher variance among tissues, and are expressed in fewer organs compared with all other python genes. We propose a model for the evolution of snake venoms in which venom genes are recruited preferentially from genes with particular expression profile characteristics, which facilitate a nearly neutral transition toward specialized venom system expression. © 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.

Unified EDGE

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

2007-06-18

UEDGE is an interactive suite of physics packages using the Python or BASIS scripting systems. The plasma is described by time-dependent 2D plasma fluid equations that include equations for density, velocity, ion temperature, electron temperature, electrostatic potential, and gas density in the edge region of a magnetic fusion energy confinement device. Slab, cylindrical, and toroidal geometries are allowed, and closed and open magnetic field-line regions are included. Classical transport is assumed along magnetic field lines, and anomalous transport is assumed across field lines. Multi-charge state impurities can be included with the corresponding line-radiation energy loss. Although UEDGE is written inmore » Fortran, for efficient execution and analysis of results, it utilizes either Python or BASIS scripting shells. Python is easily available for many platforms (http://www.Python.org/). The features and availability of BASIS are described in "Basis Manual Set" by P.F. Dubois, Z.C. Motteler, et al., Lawrence Livermore National Laboratory report UCRL-MA-1 18541, June, 2002 and http://basis.llnl.gov. BASIS has been reviewed and released by LLNL for unlimited distribution. The Python version utilizes PYBASIS scripts developed by D.P. Grote, LLNL. The Python version also uses MPPL code and MAC Perl script, available from the public-domain BASIS source above. The Forthon version of UEDGE uses the same source files, but utilizes Forthon to produce a Python-compatible source. Forthon has been developed by D.P. Grote at LBL (see http://hifweb.lbl.gov/Forthon/ and Grote et al. in the references below), and it is freely available. The graphics can be performed by any package importable to Python, such as PYGIST.« less

Python-Assisted MODFLOW Application and Code Development

NASA Astrophysics Data System (ADS)

Langevin, C.

2013-12-01

The U.S. Geological Survey (USGS) has a long history of developing and maintaining free, open-source software for hydrological investigations. The MODFLOW program is one of the most popular hydrologic simulation programs released by the USGS, and it is considered to be the most widely used groundwater flow simulation code. MODFLOW was written using a modular design and a procedural FORTRAN style, which resulted in code that could be understood, modified, and enhanced by many hydrologists. The code is fast, and because it uses standard FORTRAN it can be run on most operating systems. Most MODFLOW users rely on proprietary graphical user interfaces for constructing models and viewing model results. Some recent efforts, however, have focused on construction of MODFLOW models using open-source Python scripts. Customizable Python packages, such as FloPy (https://code.google.com/p/flopy), can be used to generate input files, read simulation results, and visualize results in two and three dimensions. Automating this sequence of steps leads to models that can be reproduced directly from original data and rediscretized in space and time. Python is also being used in the development and testing of new MODFLOW functionality. New packages and numerical formulations can be quickly prototyped and tested first with Python programs before implementation in MODFLOW. This is made possible by the flexible object-oriented design capabilities available in Python, the ability to call FORTRAN code from Python, and the ease with which linear systems of equations can be solved using SciPy, for example. Once new features are added to MODFLOW, Python can then be used to automate comprehensive regression testing and ensure reliability and accuracy of new versions prior to release.

Identification of a novel nidovirus in an outbreak of fatal respiratory disease in ball pythons (Python regius).

PubMed

Uccellini, Lorenzo; Ossiboff, Robert J; de Matos, Ricardo E C; Morrisey, James K; Petrosov, Alexandra; Navarrete-Macias, Isamara; Jain, Komal; Hicks, Allison L; Buckles, Elizabeth L; Tokarz, Rafal; McAloose, Denise; Lipkin, Walter Ian

2014-08-08

Respiratory infections are important causes of morbidity and mortality in reptiles; however, the causative agents are only infrequently identified. Pneumonia, tracheitis and esophagitis were reported in a collection of ball pythons (Python regius). Eight of 12 snakes had evidence of bacterial pneumonia. High-throughput sequencing of total extracted nucleic acids from lung, esophagus and spleen revealed a novel nidovirus. PCR indicated the presence of viral RNA in lung, trachea, esophagus, liver, and spleen. In situ hybridization confirmed the presence of intracellular, intracytoplasmic viral nucleic acids in the lungs of infected snakes. Phylogenetic analysis based on a 1,136 amino acid segment of the polyprotein suggests that this virus may represent a new species in the subfamily Torovirinae. This report of a novel nidovirus in ball pythons may provide insight into the pathogenesis of respiratory disease in this species and enhances our knowledge of the diversity of nidoviruses.

Pybus -- A Python Software Bus

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

Lavrijsen, Wim T.L.P.

2004-10-14

A software bus, just like its hardware equivalent, allows for the discovery, installation, configuration, loading, unloading, and run-time replacement of software components, as well as channeling of inter-component communication. Python, a popular open-source programming language, encourages a modular design on software written in it, but it offers little or no component functionality. However, the language and its interpreter provide sufficient hooks to implement a thin, integral layer of component support. This functionality can be presented to the developer in the form of a module, making it very easy to use. This paper describes a Pythonmodule, PyBus, with which the conceptmore » of a ''software bus'' can be realized in Python. It demonstrates, within the context of the ATLAS software framework Athena, how PyBus can be used for the installation and (run-time) configuration of software, not necessarily Python modules, from a Python application in a way that is transparent to the end-user.« less

Saccular lung cannulation in a ball python (Python regius) to treat a tracheal obstruction.

PubMed

Myers, Debbie A; Wellehan, James F X; Isaza, Ramiro

2009-03-01

An adult male ball python (Python regius) presented in a state of severe dyspnea characterized by open-mouth breathing and vertical positioning of the head and neck. The animal had copious discharge in the tracheal lumen acting as an obstruction. A tube was placed through the body wall into the caudal saccular aspect of the lung to allow the animal to breathe while treatment was initiated. The ball python's dyspnea immediately improved. Diagnostics confirmed a bacterial respiratory infection with predominantly Providencia rettgeri. The saccular lung (air sac) tube was removed after 13 days. Pulmonary endoscopy before closure showed minimal damage with a small amount of hemorrhage in the surrounding muscle tissue. Respiratory disease is a common occurrence in captive snakes and can be associated with significant morbidity and mortality. Saccular lung cannulation is a relatively simple procedure that can alleviate tracheal narrowing or obstruction, similar to air sac cannulation in birds.

Compound Specific Isotope Analysis of Fatty Acids in Southern African Aerosols

NASA Astrophysics Data System (ADS)

Billmark, K. A.; Macko, S. A.; Swap, R. J.

2003-12-01

This study, conducted as a part of the Southern African Regional Science Initiative (SAFARI 2000), applied compound specific isotope analysis to describe aerosols at source regions and rural locations. Stable carbon isotopic compositions of individual fatty acids were determined for aerosol samples collected at four sites throughout southern Africa. Mongu, Zambia and Skukuza, South Africa were chosen for their location within intense seasonal Miombo woodland savanna and bushveld savanna biomass burning source regions, respectively. Urban aerosols were collected at Johannesburg, South Africa and rural samples were collected at Sua Pan, Botswana. Fatty acid isotopic compositions varied temporally. Urban aerosols showed significant isotopic enrichment of selected short chain fatty acids (C < 20) compared to aerosols produced during biomass combustion. Sua Pan short chain fatty acid signatures were significantly different from the other non-urban sites, which suggests that sources other than biomass combustion products, such as organic eolian material, impact the Sua Pan aerosol profile. However, a high degree of correlation between Sua Pan and Skukuza long chain fatty acid δ 13C values confirm atmospheric linkages between the two areas and that isotopic signatures of combusted fatty acids are unaltered during atmospheric transport highlighting their potential for use as a conservative tracer.

Genetic and archaeological perspectives on the initial modern human colonization of southern Asia.

PubMed

Mellars, Paul; Gori, Kevin C; Carr, Martin; Soares, Pedro A; Richards, Martin B

2013-06-25

It has been argued recently that the initial dispersal of anatomically modern humans from Africa to southern Asia occurred before the volcanic "supereruption" of the Mount Toba volcano (Sumatra) at ∼74,000 y before present (B.P.)-possibly as early as 120,000 y B.P. We show here that this "pre-Toba" dispersal model is in serious conflict with both the most recent genetic evidence from both Africa and Asia and the archaeological evidence from South Asian sites. We present an alternative model based on a combination of genetic analyses and recent archaeological evidence from South Asia and Africa. These data support a coastally oriented dispersal of modern humans from eastern Africa to southern Asia ∼60-50 thousand years ago (ka). This was associated with distinctively African microlithic and "backed-segment" technologies analogous to the African "Howiesons Poort" and related technologies, together with a range of distinctively "modern" cultural and symbolic features (highly shaped bone tools, personal ornaments, abstract artistic motifs, microblade technology, etc.), similar to those that accompanied the replacement of "archaic" Neanderthal by anatomically modern human populations in other regions of western Eurasia at a broadly similar date.

Pressure flaking to serrate bifacial points for the hunt during the MIS5 at Sibudu Cave (South Africa)

PubMed Central

Lentfer, Carol; Schmid, Viola C.; Porraz, Guillaume; Conard, Nicholas J.

2017-01-01

Projectile technology is considered to appear early in the southern African Middle Stone Age (MSA) and the rich and high resolution MSA sequence of Sibudu Cave in KwaZulu-Natal has provided many new insights about the use and hafting of various projectile forms. We present the results of a functional and technological analysis on a series of unpublished serrated bifacial points recently recovered from the basal deposits of Sibudu Cave. These serrated tools, which only find equivalents in the neighbouring site of Umhlatuzana, precede the Still Bay techno-complex and are older than 77 ka BP. Independent residue and use-wear analyses were performed in a phased procedure involving two separate analysts, which allowed the engagement between two separate lines of functional evidence. Thanks to the excellent preservation at Sibudu Cave, a wide range of animal, plant and mineral residues were observed in direct relation with diagnostic wear patterns. The combination of technological, wear and residue evidence allowed us to confirm that the serration was manufactured with bone compressors and that the serrated points were mounted with a composite adhesive as the tips of projectiles used in hunting activities. The suite of technological and functional data pushes back the evidence for the use of pressure flaking during the MSA and highlights the diversity of the technical innovations adopted by southern African MSA populations. We suggest the serrated points from the stratigraphic units Adam to Darya of Sibudu illustrate one important technological adaptation of the southern African MSA and provide another example of the variability of MSA bifacial technologies. PMID:28445544

Pressure flaking to serrate bifacial points for the hunt during the MIS5 at Sibudu Cave (South Africa).

PubMed

Rots, Veerle; Lentfer, Carol; Schmid, Viola C; Porraz, Guillaume; Conard, Nicholas J

2017-01-01

Projectile technology is considered to appear early in the southern African Middle Stone Age (MSA) and the rich and high resolution MSA sequence of Sibudu Cave in KwaZulu-Natal has provided many new insights about the use and hafting of various projectile forms. We present the results of a functional and technological analysis on a series of unpublished serrated bifacial points recently recovered from the basal deposits of Sibudu Cave. These serrated tools, which only find equivalents in the neighbouring site of Umhlatuzana, precede the Still Bay techno-complex and are older than 77 ka BP. Independent residue and use-wear analyses were performed in a phased procedure involving two separate analysts, which allowed the engagement between two separate lines of functional evidence. Thanks to the excellent preservation at Sibudu Cave, a wide range of animal, plant and mineral residues were observed in direct relation with diagnostic wear patterns. The combination of technological, wear and residue evidence allowed us to confirm that the serration was manufactured with bone compressors and that the serrated points were mounted with a composite adhesive as the tips of projectiles used in hunting activities. The suite of technological and functional data pushes back the evidence for the use of pressure flaking during the MSA and highlights the diversity of the technical innovations adopted by southern African MSA populations. We suggest the serrated points from the stratigraphic units Adam to Darya of Sibudu illustrate one important technological adaptation of the southern African MSA and provide another example of the variability of MSA bifacial technologies.

TYPES OF ALBINISM IN THE BLACK SOUTHERN AFRICA POPULATION.

PubMed

Kromberg, J G R; Bothwell, J; Kidson, S H; Manga, P; Kerr, R; Jenkins, T

2012-01-01

Oculocutaneous albinism (OCA) is the most common inherited disorder in Southern African blacks and several types have been described. Molecular techniques, where available, can be used to confirm a clinical diagnosis and the type of OCA, if necessary, and for prenatal diagnosis. To investigate and classify the different types of albinism commonly found and to determine the clinical implications for each type. A descriptive survey. Gauteng province, South Africa, and Lesotho. Three groups of subjects with OCA (96 from a genetics clinic, 62 from a dermatology clinic, and 31 from community surveys) from the black African population participated. Subjects underwent clinical and/or dermatological examinations and were then classified according to type of OCA. Four forms of OCA were identified: most (82%) subjects had OCA2 (a tyrosinase- positive type) with three sub-types: those without large freckles (ephelides) on exposed areas (named OCA 2a in this study), those with such freckles (named OCA 2b), and those with brown albinism (BOCA); the remainder had red/rufous albinism, ROCA (OCA 3). The four forms could be distinguished from each other clinically without using molecular genetic testing. The most common types of albinism found in the black population of Southern Africa are OCA2 and OCA3. Given the high prevalence of the disorder, together with the high risk of skin cancer, and the recent persecution of affected individuals in certain East African countries, these findings and their clinical implications have significance in terms of both education and awareness for health professionals and lay people caring for those with albinism.

Loci associated with skin pigmentation identified in African populations

PubMed Central

Crawford, Nicholas G.; Kelly, Derek E.; Hansen, Matthew E. B.; Beltrame, Marcia H.; Fan, Shaohua; Bowman, Shanna L.; Jewett, Ethan; Ranciaro, Alessia; Thompson, Simon; Lo, Yancy; Pfeifer, Susanne P.; Jensen, Jeffrey D.; Campbell, Michael C.; Beggs, William; Hormozdiari, Farhad; Mpoloka, Sununguko Wata; Mokone, Gaonyadiwe George; Nyambo, Thomas; Meskel, Dawit Wolde; Belay, Gurja; Haut, Jake; Rothschild, Harriet; Zon, Leonard; Zhou, Yi; Kovacs, Michael A.; Xu, Mai; Zhang, Tongwu; Bishop, Kevin; Sinclair, Jason; Rivas, Cecilia; Elliot, Eugene; Choi, Jiyeon; Li, Shengchao A.; Hicks, Belynda; Burgess, Shawn; Abnet, Christian; Watkins-Chow, Dawn E.; Oceana, Elena; Song, Yun S.; Eskin, Eleazar; Brown, Kevin M.; Marks, Michael S.; Loftus, Stacie K.; Pavan, William J.; Yeager, Meredith; Chanock, Stephen; Tishkoff, Sarah

2017-01-01

Despite the wide range of skin pigmentation in humans, little is known about its genetic basis in global populations. Examining ethnically diverse African genomes, we identify variants in or near SLC24A5, MFSD12, DDB1, TMEM138, OCA2 and HERC2 that are significantly associated with skin pigmentation. Genetic evidence indicates that the light pigmentation variant at SLC24A5 was introduced into East Africa by gene flow from non-Africans. At all other loci, variants associated with dark pigmentation in Africans are identical by descent in southern Asian and Australo-Melanesian populations. Functional analyses indicate that MFSD12 encodes a lysosomal protein that affects melanogenesis in zebrafish and mice, and that mutations in melanocyte-specific regulatory regions near DDB1/TMEM138 correlate with expression of UV response genes under selection in Eurasians. PMID:29025994

Capacity building in water demand management as a key component for attaining millennium development goals

NASA Astrophysics Data System (ADS)

Gumbo, Bekithemba; Forster, Laura; Arntzen, Jaap

Successful water demand management (WDM) implementation as a component of integrated water resource management (IWRM) can play a significant role in the alleviation of poverty through more efficient use of available water resources. The urban population in Southern African cities is characterised by so-called ‘water poor’ communities who typically expend a high percentage of their household income on poor quality water. Usually they have no access to an affordable alternative source. Although WDM as a component of IWRM is not a panacea for poverty, it can help alleviate poverty by facilitating water services management by municipal water supply agencies (MWSAs) in the region. WDM is a key strategy for achieving the millennium development goals (MDGs) and, as such, should be given due attention in the preparation of national IWRM and water efficiency plans. Various studies in the Southern African region have indicated that capacity building is necessary for nations to develop IWRM and water-use efficiency plans to meet the targets set out in the MDGs. WDM education and training of water professionals and end-users is particularly important in developing countries, which are resource and information-access poor. In response to these findings, The World Conservation Union (IUCN) and its consulting partners, the Training and Instructional Design Academy of South Africa (TIDASA), and Centre for Applied Research (CAR) designed, developed and presented a pilot WDM Guideline Training Module for MWSAs as part of Phase II of IUCN’s Southern Africa regional WDM project. Pilot training was conducted in July 2004 in Lusaka, Zambia for a group of 36 participants involved in municipal water supply from nine Southern African countries. This paper looks at the links between building the capacity of professionals, operational staff and other role-players in the municipal water supply chain to implement WDM as part of broader IWRM strategies, and the subsequent potential for poverty relief resulting from more effective, efficient and equitable use and allocation of municipal water supplies.

Analyzing rasters, vectors and time series using new Python interfaces in GRASS GIS 7

NASA Astrophysics Data System (ADS)

Petras, Vaclav; Petrasova, Anna; Chemin, Yann; Zambelli, Pietro; Landa, Martin; Gebbert, Sören; Neteler, Markus; Löwe, Peter

2015-04-01

GRASS GIS 7 is a free and open source GIS software developed and used by many scientists (Neteler et al., 2012). While some users of GRASS GIS prefer its graphical user interface, significant part of the scientific community takes advantage of various scripting and programing interfaces offered by GRASS GIS to develop new models and algorithms. Here we will present different interfaces added to GRASS GIS 7 and available in Python, a popular programming language and environment in geosciences. These Python interfaces are designed to satisfy the needs of scientists and programmers under various circumstances. PyGRASS (Zambelli et al., 2013) is a new object-oriented interface to GRASS GIS modules and libraries. The GRASS GIS libraries are implemented in C to ensure maximum performance and the PyGRASS interface provides an intuitive, pythonic access to their functionality. GRASS GIS Python scripting library is another way of accessing GRASS GIS modules. It combines the simplicity of Bash and the efficiency of the Python syntax. When full access to all low-level and advanced functions and structures from GRASS GIS library is required, Python programmers can use an interface based on the Python ctypes package. Ctypes interface provides complete, direct access to all functionality as it would be available to C programmers. GRASS GIS provides specialized Python library for managing and analyzing spatio-temporal data (Gebbert and Pebesma, 2014). The temporal library introduces space time datasets representing time series of raster, 3D raster or vector maps and allows users to combine various spatio-temporal operations including queries, aggregation, sampling or the analysis of spatio-temporal topology. We will also discuss the advantages of implementing scientific algorithm as a GRASS GIS module and we will show how to write such module in Python. To facilitate the development of the module, GRASS GIS provides a Python library for testing (Petras and Gebbert, 2014) which helps researchers to ensure the robustness of the algorithm, correctness of the results in edge cases as well as the detection of changes in results due to new development. For all modules GRASS GIS automatically creates standardized command line and graphical user interfaces and documentation. Finally, we will show how GRASS GIS can be used together with powerful Python tools such as the NumPy package and the IPython Notebook. References: Gebbert, S., Pebesma, E., 2014. A temporal GIS for field based environmental modeling. Environmental Modelling & Software 53, 1-12. Neteler, M., Bowman, M.H., Landa, M. and Metz, M., 2012. GRASS GIS: a multi-purpose Open Source GIS. Environmental Modelling & Software 31: 124-130. Petras, V., Gebbert, S., 2014. Testing framework for GRASS GIS: ensuring reproducibility of scientific geospatial computing. Poster presented at: AGU Fall Meeting, December 15-19, 2014, San Francisco, USA. Zambelli, P., Gebbert, S., Ciolli, M., 2013. Pygrass: An Object Oriented Python Application Programming Interface (API) for Geographic Resources Analysis Support System (GRASS) Geographic Information System (GIS). ISPRS International Journal of Geo-Information 2, 201-219.

Python based high-level synthesis compiler

NASA Astrophysics Data System (ADS)

Cieszewski, Radosław; Pozniak, Krzysztof; Romaniuk, Ryszard

2014-11-01

This paper presents a python based High-Level synthesis (HLS) compiler. The compiler interprets an algorithmic description of a desired behavior written in Python and map it to VHDL. FPGA combines many benefits of both software and ASIC implementations. Like software, the mapped circuit is flexible, and can be reconfigured over the lifetime of the system. FPGAs therefore have the potential to achieve far greater performance than software as a result of bypassing the fetch-decode-execute operations of traditional processors, and possibly exploiting a greater level of parallelism. Creating parallel programs implemented in FPGAs is not trivial. This article describes design, implementation and first results of created Python based compiler.

Implementation of quantum game theory simulations using Python

NASA Astrophysics Data System (ADS)

Madrid S., A.

2013-05-01

This paper provides some examples about quantum games simulated in Python's programming language. The quantum games have been developed with the Sympy Python library, which permits solving quantum problems in a symbolic form. The application of these methods of quantum mechanics to game theory gives us more possibility to achieve results not possible before. To illustrate the results of these methods, in particular, there have been simulated the quantum battle of the sexes, the prisoner's dilemma and card games. These solutions are able to exceed the classic bottle neck and obtain optimal quantum strategies. In this form, python demonstrated that is possible to do more advanced and complicated quantum games algorithms.

Subspectacular nematodiasis caused by a novel Serpentirhabdias species in ball pythons (Python regius).

PubMed

Hausmann, J C; Mans, C; Dreyfus, J; Reavill, D R; Lucio-Forster, A; Bowman, D D

2015-01-01

Subspectacular nematodiasis was diagnosed in three captive-bred juvenile ball pythons (Python regius) from two unrelated facilities within a 6-month period. The snakes were presented with similar lesions, including swelling of facial, periocular and oral tissues. Bilaterally, the subspectacular spaces were distended and filled with an opaque fluid, which contained nematodes and eggs. Histopathology showed nematodes throughout the periocular tissue, subspectacular space and subcutaneous tissue of the head. The nematodes from both facilities were morphologically indistinguishable and most closely resembled Serpentirhabdias species. Morphological characterization and genetic sequencing indicate this is a previously undescribed rhabdiasid nematode. Copyright © 2014 Elsevier Ltd. All rights reserved.

Amebiasis in four ball pythons, Python reginus.

PubMed

Kojimoto, A; Uchida, K; Horii, Y; Okumura, S; Yamaguch, R; Tateyama, S

2001-12-01

Between September 13th and November 18th in 1999, four ball pythons, Python reginus kept in the same display, showed anorexia and died one after another. At necropsy, all four snakes had severe hemorrhagic colitis. Microscopically, all snakes had severe necrotizing hemorrhagic colitis, in association with ameba-like protozoa. Some of the protozoa had macrophage-like morphology and others formed protozoal cysts with thickened walls. These protozoa were distributed throughout the wall in the large intestine. Based on the pathological findings, these snakes were infested with a member of Entamoeba sp., presumably with infection by Entamoeba invadens, the most prevalent type of reptilian amoebae.

pyOpenMS: a Python-based interface to the OpenMS mass-spectrometry algorithm library.

PubMed

Röst, Hannes L; Schmitt, Uwe; Aebersold, Ruedi; Malmström, Lars

2014-01-01

pyOpenMS is an open-source, Python-based interface to the C++ OpenMS library, providing facile access to a feature-rich, open-source algorithm library for MS-based proteomics analysis. It contains Python bindings that allow raw access to the data structures and algorithms implemented in OpenMS, specifically those for file access (mzXML, mzML, TraML, mzIdentML among others), basic signal processing (smoothing, filtering, de-isotoping, and peak-picking) and complex data analysis (including label-free, SILAC, iTRAQ, and SWATH analysis tools). pyOpenMS thus allows fast prototyping and efficient workflow development in a fully interactive manner (using the interactive Python interpreter) and is also ideally suited for researchers not proficient in C++. In addition, our code to wrap a complex C++ library is completely open-source, allowing other projects to create similar bindings with ease. The pyOpenMS framework is freely available at https://pypi.python.org/pypi/pyopenms while the autowrap tool to create Cython code automatically is available at https://pypi.python.org/pypi/autowrap (both released under the 3-clause BSD licence). © 2014 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

A Python library for FAIRer access and deposition to the Metabolomics Workbench Data Repository.

PubMed

Smelter, Andrey; Moseley, Hunter N B

2018-01-01

The Metabolomics Workbench Data Repository is a public repository of mass spectrometry and nuclear magnetic resonance data and metadata derived from a wide variety of metabolomics studies. The data and metadata for each study is deposited, stored, and accessed via files in the domain-specific 'mwTab' flat file format. In order to improve the accessibility, reusability, and interoperability of the data and metadata stored in 'mwTab' formatted files, we implemented a Python library and package. This Python package, named 'mwtab', is a parser for the domain-specific 'mwTab' flat file format, which provides facilities for reading, accessing, and writing 'mwTab' formatted files. Furthermore, the package provides facilities to validate both the format and required metadata elements of a given 'mwTab' formatted file. In order to develop the 'mwtab' package we used the official 'mwTab' format specification. We used Git version control along with Python unit-testing framework as well as continuous integration service to run those tests on multiple versions of Python. Package documentation was developed using sphinx documentation generator. The 'mwtab' package provides both Python programmatic library interfaces and command-line interfaces for reading, writing, and validating 'mwTab' formatted files. Data and associated metadata are stored within Python dictionary- and list-based data structures, enabling straightforward, 'pythonic' access and manipulation of data and metadata. Also, the package provides facilities to convert 'mwTab' files into a JSON formatted equivalent, enabling easy reusability of the data by all modern programming languages that implement JSON parsers. The 'mwtab' package implements its metadata validation functionality based on a pre-defined JSON schema that can be easily specialized for specific types of metabolomics studies. The library also provides a command-line interface for interconversion between 'mwTab' and JSONized formats in raw text and a variety of compressed binary file formats. The 'mwtab' package is an easy-to-use Python package that provides FAIRer utilization of the Metabolomics Workbench Data Repository. The source code is freely available on GitHub and via the Python Package Index. Documentation includes a 'User Guide', 'Tutorial', and 'API Reference'. The GitHub repository also provides 'mwtab' package unit-tests via a continuous integration service.

CYP2A6 reduced activity gene variants confer reduction in lung cancer risk in African American smokers—findings from two independent populations

PubMed Central

Wassenaar, Catherine A.; Ye, Yuanqing; Cai, Qiuyin; Aldrich, Melinda C.; Knight, Joanne; Spitz, Margaret R.; Wu, Xifeng; Blot, William J.; Tyndale, Rachel F.

2015-01-01

We investigated genetic variation in CYP2A6 in relation to lung cancer risk among African American smokers, a high-risk population. Previously, we found that CYP2A6, a nicotine/nitrosamine metabolism gene, was associated with lung cancer risk in European Americans, but smoking habits, lung cancer risk and CYP2A6 gene variants differ significantly between European and African ancestry populations. Herein, African American ever-smokers, drawn from two independent lung cancer case–control studies, were genotyped for reduced activity CYP2A6 alleles and grouped by predicted metabolic activity. Lung cancer risk in the Southern Community Cohort Study (n = 494) was lower among CYP2A6 reduced versus normal metabolizers, as estimated by multivariate conditional logistic regression [odds ratio (OR) = 0.44; 95% confidence interval (CI) = 0.26–0.73] and by unconditional logistic regression (OR = 0.62; 95% CI = 0.41–0.94). The association was replicated in an independent study from MD Anderson Cancer Center (n = 407) (OR = 0.64; 95% CI = 0.42–0.98), and pooling the studies yielded an OR of 0.64 (95% CI = 0.48–0.86). Exploratory analyses revealed a significant interaction between CYP2A6 genotype and sex on the risk for lung cancer (Southern Community Cohort Study: P = 0.04; MD Anderson: P = 0.03; Pooled studies: P = 0.002) with a CYP2A6 effect in men only. These findings support a contribution of genetic variation in CYP2A6 to lung cancer risk among African American smokers, particularly men, whereby CYP2A6 genotypes associated with reduced metabolic activity confer a lower risk of developing lung cancer. PMID:25416559

Africans and the myth of rural retirement in South Africa, ca 1900-1950.

PubMed

MacKinnon, Aran S

2008-06-01

The South African mining industry relied upon a massive African migrant workforce from the rural areas. Rural transformations in this migrant labor system form an important part of the story of developing capitalism in industrializing South Africa. Yet, recent historical studies on southern African migrant and rural wage labor have paid little attention to life adjustments made by the elderly and those 'burned out' by the mines and forced to leave formal wage employment in the urban areas. The South African segregationist state's rhetoric implied that 'retired' Africans could find economic security in their designated rural reserves. Indeed, legislation sought to prohibit Africans who were not employed from remaining in the 'white' urban areas. By the 1930s, however, the reserves were rapidly deteriorating. Many elderly Africans could not retire and were forced to seek wage labor. This raises significant questions about how retirement came to be defined and experienced by Africans in South Africa during a critical period of dramatic economic decline in the 1930s and 40s, and what the underlying material circumstances of African South Africans were with regard to adaptations to employment and ageing-related life changes. In many cases, elderly Africans were forced to forgo retirement, and find wage labor, usually in the most poorly paid, least sought-after or dangerous fields of employment. This article thus seeks to illuminate critical generational dimensions of the impact of segregation and racism in South Africa prior to the formal articulation of Apartheid.

[The fight against rabies in Africa: from recognition to action].

PubMed

Dodet, B; Adjogoua, E V; Aguemon, A-R; Baba, B A; Bara Adda, S; Boumandouki, P; Bourhy, H; Brahimi, M; Briggs, D; Diallo, M K; Diarra, L; Diop, B; Diop, S A G; Fesriry, B; Gosseye, S; Kharmachi, H; Le Roux, K; Nakoune Yandoko, E; Nel, L; Ngome, J-M; Nzengue, E; Ramahefalalao, E F; Ratsitorahina, M; Rich, H; Simpore, L; Soufi, A; Tejiokem, M C; Thiombiano, R; Tiembre, I; Traore, A K; Wateba, M I; Yahaye, H; Zaouia, I

2010-02-01

As a follow-up to the first AfroREB (Africa Rabies Expert Bureau) meeting, held in Grand-Bassam (Côte-d'Ivoire) in March 2008, African rabies experts of the Afro-REB network met a second time to complete the evaluation of the rabies situation in Africa and define specific action plans. About forty French speaking rabies specialists from Northern, Western and Central Africa and Madagascar met in Dakar (Senegal), from March 16th to 19th, 2009. With the participation of delegates from Tunisia, who joined the AfroREB network this year, 15 French speaking African countries were represented. Experts from the Institut Pasteur in Paris, the Alliance for Rabies Control, and the Southern and Eastern African Rabies Group (SEARG, a network of rabies experts from 19 English speaking Southern and Eastern African countries) were in attendance, to participate in the discussion and share their experiences. AfroREB members documented 146 known human rabies cases in all represented countries combined for 2008, for a total population of 209.3 million, or an incidence of 0.07 cases per 100,000 people. Even admitting that the experts do not have access to all reported cases, this is far from the WHO estimation of 2 rabies deaths per 100,000 people in urban areas and 3.6 per 100,000 in rural Africa. It was unanimously agreed that the priority is to break the vicious cycle of indifference and lack of information which is the main barrier to human rabies prevention.

First Spectroscopic Solutions of Two Southern Eclipsing Binaries: HO Tel and QY Tel

NASA Astrophysics Data System (ADS)

Sürgit, D.; Erdem, A.; Engelbrecht, C. A.; van Heerden, P.; Manick, R.

2015-07-01

We present preliminary results from the analysis of spectroscopic observations of two southern eclipsing binary stars, HO Tel and QY Tel. The grating spectra of these two systems were obtained at the Sutherland Station of the South African Astronomical Observatory in 2013. Radial velocities of the components were determined by the Fourier disentangling technique. Keplerian radial velocity models of HO Tel and QY Tel give their mass ratio as 0.921±0.005 and 1.089±0.007, respectively.

Pharmacokinetics of a long-acting ceftiofur formulation (ceftiofur crystalline free acid) in the ball python (Python regius).

PubMed

Adkesson, Michael J; Fernandez-Varon, Emilio; Cox, Sherry; Martín-Jiménez, Tomás

2011-09-01

The objective of this study was to determine the pharmacokinetics of a long-acting formulation of ceftiofur crystalline-free acid (CCFA) following intramuscular injection in ball pythons (Python regius). Six adult ball pythons received an injection of CCFA (15 mg/kg) in the epaxial muscles. Blood samples were collected by cardiocentesis immediately prior to and at 0.5, 1, 2, 4, 8, 12, 18, 24, 48, 72, 96, 144, 192, 240, 288, 384, 480, 576, 720, and 864 hr after CCFA administration. Plasma ceftiofur concentrations were determined by high-performance liquid chromatography. A noncompartmental pharmacokinetic analysis was applied to the data. Maximum plasma concentration (Cmax) was 7.096 +/- 1.95 microg/ml and occurred at (Tmax) 2.17 +/- 0.98 hr. The area under the curve (0 to infinity) for ceftiofur was 74.59 +/- 13.05 microg x h/ml and the elimination half-life associated with the terminal slope of the concentration-time curve was 64.31 +/- 14.2 hr. Mean residence time (0 to infinity) was 46.85 +/- 13.53 hr. CCFA at 15 mg/kg was well tolerated in all the pythons. Minimum inhibitory concentration (MIC) data for bacterial isolates from snakes are not well established. For MIC values of < or =0.1 microg/ml, a single dose of CCFA (15 mg/kg) provides adequate plasma concentrations for at least 5 days in the ball python. For MICs > or =0.5 microg/ml, more frequent dosing or a higher dosage may be required.

Development of a technique for contrast radiographic examination of the gastrointestinal tract in ball pythons (Python regius).

PubMed

Banzato, Tommaso; Russo, Elisa; Finotti, Luca; Zotti, Alessandro

2012-07-01

To develop a technique for radiographic evaluation of the gastrointestinal tract in ball pythons (Python regius). 10 ball python cadavers (5 males and 5 females) and 18 healthy adult ball pythons (10 males and 8 females). Live snakes were allocated to 3 groups (A, B, and C). A dose (25 mL/kg) of barium sulfate suspension at 3 concentrations (25%, 35%, and 45% [wt/vol]) was administered through an esophageal probe to snakes in groups A, B, and C, respectively. Each evaluation ended when all the contrast medium had reached the large intestine. Transit times through the esophagus, stomach, and small intestine were recorded. Imaging quality was evaluated by 3 investigators who assigned a grading score on the basis of predetermined criteria. Statistical analysis was conducted to evaluate differences in quality among the study groups. The esophagus and stomach had a consistent distribution pattern of contrast medium, whereas 3 distribution patterns of contrast medium were identified in the small intestine, regardless of barium concentration. Significant differences in imaging quality were detected among the 3 groups. Radiographic procedures were tolerated well by all snakes. The 35% concentration of contrast medium yielded the best imaging quality. Use of contrast medium for evaluation of the cranial portion of the gastrointestinal tract could be a reliable technique for the diagnosis of gastrointestinal diseases in ball pythons. However, results of this study may not translate to other snake species because of variables identified in this group of snakes.

Anatomy of the python heart.

PubMed

Jensen, Bjarke; Nyengaard, Jens R; Pedersen, Michael; Wang, Tobias

2010-12-01

The hearts of all snakes and lizards consist of two atria and a single incompletely divided ventricle. In general, the squamate ventricle is subdivided into three chambers: cavum arteriosum (left), cavum venosum (medial) and cavum pulmonale (right). Although a similar division also applies to the heart of pythons, this family of snakes is unique amongst snakes in having intracardiac pressure separation. Here we provide a detailed anatomical description of the cardiac structures that confer this functional division. We measured the masses and volumes of the ventricular chambers, and we describe the gross morphology based on dissections of the heart from 13 ball pythons (Python regius) and one Burmese python (P. molurus). The cavum venosum is much reduced in pythons and constitutes approximately 10% of the cavum arteriosum. We suggest that shunts will always be less than 20%, while other studies conclude up to 50%. The high-pressure cavum arteriosum accounted for approximately 75% of the total ventricular mass, and was twice as dense as the low-pressure cavum pulmonale. The reptile ventricle has a core of spongious myocardium, but the three ventricular septa that separate the pulmonary and systemic chambers--the muscular ridge, the bulbuslamelle and the vertical septum--all had layers of compact myocardium. Pythons, however, have unique pads of connective tissue on the site of pressure separation. Because the hearts of varanid lizards, which also are endowed with pressure separation, share many of these morphological specializations, we propose that intraventricular compact myocardium is an indicator of high-pressure systems and possibly pressure separation.

Large reptiles and cold temperatures: Do extreme cold spells set distributional limits for tropical reptiles in Florida?

USGS Publications Warehouse

Mazzotti, Frank J.; Cherkiss, Michael S.; Parry, Mark; Beauchamp, Jeff; Rochford, Mike; Smith, Brian J.; Hart, Kristen M.; Brandt, Laura A.

2016-01-01

Distributional limits of many tropical species in Florida are ultimately determined by tolerance to low temperature. An unprecedented cold spell during 2–11 January 2010, in South Florida provided an opportunity to compare the responses of tropical American crocodiles with warm-temperate American alligators and to compare the responses of nonnative Burmese pythons with native warm-temperate snakes exposed to prolonged cold temperatures. After the January 2010 cold spell, a record number of American crocodiles (n = 151) and Burmese pythons (n = 36) were found dead. In contrast, no American alligators and no native snakes were found dead. American alligators and American crocodiles behaved differently during the cold spell. American alligators stopped basking and retreated to warmer water. American crocodiles apparently continued to bask during extreme cold temperatures resulting in lethal body temperatures. The mortality of Burmese pythons compared to the absence of mortality for native snakes suggests that the current population of Burmese pythons in the Everglades is less tolerant of cold temperatures than native snakes. Burmese pythons introduced from other parts of their native range may be more tolerant of cold temperatures. We documented the direct effects of cold temperatures on crocodiles and pythons; however, evidence of long-term effects of cold temperature on their populations within their established ranges remains lacking. Mortality of crocodiles and pythons outside of their current established range may be more important in setting distributional limits.

The roles of spirituality in the relationship between traumatic life events, mental health, and drug use among African American women

PubMed Central

Staton-Tindall, Michele; Duvall, Jamieson; Stevens-Watkins, Danelle; Oser, Carrie B.

2013-01-01

This study examines the role of spirituality as a moderator of the relationship between traumatic life experiences, mental health, and drug use in a sample of African American women. It was hypothesized that there would be an inverse relationship overall between spirituality and mental health and drug use among this sample of African American women. Secondly, was expected that spirituality would moderate the relationship between traumatic life events and mental health and drug use. African American women (n=206) were recruited from the community and from probation officers in three urban areas of a southern state, and face-to-face interviews were completed. Findings indicated that there was a main effect for spirituality (as measured by existential well-being on the Spiritual Well-Being Scale) and traumatic life events, mental health, and alcohol use. In addition, spirituality was a significant moderator of the relationship between traumatic life events and cocaine use. Discussion and implications for African American women are included. PMID:24041186

Temporal pattern of africanization in a feral honeybee population from Texas inferred from mitochondrial DNA.

PubMed

Pinto, M Alice; Rubink, William L; Coulson, Robert N; Patton, John C; Johnston, J Spencer

2004-05-01

The invasion of Africanized honeybees (Apis mellifera L.) in the Americas provides a window of opportunity to study the dynamics of secondary contact of subspecies of bees that evolved in allopatry in ecologically distinctive habitats of the Old World. We report here the results of an 11-year mitochondrial DNA survey of a feral honeybee population from southern United States (Texas). The mitochondrial haplotype (mitotype) frequencies changed radically during the 11-year study period. Prior to immigration of Africanized honeybees, the resident population was essentially of eastern and western European maternal ancestry. Three years after detection of the first Africanized swarm there was a mitotype turnover in the population from predominantly eastern European to predominantly A. m. scutellata (ancestor of Africanized honeybees). This remarkable change in the mitotype composition coincided with arrival of the parasitic mite Varroa destructor, which was likely responsible for severe losses experienced by colonies of European ancestry. From 1997 onward the population stabilized with most colonies of A. m. scutellata maternal origin.

Stranger to friend enabler: creating a community of caring in African American research using ethnonursing methods.

PubMed

Plowden, K O; Wenger, A F

2001-01-01

African Americans are facing a serious health crisis. They are disproportionately affected by most chronic illnesses. The disparity among ethic groups as it relates to health and illness is related to psychosocial and biological factors within the African American culture. Many African Americans are sometimes reluctant to participate in studies. This article discusses the process of creating a caring community when conducting research within an African American community based on the experience of the authors with two faith communities in a southern metropolitan area in the United States. The process is identified as unknowing, reflection, presence, and knowing. The process is based on Leininger's theory of culture care diversity and universality and her stranger to friend enabler. When the theory and method are used, the investigator moves from a stranger within the community to a trusted friend and begins to collect rich and valuable data for analysis from the informants' point of view.

Developing a Conceptual Architecture for a Generalized Agent-based Modeling Environment (GAME)

DTIC Science & Technology

2008-03-01

4. REPAST (Java, Python , C#, Open Source) ........28 5. MASON: Multi-Agent Modeling Language (Swarm Extension... Python , C#, Open Source) Repast (Recursive Porous Agent Simulation Toolkit) was designed for building agent-based models and simulations in the...Repast makes it easy for inexperienced users to build models by including a built-in simple model and provide interfaces through which menus and Python

Charming Users into Scripting CIAO with Python

NASA Astrophysics Data System (ADS)

Burke, D. J.

2011-07-01

The Science Data Systems group of the Chandra X-ray Center provides a number of scripts and Python modules that extend the capabilities of CIAO. Experience in converting the existing scripts—written in a variety of languages such as bash, csh/tcsh, Perl and S-Lang—to Python, and conversations with users, led to the development of the ciao_contrib.runtool module. This allows users to easily run CIAO tools from Python scripts, and utilizes the metadata provided by the parameter-file system to create an API that provides the flexibility and safety guarantees of the command-line. The module is provided to the user community and is being used within our group to create new scripts.

Geoconservation - a southern African and African perspective

NASA Astrophysics Data System (ADS)

Reimold, Wolf Uwe

1999-10-01

In contrast to Europe, where geoconservation is actively pursued in most countries and where two international symposia on this subject have been staged in 1991 and 1996, geoconservation in Africa has indeed a very poor record. Considering the wealth of outstanding geological sites and the importance African stratigraphy has within the global geological record, pro-active geoconservation on this continent has not featured very prominently to date. In the interest of science, education and tourism, unique and typical geosites need to be identified, catalogued, and prioritised with the aim being their protection. Most African countries do not have vibrant non-governmental organisations such as a strong geological society, which could drive projects like geoconservation, or strong support from the private sector for environmental work. Here, a case is made for the role that established National Geological Surveys, some of which are already involved with retroactive environmental geological work, could play in the forefront of pro-active geoconservation and site protection.

Exploring barriers to organ donation in the African-American communities of California.

PubMed

Law, Debra R; McNiesh, Susan

2012-07-01

There are a disproportionate number of African-Americans on transplant waiting lists across the country. The outcomes of a transplant are greatly improved when the donor and the recipient are from the same ethnic group. Sadly, the demand for cadaver organs in the African-American community exceeds the supply. Researchers in the past have sought to identify barriers to organ and tissue donation. To date, the studies have been conducted in the eastern and southern regions of the United States. This study examines whether the previously identified barriers are applicable in the African-American communities of California. A revised version of the Bone Marrow Donation Intention Tool was administered both in person and online. A t-test was used for analysis. The findings revealed statistically significant agreement/disagreement statements. These statements indicated that the barriers to organ donation from other areas of the United States were not representative of the respondents on the west coast.

High level of mislabeling in Spanish and Greek hake markets suggests the fraudulent introduction of African species.

PubMed

Garcia-Vazquez, Eva; Perez, Juliana; Martinez, Jose L; Pardiñas, Antonio F; Lopez, Belen; Karaiskou, Nikoletta; Casa, Mary F; Machado-Schiaffino, Gonzalo; Triantafyllidis, Alexander

2011-01-26

DNA analysis of hake products commercialized in southern European (Spanish and Greek) market chains have demonstrated more than 30% mislabeling, on the basis of species substitution. Tails and fillets were more mislabeled than other products, such as slices and whole pieces. African species were substitute species for products labeled as American and European species, and we suggest it is a case of deliberate economically profitable mislabeling because real market prices of European and American hake products are higher than those of African in Spanish market chains. The presented results suggest fraud detection that disadvantages African producers. Government-mandated genetic surveys of commercial hakes and the use of subsequent statements of fair trade on labels of seafood products could help to reduce fraud levels in a global market of increasingly conscious consumers sensitive to ethical issues.

PYCHEM: a multivariate analysis package for python.

PubMed

Jarvis, Roger M; Broadhurst, David; Johnson, Helen; O'Boyle, Noel M; Goodacre, Royston

2006-10-15

We have implemented a multivariate statistical analysis toolbox, with an optional standalone graphical user interface (GUI), using the Python scripting language. This is a free and open source project that addresses the need for a multivariate analysis toolbox in Python. Although the functionality provided does not cover the full range of multivariate tools that are available, it has a broad complement of methods that are widely used in the biological sciences. In contrast to tools like MATLAB, PyChem 2.0.0 is easily accessible and free, allows for rapid extension using a range of Python modules and is part of the growing amount of complementary and interoperable scientific software in Python based upon SciPy. One of the attractions of PyChem is that it is an open source project and so there is an opportunity, through collaboration, to increase the scope of the software and to continually evolve a user-friendly platform that has applicability across a wide range of analytical and post-genomic disciplines. http://sourceforge.net/projects/pychem

PCSIM: A Parallel Simulation Environment for Neural Circuits Fully Integrated with Python

PubMed Central

Pecevski, Dejan; Natschläger, Thomas; Schuch, Klaus

2008-01-01

The Parallel Circuit SIMulator (PCSIM) is a software package for simulation of neural circuits. It is primarily designed for distributed simulation of large scale networks of spiking point neurons. Although its computational core is written in C++, PCSIM's primary interface is implemented in the Python programming language, which is a powerful programming environment and allows the user to easily integrate the neural circuit simulator with data analysis and visualization tools to manage the full neural modeling life cycle. The main focus of this paper is to describe PCSIM's full integration into Python and the benefits thereof. In particular we will investigate how the automatically generated bidirectional interface and PCSIM's object-oriented modular framework enable the user to adopt a hybrid modeling approach: using and extending PCSIM's functionality either employing pure Python or C++ and thus combining the advantages of both worlds. Furthermore, we describe several supplementary PCSIM packages written in pure Python and tailored towards setting up and analyzing neural simulations. PMID:19543450

Imagining a Stata / Python Combination

NASA Technical Reports Server (NTRS)

Fiedler, James

2012-01-01

There are occasions when a task is difficult in Stata, but fairly easy in a more general programming language. Python is a popular language for a range of uses. It is easy to use, has many high ]quality packages, and programs can be written relatively quickly. Is there any advantage in combining Stata and Python within a single interface? Stata already offers support for user-written programs, which allow extensive control over calculations, but somewhat less control over graphics. Also, except for specifying output, the user has minimal programmatic control over the user interface. Python can be used in a way that allows more control over the interface and graphics, and in so doing provide a roundabout method for satisfying some user requests (e.g., transparency levels in graphics and the ability to clear the results window). My talk will explore these ideas, present a possible method for combining Stata and Python, and give examples to demonstrate how this combination might be useful.

Status of parallel Python-based implementation of UEDGE

NASA Astrophysics Data System (ADS)

Umansky, M. V.; Pankin, A. Y.; Rognlien, T. D.; Dimits, A. M.; Friedman, A.; Joseph, I.

2017-10-01

The tokamak edge transport code UEDGE has long used the code-development and run-time framework Basis. However, with the support for Basis expected to terminate in the coming years, and with the advent of the modern numerical language Python, it has become desirable to move UEDGE to Python, to ensure its long-term viability. Our new Python-based UEDGE implementation takes advantage of the portable build system developed for FACETS. The new implementation gives access to Python's graphical libraries and numerical packages for pre- and post-processing, and support of HDF5 simplifies exchanging data. The older serial version of UEDGE has used for time-stepping the Newton-Krylov solver NKSOL. The renovated implementation uses backward Euler discretization with nonlinear solvers from PETSc, which has the promise to significantly improve the UEDGE parallel performance. We will report on assessment of some of the extended UEDGE capabilities emerging in the new implementation, and will discuss the future directions. Work performed for U.S. DOE by LLNL under contract DE-AC52-07NA27344.

PyMercury: Interactive Python for the Mercury Monte Carlo Particle Transport Code

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

Iandola, F N; O'Brien, M J; Procassini, R J

2010-11-29

Monte Carlo particle transport applications are often written in low-level languages (C/C++) for optimal performance on clusters and supercomputers. However, this development approach often sacrifices straightforward usability and testing in the interest of fast application performance. To improve usability, some high-performance computing applications employ mixed-language programming with high-level and low-level languages. In this study, we consider the benefits of incorporating an interactive Python interface into a Monte Carlo application. With PyMercury, a new Python extension to the Mercury general-purpose Monte Carlo particle transport code, we improve application usability without diminishing performance. In two case studies, we illustrate how PyMercury improvesmore » usability and simplifies testing and validation in a Monte Carlo application. In short, PyMercury demonstrates the value of interactive Python for Monte Carlo particle transport applications. In the future, we expect interactive Python to play an increasingly significant role in Monte Carlo usage and testing.« less

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

Veseli, S.

As the number of sites deploying and adopting EPICS Version 4 grows, so does the need to support PV Access from multiple languages. Especially important are the widely used scripting languages that tend to reduce both software development time and the learning curve for new users. In this paper we describe PvaPy, a Python API for the EPICS PV Access protocol and its accompanying structured data API. Rather than implementing the protocol itself in Python, PvaPy wraps the existing EPICS Version 4 C++ libraries using the Boost.Python framework. This approach allows us to benefit from the existing code base andmore » functionality, and to significantly reduce the Python API development effort. PvaPy objects are based on Python dictionaries and provide users with the ability to access even the most complex of PV Data structures in a relatively straightforward way. Its interfaces are easy to use, and include support for advanced EPICS Version 4 features such as implementation of client and server Remote Procedure Calls (RPC).« less

An Overview of SASSCAL Activities Supporting Interdisciplinary Water Research in Southern Africa

NASA Astrophysics Data System (ADS)

Helmschrot, J.; Jürgens, N.

2013-12-01

Climate change will affect current water resources in sub-Saharan Africa. Considering projected climate scenarios, the overall challenge in the southern African region is to secure water at sufficient quality and quantity for both, the stability of ecosystems with their functions and services as well as for human well-being (potable water, irrigation water, and water for industrial use). Thus, improved understanding of the linkages between hydrological (including hydro-geological) components of ecosystems and society is needed as a precondition to develop sustainable management strategies for integrated water resources management in this data scarce region. Funded by the German Ministry of Education and Research (BMBF), 87 research projects of the SASSCAL Initiative (Southern African Science Service Centre for Climate Change and Adaptive Land Management) focus on providing information and services allowing for a better understanding and assessment of the impact of climate and land management changes in five thematic areas, namely climate, water, agriculture, forestry and biodiversity. Water-related research activities in SASSCAL aim to improve our knowledge on the complex interactions and feedbacks between surface and groundwater dynamics and resources as well as land surface processes in selected regions of the participating countries (Angola, Botswana, Namibia, South Africa and Zambia). The main objective of this joint and integrated research effort is to develop reliable hydrological and hydro-geological baseline data along with a set of analytical methods to strengthen the research capacity of the water sector of the Southern African region. Thereby, SASSCAL contributes to the implemention of integrated water resources management strategies for improved trans-boundary river management and resources usage in the perspective of global climate and land management changes. Here, we present an overview and first results of ongoing studies conducted by various SASSCAL research teams. Specifically addressed is the installation of 30 Automatic Weather Stations in Angola, Botswana and Zambia which will notably improve regional data availability. We further introduce case studies on flood monitoring using remote sensing products, hydrological risks assessments and early warning systems for floods, integrated hydrological modeling efforts, groundwater-surface water interactions and various hydrological process studies in different ecosystems, all at various spatial (local, regional, national and international) and temporal (short-term, long-term, climate projection) scales. With this variety of examples we demonstrate our interdisciplinary research approach as the prerequisite to address the complexity of interacting drivers and processes affecting our land and water resources. The integration of these joint research efforts with findings from other thematic areas, e.g. in the field of optimized land management, deforestation and restoration, ecosystem stability and resilience, climate projections, food production and security, will allow for a better understanding and assessment of global change related environmental threats and resulting societal challenges in the Southern African region.

Optimal Repair And Replacement Policy For A System With Multiple Components

DTIC Science & Technology

2016-06-17

Numerical Demonstration To implement the linear program, we use the Python Programming Language (PSF 2016) with the Pyomo optimization modeling language...opre.1040.0133. Hart, W.E., C. Laird, J. Watson, D.L. Woodruff. 2012. Pyomo–optimization modeling in python , vol. 67. Springer Science & Business...Media. Hart, W.E., J. Watson, D.L. Woodruff. 2011. Pyomo: modeling and solving mathematical programs in python . Mathematical Programming Computation 3(3

Sharma's Python Sign: A New Tubal Sign in Female Genital Tuberculosis.

PubMed

Sharma, Jai Bhagwan

2016-01-01

Female genital tuberculosis (FGTB) is an important cause of infertility in developing countries. Various type of TB salpingitis can be endosalpingitis, exosalpingitis, interstitial TB salpingitis, and salpingitis isthmica nodosa. The fallopian tubes are thickened enlarged and tortuous. Unilateral or bilateral hydrosalpinx or pyosalpinx may be formed. A new sign python sign is presented in which fallopian tube looks like a blue python on dye testing in FGTB.

Methods to Secure Databases Against Vulnerabilities

DTIC Science & Technology

2015-12-01

for several languages such as C, C++, PHP, Java and Python [16]. MySQL will work well with very large databases. The documentation references...using Eclipse and connected to each database management system using Python and Java drivers provided by MySQL , MongoDB, and Datastax (for Cassandra...tiers in Python and Java . Problem MySQL MongoDB Cassandra 1. Injection a. Tautologies Vulnerable Vulnerable Not Vulnerable b. Illegal query

Prevalence of Amblyomma gervaisi ticks on captive snakes in Tamil Nadu.

PubMed

Catherine, B R; Jayathangaraj, M G; Soundararajan, C; Bala Guru, C; Yogaraj, D

2017-12-01

Ticks are the important ectoparasites that occur on snakes and transmit rickettsiosis, anaplasmosis and ehrlichiosis. A total of 62 snakes (Reticulated python, Indian Rock Python, Rat snakes and Spectacled cobra) were examined for tick infestation at Chennai Snake Park Trust (Guindy), Arignar Anna Zoological Park (Vandalur) and Rescue centre (Velachery) in Tamil Nadu from September, 2015 to June, 2016. Ticks from infested snakes were collected and were identified as Amblyomma gervaisi (previously known as Aponomma gervaisi ). Overall occurrence of tick infestation on snakes was 66.13%. Highest prevalence of tick infestation was observed more on Reticulated Python ( Python reticulatus , 90.91%) followed by Indian Rock Python ( Python molurus , 88.89%), Spectacled cobra ( Naja naja, 33.33%) and Rat snake ( Ptyas mucosa, 21.05%). Highest prevalence of ticks were observed on snakes reared at Chennai Snake Park Trust, Guindy (83.33%), followed by Arignar Anna Zoological Park, Vandalur (60.00%) and low level prevalence of 37.50% on snakes at Rescue centre, Velachery. Among the system of management, the prevalence of ticks were more on captive snakes (70.37%) than the free ranging snakes (37.5%). The presences of ticks were more on the first quarter when compared to other three quarters and were highly significant ( P  ≤ 0.01).

Gist: A scientific graphics package for Python

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

Busby, L.E.

1996-05-08

{open_quotes}Gist{close_quotes} is a scientific graphics library written by David H. Munro of Lawrence Livermore National Laboratory (LLNL). It features support for three common graphics output devices: X Windows, (Color) PostScript, and ANSI/ISO Standard Computer Graphics Metafiles (CGM). The library is small (written directly to Xlib), portable, efficient, and full-featured. It produces X versus Y plots with {open_quotes}good{close_quotes} tick marks and tick labels, 2-dimensional quadrilateral mesh plots with contours, vector fields, or pseudo color maps on such meshes, with 3-dimensional plots on the way. The Python Gist module utilizes the new {open_quotes}Numeric{close_quotes} module due to J. Hugunin and others. It ismore » therefore fast and able to handle large datasets. The Gist module includes an X Windows event dispatcher which can be dynamically added (e.g., via importing a dynamically loaded module) to the Python interpreter after a simple two-line modification to the Python core. This makes fast mouse-controlled zoom, pan, and other graphic operations available to the researcher while maintaining the usual Python command-line interface. Munro`s Gist library is already freely available. The Python Gist module is currently under review and is also expected to qualify for unlimited release.« less

EMPIRE and pyenda: Two ensemble-based data assimilation systems written in Fortran and Python

NASA Astrophysics Data System (ADS)

Geppert, Gernot; Browne, Phil; van Leeuwen, Peter Jan; Merker, Claire

2017-04-01

We present and compare the features of two ensemble-based data assimilation frameworks, EMPIRE and pyenda. Both frameworks allow to couple models to the assimilation codes using the Message Passing Interface (MPI), leading to extremely efficient and fast coupling between models and the data-assimilation codes. The Fortran-based system EMPIRE (Employing Message Passing Interface for Researching Ensembles) is optimized for parallel, high-performance computing. It currently includes a suite of data assimilation algorithms including variants of the ensemble Kalman and several the particle filters. EMPIRE is targeted at models of all kinds of complexity and has been coupled to several geoscience models, eg. the Lorenz-63 model, a barotropic vorticity model, the general circulation model HadCM3, the ocean model NEMO, and the land-surface model JULES. The Python-based system pyenda (Python Ensemble Data Assimilation) allows Fortran- and Python-based models to be used for data assimilation. Models can be coupled either using MPI or by using a Python interface. Using Python allows quick prototyping and pyenda is aimed at small to medium scale models. pyenda currently includes variants of the ensemble Kalman filter and has been coupled to the Lorenz-63 model, an advection-based precipitation nowcasting scheme, and the dynamic global vegetation model JSBACH.

Engaging Religious Institutions to Address Racial Disparities in HIV/AIDS: A Case of Academic-Community Partnership

PubMed Central

Szaflarski, Magdalena; Vaughn, Lisa M.; Chambers, Camisha; Harris, Mamie; Ruffner, Andrew; Wess, Yolanda; Mosley, LaSharon; Smith, Chandra

2017-01-01

African Americans face the most severe burden of HIV among all racial and ethnic groups. Direct involvement of faith leaders and faith communities is increasingly suggested as a primary strategy to reduce HIV-related disparities, and Black churches are uniquely positioned to address HIV stigma, prevention, and care in African American communities. The authors describe an academic-community partnership to engage Black churches to address HIV in a predominantly African American, urban, southern Midwest location. The opportunities, process, and challenges in forming this academic-community partnership with Black churches can be used to guide future efforts toward engaging faith institutions, academia, and other community partners in the fight against HIV. PMID:28239643

A Methadology for Near-Real-Time Access to Environmental Data through Federation

NASA Astrophysics Data System (ADS)

Orcutt, J. A.; Rajasekar, A.; Moore, R. W.; Vernon, F.

2015-12-01

The availability of near-real-time data can be critical for response to rapid changes including violent storms, tsunamis and earthquakes. While climate changes relatively slowly, compared to a tsunami, the increasing variance in weather over time and warming must also be considered in terms of civil impacts. A simple example is the decreasing resilience of coastal communities to severe weather as sea level increases. The integration of these data for modeling and response activities in near-real-time must be pursued to make data collection practical. We present an approach to data and metadata integration that has occurred over the past 10-20 years in Earth and Ocean sciences that provide a model for the future. The NSF Data Federation Consortium (DFC) is working to integrate data and metadata from a number of fields using iRODS (Integrated Rule-Oriented Data System). iRODS is open source software for building distributed data collections. In particular, the SCION (SCIence Observatory Network) funded by the NSF provides Python-based software for data and metadata access from a variety of near-real-time data sets relevant to climate studies including weather and hazards from other observational systems. As an example, we are working on the integration of data on shore and offshore in southern California using resources from the High Performance Wireless Research and Education Network (HPWREN) and the Southern California Coastal Ocean Observing System (SCCOOS). National and International integration of near-real-time earthquake data through the Incorporated Research Institutions for Seismology (IRIS) and the International Federation of Digital Seismic Networks (FDSN) provide a well-integrated data and metadata system for both research and civil uses. ObsPy, written in Python, has proved to be a highly successful methodology for accessing global data from thousands of stations with well-developed metadata. The persistence of the data and metadata, in turn, provides long-term provenance particularly important for climate data. We discuss these various tools and the current state of efforts in broader integration of Earth data.

Ball Python Nidovirus: a Candidate Etiologic Agent for Severe Respiratory Disease in Python regius

PubMed Central

Stenglein, Mark D.; Jacobson, Elliott R.; Wozniak, Edward J.; Wellehan, James F. X.; Kincaid, Anne; Gordon, Marcus; Porter, Brian F.; Baumgartner, Wes; Stahl, Scott; Kelley, Karen; Towner, Jonathan S.

2014-01-01

ABSTRACT A severe, sometimes fatal respiratory disease has been observed in captive ball pythons (Python regius) since the late 1990s. In order to better understand this disease and its etiology, we collected case and control samples and performed pathological and diagnostic analyses. Electron micrographs revealed filamentous virus-like particles in lung epithelial cells of sick animals. Diagnostic testing for known pathogens did not identify an etiologic agent, so unbiased metagenomic sequencing was performed. Abundant nidovirus-like sequences were identified in cases and were used to assemble the genome of a previously unknown virus in the order Nidovirales. The nidoviruses, which were not previously known to infect nonavian reptiles, are a diverse order that includes important human and veterinary pathogens. The presence of the viral RNA was confirmed in all diseased animals (n = 8) but was not detected in healthy pythons or other snakes (n = 57). Viral RNA levels were generally highest in the lung and other respiratory tract tissues. The 33.5-kb viral genome is the largest RNA genome yet described and shares canonical characteristics with other nidovirus genomes, although several features distinguish this from related viruses. This virus, which we named ball python nidovirus (BPNV), will likely establish a new genus in Torovirinae subfamily. The identification of a novel nidovirus in reptiles contributes to our understanding of the biology and evolution of related viruses, and its association with lung disease in pythons is a promising step toward elucidating an etiology for this long-standing veterinary disease. PMID:25205093

Chained nuclei and python pattern in skeletal muscle cells as histological markers for electrical injury.

PubMed

Tanaka, Hiroki; Okuda, Katsuhiro; Ohtani, Seiji; Asari, Masaru; Horioka, Kie; Isozaki, Shotaro; Hayakawa, Akira; Ogawa, Katsuhiro; Hiroshi, Shiono; Shimizu, Keiko

2018-05-01

Electrical injury is damage caused by an electrical current passing through the body. We have previously reported that irregular stripes crossing skeletal muscle fibers (python pattern) and multiple small nuclei arranged in the longitudinal direction of the muscle fibers (chained nuclear change) are uniquely observed by histopathological analysis in the skeletal muscle tissues of patients with electrical injury. However, it remains unclear whether these phenomena are caused by the electrical current itself or by the joule heat generated by the electric current passing through the body. To clarify the causes underlying these changes, we applied electric and heat injury to the exteriorized rat soleus muscle in situ. Although both the python pattern and chained nuclear change were induced by electric injury, only the python pattern was induced by heat injury. Furthermore, a chained nuclear change was induced in the soleus muscle cells by electric current flow in physiological saline at 40 °C ex vivo, but a python pattern was not observed. When the skeletal muscle was exposed to electrical injury in cardiac-arrested rats, a python pattern was induced within 5 h after cardiac arrest, but no chained nuclear change was observed. Therefore, a chained nuclear change is induced by an electrical current alone in tissues in vital condition, whereas a python pattern is caused by joule heat, which may occur shortly after death. The degree and distribution of these skeletal muscle changes may be useful histological markers for analyzing cases of electrical injury in forensic medicine. Copyright © 2017 Elsevier B.V. All rights reserved.

Reconstruction of Holocene southern African continental climate using biomarkers from salt pan sediments

NASA Astrophysics Data System (ADS)

Belz, Lukas; Schüller, Irka; Wehrmann, Achim; Wilkes, Heinz

2015-04-01

The climate system of southern Africa is strongly influenced by large scale atmospheric and marine circulation processes and, therefore, very sensitive to global climate change. Recent publications provided evidence for strong spatial and temporal climate variability in southern Africa over the Holocene. It is of major importance to understand the mechanisms driving the southern African climate system in order to estimate regional implications of current global change. However, proxy datasets from continental geoarchives especially of the semi-arid western Kalahari region are still scarce. A main problem is the absence of conventional continental climatic archives, due to the lack of lacustrine systems. In this study we are exploring the utility of sediments from western Kalahari salt pans, i.e. local depressions which are flooded temporarily during rainfall events. Besides the analyses of basic geochemical bulk parameters including TOC, δ13Corg, TIC, δ13Ccarb, δ18Ocarb, TN, δ15N, the paleo-climatic approach focuses on reconstruction of local vegetation assemblages to identify changes in the ecosystem. This is pursued using plant biomarkers, particularly leaf wax n-alkanes and n-alcohols and their stable carbon and hydrogen isotopic signatures. Preliminary results show prominent shifts in n-alkane distribution and δ13C values of the C33 homologue during late Pleistocene and early Holocene. These shifts correlate to changes of the TOC content. Our data indicate changes in carbon sources which possibly reflect major environmental changes.

Hibiscus acetosella 'Sahara Sunset'

USDA-ARS?s Scientific Manuscript database

The Agricultural Research Service, United States Department of Agriculture, hereby release to nurserymen a new African Hibiscus, Hibiscus acetosella Welw. ex Hiern., named ‘Sahara Sunset’. This cultivar, tested as HAC06-11 was selected from a group seedlings grown at the Thad Cochran Southern Horti...

South Africans' experiences of being old and of care and caring in a transitional period.

PubMed

Bohman, Doris M; van Wyk, Neltjie C; Ekman, Sirkka-Liisa

2011-09-01

This focused ethnographic study aimed to illuminate a group of South Africans' experiences of being old and of care and caring in a transitional period. With a growing number of older people in Africa, studies on the individual experiences may help to develop care which is more sensitively based on the needs for older people in a changing Southern Africa context. Data were collected through group and individual in-depth interviews and participant observations which involved 16 individuals, aged 52-76. Data were analysed using a qualitative content analysis. The study showed two interrelated themes reflections on life and ubuntu - an orientation towards others. Findings were discussed from the viewpoint of the theory of gerotranscendence, showing similarities as well as differences, possibly due to societal and cultural differences. Shortage of formal care for older people living in poor conditions in Southern Africa, gave rise to the discussion for the need of a contextualized development of gerontological care. To enhance knowledge on the theory of gerotranscendence and develop guidelines for nursing in home-based care/community-based care in a South African context may be a first step to support older people in their process towards gerotranscendence. © 2010 Blackwell Publishing Ltd.

Prevalence and Risk Factors for Mycobacterium bovis Infection in African Lions ( Panthera leo ) in the Kruger National Park.

PubMed

Sylvester, Tashnica Taime; Martin, Laura Elizabeth Rosen; Buss, Peter; Loxton, Andre Gareth; Hausler, Guy Anton; Rossouw, Leana; van Helden, Paul; Parsons, Sven David Charles; Olea-Popelka, Francisco; Miller, Michele Ann

2017-04-01

Mycobacterium bovis, the causative agent of bovine tuberculosis (BTB), is endemic in the Kruger National Park (KNP), South Africa. African lions ( Panthera leo ) are susceptible to BTB, but the impact of the disease on lion populations is unknown. In this study, we used a novel gene expression assay for chemokine (C-X-C motif) ligand 9 (CXCL9) to measure the prevalence of M. bovis infection in 70 free-ranging lions that were opportunistically sampled in the southern and central regions of the KNP. In the southern region of the KNP, the apparent prevalence of M. bovis infection was 54% (95% confidence interval [CI]=36.9-70.5%), compared with 33% (95% CI=18.0-51.8%) in the central region, an important difference (P=0.08). Prevalence of M. bovis infection in lions showed similar patterns to estimated BTB prevalence in African buffaloes ( Syncerus caffer ) in the same areas. Investigation of other risk factors showed a trend for older lions, males, or lions with concurrent feline immunodeficiency virus infection to have a higher M. bovis prevalence. Our findings demonstrate that the CXCL9 gene expression assay is a useful tool for the determination of M. bovis status in free-ranging lions and identifies important epidemiologic trends for future studies.

Ethiopian Genetic Diversity Reveals Linguistic Stratification and Complex Influences on the Ethiopian Gene Pool

PubMed Central

Pagani, Luca; Kivisild, Toomas; Tarekegn, Ayele; Ekong, Rosemary; Plaster, Chris; Gallego Romero, Irene; Ayub, Qasim; Mehdi, S. Qasim; Thomas, Mark G.; Luiselli, Donata; Bekele, Endashaw; Bradman, Neil; Balding, David J.; Tyler-Smith, Chris

2012-01-01

Humans and their ancestors have traversed the Ethiopian landscape for millions of years, and present-day Ethiopians show great cultural, linguistic, and historical diversity, which makes them essential for understanding African variability and human origins. We genotyped 235 individuals from ten Ethiopian and two neighboring (South Sudanese and Somali) populations on an Illumina Omni 1M chip. Genotypes were compared with published data from several African and non-African populations. Principal-component and STRUCTURE-like analyses confirmed substantial genetic diversity both within and between populations, and revealed a match between genetic data and linguistic affiliation. Using comparisons with African and non-African reference samples in 40-SNP genomic windows, we identified “African” and “non-African” haplotypic components for each Ethiopian individual. The non-African component, which includes the SLC24A5 allele associated with light skin pigmentation in Europeans, may represent gene flow into Africa, which we estimate to have occurred ∼3 thousand years ago (kya). The non-African component was found to be more similar to populations inhabiting the Levant rather than the Arabian Peninsula, but the principal route for the expansion out of Africa ∼60 kya remains unresolved. Linkage-disequilibrium decay with genomic distance was less rapid in both the whole genome and the African component than in southern African samples, suggesting a less ancient history for Ethiopian populations. PMID:22726845

Lipid levels among African and Middle-Eastern Bedouin populations.

PubMed

Dreiher, Jacob; Cohen, Arnon D; Weitzman, Shimon; Sharf, Amir; Shvartzman, Pesach

2008-06-01

Previous studies observed higher high-density lipoprotein (HDL) levels and lower triglycerides levels among people of African ancestry. The goal of this study was to characterize lipid levels in Bedouins of African vs. Middle-Eastern ethnicity. A cross-sectional study was conducted in a Bedouin primary care clinic in southern Israel, with 4470 listed individuals over the age of 21, of whom 402 (9%) were of African origin. A stratified random sample was included in the analysis. Associations between ethnicity, age, gender and lipid levels were assessed. Multiple linear regression and logistic regression models were used for multivariate analysis. The study included 261 African Bedouins and 406 Middle-Eastern Bedouins. (median age: 37 years, 58.6% females). The average total cholesterol and low-density lipoprotein (LDL) levels were 10 mg/dl lower among African Bedouins as compared to Middle-Eastern Bedouins (total cholesterol: 168.6 vs. 179.6 mg/dl, p<0.001; LDL: 99.5 vs. 109.0 mg/dl, respectively, p<0.001). Average triglycerides levels were 36 mg/dl lower among African Bedouins as compared to Middle-Eastern Bedouins (102.8 vs. 138.9 mg/dl, respectively, p<0.001). Average HDL levels were 3 mg/dl higher among African Bedouins as compared to Middle-Eastern Bedouins (48.3 vs. 44.6 mg/dl, respectively, p<0.001). A lower prevalence of dyslipidemia was found in African Bedouins, as compared with Middle-Eastern Bedouins.

[Gene geography of Chile: regional distribution of American, European and African genetic contributions].

PubMed

Fuentes, Macarena; Pulgar, Iván; Gallo, Carla; Bortolini, María-Cátira; Canizales-Quinteros, Samuel; Bedoya, Gabriel; González-José, Rolando; Ruiz-Linares, Andrés; Rothhammer, Francisco

2014-03-01

The geographical distribution of genes plays a key role in genetic epidemiology. The Chilean population has three major stem groups (Native American, European and African). To estimate the regional rate of American, European and African admixture of the Chilean population. Forty single nucleotide polymorphisms (SNP´s) which exhibit substantially different frequencies between Amerindian populations (ancestry-informative markers or AIM´s), were genotyped in a sample of 923 Chilean participants to estimate individual genetic ancestry. The American, European and African individual average admixture estimates for the 15 Chilean Regions were relatively homogeneous and not statistically different. However, higher American components were found in northern and southern Chile and higher European components were found in central Chile. A negative correlation between African admixture and latitude was observed. On the average, American and European genetic contributions were similar and significantly higher than the African contribution. Weighted mean American, European and African genetic contributions of 44.34% ± 3 9%, 51.85% ± 5.44% and 3.81% ± 0.45%, were estimated. Fifty two percent of subjects harbor African genes. Individuals with Aymara and Mapuche surnames have an American admixture of 58.64% and 68.33%, respectively. Half of the Chilean population harbors African genes. Participants with Aymara and Mapuche surnames had a higher American genetic contribution than the general Chilean population. These results confirm the usefulness of surnames as a first approximation to determine genetic ancestry.

A biregional survey and review of first-line treatment failure and second-line paediatric antiretroviral access and use in Asia and southern Africa

PubMed Central

2011-01-01

Background To better understand the need for paediatric second-line antiretroviral therapy (ART), an ART management survey and a cross-sectional analysis of second-line ART use were conducted in the TREAT Asia Paediatric HIV Observational Database and the IeDEA Southern Africa (International Epidemiologic Databases to Evaluate AIDS) regional cohorts. Methods Surveys were conducted in April 2009. Analysis data from the Asia cohort were collected in March 2009 from 12 centres in Cambodia, India, Indonesia, Malaysia, and Thailand. Data from the IeDEA Southern Africa cohort were finalized in February 2008 from 10 centres in Malawi, Mozambique, South Africa and Zimbabwe. Results Survey responses reflected inter-regional variations in drug access and national guidelines. A total of 1301 children in the TREAT Asia and 4561 children in the IeDEA Southern Africa cohorts met inclusion criteria for the cross-sectional analysis. Ten percent of Asian and 3.3% of African children were on second-line ART at the time of data transfer. Median age (interquartile range) in months at second-line initiation was 120 (78-145) months in the Asian cohort and 66 (29-112) months in the southern African cohort. Regimens varied, and the then current World Health Organization-recommended nucleoside reverse transcriptase combination of abacavir and didanosine was used in less than 5% of children in each region. Conclusions In order to provide life-long ART for children, better use of current first-line regimens and broader access to heat-stable, paediatric second-line and salvage formulations are needed. There will be limited benefit to earlier diagnosis of treatment failure unless providers and patients have access to appropriate drugs for children to switch to. PMID:21306608

Foot-and-mouth Disease Transmission in Africa: Implications for Control, a Review.

PubMed

Tekleghiorghis, T; Moormann, R J M; Weerdmeester, K; Dekker, A

2016-04-01

In Africa, for the control of foot-and-mouth disease (FMD), more information is needed on the spread of the disease at local, regional and inter-regional level. The aim of this review is to identify the role that animal husbandry, trade and wildlife have on the transmission of FMD and to provide a scientific basis for different FMD control measures in Africa. Review of literature, published reports and databases shows that there is more long distance spread of FMD virus serotypes within North, West, Central and East Africa than in southern Africa. In North, West, Central and East Africa migratory animal husbandry systems often related with search for grazing and water as well as trade are practiced to a greater extent than in southern Africa. In southern Africa, the role of African buffalo (Syncerus caffer) is more extensively studied than in the other parts of Africa, but based on the densities of African buffalo in Central and East Africa, one would assume that buffalo should also play a role in the epidemiology of FMD in this part of Africa. More sampling of buffalo is necessary in West, Central and East Africa. The genetic analysis of virus strains has proven to be valuable to increase our understanding in the spread of FMD in Africa. This review shows that there is a difference in FMD occurrence between southern Africa and the rest of the continent; this distinction is most likely based on differences in animal husbandry and trade systems. Insufficient data on FMD in wildlife outside southern Africa is limiting our understanding on the role wildlife plays in the transmission of FMD in the other buffalo inhabited areas of Africa. © 2014 Blackwell Verlag GmbH.

ARM Data-Oriented Metrics and Diagnostics Package for Climate Model Evaluation Value-Added Product

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

Zhang, Chengzhu; Xie, Shaocheng

A Python-based metrics and diagnostics package is currently being developed by the U.S. Department of Energy (DOE) Atmospheric Radiation Measurement (ARM) Infrastructure Team at Lawrence Livermore National Laboratory (LLNL) to facilitate the use of long-term, high-frequency measurements from the ARM Facility in evaluating the regional climate simulation of clouds, radiation, and precipitation. This metrics and diagnostics package computes climatological means of targeted climate model simulation and generates tables and plots for comparing the model simulation with ARM observational data. The Coupled Model Intercomparison Project (CMIP) model data sets are also included in the package to enable model intercomparison as demonstratedmore » in Zhang et al. (2017). The mean of the CMIP model can serve as a reference for individual models. Basic performance metrics are computed to measure the accuracy of mean state and variability of climate models. The evaluated physical quantities include cloud fraction, temperature, relative humidity, cloud liquid water path, total column water vapor, precipitation, sensible and latent heat fluxes, and radiative fluxes, with plan to extend to more fields, such as aerosol and microphysics properties. Process-oriented diagnostics focusing on individual cloud- and precipitation-related phenomena are also being developed for the evaluation and development of specific model physical parameterizations. The version 1.0 package is designed based on data collected at ARM’s Southern Great Plains (SGP) Research Facility, with the plan to extend to other ARM sites. The metrics and diagnostics package is currently built upon standard Python libraries and additional Python packages developed by DOE (such as CDMS and CDAT). The ARM metrics and diagnostic package is available publicly with the hope that it can serve as an easy entry point for climate modelers to compare their models with ARM data. In this report, we first present the input data, which constitutes the core content of the metrics and diagnostics package in section 2, and a user's guide documenting the workflow/structure of the version 1.0 codes, and including step-by-step instruction for running the package in section 3.« less

Tropospheric Carbon Monoxide Measurements from the Scanning High-resolution Interferometer Sounder on 7 September 2000 in Southern Africa during SAFARI 2000

NASA Technical Reports Server (NTRS)

McMillan, W. W.; McCourt, M. L.; Revercomb, H. E.; Knuteson, R. O.; Christian, T. J.; Doddridge, B. G.; Hobbs, P. V.; Lukovich, P. C.; Novelli, P. C.; Piketh, S. J.

2003-01-01

Retrieved tropospheric carbon monoxide (CO) column densities are presented for more than 9000 spectra obtained by the University of Wisconsin-Madison (UWis) Scanning High-Resolution Interferometer Sounder (SHIS) during a flight on the NASA ER-2 on 7 September 2000 as part of the Southern African Regional Science Initiative (SAFARI 2000) dry season field campaign. Enhancements in tropospheric column CO were detected in the vicinity of a controlled biomass burn in the Timbavati Game Reserve in northeastern South Africa and over the edge of the river of smoke in south central Mozambique. Relatively clean air was observed over the far southern coast of Mozambique. Quantitative comparisons are presented with in situ measurements from five different instruments flying on two other aircraft: the University of Washington Convair-580 (CV) and the South African Aerocommander JRB in the vicinity of the Timbavati fire. Measured tropospheric CO columns (extrapolated from 337 to 100 mb) of 2.1 x 10(exp 18) per square centimeter in background air and up to 1.5 x 10(exp 19) per square centimeter in the smoke plume agree well with SHIS retrieved tropospheric CO columns of (2.3 plus or minus 0.25) x 10(exp 18) per square centimeter over background air near the fire and (1.5 plus or minus 0.35) x 10(exp 19) per square centimeter over the smoke plume. Qualitative comparisons are presented with three other in situ CO profiles obtained by the South African JRA aircraft over Mozambique and northern South Africa showing the influence of the river of smoke.

Measles resurgence in southern Africa: challenges to measles elimination.

PubMed

Shibeshi, Messeret E; Masresha, Balcha G; Smit, Sheilagh B; Biellik, Robin J; Nicholson, Jennifer L; Muitherero, Charles; Shivute, Nestor; Walker, Oladapo; Reggis, Katsande; Goodson, James L

2014-04-01

In seven southern African countries (Botswana, Lesotho, Malawi, Namibia, South Africa, Swaziland and Zimbabwe), following implementation of a measles mortality reduction strategy starting in 1996, the number of annually reported measles cases decreased sharply to less than one per million population during 2006-2008. However, during 2009-2010, large outbreaks occurred in these countries. In 2011, a goal for measles elimination by 2020 was set in the World Health Organization (WHO) African Region (AFR). We reviewed the implementation of the measles control strategy and measles epidemiology during the resurgence in the seven southern African countries. Estimated coverage with routine measles vaccination, supplemental immunization activities (SIA), annually reported measles cases by country, and measles surveillance and laboratory data were analyzed using descriptive analysis. In the seven countries, coverage with the routine first dose of measles-containing vaccine (MCV1) decreased from 80% to 65% during 1996-2004, then increased to 84% in 2011; during 1996-2011, 79,696,523 people were reached with measles vaccination during 45 SIAs. Annually reported measles cases decreased from 61,160 cases to 60 cases and measles incidence decreased to <1 case per million during 1996-2008. During 2009-2010, large outbreaks that included cases among older children and adults were reported in all seven countries, starting in South Africa and Namibia in mid-2009 and in the other five countries by early 2010. The measles virus genotype detected was predominantly genotype B3. The measles resurgence highlighted challenges to achieving measles elimination in AFR by 2020. To achieve this goal, high two-dose measles vaccine coverage by strengthening routine immunization systems and conducting timely SIAs targeting expanded age groups, potentially including young adults, and maintaining outbreak preparedness to rapidly respond to outbreaks will be needed. Published by Elsevier Ltd.

Sharma's Python Sign: A New Tubal Sign in Female Genital Tuberculosis

PubMed Central

Sharma, Jai Bhagwan

2016-01-01

Female genital tuberculosis (FGTB) is an important cause of infertility in developing countries. Various type of TB salpingitis can be endosalpingitis, exosalpingitis, interstitial TB salpingitis, and salpingitis isthmica nodosa. The fallopian tubes are thickened enlarged and tortuous. Unilateral or bilateral hydrosalpinx or pyosalpinx may be formed. A new sign python sign is presented in which fallopian tube looks like a blue python on dye testing in FGTB. PMID:27365923

C3I and Modelling and Simulation (M&S) Interoperability

DTIC Science & Technology

2004-03-01

customised Open Source products. The technical implementation is based on the use of the eXtendend Markup Language (XML) and Python . XML is developed...to structure, store and send information. The language is focus on the description of data. Python is a portable, interpreted, object-oriented...programming language. A huge variety of usable Open Source Projects were issued by the Python Community. 3.1 Phase 1: Feasibility Studies Phase 1 was

Lectin histochemical aspects of mucus function in the oesophagus of the reticulated python (Python reticulatus).

PubMed

Meyer, W; Luz, S; Schnapper, A

2009-08-01

Using lectin histochemistry, the study characterizes basic functional aspects of the mucus produced by the oesophageal epithelium of the Reticulated python (Python reticulatus). Reaction staining varied as related to the two epithelium types present, containing goblet cells and ciliary cells. Remarkable intensities were achieved especially in the luminal mucus layer and the fine mucus covering the epithelial ciliary border for Con A (alpha-D-Man; alpha-D-Glc) as part of neutral glycoproteins, Limax flavus agglutinin (NeuNac = NeuNgc), emphasizing that water binding hyaluronan provides a hydrated interface conductive to the passage of material and UEA-I (alpha-L-Fuc), corroborating the view that fucose-rich highly viscous mucus is helpful against mechanical stress during prey transport.

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

Spotz, William F.

PyTrilinos is a set of Python interfaces to compiled Trilinos packages. This collection supports serial and parallel dense linear algebra, serial and parallel sparse linear algebra, direct and iterative linear solution techniques, algebraic and multilevel preconditioners, nonlinear solvers and continuation algorithms, eigensolvers and partitioning algorithms. Also included are a variety of related utility functions and classes, including distributed I/O, coloring algorithms and matrix generation. PyTrilinos vector objects are compatible with the popular NumPy Python package. As a Python front end to compiled libraries, PyTrilinos takes advantage of the flexibility and ease of use of Python, and the efficiency of themore » underlying C++, C and Fortran numerical kernels. This paper covers recent, previously unpublished advances in the PyTrilinos package.« less

Genetic and archaeological perspectives on the initial modern human colonization of southern Asia

PubMed Central

Mellars, Paul; Gori, Kevin C.; Carr, Martin; Soares, Pedro A.; Richards, Martin B.

2013-01-01

It has been argued recently that the initial dispersal of anatomically modern humans from Africa to southern Asia occurred before the volcanic “supereruption” of the Mount Toba volcano (Sumatra) at ∼74,000 y before present (B.P.)—possibly as early as 120,000 y B.P. We show here that this “pre-Toba” dispersal model is in serious conflict with both the most recent genetic evidence from both Africa and Asia and the archaeological evidence from South Asian sites. We present an alternative model based on a combination of genetic analyses and recent archaeological evidence from South Asia and Africa. These data support a coastally oriented dispersal of modern humans from eastern Africa to southern Asia ∼60–50 thousand years ago (ka). This was associated with distinctively African microlithic and “backed-segment” technologies analogous to the African “Howiesons Poort” and related technologies, together with a range of distinctively “modern” cultural and symbolic features (highly shaped bone tools, personal ornaments, abstract artistic motifs, microblade technology, etc.), similar to those that accompanied the replacement of “archaic” Neanderthal by anatomically modern human populations in other regions of western Eurasia at a broadly similar date. PMID:23754394

South African Particulates

Atmospheric Science Data Center

2013-04-16

article title:  Airborne Particulates over Southern Africa ... correspond to places where a result was not obtained, for example, due to the presence of clouds. Extensive burning of grass and ... MD. The MISR data were obtained from the NASA Langley Research Center Atmospheric Science Data Center in Hampton, VA. Image ...

New investigations in southwestern Guinea: consequences for the Rokelide belt (West Africa)

NASA Astrophysics Data System (ADS)

Villeneuve, Michel; Bellon, Hervé; Corsini, Michel; Le Metour, Joël; Chatelee, Sébastien

2015-07-01

The southern Guinean terranes belong to the "Rokelide belt" that is located in the southwestern part of the West African craton (Senegal to Liberia). Field investigations and K-Ar and 40Ar-39Ar radiometric analysis performed on samples collected from southern Guinea provide a new interpretation for metamorphic terranes not yet dated. A K-Ar whole-rock age of a gneiss and 40Ar-39Ar plateau ages of amphiboles separated from a mylonitic gneiss of the Ouankifondi formation and a gneiss from the Kissi-Kissi formation yield several Pan-African metamorphic ages at circa 650, 560, and 530 Ma, respectively. Field investigations show that these formations are unconformably capped by the Kolente group. The previous structural framework and the geodynamic evolution of the Rokelide belt based on the coeval evolution of the Ouankifondi and Kissi-Kissi formations and the Kolente group are reassessed. The Rokelide belt is linked to the Bassaride belt. Correlations with adjacent Sierra Leonean terranes and with northern Guinea and Senegal are considered.

Cleaning the Southern African Large Telescope's M5 mirror

NASA Astrophysics Data System (ADS)

Crause, Lisa A.; Gajjar, Hitesh; Love, Jonathan; Strümpfer, Francois; O'Connor, James E.; O'Donoghue, Darragh E.; Strydom, Ockert J.; Buckley, David A. H.; Gillingham, Peter

2010-07-01

This paper describes the cleaning of M5, one of the four mirrors that make up the Southern African Large Telescope's Spherical Aberration Corrector. As the top upward-facing mirror in a relatively exposed environment, M5 had accumulated a considerable amount of dust and dirt during the six years it had been on the telescope. With the corrector on the ground for re-alignment and testing, we had the opportunity to remove, wash and replace the mirror. Various cleaning techniques were investigated, including an unsuccessful trial application of First Contact surface cleaning polymer film - fortunately only to a small region outside the mirror's clear aperture. Ultimately, "drag-wiping" with wads of cotton wool soaked in a 10g/l sodium lauryl sulphate solution proved highly effective in restoring the reflectivity of M5's optical surface. Following this success, we repeated the procedure for M3, the other upward-facing mirror in the corrector. The results for M3 were equally spectacular.

Regional health governance: A suggested agenda for Southern African health diplomacy.

PubMed

Penfold, Erica Dale; Fourie, Pieter

2015-12-01

Regional organisations can effectively promote regional health diplomacy and governance through engagement with regional social policy. Regional bodies make decisions about health challenges in the region, for example, the Union of South American Nations (UNASUR) and the World Health Organisation South East Asia Regional Office (WHO-SEARO). The Southern African Development Community (SADC) has a limited health presence as a regional organisation and diplomatic partner in health governance. This article identifies how SADC facilitates and coordinates health policy, arguing that SADC has the potential to promote regional health diplomacy and governance through engagement with regional social policy. The article identifies the role of global health diplomacy and niche diplomacy in health governance. The role of SADC as a regional organisation and the way it functions is then explained, focusing on how SADC engages with health issues in the region. Recommendations are made as to how SADC can play a more decisive role as a regional organisation to implement South-South management of the regional social policy, health governance and health diplomacy agenda.

Lusaka, Zambia, during SAFARI-2000: Convergence of local and imported ozone pollution

NASA Astrophysics Data System (ADS)

Thompson, Anne M.; Witte, Jacquelyn C.; Freiman, M. Tal; Phahlane, N. Agnes; Coetzee, Gert J. R.

2002-10-01

In August and September, throughout south central Africa, seasonal clearing of dry vegetation and other fire-related activities lead to intense smoke haze and ozone formation. The first ozone soundings in the heart of the southern African burning region were taken at Lusaka, Zambia (15.5S, 28E) in early September 2000. Maximum surface ozone was over 90 ppbv and column tropospheric ozone exceeded 50 DU. These values are higher than concurrent measurements over Nairobi (1S, 38E) and Irene (25S, 28E, near Pretoria). At least 30% of Lusaka surface ozone appears to be from local sources. A layer at 800-500 hPa has ozone >120 ppbv and originates from trans-boundary recirculation. Starting out over Zambia, Angola, and Namibia, ozone-rich air travels east to the Indian Ocean, before heading back toward Mozambique, Zimbabwe and Zambia. Thus, Lusaka collects local and imported pollution, consistent with its location within the southern African gyre.

Chad Genetic Diversity Reveals an African History Marked by Multiple Holocene Eurasian Migrations.

PubMed

Haber, Marc; Mezzavilla, Massimo; Bergström, Anders; Prado-Martinez, Javier; Hallast, Pille; Saif-Ali, Riyadh; Al-Habori, Molham; Dedoussis, George; Zeggini, Eleftheria; Blue-Smith, Jason; Wells, R Spencer; Xue, Yali; Zalloua, Pierre A; Tyler-Smith, Chris

2016-12-01

Understanding human genetic diversity in Africa is important for interpreting the evolution of all humans, yet vast regions in Africa, such as Chad, remain genetically poorly investigated. Here, we use genotype data from 480 samples from Chad, the Near East, and southern Europe, as well as whole-genome sequencing from 19 of them, to show that many populations today derive their genomes from ancient African-Eurasian admixtures. We found evidence of early Eurasian backflow to Africa in people speaking the unclassified isolate Laal language in southern Chad and estimate from linkage-disequilibrium decay that this occurred 4,750-7,200 years ago. It brought to Africa a Y chromosome lineage (R1b-V88) whose closest relatives are widespread in present-day Eurasia; we estimate from sequence data that the Chad R1b-V88 Y chromosomes coalesced 5,700-7,300 years ago. This migration could thus have originated among Near Eastern farmers during the African Humid Period. We also found that the previously documented Eurasian backflow into Africa, which occurred ∼3,000 years ago and was thought to be mostly limited to East Africa, had a more westward impact affecting populations in northern Chad, such as the Toubou, who have 20%-30% Eurasian ancestry today. We observed a decline in heterozygosity in admixed Africans and found that the Eurasian admixture can bias inferences on their coalescent history and confound genetic signals from adaptation and archaic introgression. Copyright © 2016 The Author(s). Published by Elsevier Inc. All rights reserved.

A multi-centre evaluation of oral cancer in Southern and Western Nigeria: an African oral pathology research consortium initiative.

PubMed

Omitola, Olufemi Gbenga; Soyele, Olujide Oladele; Sigbeku, Opeyemi; Okoh, Dickson; Akinshipo, Abdulwarith Olaitan; Butali, Azeez; Adeola, Henry Ademola

2017-01-01

Oral cancer is a leading cause of cancer deaths among African populations. Lack of standard cancer registries and under-reporting has inaccurately depicted its magnitude in Nigeria. Development of multi-centre collaborative oral pathology networks such as the African Oral Pathology Research Consortium (AOPRC) facilitates skill and expertise exchange and fosters a robust and systematic investigation of oral diseases across Africa. In this descriptive cross-sectional study, we have leveraged the auspices of the AOPRC to examine the burden of oral cancer in Nigeria, using a multi-centre approach. Data from 4 major tertiary health institutions in Western and Southern Nigeria was generated using a standardized data extraction format and analysed using the SPSS data analysis software (version 20.0; SPSS Inc. Chicago, IL). Of the 162 cases examined across the 4 centres, we observed that oral squamous cell carcinomas (OSCC) occurred mostly in the 6 th and 7 th decades of life and maxillary were more frequent than mandibular OSCC lesions. Regional variations were observed both for location, age group and gender distribution. Significant regional differences was found between poorly, moderately and well differentiated OSCC (p value = 0.0071). A multi-centre collaborative oral pathology research approach is an effective way to achieve better insight into the patterns and distribution of various oral diseases in men of African descent. The wider outlook for AOPRC is to employ similar approaches to drive intensive oral pathology research targeted at addressing the current morbidity and mortality of various oral diseases across Africa.

‘Once upon a time …’: Orphanhood, childhood studies and the depoliticisation of childhood poverty in southern Africa

PubMed Central

Ansell, Nicola

2015-01-01

Policy, interventions and research concerning southern African children remain dominated by a focus on AIDS-related orphanhood, although the association between orphanhood and disadvantage is highly questionable. I argue that the trope of the AIDS orphan serves a range of agendas, including for academic research. In particular, orphans represent the quintessential child-agent, celebrated in fairytales and fiction. Finally, I examine how this has led to a policy response – education bursaries – that cannot adequately address childhood poverty in the region. PMID:27217616

The role of python eggshell permeability dynamics in a respiration-hydration trade-off.

PubMed

Stahlschmidt, Zachary R; Heulin, Benoit; DeNardo, Dale F

2010-01-01

Parental care is taxonomically widespread because it improves developmental conditions and thus fitness of offspring. Although relatively simplistic compared with parental behaviors of other taxa, python egg-brooding behavior exemplifies parental care because it mediates a trade-off between embryonic respiration and hydration. However, because egg brooding increases gas-exchange resistance between embryonic and nest environments and because female pythons do not adjust their brooding behavior in response to the increasing metabolic requirements of developing offspring, python egg brooding imposes hypoxic costs on embryos during the late stages of incubation. We conducted a series of experiments to determine whether eggshells coadapted with brooding behavior to minimize the negative effects of developmental hypoxia. We tested the hypotheses that python eggshells (1) increase permeability over time to accommodate increasing embryonic respiration and (2) exhibit permeability plasticity in response to chronic hypoxia. Over incubation, we serially measured the atomic and structural components of Children's python (Antaresia childreni) eggshells as well as in vivo and in vitro gas exchange across eggshells. In support of our first hypothesis, A. childreni eggshells exhibited a reduced fibrous layer, became more permeable, and facilitated greater gas exchange as incubation progressed. Our second hypothesis was not supported, as incubation O(2) concentration did not affect the shells' permeabilities to O(2) and H(2)O vapor. Our results suggest that python eggshell permeability changes during incubation but that the alterations over time are fixed and independent of environmental conditions. These findings are of broad evolutionary interest because they demonstrate that, even in relatively simple parental-care models, successful parent-offspring relationships depend on adjustments made by both the parent (i.e., egg-brooding behavioral shifts) and the offspring (i.e., changes in eggshell permeability).

High performance Python for direct numerical simulations of turbulent flows

NASA Astrophysics Data System (ADS)

Mortensen, Mikael; Langtangen, Hans Petter

2016-06-01

Direct Numerical Simulations (DNS) of the Navier Stokes equations is an invaluable research tool in fluid dynamics. Still, there are few publicly available research codes and, due to the heavy number crunching implied, available codes are usually written in low-level languages such as C/C++ or Fortran. In this paper we describe a pure scientific Python pseudo-spectral DNS code that nearly matches the performance of C++ for thousands of processors and billions of unknowns. We also describe a version optimized through Cython, that is found to match the speed of C++. The solvers are written from scratch in Python, both the mesh, the MPI domain decomposition, and the temporal integrators. The solvers have been verified and benchmarked on the Shaheen supercomputer at the KAUST supercomputing laboratory, and we are able to show very good scaling up to several thousand cores. A very important part of the implementation is the mesh decomposition (we implement both slab and pencil decompositions) and 3D parallel Fast Fourier Transforms (FFT). The mesh decomposition and FFT routines have been implemented in Python using serial FFT routines (either NumPy, pyFFTW or any other serial FFT module), NumPy array manipulations and with MPI communications handled by MPI for Python (mpi4py). We show how we are able to execute a 3D parallel FFT in Python for a slab mesh decomposition using 4 lines of compact Python code, for which the parallel performance on Shaheen is found to be slightly better than similar routines provided through the FFTW library. For a pencil mesh decomposition 7 lines of code is required to execute a transform.

HOPE: A Python just-in-time compiler for astrophysical computations

NASA Astrophysics Data System (ADS)

Akeret, J.; Gamper, L.; Amara, A.; Refregier, A.

2015-04-01

The Python programming language is becoming increasingly popular for scientific applications due to its simplicity, versatility, and the broad range of its libraries. A drawback of this dynamic language, however, is its low runtime performance which limits its applicability for large simulations and for the analysis of large data sets, as is common in astrophysics and cosmology. While various frameworks have been developed to address this limitation, most focus on covering the complete language set, and either force the user to alter the code or are not able to reach the full speed of an optimised native compiled language. In order to combine the ease of Python and the speed of C++, we developed HOPE, a specialised Python just-in-time (JIT) compiler designed for numerical astrophysical applications. HOPE focuses on a subset of the language and is able to translate Python code into C++ while performing numerical optimisation on mathematical expressions at runtime. To enable the JIT compilation, the user only needs to add a decorator to the function definition. We assess the performance of HOPE by performing a series of benchmarks and compare its execution speed with that of plain Python, C++ and the other existing frameworks. We find that HOPE improves the performance compared to plain Python by a factor of 2 to 120, achieves speeds comparable to that of C++, and often exceeds the speed of the existing solutions. We discuss the differences between HOPE and the other frameworks, as well as future extensions of its capabilities. The fully documented HOPE package is available at http://hope.phys.ethz.ch and is published under the GPLv3 license on PyPI and GitHub.

[Transfer of exotic tick Aponomma latum (Koch, 1844) (Acari: Ixodida: Ixodidae) on ball pythons (Python regius Shaw, 1802) brought to Poland].

PubMed

Siuda, Krzysztof; Nowak, Magdalena; Kedryna, Mariusz

2004-01-01

103 specimens of Python regius brought to Poland between October 2002 and March 2004 were examined. Occurrence of tick Aponomma latum was reported from 80.6% of the examined reptiles. 549 specimens of A. latum were collected including 341 males, 149 females and 59 nymphs at the various stage of engorgement. Tick A. latum is frequently transferred beyond its natural range of occurrence--Afrotropical region.

CVXPY: A Python-Embedded Modeling Language for Convex Optimization.

PubMed

Diamond, Steven; Boyd, Stephen

2016-04-01

CVXPY is a domain-specific language for convex optimization embedded in Python. It allows the user to express convex optimization problems in a natural syntax that follows the math, rather than in the restrictive standard form required by solvers. CVXPY makes it easy to combine convex optimization with high-level features of Python such as parallelism and object-oriented design. CVXPY is available at http://www.cvxpy.org/ under the GPL license, along with documentation and examples.

Introduction to Python for CMF Authority Users

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

Pritchett-Sheats, Lori A.

This talk is a very broad over view of Python that highlights key features in the language used in the Common Model Framework (CMF). I assume that the audience has some programming experience in a shell scripting language (C shell, Bash, PERL) or other high level language (C/C++/ Fortran). The talk will cover Python data types, classes (objects) and basic programming constructs. The talk concludes with slides describing how I developed the basic classes for a TITANS homework assignment.

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

Grote, D. P.

Forthon generates links between Fortran and Python. Python is a high level, object oriented, interactive and scripting language that allows a flexible and versatile interface to computational tools. The Forthon package generates the necessary wrapping code which allows access to the Fortran database and to the Fortran subroutines and functions. This provides a development package where the computationally intensive parts of a code can be written in efficient Fortran, and the high level controlling code can be written in the much more versatile Python language.

Trypanosoma cf. varani in an imported ball python (Python reginus) from Ghana.

PubMed

Sato, Hiroshi; Takano, Ai; Kawabata, Hiroki; Une, Yumi; Watanabe, Haruo; Mukhtar, Maowia M

2009-08-01

Peripheral blood from a ball python (Python reginus) imported from Ghana was cultured in Barbour-Stoenner-Kelly (BSK) medium for Borrelia spp. isolation, resulting in the prominent appearance of free, and clusters of, trypanosomes in a variety of morphological forms. The molecular phylogenetic characterization of these cultured trypanosomes, using the small subunit rDNA, indicated that this python was infected with a species closely related to Trypanosoma varani Wenyon, 1908, originally described in the Nile monitor lizard (Varanus niloticus) from Sudan. Furthermore, nucleotide sequences of glycosomal glyceraldehyde-3-phosphate dehydrogenase gene of both isolates showed few differences. Giemsa-stained blood smears, prepared from the infected python 8 mo after the initial observation of trypanosomes in hemoculture, contained trypomastigotes with a broad body and a short, free flagellum; these most closely resembled the original description of T. varani, or T. voltariae Macfie, 1919 recorded in a black-necked spitting cobra (Naja nigricollis) from Ghana. It is highly possible that lizards and snakes could naturally share an identical trypanosome species. Alternatively, lizards and snakes in the same region might have closely related, but distinct, Trypanosoma species as a result of sympatric speciation. From multiple viewpoints, including molecular phylogenetic analyses, reappraisal of trypanosome species from a wide range of reptiles in Africa is needed to clarify the relationship of recorded species, or to unmask unrecorded species.

Health belief model perceptions, knowledge of heart disease, and its risk factors in educated African-American women: an exploration of the relationships of socioeconomic status and age.

PubMed

Jones, Deborah E; Weaver, Michael T; Grimley, Diane; Appel, Susan J; Ard, Jamy

2006-12-01

Heart disease is the leading cause of death for African-American women in the United States. Although African-American women experience higher rates of heart disease with earlier onset and more severe consequences than White women do, they are not aware of their risk for the disease. The Health Belief Model (HBM) has been commonly used to guide preventive interventions in cardiovascular health. However, the HBM has not been evaluated for African-American women regarding its effectiveness. This study explored the perceptions of susceptibility and seriousness of heart disease, and the relationships between socioeconomic status (SES), age, and knowledge of heart disease and its risk factors among 194 educated African-American women from the southern United States. Participants did not perceive themselves to be at high risk for developing heart disease while perceiving heart disease as serious. African-American women who were older perceived heart disease to be more serious than their younger counterparts did. Older women and those with higher SES knew more about heart disease and risk factors. Neither SES nor age moderated the relationship between knowledge and perceived susceptibility or seriousness.

PyXNAT: XNAT in Python.

PubMed

Schwartz, Yannick; Barbot, Alexis; Thyreau, Benjamin; Frouin, Vincent; Varoquaux, Gaël; Siram, Aditya; Marcus, Daniel S; Poline, Jean-Baptiste

2012-01-01

As neuroimaging databases grow in size and complexity, the time researchers spend investigating and managing the data increases to the expense of data analysis. As a result, investigators rely more and more heavily on scripting using high-level languages to automate data management and processing tasks. For this, a structured and programmatic access to the data store is necessary. Web services are a first step toward this goal. They however lack in functionality and ease of use because they provide only low-level interfaces to databases. We introduce here PyXNAT, a Python module that interacts with The Extensible Neuroimaging Archive Toolkit (XNAT) through native Python calls across multiple operating systems. The choice of Python enables PyXNAT to expose the XNAT Web Services and unify their features with a higher level and more expressive language. PyXNAT provides XNAT users direct access to all the scientific packages in Python. Finally PyXNAT aims to be efficient and easy to use, both as a back-end library to build XNAT clients and as an alternative front-end from the command line.

A high level interface to SCOP and ASTRAL implemented in python.

PubMed

Casbon, James A; Crooks, Gavin E; Saqi, Mansoor A S

2006-01-10

Benchmarking algorithms in structural bioinformatics often involves the construction of datasets of proteins with given sequence and structural properties. The SCOP database is a manually curated structural classification which groups together proteins on the basis of structural similarity. The ASTRAL compendium provides non redundant subsets of SCOP domains on the basis of sequence similarity such that no two domains in a given subset share more than a defined degree of sequence similarity. Taken together these two resources provide a 'ground truth' for assessing structural bioinformatics algorithms. We present a small and easy to use API written in python to enable construction of datasets from these resources. We have designed a set of python modules to provide an abstraction of the SCOP and ASTRAL databases. The modules are designed to work as part of the Biopython distribution. Python users can now manipulate and use the SCOP hierarchy from within python programs, and use ASTRAL to return sequences of domains in SCOP, as well as clustered representations of SCOP from ASTRAL. The modules make the analysis and generation of datasets for use in structural genomics easier and more principled.

PyPDB: a Python API for the Protein Data Bank.

PubMed

Gilpin, William

2016-01-01

We have created a Python programming interface for the RCSB Protein Data Bank (PDB) that allows search and data retrieval for a wide range of result types, including BLAST and sequence motif queries. The API relies on the existing XML-based API and operates by creating custom XML requests from native Python types, allowing extensibility and straightforward modification. The package has the ability to perform many types of advanced search of the PDB that are otherwise only available through the PDB website. PyPDB is implemented exclusively in Python 3 using standard libraries for maximal compatibility. The most up-to-date version, including iPython notebooks containing usage tutorials, is available free-of-charge under an open-source MIT license via GitHub at https://github.com/williamgilpin/pypdb, and the full API reference is at http://williamgilpin.github.io/pypdb_docs/html/. The latest stable release is also available on PyPI. wgilpin@stanford.edu. © The Author 2015. Published by Oxford University Press. All rights reserved. For Permissions, please e-mail: journals.permissions@oup.com.

pypet: A Python Toolkit for Data Management of Parameter Explorations

PubMed Central

Meyer, Robert; Obermayer, Klaus

2016-01-01

pypet (Python parameter exploration toolkit) is a new multi-platform Python toolkit for managing numerical simulations. Sampling the space of model parameters is a key aspect of simulations and numerical experiments. pypet is designed to allow easy and arbitrary sampling of trajectories through a parameter space beyond simple grid searches. pypet collects and stores both simulation parameters and results in a single HDF5 file. This collective storage allows fast and convenient loading of data for further analyses. pypet provides various additional features such as multiprocessing and parallelization of simulations, dynamic loading of data, integration of git version control, and supervision of experiments via the electronic lab notebook Sumatra. pypet supports a rich set of data formats, including native Python types, Numpy and Scipy data, Pandas DataFrames, and BRIAN(2) quantities. Besides these formats, users can easily extend the toolkit to allow customized data types. pypet is a flexible tool suited for both short Python scripts and large scale projects. pypet's various features, especially the tight link between parameters and results, promote reproducible research in computational neuroscience and simulation-based disciplines. PMID:27610080

p3d--Python module for structural bioinformatics.

PubMed

Fufezan, Christian; Specht, Michael

2009-08-21

High-throughput bioinformatic analysis tools are needed to mine the large amount of structural data via knowledge based approaches. The development of such tools requires a robust interface to access the structural data in an easy way. For this the Python scripting language is the optimal choice since its philosophy is to write an understandable source code. p3d is an object oriented Python module that adds a simple yet powerful interface to the Python interpreter to process and analyse three dimensional protein structure files (PDB files). p3d's strength arises from the combination of a) very fast spatial access to the structural data due to the implementation of a binary space partitioning (BSP) tree, b) set theory and c) functions that allow to combine a and b and that use human readable language in the search queries rather than complex computer language. All these factors combined facilitate the rapid development of bioinformatic tools that can perform quick and complex analyses of protein structures. p3d is the perfect tool to quickly develop tools for structural bioinformatics using the Python scripting language.

The big squeeze: scaling of constriction pressure in two of the world's largest snakes, Python reticulatus and Python molurus bivittatus.

PubMed

Penning, David A; Dartez, Schuyler F; Moon, Brad R

2015-11-01

Snakes are important predators that have radiated throughout many ecosystems, and constriction was important in their radiation. Constrictors immobilize and kill prey by using body loops to exert pressure on their prey. Despite its importance, little is known about constriction performance or its full effects on prey. We studied the scaling of constriction performance in two species of giant pythons (Python reticulatus and Python molurus bivittatus) and propose a new mechanism of prey death by constriction. In both species, peak constriction pressure increased significantly with snake diameter. These and other constrictors can exert pressures dramatically higher than their prey's blood pressure, suggesting that constriction can stop circulatory function and perhaps kill prey rapidly by over-pressurizing the brain and disrupting neural function. We propose the latter 'red-out effect' as another possible mechanism of prey death from constriction. These effects may be important to recognize and treat properly in rare cases when constrictors injure humans. © 2015. Published by The Company of Biologists Ltd.

Whole transcriptome analysis of the fasting and fed Burmese python heart: insights into extreme physiological cardiac adaptation.

PubMed

Wall, Christopher E; Cozza, Steven; Riquelme, Cecilia A; McCombie, W Richard; Heimiller, Joseph K; Marr, Thomas G; Leinwand, Leslie A

2011-01-01

The infrequently feeding Burmese python (Python molurus) experiences significant and rapid postprandial cardiac hypertrophy followed by regression as digestion is completed. To begin to explore the molecular mechanisms of this response, we have sequenced and assembled the fasted and postfed Burmese python heart transcriptomes with Illumina technology using the chicken (Gallus gallus) genome as a reference. In addition, we have used RNA-seq analysis to identify differences in the expression of biological processes and signaling pathways between fasted, 1 day postfed (DPF), and 3 DPF hearts. Out of a combined transcriptome of ∼2,800 mRNAs, 464 genes were differentially expressed. Genes showing differential expression at 1 DPF compared with fasted were enriched for biological processes involved in metabolism and energetics, while genes showing differential expression at 3 DPF compared with fasted were enriched for processes involved in biogenesis, structural remodeling, and organization. Moreover, we present evidence for the activation of physiological and not pathological signaling pathways in this rapid, novel model of cardiac growth in pythons. Together, our data provide the first comprehensive gene expression profile for a reptile heart.

pypet: A Python Toolkit for Data Management of Parameter Explorations.

PubMed

Meyer, Robert; Obermayer, Klaus

2016-01-01

pypet (Python parameter exploration toolkit) is a new multi-platform Python toolkit for managing numerical simulations. Sampling the space of model parameters is a key aspect of simulations and numerical experiments. pypet is designed to allow easy and arbitrary sampling of trajectories through a parameter space beyond simple grid searches. pypet collects and stores both simulation parameters and results in a single HDF5 file. This collective storage allows fast and convenient loading of data for further analyses. pypet provides various additional features such as multiprocessing and parallelization of simulations, dynamic loading of data, integration of git version control, and supervision of experiments via the electronic lab notebook Sumatra. pypet supports a rich set of data formats, including native Python types, Numpy and Scipy data, Pandas DataFrames, and BRIAN(2) quantities. Besides these formats, users can easily extend the toolkit to allow customized data types. pypet is a flexible tool suited for both short Python scripts and large scale projects. pypet's various features, especially the tight link between parameters and results, promote reproducible research in computational neuroscience and simulation-based disciplines.

PyXNAT: XNAT in Python

PubMed Central

Schwartz, Yannick; Barbot, Alexis; Thyreau, Benjamin; Frouin, Vincent; Varoquaux, Gaël; Siram, Aditya; Marcus, Daniel S.; Poline, Jean-Baptiste

2012-01-01

As neuroimaging databases grow in size and complexity, the time researchers spend investigating and managing the data increases to the expense of data analysis. As a result, investigators rely more and more heavily on scripting using high-level languages to automate data management and processing tasks. For this, a structured and programmatic access to the data store is necessary. Web services are a first step toward this goal. They however lack in functionality and ease of use because they provide only low-level interfaces to databases. We introduce here PyXNAT, a Python module that interacts with The Extensible Neuroimaging Archive Toolkit (XNAT) through native Python calls across multiple operating systems. The choice of Python enables PyXNAT to expose the XNAT Web Services and unify their features with a higher level and more expressive language. PyXNAT provides XNAT users direct access to all the scientific packages in Python. Finally PyXNAT aims to be efficient and easy to use, both as a back-end library to build XNAT clients and as an alternative front-end from the command line. PMID:22654752

Using Python Packages in 6D (Py)Ferret: EOF Analysis, OPeNDAP Sequence Data

NASA Astrophysics Data System (ADS)

Smith, K. M.; Manke, A.; Hankin, S. C.

2012-12-01

PyFerret was designed to provide the easy methods of access, analysis, and display of data found in the Ferret under the simple yet powerful Python scripting/programming language. This has enabled PyFerret to take advantage of a large and expanding collection of third-party scientific Python modules. Furthermore, ensemble and forecast axes have been added to Ferret and PyFerret for creating and working with collections of related data in Ferret's delayed-evaluation and minimal-data-access mode of operation. These axes simplify processing and visualization of these collections of related data. As one example, an empirical orthogonal function (EOF) analysis Python module was developed, taking advantage of the linear algebra module and other standard functionality in NumPy for efficient numerical array processing. This EOF analysis module is used in a Ferret function to provide an ensemble of levels of data explained by each EOF and Time Amplitude Function (TAF) product. Another example makes use of the PyDAP Python module to provide OPeNDAP sequence data for use in Ferret with minimal data access characteristic of Ferret.

African Americans in bereavement: grief as a function of ethnicity.

PubMed

Laurie, Anna; Neimeyer, Robert A

2008-01-01

Few empirical studies have explored the grieving process among different ethnic groups within the United States, and very little is known about how African Americans and Caucasians may differ in their experience of loss. The purpose of this study was to examine the African-American experience of grief, with particular emphasis on issues of identity change, interpersonal dimensions of the loss, and continuing attachments with the deceased. Participants were 1,581 bereaved college students (940 Caucasians and 641 African Americans) attending classes at a large southern university. Each participant completed the Inventory of Complicated Grief-Revised, the Continuing Bonds Scale, and questions regarding the circumstances surrounding his or her loss. Results revealed that African Americans experienced more frequent bereavement by homicide, maintenance of a stronger continuing bond with the deceased, greater grief for the loss of extended kin beyond the immediate family, and a sense of support in their grief, despite their tendency to talk less with others about the loss or seek professional support for it. Overall, African Americans reported higher levels of complicated grief symptoms than Caucasians, especially when they spent less time speaking to others about their loss experience. Implications of these findings for bereavement support services for African Americans were briefly noted.

A review of the traditional use of southern African medicinal plants for the treatment of selected parasite infections affecting humans.

PubMed

Cock, I E; Selesho, M I; Van Vuuren, S F

2018-06-28

Worldwide, more than three billion cases of parasitic disease are reported yearly and it is likely that this figure is substantially under-estimated. Approximately one in six people globally are estimated to be infected with at least one parasite species annually. In South Africa, the prevalence of Schistosoma haematobium (bilharzia) and intestinal worms and helminths are particularly high, especially in children and in crowded or poorer rural communities with inadequate sanitation and nutrition. Despite alarmingly high estimates, medical research into parasitic diseases remains neglected and only malaria receives significant attention and funding. Traditional medicines have been used for centuries in Africa by multiple ethnic groups and many people rely on these healing systems as their primary healthcare modality. The traditional use of South African medicinal plants to treat parasite infestations is relatively well documented, and it is important to link these traditional uses to scientific evidence validating efficacy. To document the medicinal plants used for parasitic infections and critically review the literature on the anti-parasitic properties of South African plants against some neglected parasitic diseases. A review of the literature (ethnobotanical books and publications documenting traditional plant use) was undertaken related to specific medicinal use for parasitic infections in Southern Africa. Inclusion criteria focused on human use. Exclusion criteria included veterinary use and malaria due to the extensive nature of these subject matters. An in-depth analysis of previous studies was undertaken and future prospectives are considered. In particular, bilharzia, gastrointestinal worms and helminths, ectoparasites, trichomoniasis, leishmaniasis and trypanosomiasis are reviewed with special emphasis on the gaps in research. Despite the availability of relatively extensive ethnobotanical records on the anti-parasitic properties of southern African medicinal plants, the antiparasitic properties of many plants have been poorly examined. There was in many instances a lack of evidence to support traditional use of many species towards some parasites and research is urgently needed in this area. Copyright © 2018 Elsevier B.V. All rights reserved.

The atomic simulation environment-a Python library for working with atoms.

PubMed

Hjorth Larsen, Ask; Jørgen Mortensen, Jens; Blomqvist, Jakob; Castelli, Ivano E; Christensen, Rune; Dułak, Marcin; Friis, Jesper; Groves, Michael N; Hammer, Bjørk; Hargus, Cory; Hermes, Eric D; Jennings, Paul C; Bjerre Jensen, Peter; Kermode, James; Kitchin, John R; Leonhard Kolsbjerg, Esben; Kubal, Joseph; Kaasbjerg, Kristen; Lysgaard, Steen; Bergmann Maronsson, Jón; Maxson, Tristan; Olsen, Thomas; Pastewka, Lars; Peterson, Andrew; Rostgaard, Carsten; Schiøtz, Jakob; Schütt, Ole; Strange, Mikkel; Thygesen, Kristian S; Vegge, Tejs; Vilhelmsen, Lasse; Walter, Michael; Zeng, Zhenhua; Jacobsen, Karsten W

2017-07-12

The atomic simulation environment (ASE) is a software package written in the Python programming language with the aim of setting up, steering, and analyzing atomistic simulations. In ASE, tasks are fully scripted in Python. The powerful syntax of Python combined with the NumPy array library make it possible to perform very complex simulation tasks. For example, a sequence of calculations may be performed with the use of a simple 'for-loop' construction. Calculations of energy, forces, stresses and other quantities are performed through interfaces to many external electronic structure codes or force fields using a uniform interface. On top of this calculator interface, ASE provides modules for performing many standard simulation tasks such as structure optimization, molecular dynamics, handling of constraints and performing nudged elastic band calculations.

The atomic simulation environment—a Python library for working with atoms

NASA Astrophysics Data System (ADS)

Hjorth Larsen, Ask; Jørgen Mortensen, Jens; Blomqvist, Jakob; Castelli, Ivano E.; Christensen, Rune; Dułak, Marcin; Friis, Jesper; Groves, Michael N.; Hammer, Bjørk; Hargus, Cory; Hermes, Eric D.; Jennings, Paul C.; Bjerre Jensen, Peter; Kermode, James; Kitchin, John R.; Leonhard Kolsbjerg, Esben; Kubal, Joseph; Kaasbjerg, Kristen; Lysgaard, Steen; Bergmann Maronsson, Jón; Maxson, Tristan; Olsen, Thomas; Pastewka, Lars; Peterson, Andrew; Rostgaard, Carsten; Schiøtz, Jakob; Schütt, Ole; Strange, Mikkel; Thygesen, Kristian S.; Vegge, Tejs; Vilhelmsen, Lasse; Walter, Michael; Zeng, Zhenhua; Jacobsen, Karsten W.

2017-07-01

The atomic simulation environment (ASE) is a software package written in the Python programming language with the aim of setting up, steering, and analyzing atomistic simulations. In ASE, tasks are fully scripted in Python. The powerful syntax of Python combined with the NumPy array library make it possible to perform very complex simulation tasks. For example, a sequence of calculations may be performed with the use of a simple ‘for-loop’ construction. Calculations of energy, forces, stresses and other quantities are performed through interfaces to many external electronic structure codes or force fields using a uniform interface. On top of this calculator interface, ASE provides modules for performing many standard simulation tasks such as structure optimization, molecular dynamics, handling of constraints and performing nudged elastic band calculations.

modlAMP: Python for antimicrobial peptides.

PubMed

Müller, Alex T; Gabernet, Gisela; Hiss, Jan A; Schneider, Gisbert

2017-09-01

We have implemented the lecular esign aboratory's nti icrobial eptides package ( ), a Python-based software package for the design, classification and visual representation of peptide data. modlAMP offers functions for molecular descriptor calculation and the retrieval of amino acid sequences from public or local sequence databases, and provides instant access to precompiled datasets for machine learning. The package also contains methods for the analysis and representation of circular dichroism spectra. The modlAMP Python package is available under the BSD license from URL http://doi.org/10.5905/ethz-1007-72 or via pip from the Python Package Index (PyPI). gisbert.schneider@pharma.ethz.ch. Supplementary data are available at Bioinformatics online. © The Author (2017). Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oup.com

Py4CAtS - Python tools for line-by-line modelling of infrared atmospheric radiative transfer

NASA Astrophysics Data System (ADS)

Schreier, Franz; García, Sebastián Gimeno

2013-05-01

Py4CAtS — Python scripts for Computational ATmospheric Spectroscopy is a Python re-implementation of the Fortran infrared radiative transfer code GARLIC, where compute-intensive code sections utilize the Numeric/Scientific Python modules for highly optimized array-processing. The individual steps of an infrared or microwave radiative transfer computation are implemented in separate scripts to extract lines of relevant molecules in the spectral range of interest, to compute line-by-line cross sections for given pressure(s) and temperature(s), to combine cross sections to absorption coefficients and optical depths, and to integrate along the line-of-sight to transmission and radiance/intensity. The basic design of the package, numerical and computational aspects relevant for optimization, and a sketch of the typical workflow are presented.

Pteros 2.0: Evolution of the fast parallel molecular analysis library for C++ and python.

PubMed

Yesylevskyy, Semen O

2015-07-15

Pteros is the high-performance open-source library for molecular modeling and analysis of molecular dynamics trajectories. Starting from version 2.0 Pteros is available for C++ and Python programming languages with very similar interfaces. This makes it suitable for writing complex reusable programs in C++ and simple interactive scripts in Python alike. New version improves the facilities for asynchronous trajectory reading and parallel execution of analysis tasks by introducing analysis plugins which could be written in either C++ or Python in completely uniform way. The high level of abstraction provided by analysis plugins greatly simplifies prototyping and implementation of complex analysis algorithms. Pteros is available for free under Artistic License from http://sourceforge.net/projects/pteros/. © 2015 Wiley Periodicals, Inc.

Folk Musics and Increasing Diversity in American Music Education, 1900-1916.

ERIC Educational Resources Information Center

Volk, Terese M.

1994-01-01

States that, from 1900-1916, U.S. demographic make-up changed dramatically due to the influx of people from southern and eastern Europe. Also asserts that some of the musics of African Americans and Native Americans were introduced into the music curriculum. (CFR)

United States-Southern African Customs Union (SACU) Free Trade Agreement Negotiations: Background and Potential Issues

DTIC Science & Technology

2007-01-03

Machinery and Mechanical Appliances (primarily catalytic converters) $317 million Aircraft and Parts $267 million Ores Slag and Ash $310 million Optical...115 million Special Classification/ low value exports $121 million Miscellaneous Chemicals $113 million Articles of Zinc $85 million Pharmaceutical

Telecommunication and Information Infrastructures in the Botswana and SADC Development Strategy.

ERIC Educational Resources Information Center

Afullo, Thomas J. O.

1999-01-01

Examines the role of telecommunications and the information infrastructure in the economic development of Botswana. Highlights include the SADC (Southern African Development Community), the role of the World Bank in telecommunications in developing countries, and the International Telecommunications Union (ITU) agenda for global telecommunications…

"I got caught up in the game": generational influences on contraceptive decision making in African-American women.

PubMed

Harris, Allyssa L

2013-03-01

Reproductive health disparities are a significant issue for African-American adolescents. This study was designed to explore the cross-generational influences on adolescent sexuality in a cohort of daughters/granddaughters of U.S. born African-American women. Data were generated through interviews with triads of African-American women: grandmothers, and their daughters and granddaughters, to gain insight into the phenomena of early sexual debut, high rates of unintended pregnancies, HIV/AIDS, and other sexually transmitted infections from a cross-generational perspective. Six themes emerged from the data: southern influences; a worldview of relationships; communication-key to preparedness; seeking information from mom; "I got caught up in the game"; and contraceptive use and beliefs. In this sample, mothers' and grandmothers' culture, values, and beliefs significantly influenced the adolescents' sexual and reproductive decision making. Clinicians' knowledge of African-American culture, beliefs, and family values is key when providing guidance about contraception to these young women. ©2012 The Author(s) Journal compilation ©2012 American Association of Nurse Practitioners.

"Out of All of this Mess, I Got a Blessing": Perceptions and Experiences of Reproduction and Motherhood in African American Women Living With HIV.

PubMed

Fletcher, Faith; Ingram, Lucy Annang; Kerr, Jelani; Buchberg, Meredith; Richter, Donna L; Sowell, Richard

2016-01-01

HIV disproportionately impacts African American women of childbearing age residing in the southern United States. Antiretroviral therapy has increased the quantity and quality of life for people living with HIV and produced viable and safe reproduction possibilities for women living with HIV. However, little is known about reproductive decision-making processes for African American women living with HIV. The overall goal of our study was to qualitatively explore perspectives related to reproduction and motherhood in HIV-infected African American women of childbearing capacity. HIV-infected African American women of childbearing capacity in South Carolina (N = 42) participated in in-depth interviews. Our respondents held positive views about pregnancy and motherhood, despite nonsupportive pregnancy messages from interpersonal influences, including health care providers. Study findings uncovered the need for programs and interventions to support women's reproductive autonomy and focus on reducing conception- and pregnancy-related transmission risks to infants and uninfected sexual partners. Copyright © 2016 Association of Nurses in AIDS Care. Published by Elsevier Inc. All rights reserved.

Phylogenetic analysis of the haemagglutinin gene of current wild-type canine distemper viruses from South Africa: lineage Africa.

PubMed

Woma, Timothy Y; van Vuuren, Moritz; Bosman, Ana-Mari; Quan, Melvyn; Oosthuizen, Marinda

2010-07-14

There are no reports of CDV isolations in southern Africa, and although CDV is said to have geographically distinct lineages, molecular information of African strains has not yet been documented. Viruses isolated in cell cultures were subjected to reverse transcription-polymerase chain reaction (RT-PCR), and the complete H gene was sequenced and phylogenetically analysed with other strains from GenBank. Phylogenetic comparisons of the complete H gene of CDV isolates from different parts of the world (available in GenBank) with wild-type South African isolates revealed nine clades. All South African isolates form a separate African clade of their own and thus are clearly separated from the American, European, Asian, Arctic and vaccine virus clades. It is likely that only the 'African lineage' of CDV may be circulating in South Africa currently, and the viruses isolated from dogs vaccinated against CDV are not the result of reversion to virulence of vaccine strains, but infection with wild-type strains. (c) 2009 Elsevier B.V. All rights reserved.

Art exhibit focuses on African astronomy

NASA Astrophysics Data System (ADS)

Showstack, Randy

2012-07-01

Connections between Africans and astronomy are the focus of a new exhibition in the National Museum of African Art in Washington, D. C. "African Cosmos: Stellar Arts," which includes artwork, cultural items, and scientific displays from ancient to contemporary times, is the first major exhibit "that brings together arts and science focused on Africa's contribution to keen observations of the heavens over time," curator Christine Mullen Kreamer said at a 20 June news briefing. Among the exhibit's nearly 100 objects are an ancient Egyptian mummy board that includes a representation of the sky goddess Nut, sculptures by the Dogon people of Mali depicting figures in relation to the cosmos, a video that uses data from two square degrees of the Hubble Space Telescope Cosmic Evolution Survey, and a nearly floor-to-ceiling "Rainbow Serpent" constructed of plastic containers by Benin artist Hazoume. An untitled acrylic painting (Figure 1) by South African Gavin Jantjes evokes a myth of the Khoi San people of southern Africa, as it portrays a girl throwing evening fire embers into the night sky, where they remained as the Milky Way.

The origin, current diversity and future conservation of the modern lion (Panthera leo)

PubMed Central

Barnett, Ross; Yamaguchi, Nobuyuki; Barnes, Ian; Cooper, Alan

2006-01-01

Understanding the phylogeographic processes affecting endangered species is crucial both to interpreting their evolutionary history and to the establishment of conservation strategies. Lions provide a key opportunity to explore such processes; however, a lack of genetic diversity and shortage of suitable samples has until now hindered such investigation. We used mitochondrial control region DNA (mtDNA) sequences to investigate the phylogeographic history of modern lions, using samples from across their entire range. We find the sub-Saharan African lions are basal among modern lions, supporting a single African origin model of modern lion evolution, equivalent to the ‘recent African origin’ model of modern human evolution. We also find the greatest variety of mtDNA haplotypes in the centre of Africa, which may be due to the distribution of physical barriers and continental-scale habitat changes caused by Pleistocene glacial oscillations. Our results suggest that the modern lion may currently consist of three geographic populations on the basis of their recent evolutionary history: North African–Asian, southern African and middle African. Future conservation strategies should take these evolutionary subdivisions into consideration. PMID:16901830