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Sample records for evolutional approach proven

  1. A proven approach for more effective software development and maintenance

    NASA Technical Reports Server (NTRS)

    Pajerski, Rose; Hall, Dana; Sinclair, Craig

    1994-01-01

    Modern space flight mission operations and associated ground data systems are increasingly dependent upon reliable, quality software. Critical functions such as command load preparation, health and status monitoring, communications link scheduling and conflict resolution, and transparent gateway protocol conversion are routinely performed by software. Given budget constraints and the ever increasing capabilities of processor technology, the next generation of control centers and data systems will be even more dependent upon software across all aspects of performance. A key challenge now is to implement improved engineering, management, and assurance processes for the development and maintenance of that software; processes that cost less, yield higher quality products, and that self-correct for continual improvement evolution. The NASA Goddard Space Flight Center has a unique experience base that can be readily tapped to help solve the software challenge. Over the past eighteen years, the Software Engineering Laboratory within the code 500 Flight Dynamics Division has evolved a software development and maintenance methodology that accommodates the unique characteristics of an organization while optimizing and continually improving the organization's software capabilities. This methodology relies upon measurement, analysis, and feedback much analogous to that of control loop systems. It is an approach with a time-tested track record proven through repeated applications across a broad range of operational software development and maintenance projects. This paper describes the software improvement methodology employed by the Software Engineering Laboratory, and how it has been exploited within the Flight Dynamics Division with GSFC Code 500. Examples of specific improvement in the software itself and its processes are presented to illustrate the effectiveness of the methodology. Finally, the initial findings are given when this methodology was applied across the

  2. A proven knowledge-based approach to prioritizing process information

    NASA Technical Reports Server (NTRS)

    Corsberg, Daniel R.

    1991-01-01

    Many space-related processes are highly complex systems subject to sudden, major transients. In any complex process control system, a critical aspect is rapid analysis of the changing process information. During a disturbance, this task can overwhelm humans as well as computers. Humans deal with this by applying heuristics in determining significant information. A simple, knowledge-based approach to prioritizing information is described. The approach models those heuristics that humans would use in similar circumstances. The approach described has received two patents and was implemented in the Alarm Filtering System (AFS) at the Idaho National Engineering Laboratory (INEL). AFS was first developed for application in a nuclear reactor control room. It has since been used in chemical processing applications, where it has had a significant impact on control room environments. The approach uses knowledge-based heuristics to analyze data from process instrumentation and respond to that data according to knowledge encapsulated in objects and rules. While AFS cannot perform the complete diagnosis and control task, it has proven to be extremely effective at filtering and prioritizing information. AFS was used for over two years as a first level of analysis for human diagnosticians. Given the approach's proven track record in a wide variety of practical applications, it should be useful in both ground- and space-based systems.

  3. Provenance of the Spacewatch Small Earth--Approaching Asteroids

    NASA Astrophysics Data System (ADS)

    Bottke, W. F., Jr.; Nolan, M. C.; Melosh, H. J.; Vickery, A. M.; Greenberg, R.

    Recent discoveries of small Earth-approaching asteroids by the 0.9 m Spacewatch telescope (referred to here as S-SEAs) reveal 16 objects which have diameters $D \\sim 50$ m or smaller. Approximately half of these objects lie in a region where few large near Earth asteroids are found; they have the following orbital parameters: perihelia ($q$) and aphelia ($Q$) near 1 AU, $e < 0.35$, and $i$ from $0°$ to $\\sim 30°$. Given these size and dynamical constraints, we assess the possible origins for these objects by tracking the orbital evolution of test bodies from several possible source regions using an Öpik-type Monte-Carlo dynamical evolution code. We have modified this code to include (a) impact disruption, based on a map in orbital space of collision probabilities and mean impact velocities determined using actual main-belt and near-Earth asteroid orbits, (b) fragmentation, and (c) observational selection effects. We find that Amor asteroid fragments evolving from low eccentricity Mars-crossing orbits beyond the $q=1$ AU line provide the best fit to S-SEA orbital data. Planetary ejecta from Mars is only consistent with low and moderately inclined S-SEA orbits. Asteroidal fragments from the main-belt via the 3:1 or chaotic resonance zones rarely achieve low-$e$ orbits before planetary impacts, comminution, or ejection remove them from the system. This source could produce the observed moderate-to-high eccentricity S-SEAs. Planetary ejecta from the Earth-Moon system and Venus, are only consistent with low-inclination S-SEA orbits.

  4. Influence of Rock Strength on Landscape Evolution and Sediment Provenance Records

    NASA Astrophysics Data System (ADS)

    Forte, A. M.; Whipple, K. X.; Yanites, B.

    2014-12-01

    Detrital minerals within the stratigraphic record provide key constraints for a range of geologic problems, including the first order tectonic setting of basins, structural histories within orogens, changes in climate, and major drainage network reorganizations. Numerous provenance techniques exist for linking detrital minerals to their source areas, but the majority of these methods share an underlying assumption that sediment delivered to a basin is a representative sample of the bedrock geology of the source area. Satisfying this assumption requires that sediment production rates, i.e. erosion rates, of a source area are uniform throughout. In detail, erosion rates within a source area vary as a function of patterns of landscape evolution dictated by rock erodibility, climate, and relative uplift rate, thus long-term and transient biasing of sediment provenance records is expected. Biases associated with landscape evolution in response to changes in climate, tectonics, or strength of exposed rock can last 10s Myr. Previous work recognized a potential influence of differential erosion on provenance records, but the relative importance of this effect has proven difficult to quantify with field data. To address this, we are using a modified version of the CHILD landscape evolution model (LEM), which supports numerous lithologies with different erodibilities within a landscape. We perform a sensitivity analysis on the relative influence of rock strength and changes in climate or uplift rate on provenance records. We focus on U-Pb detrital zircon records because these data have seen wide adoption as a provenance tool and the refractory nature of zircon makes them less likely to be influenced by chemical weathering effects that are beyond the scope of this work. We plan to test several scenarios including variations in rock erodibility and temporal changes in climate or uplift rate. We will then use results from the LEM to calculate erosion rates from different

  5. DACUM: A Proven and Powerful Approach to Occupational Analysis.

    ERIC Educational Resources Information Center

    Norton, Robert E.

    Developing A CurriculUM (DACUM) is an approach to job/occupational analysis. The profile chart that results from DACUM analysis is a low-cost, effective method of quickly determining what tasks must be performed by employees in a given job or occupational area. The DACUM analysis can be used as a basis for the following: curriculum development;…

  6. Provenance of Des Moines lobe till records ice-stream catchment evolution during Laurentide deglaciation

    USGS Publications Warehouse

    Lusardi, B.A.; Jennings, C.E.; Harris, K.L.

    2011-01-01

    Mapping and analysis of deposits of the Des Moines lobe of the Laurentide Ice Sheet, active after the Last Glacial Maximum (LGM), reveal several texturally and lithologically distinct tills within what had been considered to be a homogeneous deposit. Although the differences between tills are subtle, minor distinctions are predictable and mappable, and till sheets within the area covered by the lobe can be correlated for hundreds of kilometres parallel to ice flow. Lateral till-sheet contacts are abrupt or overlap in a narrow zone, coincident with a geomorphic discontinuity interpreted to be a shear margin. Till sheets 10 to 20m thick show mixing in their lower 2 to 3m. We suggest that: (i) lithologically distinct till sheets correspond to unique ice-stream source areas; (ii) the sequence of tills deposited by the Des Moines lobe was the result of the evolution and varying dominance of nearby and competing ice streams and their tributaries; and (iii) in at least one instance, more than one ice stream simultaneously contributed to the lobe. Therefore the complex sequence of tills of subtly different provenances, and the unconformities between them record the evolution of an ice-catchment area during Laurentide Ice Sheet drawdown. Till provenance data suggest that, after till is created in the ice-stream source area, the subglacial conditions required for transporting till decline and incorporation of new material is limited. ?? 2011 The Authors. Boreas ?? 2011 The Boreas Collegium.

  7. Multiobjective Optimization Using a Pareto Differential Evolution Approach

    NASA Technical Reports Server (NTRS)

    Madavan, Nateri K.; Biegel, Bryan A. (Technical Monitor)

    2002-01-01

    Differential Evolution is a simple, fast, and robust evolutionary algorithm that has proven effective in determining the global optimum for several difficult single-objective optimization problems. In this paper, the Differential Evolution algorithm is extended to multiobjective optimization problems by using a Pareto-based approach. The algorithm performs well when applied to several test optimization problems from the literature.

  8. A convergent diffusion and social marketing approach for disseminating proven approaches to physical activity promotion.

    PubMed

    Dearing, James W; Maibach, Edward W; Buller, David B

    2006-10-01

    Approaches from diffusion of innovations and social marketing are used here to propose efficient means to promote and enhance the dissemination of evidence-based physical activity programs. While both approaches have traditionally been conceptualized as top-down, center-to-periphery, centralized efforts at social change, their operational methods have usually differed. The operational methods of diffusion theory have a strong relational emphasis, while the operational methods of social marketing have a strong transactional emphasis. Here, we argue for a convergence of diffusion of innovation and social marketing principles to stimulate the efficient dissemination of proven-effective programs. In general terms, we are encouraging a focus on societal sectors as a logical and efficient means for enhancing the impact of dissemination efforts. This requires an understanding of complex organizations and the functional roles played by different individuals in such organizations. In specific terms, ten principles are provided for working effectively within societal sectors and enhancing user involvement in the processes of adoption and implementation.

  9. Provenance record of Paleogene exhumation and Laramide basin evolution along the southern Rocky Mountain front

    NASA Astrophysics Data System (ADS)

    Bush, M. A.; Horton, B. K.; Murphy, M. A.; Stockli, D. F.

    2015-12-01

    The Sangre de Cristo and Nacimiento uplifts of the southern Rocky Mountains formed key parts of a major Paleogene topographic boundary separating the Cordilleran orogenic system from the North American plate interior. This barrier largely isolated interior Laramide basins from a broad Laramide foreland with fluvial systems draining to the Gulf of Mexico, and thereby played a critical role in the evolution of continental-scale paleodrainage patterns. New detrital zircon U-Pb geochronology and heavy mineral provenance analyses of Cretaceous-Paleogene siliciclastic strata in the Raton, Galisteo-El Rito, and San Juan basins record the partitioning of the broad Cordilleran (Sevier) foreland basin by Laramide basement uplifts. These trends are recognized both in provenance signals and depositional styles corresponding to cratonward (eastward) propagation of the Laramide deformation front and resultant advance of flexural depocenters in the North American interior. Along the eastern flank of the deformation front, the Raton basin shows a mix of Cordilleran, Appalachian, and Grenville age zircons restricted to the Cretaceous Dakota and Vermejo formations, marine units of the Western Interior Seaway. Upsection, the Cordilleran age peaks are absent from Paleocene-Eocene units, consistent with significant Laramide drainage reorganization and isolation from Cordilleran sources to the west. In the Galisteo-El Rito basin system, a shift to dominantly Mazatzal-Yavapai basement ages is recognized in the Paleocene El Rito and Oligocene Ritito formations. The heavy mineral results show a corresponding shift to less mature, dominantly metamorphic source compositions. These new datasets bear upon Cretaceous-Cenozoic reconstructions of North American paleodrainage and have implications for potential linkages between major fluvial systems of the southern Rocky Mountains and Paleogene deepwater reservoir units in the Gulf of Mexico basin.

  10. Provenance evolution of collapse graben fill in the Himalaya—The Miocene to Quaternary Thakkhola-Mustang Graben (Nepal)

    NASA Astrophysics Data System (ADS)

    Adhikari, Basanta Raj; Wagreich, Michael

    This study focuses on the detailed provenance evolution of young, syn- to post-orogenic extensional grabens in orogens like the Himalaya to trace the tectonic history of such late-stage basins, using the Neogene Thakkhola-Mustang Graben as a case study. The graben is situated within the Tibetan-Tethys zone and is filled with > 870 m of continental deposits of Miocene to Holocene age-. Based on logged sections within the predominantly alluvial to coarse-grained fluvial fill of the graben we investigated paleocurrent data and the petrology of sandstones and conglomerates including heavy minerals studies to interpret provenance and source areas in detail. Significant changes are recorded by slight differences in heavy mineral and pebble compositions. The sandstones can be classified as lithic greywackes, lithic arkoses and feldspathic litharenites. Sandstone, mudstone, quartzite and some granite clasts are dominant in conglomerates of the central part of the graben. Tetang Formation conglomerates of Miocene age comprise mostly clasts of Mesozoic rocks with an eastern provenance, consistent with measured paleocurrent directions. All paleocurrent data and compositional analyses of imbricated conglomerates of the Miocene-Pliocene Thakkhola Formation in the northeast of the graben suggest that clasts were derived from eastern source areas comprising mainly Mesozoic rocks whereas Paleozoic clasts of a western to northern source area predominate in the centre of the graben. Heavy mineral analysis indicates that tourmaline, staurolite, zircon, garnet and apatite constitute a significant proportion of the assemblages of all formations through time whereas epidote, andalusite, kyanite, chloritoid, hornblende, chrome-spinel, rutile and amphiboles are less common. These assemblages reflect in general stable minerals and low to high-grade metamorphic source rocks, and are principally controlled by reworking of older, passive margin sediments of the Tibetan-Tethys zone as

  11. Bridging the Gap between Scientific Data Producers and Consumers: A Provenance Approach

    SciTech Connect

    Stephan, Eric G.; Pinheiro da Silva, Paulo; Kleese van Dam, Kerstin

    2013-06-03

    Despite the methodical and painstaking efforts made by scientists to record their scientific findings and protocols, a knowledge gap problem continues to persist today between producers of scientific results and consumers because technology is performing the exchange of data as opposed to scientists making direct contact. Provenance is a means to formalize how this knowledge is transferred. However, for it to be meaningful to scientists, the provenance research community needs continued contributions from the scientific community to extend and leverage provenance-based vocabularies and technology from the provenance community. Going forward the provenance community must also be vigilant to meet scalability needs of data intensive science

  12. Simple approach to sediment provenance tracing using element analysis and fundamental principles

    NASA Astrophysics Data System (ADS)

    Matys Grygar, Tomas; Elznicova, Jitka; Popelka, Jan

    2016-04-01

    Common sediment fingerprinting techniques use either (1) extensive analytical datasets, sometimes nearly complete with respect to accessible characterization techniques; they are processed by multidimensional statistics based on certain statistical assumptions on distribution functions of analytical results and conservativeness/additivity of some components, or (2) analytically demanding characteristics such as isotope ratios assumed to be unequivocal "labels" on the parent material unaltered by any catchment process. The inherent problem of the approach ad (1) is that interpretation of statistical components ("sources") is done ex post and remains purely formal. The problem of the approach ad (2) is that catchment processes (weathering, transport, deposition) can modify most geochemical parameters of soils and sediments, in other words, that the idea that some geochemistry parameters are "conservative" may be idealistic. Grain-size effects and sediment provenance have a joint influence on chemical composition of fluvial sediments that is indeed not easy to distinguish. Attempts to separate those two main components using only statistics seem risky and equivocal, because grain-size dependence of element composition is nearly individual for each element and reflects sediment maturity and catchment-specific formation transport processes. We suppose that the use of less extensive datasets of analytical results and their interpretation respecting fundamental principles should be more robust than only statistic tools applied to overwhelming datasets. We examined sediment composition, both published by other researchers and gathered by us, and we found some general principles, which are in our opinion relevant for fingerprinting: (1) Concentrations of all elements are grain-size sensitive, i.e. there are no "conservative" elements in conventional sense of provenance- or transport-pathways tracing, (2) fractionation by catchment processes and fluvial transport changes

  13. Detrital mica 40Ar/39Ar dating approach for provenance and exhumation of the Eastern Alps.

    NASA Astrophysics Data System (ADS)

    Gemignani, Lorenzo; Sun, Xilin; Van Gerve, Thomas; Braun, Jean; Wijbrans, Jan Robert

    2017-04-01

    The use of thermochronological techniques on detrital minerals, such as (U-Th)/He on apatite and zircon, zircon fission-tracks and Ar-dating on mica and microcline, can be used to constrain the lateral variation of the exhumation rate and the sediment provenance of large sectors of an actively deforming mountain belt. Analysis of modern river sands yields an inventory of ages of rocks currently cropping out and eroding in the hinterland of a river drainage basin. So far, only few studies have focused on testing the consistency of the detrital mineral age distributions and the surface bed-rock thermochronology. We present here new detrital 40Ar/39Ar biotite and muscovite age distributions for nineteen modern river sands from rivers draining the Eastern Alps north of the Periadriatic line. The ages, interpreted to reflect cooling of the source rock under the closure temperature of muscovite and biotite respectively, were compared with the in-situ ages for the bedrock in the hinterland from literature. The results were generally comparable with the bedrocks ages for both the target minerals and represent three main clusters of ages that record the main exhumation pulses in this sector of the Alps. We have applied two numerical methods to the cooling ages to a) quantify the rates of exhumation of the Tauern Window during Paleocene-Miocene period of the Alpine orogeny, b) linearly compute the spatial variability of the present-day exhumation rates of a set of 4 detrital mineral sample drainage basins along the Inn river stream. Our results suggest a 0.17-0.52 mm/yr range in exhumation rates for the Tauern Window since the Miocene. The results from modelling constrained the downstream evolution of the detrital signal in the Inn river and realistically predicts higher erosion rates in the downstream basin where young cooling ages from the Penninic units of the Tauern are drained into the system, forming a characteristic peak. Our data define more inclusive trends in

  14. Gulf coastal plain evolution in West Louisiana: Heavy mineral provenance and Pleistocene alluvial chronology

    NASA Astrophysics Data System (ADS)

    Mange, Maria A.; Otvos, Ervin G.

    2005-12-01

    High Resolution Heavy Mineral Analysis (HRHMA) of late Pleistocene terrace samples, their Tertiary source rocks, and modern river sediments provided an effective tool for reconstructing sediment provenance and mapping heavy mineral provinces in southwest Louisiana. Each province, linked to a discrete source region, represents Pleistocene fluvial channel belts within which depositional activity was controlled by periods of climate, sediment supply, and sea level changes. Four coastal heavy mineral provinces have been identified. The Northern Province (NP), drained by the lower reaches of the Sabine and Calcasieu Rivers underlies level mid- and late Pleistocene coastal terrace surfaces and is distinguished by high-grade metamorphic assemblages (kyanite, staurolite, sillimanite) and abundant zircon, probably of Ouachita Mts. derivation. Transporting eroded Cretaceous, Tertiary, and Pleistocene coastal plain deposits, the modern Calcasieu and Sabine River sands in west-central and southwest Louisiana and east Texas, display identical heavy mineral composition to that of the NP. Level Late Pleistocene coastal terrace areas in the east represent the Red River Province (RRP) with dominant epidote, tourmaline, garnet, and zircon. Its mineralogy is influenced significantly by Paleozoic-Mesozoic sedimentary units that frame the drainage basin upstream. Modern Red River sands differ in their spectra both from Red River Pleistocene coastal terrace and valley terrace deposits, interpreted by temporal fluctuations in sediment supply initiating a variable contribution of detritus from different sources. Tributaries that drain formations with high concentrations of high-grade metamorphic minerals also affected Red River valley Pleistocene terrace deposits in west-central Louisiana, enriching them in kyanite and staurolite. The Mississippi Province (MP) occupies the eastern-southeastern area of the low, flat, gently seaward-sloping Prairie coastal terrace. Whereas modern

  15. Sedimentary provenance constraints on drainage evolution models for SE Tibet: Evidence from detrital K-feldspar

    NASA Astrophysics Data System (ADS)

    Zhang, Zengjie; Daly, J. Stephen; Li, Chang'an; Tyrrell, Shane; Sun, Xilin; Yan, Yi

    2017-05-01

    The unusual drainage pattern of the Jinsha River (upper Yangtze) is closely linked to the uplift of the Tibetan Plateau, but when this pattern became established is controversial. In this study we compare the Pb isotopic composition of detrital K-feldspars from the modern Jinsha River with those from the Plio-Pleistocene Xigeda Formation, a sequence of fluvial and lacustrine deposits widely distributed along the major rivers draining the Tibetan Plateau, to investigate their relationship and to constrain the drainage evolution of the region. Our results demonstrate that the Jinsha River had achieved its current sediment-transport pattern by the late Pliocene, indicating a drainage character similar to that operating at present. Our findings not only suggest an upper age limit for formation of the Jinsha River but also shed new light on the evolution of the whole Yangtze system. K-feldspar grains from the Jinsha River have less radiogenic Pb than those in the Red, Mekong, and Salween Rivers, providing a key test as to whether the Jinsha River was previously connected to the paleo-Red River. Comparison with published Pb isotopic data shows that these characteristically unradiogenic feldspars are absent in the onshore Cenozoic archive from the Hanoi Basin, suggesting that there has been no connection between the lower Jinsha River and the Red River since the Eocene.

  16. Provenance Constraints on the Mesozoic-Cenozoic Tectonic Evolution of the Queen Charlotte Islands Region

    NASA Astrophysics Data System (ADS)

    Mahoney, J.; Haggart, J. W.; Kimbrough, D.; Grove, M.

    2007-05-01

    The medial Cretaceous magmatic arc system of western North America was flanked by a series of forearc basins extending from Mexico to Alaska. Cretaceous strata in the Queen Charlotte Islands of northwest British Columbia are unique in this series of basins, as these strata have been displaced from the arc system by formation of the extensional Queen Charlotte basin in Cenozoic time. This displacement complicates reconstruction of the forearc basin, and makes it difficult to evaluate the controls on basin evolution. Sedimentologic, paleontologic, and detrital zircon analyses of forearc strata represented by the Valanginian- Campanian Queen Charlotte Group (QCG) constrain basin evolution and provide a framework for an interpretation of the Mesozoic-Cenozoic tectonic evolution of the Queen Charlotte Islands region. Basin subsidence initiated in Valanginian time with a marine transgression over irregular topography consisting of extensional fault blocks of pre-Cretaceous strata. Locally derived conglomerates at the base of the Longarm Formation are overlain by shallow marine shelf deposits that represent a westward-deepening, fining-upward transgressive succession with an eastern depositional edge that migrated eastward during Valanginian to Aptian time. West-directed paleocurrents and a unimodal detrital zircon population of 120-175 Ma grains provide the first linkage between the Cretaceous QCG and unroofed Jura-Cretaceous plutons of the Coast Plutonic Complex to the east. This initial transgressive sequence is superseded by a second pulse of clastic detritus in early Albian time, characterized by an easterly-derived, fossiliferous shallow-shelf sandstone (Haida Formation), fine-grained, outer shelf to upper slope strata (Bearskin Bay Formation), and mass-sediment gravity flows (Skidegate Formation). The unimodal zircon population (ca 140-175 Ma) in the lower Haida Formation is interpreted to reflect renewed uplift of Jura-Cretaceous arc plutons by contractional

  17. Usbnd Pb detrital zircon ages from some Neoproterozoic successions of Uruguay: Provenance, stratigraphy and tectonic evolution

    NASA Astrophysics Data System (ADS)

    Pecoits, Ernesto; Aubet, Natalie R.; Heaman, Larry M.; Philippot, Pascal; Rosière, Carlos A.; Veroslavsky, Gerardo; Konhauser, Kurt O.

    2016-11-01

    The Neoproterozoic volcano-sedimentary successions of Uruguay have been the subject of several sedimentologic, chrono-stratigraphic and tectonic interpretation studies. Recent studies have shown, however, that the stratigraphy, age and tectonic evolution of these units remain uncertain. Here we use new Usbnd Pb detrital zircon ages, combined with previously published geochronologic and stratigraphic data in order to provide more precise temporal constraints on their depositional age and to establish a more solid framework for the stratigraphic and tectonic evolution of these units. The sequence of events begins with a period of tectonic quiescence and deposition of extensive mixed siliciclastic-carbonate sedimentary successions. This is followed by the development of small fault-bounded siliciclastic and volcaniclastic basins and the emplacement of voluminous granites associated with episodic terrane accretion. According to our model, the Arroyo del Soldado Group and the Piedras de Afilar Formation were deposited sometime between ∼1000 and 650 Ma, and represent passive continental margin deposits of the Nico Pérez and Piedra Alta terranes, respectively. In contrast, the Ediacaran San Carlos (<552 ± 3 Ma) and Barriga Negra (<581 ± 6 Ma) formations, and the Maldonado Group (<580-566 Ma) were deposited in tectonically active basins developed on the Nico Pérez and Cuchilla Dionisio terranes, and the herein defined Edén Terrane. The Edén and the Nico Pérez terranes likely accreted at ∼650-620 Ma (Edén Accretionary Event), followed by their accretion to the Piedra Alta Terrane at ∼620-600 Ma (Piedra Alta Accretionary Event), and culminating with the accretion of the Cuchilla Dionisio Terrane at ∼600-560 Ma (Cuchilla Dionisio Accretionary Event). Although existing models consider all the Ediacaran granites as a result of a single orogenic event, recently published age constraints point to the existence of at least two distinct stages of granite generation

  18. Detrital zircon provenance analysis of the Great Valley Group, California: Evolution of an arc-forearc system

    USGS Publications Warehouse

    DeGraaff-Surpless, K.; Graham, S.A.; Wooden, J.L.; McWilliams, M.O.

    2002-01-01

    The improved resolution of sediment provenance from detrital zircon analysis of Great Valley stratigraphy enables recognition of previously undocumented arc magmatism and the evolution of regional drainage systems within the Cretaceous arc-forearc system related to uplift, magmatism, and structure in the arc. Great Valley detrital zircon age data confirm previous studies that indicate that the locus of the sediment source in the southern Sierra Nevada arc migrated east with the active volcanic front and suggest rapid rates of uplift and unroofing of the southern arc. Sacramento Valley detrital zircon age data indicate a more complex history of drainage in the northern Klamath-Sierran arc than previously documented. Detrital zircon age distributions from the Cache Creek section of the Great Valley Group broaden through time from nearly unimodal age distributions to signatures with multiple age peaks. This transition to more broadly distributed detrital zircon age spectra likely results from a combination of (1) expanding subaerial drainage systems from highly localized to more broadly distributed catchments; (2) changing shelf and submarine-canyon morphology with rising sea level and/or basin subsidence; (3) increased degree of dissection of the Klamath-Sierran arc; and (4) potential drainage capture and redirection within the arc. Sacramento Valley detrital zircon age data also record a pulse of Late Jurassic to Early Cretaceous magmatism in the northwestern Sierra Nevada arc, an age of Cordilleran magmatism and deformation represented by limited exposure in the modern Sierra Nevada. These results offer significant new insights into the evolution of a well-studied arc-forearc system.

  19. Provenance of sediments in the Marwar Supergroup, Rajasthan, India: Implications for basin evolution and Neoproterozoic global events

    NASA Astrophysics Data System (ADS)

    George, Bivin G.; Ray, Jyotiranjan S.

    2017-10-01

    The Marwar Supergroup of NW India is one of the largest Neoproterozoic sedimentary successions of India. Deposited in an intracratonic sag basin, the Supergroup contains largely unmetamorphosed and undeformed fluvial and marginal marine siliciclastics, marine carbonates, and minor volcaniclastics which hold clues to the geotectonic evolution of India subsequent to the disintegration of the Rodinia and during the formation of the Gondwanaland. Here, we present age constraints for the initiation of sedimentation and evolution of the basin. The Rb-Sr whole rock isochron of a felsic tuff from the lower part of the Supergroup, yields an age of 703 ± 40 Ma, which suggests that the sedimentation in the Marwar basin started in the Cryogenian period. The result of Sr isotope stratigraphy suggests a depositional age of ∼570 Ma (Late Ediacaran) for the carbonate sequences in the middle part of the Supergroup, indicating a depositional hiatus of ∼100 Ma between the lower and middle Marwars. We speculate that this relapse in the sedimentation could be related to the widespread Pan-African event (Malagasy Orogeny). Provenance analysis using Neodymium (Nd) isotopes and trace elements shows that sediments in the lower Marwars were contributed by the Delhi Supergroup (∼1.6 Ga), Banded Gneissic Complex-2 (>1.8 Ga) and possibly the Erinpura Granites (∼850 Ma), whereas the siliciclastics deposited in the middle and upper Marwars were predominantly sourced from the Delhi Supergroup. Interestingly, the contribution from the Malani Igneous Suite (MIS) to the sedimentation is limited only to the basal formation near the basin margin.

  20. Student Teachers' Approaches to Teaching Biological Evolution

    NASA Astrophysics Data System (ADS)

    Borgerding, Lisa A.; Klein, Vanessa A.; Ghosh, Rajlakshmi; Eibel, Albert

    2015-06-01

    Evolution is fundamental to biology and scientific literacy, but teaching high school evolution is often difficult. Evolution teachers face several challenges including limited content knowledge, personal conflicts with evolution, expectations of resistance, concerns about students' conflicts with religion, and curricular constraints. Evolution teaching can be particularly challenging for student teachers who are just beginning to gain pedagogical knowledge and pedagogical content knowledge related to evolution teaching and who seek approval from university supervisors and cooperating teachers. Science teacher educators need to know how to best support student teachers as they broach the sometimes daunting task of teaching evolution within student teaching placements. This multiple case study report documents how three student teachers approached evolution instruction and what influenced their approaches. Data sources included student teacher interviews, field note observations for 4-5 days of evolution instruction, and evolution instructional artifacts. Data were analyzed using grounded theory approaches to develop individual cases and a cross-case analysis. Seven influences (state exams and standards, cooperating teacher, ideas about teaching and learning, concerns about evolution controversy, personal commitment to evolution, knowledge and preparation for teaching evolution, and own evolution learning experiences) were identified and compared across cases. Implications for science teacher preparation and future research are provided.

  1. A Multi-technique Approach for Provenance Studies of Mesozoic Clastic Rocks in the Barents Sea

    NASA Astrophysics Data System (ADS)

    Matthews, N. E.; Zimmermann, U.; Støle, L.; Ruud, C.; Mostafa, E.; Andò, S.; Borromeo, L.; Magnaghi, M.; Lapen, T. J.

    2015-12-01

    Sediments of Mesozoic age deposited in the Arctic Hammerfest and Tromsø basins (southern Barents Sea) are the focus of a comprehensive provenance study which forms part of ongoing work by the LoCrA consortium (Lower Cretaceous Basin Studies in the Arctic). Jurassic (Stø, Fuglen, Hekkingen) and Cretaceous (Knurr, Kolje, Kolmule) formations were sampled from seven wells. Analytical methods include petrography, whole-rock geochemistry, heavy mineral (HM) analysis and U-Pb on detrital zircons. HM concentration is <1%, with an ultrastable HM assemblage of zircon, rutile, tourmaline, spinel, apatite, garnet, chloritoid and common authigenic heavy minerals and opaques. Cretaceous sedimentary rocks show geochemical variations that reflect an unrecycled Upper Continental Crust signature, whereas Jurassic detritus tends to show more evidence of recycling with a relatively low input of mafic material. Kolmule Formation whole-rock geochemistry indicates sediment recycling from a major Sc-depleted but intermediate to mafic source and hence suggests input of rift detritus from the syn-depositional opening of the Atlantic Ocean. U-Pb ages for detrital zircons for Cretaceous sandstones show age groups of 200-500 Ma, 1200-1800 Ma, and 2100-2800 Ma, indicating potential source regions in the Urals/Novaya Zemlya, the Caledonides, Grenvillian/Sveconorwegian, and Palaeoproterozoic and Archean sources. Provenance data via geochemistry and HM analysis indicate different sources in the same formation basin-wide, with a significant change in provenance and sediment composition from Jurassic to Cretaceous and between the Knurr and Kolmule formations. These differences in composition need to be compared to detailed single grain studies and may only be explained in terms of basin dynamics, or even on a smaller scale, in terms of facies distributions. If so, this case study raises concerns about the use of single samples for provenance models on a larger scale.

  2. Biomechanical differences in the stem straightening process among Pinus pinaster provenances. A new approach for early selection of stem straightness.

    PubMed

    Sierra-de-Grado, Rosario; Pando, Valentín; Martínez-Zurimendi, Pablo; Peñalvo, Alejandro; Báscones, Esther; Moulia, Bruno

    2008-06-01

    Stem straightness is an important selection trait in Pinus pinaster Ait. breeding programs. Despite the stability of stem straightness rankings in provenance trials, the efficiency of breeding programs based on a quantitative index of stem straightness remains low. An alternative approach is to analyze biomechanical processes that underlie stem form. The rationale for this selection method is that genetic differences in the biomechanical processes that maintain stem straightness in young plants will continue to control stem form throughout the life of the tree. We analyzed the components contributing most to genetic differences among provenances in stem straightening processes by kinetic analysis and with a biomechanical model defining the interactions between the variables involved (Fournier's model). This framework was tested on three P. pinaster provenances differing in adult stem straightness and growth. One-year-old plants were tilted at 45 degrees, and individual stem positions and sizes were recorded weekly for 5 months. We measured the radial extension of reaction wood and the anatomical features of wood cells in serial stem cross sections. The integral effect of reaction wood on stem leaning was computed with Fournier's model. Responses driven by both primary and secondary growth were involved in the stem straightening process, but secondary-growth-driven responses accounted for most differences among provenances. Plants from the straight-stemmed provenance showed a greater capacity for stem straightening than plants from the sinuous provenances mainly because of (1) more efficient reaction wood (higher maturation strains) and (2) more pronounced secondary-growth-driven autotropic decurving. These two process-based traits are thus good candidates for early selection of stem straightness, but additional tests on a greater number of genotypes over a longer period are required.

  3. An Approach to Evaluate Scientist Support in Abstract Workflows and Provenance Traces

    SciTech Connect

    Salayandia, Leonardo; Gates, Ann Q.; Pinheiro da Silva, Paulo

    2012-11-02

    Abstract workflows are useful to bridge the gap between scientists and technologists towards using computer systems to carry out scientific processes. Provenance traces provide evidence required to validate results and support their reuse. Assuming both technologies are based on formal semantics, a knowledge-based system that consistently merges both technologies is useful for scientists that produce data to document their data collecting and transformation processes; it is also useful for scientists that reuse data to assess scientific processes and resulting datasets produced by others. While evaluation of each technology is necessary for a given application, this work discusses their combined evaluation. The claim is that both technologies should complement each other and align consistently to a scientist’s perspective in order to be effective for science. Evaluation criteria are proposed based on lessons learned and exemplified for discussion.

  4. Provenance analysis of the Oligocene turbidites (Andaman Flysch), South Andaman Island: A geochemical approach

    NASA Astrophysics Data System (ADS)

    Bandopadhyay, P. C.; Ghosh, Biswajit

    2015-07-01

    The Oligocene-aged sandstone-shale turbidites of the Andaman Flysch are best exposed along the east coast of the South Andaman Island. Previously undocumented sandstone-shale geochemistry, investigated here, provides important geochemical constraints on turbidite provenance. The average 70.75 wt% SiO2, 14.52 wt% Al2O3, 8.2 wt% FeMgO and average 0.20 Al2O3/SiO2 and 1.08 K2O/Na2O ratios in sandstones, compare with quartzwackes. The shale samples have average 59.63 wt% SiO2, 20.29 wt% Al2O3, 12.63 wt% FeMgO and average 2.42 K2O/Na2O and 0.34 Al2O3/SiO2 ratios. Geochemical data on CaO-Na2O-K2O diagram fall close to a granite field and on K2O/Na2O-SiO2 diagram within an active continental margin tectonic setting. The range and average values of Rb and Rb/Sr ratios are consistent with acid-intermediate igneous source rocks, while the values and ratios for Cr and Ni are with mafic rocks. Combined geochemical, petrographic and palaeocurrent data indicate a dominantly plutonic-metamorphic provenance with a lesser contribution from sedimentary and volcanic source, which is possibly the Shan-Thai continental block and volcanic arc of the north-eastern and eastern Myanmar. Chemical index of alteration (CIA) values suggests a moderate range of weathering of a moderate relief terrane under warm and humid climate.

  5. Evolution of the northern Albertine Rift reflected in the provenance of synrift sediments (Nkondo-Kaiso area, Uganda)

    NASA Astrophysics Data System (ADS)

    Schneider, Sandra; Hornung, Jens; Hinderer, Matthias

    2017-07-01

    Rift sediments are important archives for the evolution of the East African Rift System. We present a source-to-sink study of the Nkondo-Kaiso area in the northern Albertine Rift from a ∼200 m thick late Miocene to early Pleistocene sediment succession. The multi-proxy provenance analysis includes framework petrography, heavy mineral studies and single grain studies of garnet and rutile. Mineral textures and provenance signatures indicate two major stages. Sediment of Stage 1 (late Miocene - late Pliocene; ∼6.5-2.6 Ma) is less mature with quartz contents of 58-81%, K-feldspar of 9-15%, plagioclase of 4-15%, and rock fragments of 1-9%. Heavy mineral spectra are dominated by epidote and amphibole with minor abundances of zircon, sillimanite and garnet. Garnet is almandine-rich and can be grouped according to grossular contents (<10% and >10%). Rutile exhibits a wide range of Nb and Cr concentrations, most of them typical for a metapelitic origin. Zr-in-rutile formation temperatures range between ∼570 and 940 °C. Garnet and rutile geochemistry mainly correspond to amphibolite-to granulite-facies igneous and metasedimentary rocks, which exist in the Mesoarchean Karuma Group and the Neoarchean granitoid gneiss of the North Uganda Terrane. Both are part of the adjacent eastern rift flank of the Albertine Rift. A slight change of the heavy mineral composition at ∼4.5 Ma can be correlated with the onset of the synrift stage ∼0.5-1.0 Ma later than in the southern Albertine Rift. Sediment of Stage 2 (early Pleistocene ∼2.6-1.0 Ma) shows a higher quartz content of 82-93%, and lower contents of K-feldspar of 5-11%, plagioclase of 1-7%, and rock fragments of 1-2%. Stable heavy minerals (ZTR index: 19-63) and epidote dominate with minor amphibole and garnet. Rutile and garnet chemical compositions remain largely unchanged to Stage 1 pointing to the same primary source. Obviously, Pleistocene sediment was mainly recycled from sedimentary rocks of the Neoproterozoic

  6. Detrital zircon (U-Th)/(He-Pb) double-dating constraints on provenance and foreland basin evolution of the Ainsa Basin, south-central Pyrenees, Spain

    NASA Astrophysics Data System (ADS)

    Thomson, Kelly D.; Stockli, Daniel F.; Clark, Julian D.; Puigdefàbregas, Cai; Fildani, Andrea

    2017-07-01

    South central Pyrenean foreland basin fill preserves the eroded remnants of the early stages of fold-thrust belt evolution and topographic growth. Specifically, the Eocene Hecho Group in the Ainsa Basin contains a succession of turbiditic channels and levees deposited in the transition zone between the fluvial-deltaic and deep marine depozones. Detailed isotopic provenance analyses allow for the reconstruction of sediment sources of the ancient sediment routing systems. This study presents 2332 new detrital zircon (DZ) U-Pb ages and 246 new DZ double-dated (U-Th)/(He-Pb) ages from 19 turbiditic and fluvio-deltatic sandstones in the Ainsa Basin. These data indicate a progressive provenance shift from Cadomian/Caledonian plutonic and metamorphic rocks of the eastern Pyrenees to Variscan plutonic rocks in the central Pyrenees. Minor sediment contributions from sources located to the S and SE of the basin are seen throughout the section. New DZ (U-Th)/He results identify four main cooling events: Pyrenean orogenesis ( 56 Ma), initial basin inversion ( 80 Ma), Cretaceous rifting ( 100 Ma), and pre-Mesozoic cooling ages related to earlier tectonic phases. This study imposes new constraints on the paleogeographic evolution of the Pyrenees and illustrates that high-frequency fluctuations in sediment delivery processes and sediment routing introduce superimposed noise upon the basin-scale long-term provenance evolution during orogenesis.

  7. Formulation design space: a proven approach to maximize flexibility and outcomes within early clinical development.

    PubMed

    McDermott, John; Scholes, Peter

    2015-01-01

    Traditional formulation development studies involve expensive and time-consuming screening of prototypes in preclinical species to select 'lead' systems for evaluation in human clinical pharmacokinetic studies. A new paradigm, Translational Pharmaceutics, has emerged to integrate pharmaceutical development, manufacturing and clinical functions to address these restrictions. Rapid Formulation development and Clinical Testing (RapidFACT) is applied to exploit the benefits of Translational Pharmaceutics in the clinical screening and optimization of drug products. Benefits are maximized by the adapted utilization of the concept of 'formulation design space'. This article presents the experience of the application of design space within RapidFACT and is supported by data from over 200 formulations studied to date, including case studies on how the approach has been applied.

  8. Middle-Late Mesozoic sedimentary provenances of the Luxi and Jiaolai areas: Implications for tectonic evolution of the North China Block

    NASA Astrophysics Data System (ADS)

    Xu, Jianqiang; Li, Zhong

    2015-11-01

    Provenances of sedimentary rocks may provide important constraints on the tectonic evolution of the North China Block (NCB). Previous studies have demonstrated that the northern NCB (NNCB) and the Xing-Meng orogenic belt (XMOB) supplied massive detritus southward into the hinterland of the NCB during the Jurassic. In order to study the evolution of sedimentary provenance during the Middle-Late Mesozoic, U-Pb geochronology and Hf isotopic geochemistry of detrital zircon grains and chemical compositions of detrital garnets from sandstones in the Luxi and Jiaolai areas, eastern NCB, were analyzed in combination with published data on the Jurassic sandstones. The Late Paleozoic-Mesozoic (367-139 Ma) zircons in the lowermost Cretaceous Mengyin Formation samples from the Luxi area show εHf(t) values of -15.3 to -3.2 and +1.3 to +10.0, which are very similar to the results of analyses of the Jurassic formations. Further, the increased amount of Mesozoic zircons and granulite-derived garnets in the Mengyin Formation samples, compared to those in the Jurassic samples, indicates there was more detritus supply from the NNCB than from the XMOB. In the overlying Qingshan Formation samples, zircon grains do not exhibit Paleozoic ages, but most of them have Early Cretaceous ages and negative εHf(t) values, which are similar to the zircon grains extracted from the widespread Early Cretaceous igneous rocks in the NCB. This suggests that the provenance might have changed to a locally derived source. In contrast, the zircon population of the Early Cretaceous sandstones from the Jiaolai basin is dominated by grains of mid-Neoproterozoic age (700-900 Ma) which signifies contribution from the Sulu orogen. Moreover, the detrital garnet assemblages of sandstones in the Luxi area are not consistent with those from representative metamorphic rocks in the Sulu orogen. The above results seem to confirm that the Mesozoic sedimentary provenance of the Luxi area had no evident connection with

  9. Insights from heavy minerals and zircon U-Pb ages into the middle Miocene-Pliocene provenance evolution of the Yinggehai Basin, northwestern South China Sea

    NASA Astrophysics Data System (ADS)

    Jiang, Tao; Cao, Licheng; Xie, Xinong; Wang, Zhenfeng; Li, Xushen; Zhang, Yingzhao; Zhang, Daojun; Sun, Hui

    2015-08-01

    The well-preserved Cenozoic sedimentary record in the Yinggehai Basin, South China Sea, is suitable to explore the tectonic and climatic evolution of SE Asia. Red River, a large-scale fluvial system in this region, was previously regarded as the major sediment source for the basin. Here we combine heavy mineral analysis and detrital zircon U-Pb dating to shed new light on the middle Miocene-Pliocene provenance evolution at a basin scale. The results clearly reveal potential source areas additional to the Red River. Sediments have been delivered to the proximal areas from Hainan Island, as indicated by the high zircon content and the Yanshanian U-Pb ages in the southern segment of the Yingdong Slope. A provenance from Central Vietnam is explicitly discerned in the upper Miocene of the Central Depression, where sediments are characterized by few metamorphic heavy minerals and the U-Pb age pattern peaking at around 250 Ma and 440 Ma. Coeval large-scale relative sea-level fall and rapid exhumation along the Vietnamese margin together may have facilitated this long-distance sediment transport. Provenance of sediments from the Red River seems to change over time. Song Lo River, on the north side of the main stream, probably flowed from the NE and carried Neoproterozoic-early Paleozoic zircons to the Yinggehai Basin during the middle Miocene. Since the late Miocene, rocks along the Red River Fault Zone have become the dominant source. Subsequently, widespread metamorphic minerals in the Central Depression of the Yinggehai Basin, combined with the strong river incision and high offshore sedimentation rates, indicate an increased sediment supply from the Red River in the Pliocene.

  10. Provenance evolution of the Jurassic northern Qaidam Basin (West China) and its geological implications: evidence from detrital zircon geochronology

    NASA Astrophysics Data System (ADS)

    Yu, Long; Xiao, Ancheng; Wu, Lei; Tian, Yuntao; Rittner, Martin; Lou, Qianqian; Pan, Xiaotian

    2017-03-01

    The Jurassic system is the major hydrocarbon source rock and of crucial importance for understanding the Mesozoic intra-continental tectonics in West China. This paper presents systematic detrital zircon geochronology of the Jurassic outcropping at the Dameigou locality in the northern Qaidam Basin, and reports 1000 single-grain U-Pb zircon ages that have implications for the provenance, the corresponding basin property as well as the tectonic setting of West China during Jurassic. Zircon ages exhibit two major clusters at 250 and 2400 Ma whereas two minor clusters at 450 and 850 Ma, suggesting primary sources from the East Kunlun Shan and Oulongbuluke Block, secondary sources from the North Qaidam UHP belt and South Qilian Shan. Combined with observation of lithology and sedimentary facies, two rifting periods were inferred in the earliest Jurassic and the early stage of the Middle Jurassic, respectively, accompanied by further extension throughout the Jurassic. Our results do not support a foreland basin related to the Jurassic southward thrusting of the South Qilian Shan, but favor that the Mesozoic intra-continental tectonics in West China were characterised by pulsed responses to specific collisions rather than a persisting contractional setting during Jurassic period.

  11. Mechanistic approaches to the study of evolution

    PubMed Central

    Dean, Antony M.; Thornton, Joseph W.

    2008-01-01

    An emerging synthesis of evolutionary biology and experimental molecular biology is providing much stronger and deeper inferences about the dynamics and mechanisms of evolution than were possible in the past. The new approach combines statistical analyses of gene sequences with manipulative molecular experiments to reveal how ancient mutations altered biochemical processes and produced novel phenotypes. This functional synthesis has set the stage for major advances in our understanding of fundamental questions in evolutionary biology. Here we describe this emerging approach, highlight important new insights that it has made possible, and suggest future directions for the field. PMID:17703238

  12. Sedimentological and stratigraphic evolution of the southern part of the Barberton greenstone belt: A case of changing provenance and stability

    NASA Technical Reports Server (NTRS)

    Lowe, D. R.; Byerly, G. R.

    1986-01-01

    The sedimentological and stratigraphic evolution of the 3.5 to 3.3 Ga Barberton Greenstone Belt can be divided into three principal stages: (1) the volcanic platform stage during which at least 8 km of mafic and ultramafic volcanic rocks, minor felsic volcanic units, and thin sedimentary layers (Onverwacht Group) accumulated under generally anorogenic conditions; (2) a transitional stage of developing instability during which widespread dacitic volcanism and associated pyroclastic and volcaniclastic sedimentation was punctuated by the deposition of terrigenous debris derived by uplift and shallow erosion of the belt itself (Fig Tree Group); (3) an orogenic stage involving cessation of active volcanism, extensive thrust faulting, and widespread deposition of clastic sediments representing deep erosion of the greenstone belt sequence as well as sources outside of the belt (Moodies Group).

  13. 40Ar/39Ar mica dating of late Cenozoic sediments in the upper Yangtze: Implications for sediment provenance and drainage evolution

    NASA Astrophysics Data System (ADS)

    Sun, Xilin; Li, Chang'an; Kuiper, Kuiper; Zhang, Zengjie; Wijbrans, Jan

    2017-04-01

    The development of the river systems in East Asia is closely linked to the uplift of the Tibetan plateau caused by collision of the India-Eurasia. The Yangtze River is the largest river in Asia and the timing and exact causes of its formation are still a matter of debate. Controversy exists for example on the start of the connection of the eastern Tibetan rivers to the eastward flowing Yangtze instead of the southward flowing Red River. Here we use the 40Ar/39Ar dating of detrital micas (muscovite and biotite) and muscovite geochemistry to constrain the sediment provenance in the eastern Tibetan Plateau. The remarkable spatial and temporal variation in sediment provenance allow us to extract information about the evolution of the upper Yangtze River. The combined data suggest that the upper Jinsha River upstream from Shigu town lost its connection with the southward flowing Red River at least earlier than the Pliocene. To the east of Shigu, the Yalong and Jinsha rivers flowed across the Yuanmou Basin into the Red River before 3.1 Ma, but abandoned this connection and turned east somewhere between 3.1 and 2.1 Ma. Our results rule out the possibility of a west-flowing Jinsha River since 1.58 Ma. The current stream directions between Shigu and Panzhihua go north, south and east and must have been formed at that time. Our data also shed new light on the evolution of the Dadu River. The Dadu River did not flow southward into Yuanmou Basin at least since 4.8 Ma but flowed into the Jinsha River along the Anninghe Fault. These capture events are closely linked to the tectonism of the eastern Tibetan Plateau and intensification of the East Asia monsoon.

  14. Combined heavy mineral and biomarker analysis in silt: a novel approach for provenance studies (Indus Fan, IODP Expedition 355)

    NASA Astrophysics Data System (ADS)

    Andò, Sergio; Bratenkov, Sophia; Hahn, Annette; George, Simon; Clift, Peter D.; Garzanti, Eduardo

    2016-04-01

    A high-resolution mineralogical study of Indus Fan turbiditic sediments cored during IODP Expedition 355 (Arabian Sea Monsoon) in the Laxmi Basin was carried out to investigate and quantify the different compositional signatures encoded in the sand, silt, and clay fractions. The turbidite deposits recovered at IODP Sites U1456 and U1457 in sedimentological Unit II were chosen as the best candidate for such a study. The integrated dataset presented here was obtained by coupling traditional and innovative bulk-sediment to single-grain analytical techniques, including bulk petrography, heavy-mineral and biomarker analyses on the same samples. Reliable quantitative results even in the medium to fine silt classes, which represent the dominant sediment sizes encountered in the recovered cores, were obtained by point-counting under the microscope, assisted by Micro-Raman spectroscopy (Andò et al., 2011; 2014). Preliminary data from the studied turbidites document rich and diverse heavy mineral assemblages in both the sand and silty-sand fractions. Heavy-mineral concentrations, as well as the number of mineral species, reach a maximum in sand and tend to decrease with grain size, becoming minimal in the clay fraction. Conversely, the biomarker analysis is generally focused on the finer sediment fractions and clay, where better preservation of biomarker compounds are obtained. The two approaches are thus complementary. Because biomarkers tend to be depleted in sand and heavy minerals in clay, the medium silt fraction represents the most suitable size window for the joint application of these two techniques. Comparing heavy-mineral assemblages with biomarkers allows us to evaluate both continental and marine inputs in turbidites and the hemipelagic deposits of the Indus Fan. This new methodological approach plays a key role in the identification of the effects of climate change on marine depositional environments and helps us to differentiate among the diverse Himalayan

  15. Geochronology and Geochemistry of the Paleoproterozoic Yinyugou Group in the Southern North China Craton: Implications for Provenance and Tectonic Evolution

    NASA Astrophysics Data System (ADS)

    Sun, Q.

    2016-12-01

    Clastic rocks that experience low-grade metamorphism are widely used to understand the formation and evolution of the continental crust. The Paleoproterozoic Yinyugou Group in the southern North China Craton is a littoral facies clastic sedimentary sequence which is mainly composed of sandstones and mica schists. Most sandstones have lower Chemical Index of Alteration values than the schists, indicating that the sandstones experienced relatively weak chemical weathering process. The relatively mature material source of sandstones is evidenced by higher SiO2/Al2O3 value and lower Index of Compositional Variability values relative to the schists. Enrichment of LREE relative to HREE, flat HREE patterns and slightly negative Eu anomalies indicate the sedimentary sources are mainly composed of felsic rocks. Discrimination diagrams reveal that the Yinyugou Group received detritus dominantly from felsic sources with important contribution from mafic igneous rocks. U-Pb ages of detrital zircons can be divided into three groups: 2.65-2.40 Ga, 2.90-2.70 Ga and 3.50-3.20 Ga, with one predominant age peak at 2.50 Ga. A weighted average age of 2383±38 Ma calculated from the youngest detrital zircons bracket the maximum depositional age at 2380 Ma. Most 2.50 Ga zircons show sub-depleted mantle positive ɛHf(t) values and TDMC ages chiefly range from 3.10-2.70 Ga, representing the time of juvenile magmas extracted from depleted mantle. A small proportion of 2.50 Ga zircons give depleted mantle-like ɛHf(t) values with TDMC ages slightly older than their 207Pb/206Pb ages, suggesting growth of juvenile crust plus to the extensive reworking of mature crust at 2.5 Ga. The characteristics of dual sources and both passive margin and arc-related setting suggest that the Yinyugou Group were most likely deposited in a back-arc setting. Considering the previous studies, we propose that the NCC experienced a cycle of subduction-extension-subduction processes during Paleoproterozoic.

  16. Information Provenance in Social Media

    NASA Astrophysics Data System (ADS)

    Barbier, Geoffrey; Liu, Huan

    Information appearing in social media provides a challenge for determining the provenance of the information. However, the same characteristics that make the social media environment challenging provide unique and untapped opportunities for solving the information provenance problem for social media. Current approaches for tracking provenance information do not scale for social media and consequently there is a gap in provenance methodologies and technologies providing exciting research opportunities for computer scientists and sociologists. This paper introduces a theoretical approach aimed guiding future efforts to realize a provenance capability for social media that is not available today. The guiding vision is the use of social media information itself to realize a useful amount provenance data for information in social media.

  17. An evolutionary developmental approach to cultural evolution.

    PubMed

    Andersson, Claes; Törnberg, Anton; Törnberg, Petter

    2014-04-01

    Evolutionary developmental theories in biology see the processes and organization of organisms as crucial for understanding the dynamic behavior of organic evolution. Darwinian forces are seen as necessary but not sufficient for explaining observed evolutionary patterns. We here propose that the same arguments apply with even greater force to culture vis-à-vis cultural evolution. In order not to argue entirely in the abstract, we demonstrate the proposed approach by combining a set of different models into a provisional synthetic theory and by applying this theory to a number of short case studies. What emerges is a set of concepts and models that allow us to consider entirely new types of explanations for the evolution of cultures. For example, we see how feedback relations--both within societies and between societies and their ecological environment--have the power to shape evolutionary history in profound ways. The ambition here is not to produce a definitive statement on what such a theory should look like but rather to propose a starting point along with an argumentation and demonstration of its potential.

  18. Glacial landscape evolution by subglacial quarrying: A multiscale computational approach

    NASA Astrophysics Data System (ADS)

    Ugelvig, Sofie V.; Egholm, David L.; Iverson, Neal R.

    2016-11-01

    Quarrying of bedrock is a primary agent of subglacial erosion. Although the mechanical theory behind the process has been studied for decades, it has proven difficult to formulate the governing principles so that large-scale landscape evolution models can be used to integrate erosion over time. The existing mechanical theory thus stands largely untested in its ability to explain postglacial topography. In this study we relate the physics of quarrying to long-term landscape evolution with a multiscale approach that connects meter-scale cavities to kilometer-scale glacial landscapes. By averaging the quarrying rate across many small-scale bedrock steps, we quantify how regional trends in basal sliding speed, effective pressure, and bed slope affect the rate of erosion. A sensitivity test indicates that a power law formulated in terms of these three variables provides an acceptable basis for quantifying regional-scale rates of quarrying. Our results highlight the strong influence of effective pressure, which intensifies quarrying by increasing the volume of the bed that is stressed by the ice and thereby the probability of rock failure. The resulting pressure dependency points to subglacial hydrology as a primary factor for influencing rates of quarrying and hence for shaping the bedrock topography under warm-based glaciers. When applied in a landscape evolution model, the erosion law for quarrying produces recognizable large-scale glacial landforms: U-shaped valleys, hanging valleys, and overdeepenings. The landforms produced are very similar to those predicted by more standard sliding-based erosion laws, but overall quarrying is more focused in valleys, and less effective at higher elevations.

  19. Provenance and tectonic-paleogeographic evolution: Constraints from detrital zircon U-Pb ages of Late Triassic-Early Jurassic deposits in the northern Sichuan basin, central China

    NASA Astrophysics Data System (ADS)

    Shao, Tongbin; Cheng, Nanfei; Song, Maoshuang

    2016-09-01

    U-Pb ages of 290 new detrital zircons from five Late Triassic-Early Jurassic sandstone samples in the northern Sichuan basin, along with other geological data, are used to constrain the sediment provenance and evaluate tectonic-paleogeographic evolution for the adjacent orogens through/from which these sediments were potentially derived. The Upper Triassic depocenter was located at the front of the Longmen Shan belt, and sediments in the western, southern and eastern Sichuan basin shared the southern North China block (NCB) and Qinling belt with the eastern Songpan-Ganzi terrane of Middle-Upper Triassic via the Longmen Shan belt, whereas the northern part of the basin was fed by dominant South Qinling belt (SQB) and northern Yangtze block and possibly subordinate southern NCB. Also, the youngest population in the northern Sichuan basin has a slightly younger age peak (∼235 Ma) than those (∼270 Ma) in other parts of the basin. During the Early Jurassic, the depocenter was still at the front of the Longmen Shan belt but only northern regions (e.g., SQB and northern Yangtze block) fed the basin. The northern Sichuan basin received less sediments from the southern NCB and more from the SQB and northern Yangtze block during the Early Jurassic than during the Late Triassic. The middle Mesoproterozoic detrital zircons, which likely originated from the North Qinling belt and northern Yangtze block where rocks with these zircons may be unexposed, occur more widely in the Lower Jurassic than in the Upper Triassic. These facts suggest that from the Late Triassic to Early Jurassic, it was increasingly difficult for sediments to transport from the NCB into the northern Sichuan basin and the provenance transferred progressively from the southern NCB to both the SQB and northern Yangtze block, implying the continuous South China block-NCB collision during that time.

  20. Evolution of the western East African Rift System reflected in provenance changes of Miocene to Pleistocene synrift sediments (Albertine Rift, Uganda)

    NASA Astrophysics Data System (ADS)

    Schneider, Sandra; Hornung, Jens; Hinderer, Matthias

    2016-08-01

    Miocene to Pleistocene synrift sediments in the Albertine Graben reflect the complex geodynamic evolution in the Western branch of the East African Rift System. In this study we focus on the provenance of these siliciclastic deposits to identify sediment sources and supply paths with the ultimate goal to reconstruct the exhumation history of different tectonic blocks during prolonged rifting, with specific focus on the uplift of the Rwenzori Mountains in Uganda. We present framework and heavy mineral petrographic data combined with varietal studies of detrital garnet and rutile, based on logged sediment sections on the Ugandan side of Lake Albert (Kisegi-Nyabusosi area). The analyzed sedimentary units have a feldspatho-quartzose composition and distinct variations in heavy mineral assemblages and mineral chemical composition indicating two provenance changes. The Miocene part of the stratigraphy is dominated by garnet, zircon, tourmaline and rutile, whereas Pliocene to Pleistocene sediment yields high amounts of less stable amphibole and epidote. An abrupt switch in heavy mineral assemblages occurs during the early Pliocene ( 5.5-5.0 Ma) and clearly postdates the formation of Palaeolake Obweruka at 8 Ma. Provenance signatures point to major sediment supply from the northeast and subsequently from the southeast. We interpret this first shift as transition from the pre-rift to the syn-rift stage. In this scenario, formation of Palaeolake Obweruka is due to higher humidity in the upper Miocene, rather than forced rifting. A second change of sediment composition is documented by mineral geochemistry and coincides with fragmentation of Palaeolake Obweruka starting at 2.5 Ma. Detrital garnet in sediment of Miocene to Pliocene age is rich in pyrope and almandine and calculated Zr-in-rutile temperatures range between 550 and 950 °C. In contrast, garnet occurring in Pleistocene sediment (Nyabusosi Formation) has a higher spessartine component and rutile thermometry is

  1. Clay mineral contribution from various provenances in the northern South China Sea over the past 400 kyr: implications for the East Asian monsoon evolution

    NASA Astrophysics Data System (ADS)

    Chen, Quan; Liu, Zhifei; Xie, Xin; Kissel, Catherine

    2014-05-01

    Clay mineralogy of Core MD12-3432 taken at 2125 m water depth (CIRCEA cruise on board the R.V. Marion Dufresne, IPEV) in the northern South China Sea was investigated in order to understand the time series contribution of terrigenous sediments from various provenances. With calibration of a low-resolution analysis on carbonate concentration and major elements, we converted the XRF core scanned calcium data into a high-resolution carbonate content records. Through referring to the well-dated carbonate record of nearby Core MD05-2904, we established a reliable age model, indicating about 400 kyr ago at the bottom of Core MD12-3432. The clay mineral assemblage is dominated by smectite (23-59%) and illite (22-43%), with minor chlorite (13-27%) and kaolinite (4-13%). The time series variation of clay mineral assemblages indicates strong glacial-interglacial cyclicity. In general, the variation in smectite content is similar to that of carbonate concentration, with higher values during interglacials than during glacials, while illite and chlorite contents showing opposite patterns. The change in kaolinite content shows an independent pattern with high values during glacials, corresponding well with the illite crystallinity variation. The provenance analysis of these clay minerals suggests three end-member sources: all smectites derive from Luzon, all kaolinites originate from the Pearl River, and illite and chlorite are coming from both the Pearl River and Taiwan. Using the linear separation method of illite crystallinity, a time series of the clay mineral contribution from the three major provenances to the northern South China Sea was reconstructed. Combined with spectral analyses, we suggest the clay mineral contribution from Pearl River was mainly influenced by sea level change, while the East Asian summer monsoon controlled the contribution from Luzon. The strong precipitation rate related to intensive East Asian summer monsoon would have enhanced the denudation and

  2. Provenance evolution of Southern Pyrenees foreland basin fill during inversion and early orogenesis using detrital zircon (U-Th)/(He-Pb) double dating

    NASA Astrophysics Data System (ADS)

    Odlum, M.; Thomson, K. D.; Stockli, D. F.; Fildani, A.; Clark, J. D.; Puigdefabregas, C.

    2016-12-01

    New detrital zircon (DZ) U-Pb and (U-Th)/He double dating from exceptionally preserved extensional and contractional basin stratigraphy shows changes in drainage and provenance that elucidate the dynamics among pre-orogenic rift basins, the orogenic hinterland, and foreland basins during tectonic inversion and orogenesis in the Pyrenees. Flysch deposits of the Vallcarga Fm. represent the initiation of foreland basin deposition during the Late Cretaceous in response to tectonic inversion of the hyperextended Iberian-Eurasian margin. DZ U-Pb data from Vallcarga flysch indicate sediment sources derived from recycling of syn-rift sediments. DZ U-Pb data from the Paleocene Tremp Fm. suggest continued recycling of Early Cretaceous-Triassic sediments sourced from the north and east with input from S-SE sources in the Catalan Coastal Ranges and/or Iberian basement blocks. Eocene sandstones from the Ripoll Basin suggest primary sediment sources from the eastern Axial Zone with minor input from the Catalan Coastal Ranges. Ripoll Basin DZ data show a systematic up section decrease in grains derived from the Catalan Coastal Ranges compensated by an increase in grains from the Axial Zone as the orogen started to develop significant topography exhuming and eroding Paleozoic basement rocks. The Pyrenees are ideally suited to use DZ double-dating to study foreland basin evolution and sediment routing during orogenesis. New double-dated DZ data allow for a more detailed understanding of the provenance evolution of the foreland basin fill during tectonic inversion. The earliest foreland basin deposits after the onset of convergence 83 Ma are sourced from both north and eastern recycled syn-rift basin fill and southern sources which persisted for 20 myrs as the highly-attenuated crust thickened. Eocene deposits record the initiation of the basement-involved Axial Zone shortening and progressive orogenic unroofing during convergence. These results demonstrate that recycling of early

  3. Student Teachers' Approaches to Teaching Biological Evolution

    ERIC Educational Resources Information Center

    Borgerding, Lisa A.; Klein, Vanessa A.; Ghosh, Rajlakshmi; Eibel, Albert

    2015-01-01

    Evolution is fundamental to biology and scientific literacy, but teaching high school evolution is often difficult. Evolution teachers face several challenges including limited content knowledge, personal conflicts with evolution, expectations of resistance, concerns about students' conflicts with religion, and curricular constraints. Evolution…

  4. Student Teachers' Approaches to Teaching Biological Evolution

    ERIC Educational Resources Information Center

    Borgerding, Lisa A.; Klein, Vanessa A.; Ghosh, Rajlakshmi; Eibel, Albert

    2015-01-01

    Evolution is fundamental to biology and scientific literacy, but teaching high school evolution is often difficult. Evolution teachers face several challenges including limited content knowledge, personal conflicts with evolution, expectations of resistance, concerns about students' conflicts with religion, and curricular constraints. Evolution…

  5. Biological evolution and behavioral evolution: two approaches to altruism.

    PubMed

    Rachlin, Howard; Locey, Matthew L; Safin, Vasiliy

    2013-02-01

    Altruism may be learned (behavioral evolution) in a way similar to that proposed in the target article for its biological evolution. Altruism (over social space) corresponds to self-control (over time). In both cases, one must learn to ignore the rewards to a particular (person or moment) and behave to maximize the rewards to a group (of people or moments).

  6. Evolution of approaches to viral safety issues for biological products.

    PubMed

    Lubiniecki, Anthony S

    2011-01-01

    CONFERENCE PROCEEDING Proceedings of the PDA/FDA Adventitious Viruses in Biologics: Detection and Mitigation Strategies Workshop in Bethesda, MD, USA; December 1-3, 2010 Guest Editors: Arifa Khan (Bethesda, MD), Patricia Hughes (Bethesda, MD) and Michael Wiebe (San Francisco, CA) Approaches to viral safety issues for biological products have evolved during the past 50+ years. The first cell culture products (viral vaccines) relied largely on the use of in vitro and in vivo virus screening assays that were based upon infectivity of adventitious viral agents. The use of Cohn fractionation and pasteurization by manufacturers of plasma derivatives introduced the concepts that purification and treatment with physical and chemical agents could greatly reduce the risk of viral contamination of human albumin and immunoglobulin products. But the limitations of such approaches became clear for thermolabile products that were removed early in fractionation such as antihemophilic factors, which transmitted hepatitis viruses and HIV-1 to some product recipients. These successes and limitations were taken into account by the early developers of recombinant DNA (rDNA)-derived cell culture products and by regulatory agencies, leading to the utilization of cloning technology to reduce/eliminate contamination due to human viruses and purification technologies to physically remove and inactivate adventitious and endogenous viruses, along with cell banking and cell bank characterization for adventitious and endogenous viruses, viral screening of biological raw materials, and testing of cell culture harvests, to ensure virus safety. Later development and incorporation of nanofiltration technology in the manufacturing process provided additional assurance of viral clearance for safety of biotechnology products. These measures have proven very effective at preventing iatrogenic infection of recipients of biotechnology products; however, viral contamination of production cell cultures has

  7. [Technological approach to insect anatomy and evolution].

    PubMed

    Fedoseeva, E B

    2008-01-01

    Principal disadvantage of most of the recent approaches to reconstructions of the insect evolution is due to comparison of the species by formal character sets with unknown functional relations. This leads to ignorance of the systemic nature of differences caused by integrity of the living beings. Under consideration is an alternative approach to description of the insect body construction based on A.M. Ugolev's concept of natural technologies. According to it, a morphological structure is a device designed for fulfilment of certain tasks. Therefore, a structure's characteristics have to fulfill the tasks' conditions. This approach is considered as applied to the systems of muscles and sclerits providing for vitally significant functions such as feeding, locomotion, communication, protection etc. Any such skeletal-muscle system is arranged hierarchically. A muscle together with its supporting sclerits is considered as a skeletal-muscle complex (SMC) capable for a mechanic action. Such SMCs, after respective muscle activations, are integrated into blocks responsible for the elementary tasks of the lower level of the motoric process. Each block can be formed by both a particular active SMC and by a group of biomechanical elements. Each block is considered mono-functional, unlike multifunctional SMCs, as it accomplishes a particular elementary task, namely displacement of a particular sclerit. Various compositions of blocks form subsystems corresponding to the higher level tasks. An aggregation of SMCs constituting the blocks accomplishing elementary actions is defined as the technological system designed for the motoric process. Organismic SMCs being compositionally constant, control over their activity serves as a mechanism of combining biomechanical elements. This mechanism is responsible for creation of a wide spectrum of motoric systems. SMCs' composition is changed in the course of evolution which is reflected into motoric parameters. Thus, certain

  8. Provenance and detrital zircon geochronologic evolution of lower Brookian foreland basin deposits of the western Brooks Range, Alaska, and implications for early Brookian tectonism

    USGS Publications Warehouse

    Moore, Thomas; O'Sullivan, Paul B.; Potter, Christopher J.; Donelick, Raymond A.

    2015-01-01

    The Upper Jurassic and Lower Cretaceous part of the Brookian sequence of northern Alaska consists of syntectonic deposits shed from the north-directed, early Brookian orogenic belt. We employ sandstone petrography, detrital zircon U-Pb age analysis, and zircon fission-track double-dating methods to investigate these deposits in a succession of thin regional thrust sheets in the western Brooks Range and in the adjacent Colville foreland basin to determine sediment provenance, sedimentary dispersal patterns, and to reconstruct the evolution of the Brookian orogen. The oldest and structurally highest deposits are allochthonous Upper Jurassic volcanic arc–derived sandstones that rest on accreted ophiolitic and/or subduction assemblage mafic igneous rocks. These strata contain a nearly unimodal Late Jurassic zircon population and are interpreted to be a fragment of a forearc basin that was emplaced onto the Brooks Range during arc-continent collision. Synorogenic deposits found at structurally lower levels contain decreasing amounts of ophiolite and arc debris, Jurassic zircons, and increasing amounts of continentally derived sedimentary detritus accompanied by broadly distributed late Paleozoic and Triassic (359–200 Ma), early Paleozoic (542–359 Ma), and Paleoproterozoic (2000–1750 Ma) zircon populations. The zircon populations display fission-track evidence of cooling during the Brookian event and evidence of an earlier episode of cooling in the late Paleozoic and Triassic. Surprisingly, there is little evidence for erosion of the continental basement of Arctic Alaska, its Paleozoic sedimentary cover, or its hinterland metamorphic rocks in early foreland basin strata at any structural and/or stratigraphic level in the western Brooks Range. Detritus from exhumation of these sources did not arrive in the foreland basin until the middle or late Albian in the central part of the Colville Basin.These observations indicate that two primary provenance areas provided

  9. A Proven Way to Incorporate Catholic Social Thought in Business School Curricula: Teaching Two Approaches to Management in the Classroom

    ERIC Educational Resources Information Center

    Dyck, Bruno

    2013-01-01

    Widespread agreement suggests that it is appropriate and desirable to develop and teach business theory and practice consistent with Catholic social teaching (CST) in Catholic business schools. Such a curriculum would cover the same mainstream material taught in other business schools, but then offer a CST approach to business that can be…

  10. A Proven Way to Incorporate Catholic Social Thought in Business School Curricula: Teaching Two Approaches to Management in the Classroom

    ERIC Educational Resources Information Center

    Dyck, Bruno

    2013-01-01

    Widespread agreement suggests that it is appropriate and desirable to develop and teach business theory and practice consistent with Catholic social teaching (CST) in Catholic business schools. Such a curriculum would cover the same mainstream material taught in other business schools, but then offer a CST approach to business that can be…

  11. New approach to the differentiation of marble samples using thermal analysis and chemometrics in order to identify provenance

    PubMed Central

    2014-01-01

    Background The possibility of applying a novel chemometric approach which could allow the differentiation of marble samples, all from different quarries located in the Mediterranean basin and frequently used in ancient times for artistic purposes, was investigated. By suggesting tentative or allowing to rule out unlikely attributions, this kind of differentiation could, indeed, be of valuable support to restorers and other professionals in the field of cultural heritage. Experimental data were obtained only using thermal analytical techniques: Thermogravimetry (TG), Derivative Thermogravimetry (DTG) and Differential Thermal Analysis (DTA). Results The extraction of kinetic parameters from the curves obtained using these thermal analytical techniques allowed Activation Energy values to be evaluated together with the logarithm of the Arrhenius pre-exponential factor of the main TG-DTG process. The main data thus obtained after subsequent chemometric evaluation (using Principal Components Analysis) have already proved useful in the identification the original quarry of a small number of archaeological marble finds. Conclusion One of the most evident advantages of the thermoanalytical – chemometric approach adopted seems to be that it allows the certain identification of an unknown find composed of a marble known to be present among the reference samples considered, that is, contained in the reference file. On the other hand with equal certainty it prevents the occurrence of erroneous or highly uncertain identification if the find being tested does not belong to the reference file considered. PMID:24982691

  12. Evolution as a Controversial Issue: A Review of Instructional Approaches

    ERIC Educational Resources Information Center

    Hermann, Ronald S.

    2008-01-01

    Although evolution has long been considered a controversial issue, little effort has been made to ensure that instructional approaches address the controversial nature of the issue. A framework for understanding the nature of controversy and some defining characteristics of controversial issues are provided. In light of this framework evolution is…

  13. Coastal Foredune Evolution, Part 2: Modeling Approaches for Meso-Scale Morphologic Evolution

    DTIC Science & Technology

    2017-03-01

    ERDC/CHL CHETN-II-57 March 2017 Approved for public release; distribution is unlimited. Coastal Foredune Evolution , Part 2: Modeling Approaches...for Meso-Scale Morphologic Evolution by Margaret L. Palmsten1, Katherine L. Brodie2, and Nicholas J. Spore2 PURPOSE: This Coastal and Hydraulics...Engineering Technical Note (CHETN) is the second of two CHETNs focused on improving technologies to forecast coastal foredune evolution . Part 1

  14. A new detrital mica 40Ar/39Ar dating approach for provenance and exhumation of the Eastern Alps

    NASA Astrophysics Data System (ADS)

    Gemignani, L.; Sun, Xilin; Braun, J.; van Gerve, T. D.; Wijbrans, J. R.

    2017-08-01

    Detrital thermochronology can be used as a tool to quantitatively constrain exhumation rates and its spatial variability from active mountain belts. Commonly used methods for this purpose assume a steady state relationship between tectonic uplift and erosion. However, this assumption does not account for the transitory response of a dynamic orogenic system to changes in the boundary conditions. We propose a different approach that uses the observed detrital age distributions as "markers" of the past exhumation and of the present-day erosion and mixing occurring in a river system. In this paper, we present new 40Ar/39Ar biotite and white mica age distributions for 19 modern river sands from the Eastern Alps north of the Periadriatic line. The results present three main clusters of ages at 0.5-50, 60-120, and 250-350 Ma that record the main orogenic phases in this sector of the Alps. We have applied two numerical methods to the cooling ages to (a) linearly compute the spatial variability of the relative present-day erosion of a set of four detrital mineral samples from drainage basins along the Inn River and (b) quantify the rates of the cooling and erosion in the Tauern Window during Paleocene-Miocene time of the Alpine orogeny. Our results suggest a 0.34-0.84 mm/yr range of exhumation rates for the Tauern Window since the Miocene. Our estimates of exhumation rates of the western Tauern Window are higher than those for the eastern Tauern Window, which is consistent with the previous studies.

  15. A Cultural Evolution Approach to Digital Media

    PubMed Central

    Acerbi, Alberto

    2016-01-01

    Digital media have today an enormous diffusion, and their influence on the behavior of a vast part of the human population can hardly be underestimated. In this review I propose that cultural evolution theory, including both a sophisticated view of human behavior and a methodological attitude to modeling and quantitative analysis, provides a useful framework to study the effects and the developments of media in the digital age. I will first give a general presentation of the cultural evolution framework, and I will then introduce this more specific research program with two illustrative topics. The first topic concerns how cultural transmission biases, that is, simple heuristics such as “copy prestigious individuals” or “copy the majority,” operate in the novel context of digital media. The existence of transmission biases is generally justified with their adaptivity in small-scale societies. How do they operate in an environment where, for example, prestigious individuals possess not-relevant skills, or popularity is explicitly quantified and advertised? The second aspect relates to fidelity of cultural transmission. Digitally-mediated interactions support cheap and immediate high-fidelity transmission, in opposition, for example, to oral traditions. How does this change the content that is more likely to spread? Overall, I suggest the usefulness of a “long view” to our contemporary digital environment, contextualized in cognitive science and cultural evolution theory, and I discuss how this perspective could help us to understand what is genuinely new and what is not. PMID:28018200

  16. A Cultural Evolution Approach to Digital Media.

    PubMed

    Acerbi, Alberto

    2016-01-01

    Digital media have today an enormous diffusion, and their influence on the behavior of a vast part of the human population can hardly be underestimated. In this review I propose that cultural evolution theory, including both a sophisticated view of human behavior and a methodological attitude to modeling and quantitative analysis, provides a useful framework to study the effects and the developments of media in the digital age. I will first give a general presentation of the cultural evolution framework, and I will then introduce this more specific research program with two illustrative topics. The first topic concerns how cultural transmission biases, that is, simple heuristics such as "copy prestigious individuals" or "copy the majority," operate in the novel context of digital media. The existence of transmission biases is generally justified with their adaptivity in small-scale societies. How do they operate in an environment where, for example, prestigious individuals possess not-relevant skills, or popularity is explicitly quantified and advertised? The second aspect relates to fidelity of cultural transmission. Digitally-mediated interactions support cheap and immediate high-fidelity transmission, in opposition, for example, to oral traditions. How does this change the content that is more likely to spread? Overall, I suggest the usefulness of a "long view" to our contemporary digital environment, contextualized in cognitive science and cultural evolution theory, and I discuss how this perspective could help us to understand what is genuinely new and what is not.

  17. Medical rare book provenance.

    PubMed Central

    Overmier, J A; Sentz, L

    1987-01-01

    Provenance is defined as the record of a book's ownership history. Its value and uses are explored. A survey of provenance practices in medical school rare book libraries found that only 21% of the reporting libraries maintain this important file. Examples of the uses and value of a provenance file in a medical rare book collection are presented. Decisions necessary to institute and maintain such a file are outlined and discussed. PMID:3828606

  18. Articulating Babel: An approach to cultural evolution.

    PubMed

    Wimsatt, William C

    2013-12-01

    After an initial discussion of the character of interdisciplinary linkages between complex disciplines, I consider an area with confluences of many diverse disciplines-the study of cultural evolution. This must embrace not only the traditional biological sciences, but also the multiple often warring disciplines of the human sciences. This interdisciplinary articulation is in its early stages compared, e.g., to that of evolutionary biology or evolutionary developmental biology, and I try to lay out major axes along which its articulation should plausibly occur, given the relevant causal processes acting at different levels. One cannot have an adequate account of cultural evolution without recognizing a central role for cognitive and social development (since culture is cumulatively acquired by individuals through the life-cycle) and the social and cultural organizations and institutions and artifactual tools and infrastructure that support and structure these developmental processes. These induce a population structure that mediates the transmission, expression, and elaboration of culture, and in particular the different ways in which they scaffold learning and the development and articulation of complex skills. I consider how these elements should articulate the disciplines that tend to focus separately on them. Intentions and the market are not explicitly included in this account, and I consider ways in which these perspectives might enter. Copyright © 2013 Elsevier Ltd. All rights reserved.

  19. 74 FR 36198 - Flexible Approaches to Environmental Measurement-The Evolution of the Performance Approach

    Federal Register 2010, 2011, 2012, 2013, 2014

    2009-07-22

    ... From the Federal Register Online via the Government Publishing Office ENVIRONMENTAL PROTECTION AGENCY Flexible Approaches to Environmental Measurement--The Evolution of the Performance Approach AGENCY... up-to- date communication on the Agency's progress to Flexible Measurement-- The Evolution of the...

  20. Evolution of a Teaching Approach for Beginning Algebra

    ERIC Educational Resources Information Center

    Banerjee, Rakhi; Subramaniam, K.

    2012-01-01

    The article reports aspects of the evolution of a teaching approach over repeated trials for beginning symbolic algebra. The teaching approach emphasized the structural similarity between arithmetic and algebraic expressions and aimed at supporting students in making a transition from arithmetic to beginning algebra. The study was conducted with…

  1. Evolution of a Teaching Approach for Beginning Algebra

    ERIC Educational Resources Information Center

    Banerjee, Rakhi; Subramaniam, K.

    2012-01-01

    The article reports aspects of the evolution of a teaching approach over repeated trials for beginning symbolic algebra. The teaching approach emphasized the structural similarity between arithmetic and algebraic expressions and aimed at supporting students in making a transition from arithmetic to beginning algebra. The study was conducted with…

  2. Differential Evolution approach to detect recent admixture

    PubMed Central

    2015-01-01

    The genetic structure of human populations is extraordinarily complex and of fundamental importance to studies of anthropology, evolution, and medicine. As increasingly many individuals are of mixed origin, there is an unmet need for tools that can infer multiple origins. Misclassification of such individuals can lead to incorrect and costly misinterpretations of genomic data, primarily in disease studies and drug trials. We present an advanced tool to infer ancestry that can identify the biogeographic origins of highly mixed individuals. reAdmix can incorporate individual's knowledge of ancestors (e.g. having some ancestors from Turkey or a Scottish grandmother). reAdmix is an online tool available at http://chcb.saban-chla.usc.edu/reAdmix/. PMID:26111206

  3. Differential Evolution approach to detect recent admixture.

    PubMed

    Kozlov, Konstantin; Chebotarev, Dmitri; Hassan, Mehedi; Triska, Martin; Triska, Petr; Flegontov, Pavel; Tatarinova, Tatiana V

    2015-01-01

    The genetic structure of human populations is extraordinarily complex and of fundamental importance to studies of anthropology, evolution, and medicine. As increasingly many individuals are of mixed origin, there is an unmet need for tools that can infer multiple origins. Misclassification of such individuals can lead to incorrect and costly misinterpretations of genomic data, primarily in disease studies and drug trials. We present an advanced tool to infer ancestry that can identify the biogeographic origins of highly mixed individuals. reAdmix can incorporate individual's knowledge of ancestors (e.g. having some ancestors from Turkey or a Scottish grandmother). reAdmix is an online tool available at http://chcb.saban-chla.usc.edu/reAdmix/.

  4. Evolution, Physics, and Cancer: Disrupting Traditional Approache

    NASA Astrophysics Data System (ADS)

    Austin, Robert

    Physicists who were recruited to try and assist with the stubbornly constant mortality rates of cancer world-wide over the past 100 years have basically had the invitation withdrawn by the oncology community. The oncologists became annoyed with the independence of thought and the skepticism of some physicists with continuation of the present paradigm of the cancer genome as the rosette stone as the key to cancer. To quote a recent letter in Physics Today: ``Curing cancer is a complex biological problem to be solved by biologists''. Apparently our mission as minions is is to be high-level technicians. But I think that is wrong and will lead to continuation of the string of failures and deceptions foisted on the public at large by the Medical Industrial Complex, I think we really need to re-think cancer as a phenomena which is driven by evolution and may be desired by the organism and be a product of both the aging of the proteome and the genome. Further, searching for mutations (The Cancer Genome) may be completely the wrong direction, searching for protected genes may be as important as looking for mutated genes. I'll try to present the case that physicists should not have been kicked out of the Medical Industrial Complex that keeps the cancer business humming and profitable.

  5. An experimental approach to submarine canyon evolution

    NASA Astrophysics Data System (ADS)

    Lai, Steven Y. J.; Gerber, Thomas P.; Amblas, David

    2016-03-01

    We present results from a sandbox experiment designed to investigate how sediment gravity flows form and shape submarine canyons. In the experiment, unconfined saline gravity flows were released onto an inclined sand bed bounded on the downstream end by a movable floor that was used to increase relief during the experiment. In areas unaffected by the flows, we observed featureless, angle-of-repose submarine slopes formed by retrogressive breaching processes. In contrast, areas influenced by gravity flows cascading across the shelf break were deeply incised by submarine canyons with well-developed channel networks. Normalized canyon long profiles extracted from successive high-resolution digital elevation models collapse to a single profile when referenced to the migrating shelf-slope break, indicating self-similar growth in the relief defined by the canyon and intercanyon profiles. Although our experimental approach is simple, the resulting canyon morphology and behavior appear similar in several important respects to that observed in the field.

  6. Provenance in Neuroimaging

    PubMed Central

    MacKenzie-Graham, Allan J.; Van Horn, John D.; Woods, Roger P.; Crawford, Karen L.

    2008-01-01

    Provenance, the description of the history of a set of data, has grown more important with the proliferation of research consortia-related efforts in neuroimaging. Knowledge about the origin and history of an image is crucial for establishing data and results quality; detailed information about how it was processed, including the specific software routines and operating systems that were used, is necessary for proper interpretation, high fidelity replication and re-use. We have drafted a mechanism for describing provenance in a simple and easy to use environment, alleviating the burden of documentation from the user while still providing a rich description of an image’s provenance. This combination of ease of use and highly descriptive metadata should greatly facilitate the collection of provenance and subsequent sharing of data. PMID:18519166

  7. The composition and provenance of the Tortonian and Messinian turbidites in the context of the structural evolution of the Central Apennines along the ``Ancona-Anzio'' line

    NASA Astrophysics Data System (ADS)

    Chiocchini, Ugo; Cipriani, Nicola

    1989-06-01

    The "Ancona-Anzio" line is a complex tectonic system separating the Umbro-Marchide domain from the Latium-Abruzzi platform in the Central Apennines. It played a decisive role in turbiditic sedimentation in the four Latium-Abruzzi basins (Salto, Tagliacozzo, Liri and Sacco) in the Tortonian and in the Laga basin during the Messinian. Petrographic studies show that the composition of the turbiditic sandstones is the same in all the basins. In particular: (1) K-feldspar is always present in greater quantities than plagioclase; (2) the rock fragments consist mainly of carbonates and granitic-type rocks. The provenance of the turbidites is to be found in the western areas, from a fragment of the Alpine Chain that was associated with the Ligurids nappes during the eastward migration of the Apennines deformation. This fragment was probably eroded gradually between the Langhian and the Lower Pliocene with the filling-in of the Laga Basin. The presence of clasts derived from the erosion of crystalline rocks and from the Ligurids nappes has been documented as early as the Langhian in the basin of the Marnoso-Arenacea. During the Tortonian, the Latium-Abruzzi platform was lower than the Umbro-Marchide region and the gravity flows with western provenance were able to feed the four basins formed within the platform. Between the end of the Tortonian and the beginning of the Messinian, the relative uplift of the Latium-Abruzzi platform, due to displacements along the "Ancona-Anzio" line, caused the cessation of turbiditic sedimentation in the basins formed within the platform. The progressive eastward shift of the Apennine Chain favoured the migration of turbiditic sedimentation towards the outer foreland Laga basin.

  8. Depositional and provenance record of the Paleogene transition from foreland to hinterland basin evolution during Andean orogenesis, northern Middle Magdalena Valley Basin, Colombia

    NASA Astrophysics Data System (ADS)

    Moreno, Christopher J.; Horton, Brian K.; Caballero, Victor; Mora, Andrés; Parra, Mauricio; Sierra, Jair

    2011-10-01

    The Central Cordillera and Eastern Cordillera of the northern Andes form the topographic flanks of the north-trending Magdalena Valley Basin. Constraining the growth of these ranges and intervening basin has implications for Andean shortening and the transformation from a foreland to hinterland basin configuration. We present sedimentological, paleocurrent, and sandstone petrographic results from Cenozoic type localities to provide insights into the tectonic history of the northern Middle Magdalena Valley Basin of Colombia. In the Nuevo Mundo Syncline, the mid-Paleocene transition from marine to nonmarine deposystems of the Lisama Formation corresponds with a paleocurrent shift from northward to eastward transport. These changes match detrital geochronological evidence for a contemporaneous shift from cratonic (Amazonian) to orogenic (Andean) provenance, suggesting initial shortening-related uplift of the Central Cordillera and foreland basin generation in the Magdalena Valley by mid-Paleocene time. Subsequent establishment of a meandering fluvial system is recorded in lower-middle Eocene strata of the lower La Paz Formation. Eastward paleocurrents in mid-Paleocene through uppermost Eocene fluvial deposits indicate a continuous influence of western sediment source areas. However, at the upper middle Eocene (˜40 Ma) boundary between the lower and upper La Paz Formation, sandstone compositions show a drastic decrease in lithic content, particularly lithic volcanic fragments. This change is accompanied by a facies shift from mixed channel and overbank facies to thick, amalgamated braided fluvial deposits of possible fluvial megafans, reflecting changes in both the composition and proximity of western sediment sources. We attribute these modifications to the growing influence of exhumed La Cira-Infantas paleohighs in the axial Magdalena Valley, features presently buried beneath upper Eocene-Quaternary basin fill along the western flank of the Nuevo Mundo Syncline. In

  9. Empirical approaches to the study of language evolution.

    PubMed

    Fitch, W Tecumseh

    2017-02-01

    The study of language evolution, and human cognitive evolution more generally, has often been ridiculed as unscientific, but in fact it differs little from many other disciplines that investigate past events, such as geology or cosmology. Well-crafted models of language evolution make numerous testable hypotheses, and if the principles of strong inference (simultaneous testing of multiple plausible hypotheses) are adopted, there is an increasing amount of relevant data allowing empirical evaluation of such models. The articles in this special issue provide a concise overview of current models of language evolution, emphasizing the testable predictions that they make, along with overviews of the many sources of data available to test them (emphasizing comparative, neural, and genetic data). The key challenge facing the study of language evolution is not a lack of data, but rather a weak commitment to hypothesis-testing approaches and strong inference, exacerbated by the broad and highly interdisciplinary nature of the relevant data. This introduction offers an overview of the field, and a summary of what needed to evolve to provide our species with language-ready brains. It then briefly discusses different contemporary models of language evolution, followed by an overview of different sources of data to test these models. I conclude with my own multistage model of how different components of language could have evolved.

  10. Evolution of biomedical ontologies and mappings: Overview of recent approaches.

    PubMed

    Groß, Anika; Pruski, Cédric; Rahm, Erhard

    2016-01-01

    Biomedical ontologies are heavily used to annotate data, and different ontologies are often interlinked by ontology mappings. These ontology-based mappings and annotations are used in many applications and analysis tasks. Since biomedical ontologies are continuously updated dependent artifacts can become outdated and need to undergo evolution as well. Hence there is a need for largely automated approaches to keep ontology-based mappings up-to-date in the presence of evolving ontologies. In this article, we survey current approaches and novel directions in the context of ontology and mapping evolution. We will discuss requirements for mapping adaptation and provide a comprehensive overview on existing approaches. We will further identify open challenges and outline ideas for future developments.

  11. Late Paleozoic to Mesozoic tectonic evolution of the Chinese western Tianshan Orogen: Integrating detrital zircon provenance analysis with regional magmatic, stratigraphic, and tectonothermal evidence

    NASA Astrophysics Data System (ADS)

    Han, Yigui; Zhao, Guochun

    2017-04-01

    The convergence between the Tarim Craton and the southwestern margin of the Central Asian Orogenic Belt in the late Paleozoic resulted in the closure of the South Tianshan (STS) Ocean and a continent-continent collision that formed the western Tianshan Orogen in NW China. Recent intensive studies in this region have produced a great deal of new data, and also many competing tectonic interpretations, especially regarding the subduction polarity and closure time of the STS Ocean and the initial uplift of the western Tianshan Orogen. To address the controversy, this study presents a systematic provenance analysis of detrital zircons from Carboniferous to Mesozoic sedimentary strata distributed in the northern Tarim and STS regions. In combination with recent data of regional magmatism, sedimentation, and tectonothermal activity, we propose a tectonic model that can reconcile most of important geological events during late Paleozoic to Mesozoic time in the western Tianshan region. U-Pb dating of detrital zircons from Carboniferous and Permian strata in the northern Tarim and STS regions yielded consistent age patterns, i.e. two prominent populations at 270-305 Ma and 400-500 Ma, and some peaks clustering at 600-1200 Ma, 1.9 Ga, and 2.5 Ga. The scarcity of 310-380 Ma zircons in the two regions and contemporaneous passive margin sedimentation support a northward subduction of the STS oceanic crust. The closure of the ocean and continental collision probably occurred in the late Carboniferous, as indicated by a significant decrease of zircon ɛHf(t) values at 310 Ma and coeval (ultra-)high pressure metamorphic events. Detrital zircon age data also indicate that the foreland region (i.e. the northern Tarim and STS) had not received sediments from the upper plate throughout the late Carboniferous to Middle Triassic, implying insignificant surface uplift and erosion during and after collision. To interpret this, a plume-modified orogenic model is introduced, partially

  12. The evolution of water transport in plants: an integrated approach.

    PubMed

    Pittermann, J

    2010-03-01

    This review examines the evolution of the plant vascular system from its beginnings in the green algae to modern arborescent plants, highlighting the recent advances in developmental, organismal, geochemical and climatological research that have contributed to our understanding of the evolution of xylem. Hydraulic trade-offs in vascular structure-function are discussed in the context of canopy support and drought and freeze-thaw stress resistance. This qualitative and quantitative neontological approach to palaeobotany may be useful for interpreting the water-transport efficiencies and hydraulic limits in fossil plants. Large variations in atmospheric carbon dioxide levels are recorded in leaf stomatal densities, and may have had profound impacts on the water conservation strategies of ancient plants. A hypothesis that links vascular function with stomatal density is presented and examined in the context of the evolution of wood and/or vessels. A discussion of the broader impacts of plant transport on hydrology and climate concludes this review.

  13. Distinguishing four fundamental approaches to the evolution of helping.

    PubMed

    Bshary, R; Bergmüller, R

    2008-03-01

    The evolution and stability of helping behaviour has attracted great research efforts across disciplines. However, the field is also characterized by a great confusion over terminology and a number of disagreements, often between disciplines but also along taxonomic boundaries. In an attempt to clarify several issues, we identify four distinct research fields concerning the evolution of helping: (1) basic social evolution theory that studies helping within the framework of Hamilton's inclusive fitness concept, i.e. direct and indirect benefits, (2) an ecological approach that identifies settings that promote life histories or interaction patterns that favour unconditional cooperative and altruistic behaviour, e.g. conditions that lead to interdependency or interactions among kin, (3) the game theoretic approach that identifies strategies that provide feedback and control mechanisms (protecting from cheaters) favouring cooperative behaviour (e.g. pseudo-reciprocity, reciprocity), and (4) the social scientists' approach that particularly emphasizes the special cognitive requirements necessary for human cooperative strategies. The four fields differ with respect to the 'mechanisms' and the 'conditions' favouring helping they investigate. Other major differences concern a focus on either the life-time fitness consequences or the immediate payoff consequences of behaviour, and whether the behaviour of an individual or a whole interaction is considered. We suggest that distinguishing between these four separate fields and their complementary approaches will reduce misunderstandings, facilitating further integration of concepts within and across disciplines.

  14. Proven in vitro evolution of protease cathepsin E-inhibitors and -activators at pH 4.5 using a paired peptide method.

    PubMed

    Kitamura, Koichiro; Komatsu, Masayuki; Biyani, Madhu; Futakami, Masae; Kawakubo, Tomoyo; Yamamoto, Kenji; Nishigaki, Koichi

    2012-12-01

    Improving a particular function of molecules is often more difficult than identifying such molecules ab initio. Here, a method to acquire higher affinity and/or more functional peptides was developed as a progressive library selection method. The primary library selection products were utilized to build a secondary library composed of blocks of 4 amino acids, of which selection led to peptides with increased activity. These peptides were further converted to randomly generate paired peptides. Cathepsin E-inhibitors thus obtained exhibited the highest activities and affinities (pM order). This was also the case with cathepsin E-activating peptides, proving the methodological effectiveness. The primary, secondary, and tertiary library selections can be regarded as module-finding, module-shuffling, and module-pairing, respectively, which resembles the progression of the natural evolution of proteins. The mode of peptide binding to their target proteins is discussed in analogy to antibodies and epitopes of an antigen.

  15. Innocent Until Proven Guilty

    ERIC Educational Resources Information Center

    Case, Catherine; Whitaker, Douglas

    2016-01-01

    In the criminal justice system, defendants accused of a crime are presumed innocent until proven guilty. Statistical inference in any context is built on an analogous principle: The null hypothesis--often a hypothesis of "no difference" or "no effect"--is presumed true unless there is sufficient evidence against it. In this…

  16. The provenance of rutile.

    USGS Publications Warehouse

    Force, E.R.

    1980-01-01

    Most coarse detrital rutile is derived from high-grade metamorphic rocks. Contrary to a conventional assumption, independent rutile grains are particularly rare in igneous rocks except alkalic rocks. The use of rutile in the zircon-tourmaline-rutile index of mineralogic maturity is only partially valid, owing to its restricted provenance. -Author

  17. Innocent Until Proven Guilty

    ERIC Educational Resources Information Center

    Case, Catherine; Whitaker, Douglas

    2016-01-01

    In the criminal justice system, defendants accused of a crime are presumed innocent until proven guilty. Statistical inference in any context is built on an analogous principle: The null hypothesis--often a hypothesis of "no difference" or "no effect"--is presumed true unless there is sufficient evidence against it. In this…

  18. Sandstone provenance and tectonic evolution of the Xiukang Mélange from Neotethyan subduction to India-Asia collision (Yarlung-Zangbo suture, south Tibet)

    NASA Astrophysics Data System (ADS)

    An, Wei; Hu, Xiumian; Garzanti, Eduardo

    2016-04-01

    The Xiukang Mélange of the Yarlung-Zangbo suture zone in south Tibet documents low efficiency of accretion along the southern active margin of Asia during Cretaceous Neotethyan subduction, followed by final development during the early Paleogene stages of the India-Asia collision. Here we investigate four transverses in the Xigaze area (Jiding, Cuola Pass, Riwuqi and Saga), inquiry the composition in each transverse, and present integrated petrologic, U-Pb detrital-zircon geochronology and Hf isotope data on sandstone blocks. In fault contact with the Yarlung-Zangbo Ophiolite to the north and the Tethyan Himalaya to the south, the Xiukang mélange can be divided into three types: serpentinite-matrix mélange composed by broken Yarlung-Zangbo Ophiolite, thrust-sheets consisting mainly chert, quartzose or limestone sheets(>100m) with little intervening marix, and mudstone-matrix mélange displaying typical blocks-in-matrix texture. While serpentinite-matrix mélange is exposed adjacent to the ophiolite, distributions of thrust-sheets and blocks in mudstone-matrix mélange show along-strike diversities. For example, Jiding transverse is dominant by chert sheets and basalt blocks with scarcely sandstone blocks, while Cuola Pass and Saga transverses expose large amounts of limestone/quartzarenite sheets in the north and volcaniclastic blocks in the south. However, turbidite sheets and volcaniclastic blocks are outcropped in the north Riwuqi transverse with quartzarenite blocks preserved in the south. Three groups of sandstone blocks/sheets with different provenance and depositional setting are distinguished by their petrographic, geochronological and isotopic fingerprints. Sheets of turbiditic quartzarenite originally sourced from the Indian continent were deposited in pre-Cretaceous time on the northernmost edge of the Indian passive margin and eventually involved into the mélange at the early stage of the India-Asia collision. Two distinct groups of volcaniclastic

  19. Mechanistic approaches to the study of evolution: the functional synthesis.

    PubMed

    Dean, Antony M; Thornton, Joseph W

    2007-09-01

    An emerging synthesis of evolutionary biology and experimental molecular biology is providing much stronger and deeper inferences about the dynamics and mechanisms of evolution than were possible in the past. The new approach combines statistical analyses of gene sequences with manipulative molecular experiments to reveal how ancient mutations altered biochemical processes and produced novel phenotypes. This functional synthesis has set the stage for major advances in our understanding of fundamental questions in evolutionary biology. Here we describe this emerging approach, highlight important new insights that it has made possible, and suggest future directions for the field.

  20. Oxygen Sensing for Industrial Safety — Evolution and New Approaches

    PubMed Central

    Willett, Martin

    2014-01-01

    The requirement for the detection of oxygen in industrial safety applications has historically been met by electrochemical technologies based on the consumption of metal anodes. Products using this approach have been technically and commercially successful for more than three decades. However, a combination of new requirements is driving the development of alternative approaches offering fresh opportunities and challenges. This paper reviews some key aspects in the evolution of consumable anode products and highlights recent developments in alternative technologies aimed at meeting current and anticipated future needs in this important application. PMID:24681673

  1. Provenance Store Evaluation

    SciTech Connect

    Paulson, Patrick R.; Gibson, Tara D.; Schuchardt, Karen L.; Stephan, Eric G.

    2008-03-01

    Requirements for the provenance store and access API are developed. Existing RDF stores and APIs are evaluated against the requirements and performance benchmarks. The team’s conclusion is to use MySQL as a database backend, with a possible move to Oracle in the near-term future. Both Jena and Sesame’s APIs will be supported, but new code will use the Jena API

  2. Multi-Model approach to reconstruct the Mediterranean Freshwater Evolution

    NASA Astrophysics Data System (ADS)

    Simon, Dirk; Marzocchi, Alice; Flecker, Rachel; Lunt, Dan; Hilgen, Frits; Meijer, Paul

    2016-04-01

    Today the Mediterranean Sea is isolated from the global ocean by the Strait of Gibraltar. This restricted nature causes the Mediterranean basin to react more sensitively to climatic and tectonic related phenomena than the global ocean. Not just eustatic sea-level and regional river run-off, but also gateway tectonics and connectivity between sub-basins are leaving an enhanced fingerprint in its geological record. To understand its evolution, it is crucial to understand how these different effects are coupled. The Miocene-Pliocene sedimentary record of the Mediterranean shows alternations in composition and colour and has been astronomically tuned. Around the Miocene-Pliocene Boundary the most extreme changes occur in the Mediterranean Sea. About 6% of the salt in the global ocean deposited in the Mediterranean Region, forming an approximately 2 km thick salt layer, which is still present today. This extreme event is named the Messinian Salinity Crisis (MSC, 5.97-5.33 Ma). The gateway and climate evolution is not well constrained for this time, which makes it difficult to distinguish which of the above mentioned drivers might have triggered the MSC. We, therefore, decided to tackle this problem via a multi-model approach: (1) We calculate the Mediterranean freshwater evolution via 30 atmosphere-ocean-vegetation simulations (using HadCM3L), to which we fitted to a function, using a regression model. This allows us to directly relate the orbital curves to evaporation, precipitation and run off. The resulting freshwater evolution can be directly correlated to other sedimentary and proxy records in the late Miocene. (2) By feeding the new freshwater evolution curve into a box/budget model we can predict the salinity and strontium evolution of the Mediterranean for a certain Atlantic-Mediterranean gateway. (3) By comparing these results to the known salinity thresholds of gypsum and halite saturation of sea water, but also to the late Miocene Mediterranean strontium

  3. A curve evolution approach to object-based tomographic reconstruction.

    PubMed

    Feng, Haihua; Karl, William Clem; Castañon, David A

    2003-01-01

    In this paper, we develop a new approach to tomographic reconstruction problems based on geometric curve evolution techniques. We use a small set of texture coefficients to represent the object and background inhomogeneities and a contour to represent the boundary of multiple connected or unconnected objects. Instead of reconstructing pixel values on a fixed rectangular grid, we then find a reconstruction by jointly estimating these unknown contours and texture coefficients of the object and background. By designing a new "tomographic flow", the resulting problem is recast into a curve evolution problem and an efficient algorithm based on level set techniques is developed. The performance of the curve evolution method is demonstrated using examples with noisy limited-view Radon transformed data and noisy ground-penetrating radar data. The reconstruction results and computational cost are compared with those of conventional, pixel-based regularization methods. The results indicate that the curve evolution methods achieve improved shape reconstruction and have potential computation and memory advantages over conventional regularized inversion methods.

  4. Provenance and tectonic setting of siliciclastic rocks associated with the Neoproterozoic Dahongliutan BIF: Implications for the Precambrian crustal evolution of the Western Kunlun orogenic belt, NW China

    NASA Astrophysics Data System (ADS)

    Hu, Jun; Wang, He; Wang, Min

    2017-10-01

    The Late Neoproterozoic Dahongliutan BIF is associated with siliciclastic rocks in the Tianshuihai terrane of the Western Kunlun orogenic belt (WKO), NW China. The sedimentary rocks have various weathering indices (e.g., CIA = 57-87, PIA = 61-96 and Th/U = 4.85-12.45), indicative of varying degrees of weathering in the source area. The rocks have trace element ratios, such as Th/Sc = 0.60-1.21 and Co/Th = 0.29-1.67, and light rare earth element (LREE) enriched chondrite-normalized REE patterns, suggesting that they were mainly sourced from intermediate and felsic rocks. Available U-Pb ages of detrital zircon from these rocks reveal that the detrital sources may have been igneous and metamorphic rocks from the WKO and the Tarim Block. Our study suggests that the Dahongliutan BIF and hosting siliciclastic rocks may have deposited in a setting transitional from a passive to active continental margin, probably related to the Late Neoproterozoic-Early Cambrian seafloor spreading and subduction of the Proto-Tethys Ocean. U-Pb dating of 163 detrital zircons defines five major age populations at 2561-2329 Ma, 2076-1644 Ma, 1164-899 Ma, 869-722 Ma and 696-593 Ma. These age groups broadly correspond to the major stages of supercontinent assembly and breakup events widely accepted for Columbia, Rodinia and Gondwana. Some zircons have TDM2 model ages of 3.9-1.8 Ga and negative εHf(t) values, suggesting that the Archean to Paleoproterozoic (as old as Eoarchean) crustal materials were episodically reworked and incorporated into the late magmatic process in the WKO. Some Neoproterozoic zircons have TDM2 model ages of 1.47-1.07 Ga and 1.81-1.53 Ga and positive εHf(t) values, indicating juvenile crustal growth during the Mesoproterozoic. Our new results, combined with published data, imply that both the Tianshuihai terrane in the WKO and the Tarim Block share the same Precambrian tectonic evolution history.

  5. Sm-Nd isotopic study of Precambrian/Cambrian sedimentary provenance in the Great Basin and implications for the tectonic evolution of the western US

    SciTech Connect

    Farmer, G.L.

    1985-01-01

    The Nd isotopic compositions and Sm-Nd model ages were determined for 14 Precambrian to Cambrian clastic miogeoclinal and 2 Lower Paleozoic eugeoclinal metasedimentary rocks in the Great Basin to determine the sediment source regions and constrain the tectonic evolution of the western margin of the continental US Upper Precambrian (McCoy Creek Group-MCG) and Lower Cambrian miogeoclinal sandstones and shales have homogeneous 147SM/144Nd values (.110 to .119) but show a regional variation in measured element of/sub Nd/, from values of -18 and -26 (T/sub DM/=1.9 and 2.5Ga) in the Pilot and Ruby Ranges in N. Nevada, to values clustering at -11 and -18 (T/sub DM/=1.3 and 1.9Ga) in the Deep Creek and Schell Creek Ranges in the east-central Great Basin. The isotopic variations in the MCG correspond spatially to changes in the element of/sub ND/(0) and T/sub DM/ Precambrian basement adjacent to the miogeocline, suggesting that the MCG were derived from these crustal terranes and were deposited close to the paleocontinental margin of the western US. An element of/sub Nd/(0)=22.14 (T/sub DM/=2.1 Ga) for deeper water miogeoclinal sediment in the southern Great Basin (Wyman Fm-White Mountains, California) requires a source either in nearby T/sub DM/=2.2Ga crust in the S. Sierra Nevada (Bennett and DePaolo, 1984), or in T/sub DM/>2.0Ga crustal terranes to the north, with the sediment having been transported southward via Precambrian longshore currents. Feldspathic sandstone of the Cambrian Harmony Formation in north-central Nevada has element of/sub Nd/(0)=-25.22 (T/sub DM/=2.4Ga), consistent with a northerly source in Archean crust of present-day Idaho, while Ordovician shale of the Vinini Fm. in central Nevada has element of/sub Nd/(0)=-17.6, identical to values for the MCG exposed directly to the east.

  6. A systematic approach to design for lifelong aircraft evolution

    NASA Astrophysics Data System (ADS)

    Lim, Dongwook

    This research proposes a systematic approach with which the decision makers can evaluate the value and risk of a new aircraft development program, including potential derivative development opportunities. The proposed Evaluation of Lifelong Vehicle Evolution (EvoLVE) method is a two- or multi-stage representation of the aircraft design process that accommodates initial development phases as well as follow-on phases. One of the key elements of this method is the Stochastic Programming with Recourse (SPR) technique, which accounts for uncertainties associated with future requirements. The remedial approach of SPR in its two distinctive problem-solving steps is well suited to aircraft design problems where derivatives, retrofits, and upgrades have been used to fix designs that were once but no longer optimal. The solution approach of SPR is complemented by the Risk-Averse Strategy Selection (RASS) technique to gauge risk associated with vehicle evolution options. In the absence of a full description of the random space, a scenario-based approach captures the randomness with a few probable scenarios and reveals implications of different future events. Last, an interactive framework for decision-making support allows simultaneous navigation of the current and future design space with a greater degree of freedom. A cantilevered beam design problem was set up and solved using the SPR technique to showcase its application to an engineering design setting. The full EvoLVE method was conducted on a notional multi-role fighter based on the F/A-18 Hornet.

  7. Current approaches in evolution: from molecules to cells and organisms.

    PubMed

    Thattai, Mukund; Peisajovich, Sergio G

    2014-11-01

    This is an exciting time to be an evolutionary biologist. Indeed, it is difficult to keep up with all the studies that fall under the broad category of "Evolution" since they span species, traits, and scales of organization. This special issue gives a flavor of exciting new approaches in evolutionary biology, but also emphasizes universal themes. The reviews contained here discuss important aspects of molecular evolution at multiple scales, from individual proteins to complex regulatory networks, as well as from unicellular organisms to macroscopic traits in animals. Though the model systems are diverse, the issues addressed are fundamental: the origin of evolutionary novelties, and the forces that drive them to fixation. © 2014 Wiley Periodicals, Inc.

  8. Triadic conceptual structure of the maximum entropy approach to evolution.

    PubMed

    Herrmann-Pillath, Carsten; Salthe, Stanley N

    2011-03-01

    Many problems in evolutionary theory are cast in dyadic terms, such as the polar oppositions of organism and environment. We argue that a triadic conceptual structure offers an alternative perspective under which the information generating role of evolution as a physical process can be analyzed, and propose a new diagrammatic approach. Peirce's natural philosophy was deeply influenced by his reception of both Darwin's theory and thermodynamics. Thus, we elaborate on a new synthesis which puts together his theory of signs and modern Maximum Entropy approaches to evolution in a process discourse. Following recent contributions to the naturalization of Peircean semiosis, pointing towards 'physiosemiosis' or 'pansemiosis', we show that triadic structures involve the conjunction of three different kinds of causality, efficient, formal and final. In this, we accommodate the state-centered thermodynamic framework to a process approach. We apply this on Ulanowicz's analysis of autocatalytic cycles as primordial patterns of life. This paves the way for a semiotic view of thermodynamics which is built on the idea that Peircean interpretants are systems of physical inference devices evolving under natural selection. In this view, the principles of Maximum Entropy, Maximum Power, and Maximum Entropy Production work together to drive the emergence of information carrying structures, which at the same time maximize information capacity as well as the gradients of energy flows, such that ultimately, contrary to Schrödinger's seminal contribution, the evolutionary process is seen to be a physical expression of the Second Law.

  9. Practitioner Review: Empirical evolution of youth psychotherapy toward transdiagnostic approaches.

    PubMed

    Marchette, Lauren Krumholz; Weisz, John R

    2017-09-01

    Psychotherapy for children and adolescents (herein, 'youths') has grown more precise and focused over the decades, shifting toward empirically supported treatments standardized via therapist manuals. The manuals have increasingly emphasized precise targeting of single disorders or problems, or homogenous clusters. These focal treatments represent a valuable advance, with intervention benefit documented in hundreds of studies. However, relatively few of these treatments are widely used in everyday clinical practice, and their level of benefit may not be ideal, particularly in practice contexts and when compared to usual clinical care. These limitations may be due, in part, to a mismatch between focal treatment design and the young people treated in real-world clinical care, who are diagnostically heterogeneous, and very frequently present with comorbidity. Improved fit may be achieved via transdiagnostic treatment approaches designed to address multiple disorders and problems, if these approaches can retain the benefits of manualization and the substantive clinical strength that has generated empirical support to date. Here we review the evolution of empirically-based youth psychotherapy from focal treatment manuals toward transdiagnostic approaches, and we describe and illustrate three transdiagnostic treatment strategies: (a) a core dysfunction approach, (b) a common elements and modular design approach, and (c) a principle-guided approach. We complement research findings with a clinical perspective based on our use of manual-guided transdiagnostic intervention in clinical care settings, and we propose directions for research and practice. © 2017 Association for Child and Adolescent Mental Health.

  10. Active Provenance in Data-intensive Research

    NASA Astrophysics Data System (ADS)

    Spinuso, Alessandro; Mihajlovski, Andrej; Filgueira, Rosa; Atkinson, Malcolm

    2017-04-01

    Scientific communities are building platforms where the usage of data-intensive workflows is crucial to conduct their research campaigns. However managing and effectively support the understanding of the 'live' processes, fostering computational steering, sharing and re-use of data and methods, present several bottlenecks. These are often caused by the poor level of documentation on the methods and the data and how users interact with it. This work wants to explore how in such systems, flexibility in the management of the provenance and its adaptation to the different users and application contexts can lead to new opportunities for its exploitation, improving productivity. In particular, this work illustrates a conceptual and technical framework enabling tunable and actionable provenance in data-intensive workflow systems in support of reproducible science. It introduces the concept of Agile data-intensive systems to define the characteristic of our target platform. It shows a novel approach to the integration of provenance mechanisms, offering flexibility in the scale and in the precision of the provenance data collected, ensuring its relevance to the domain of the data-intensive task, fostering its rapid exploitation. The contributions address aspects of the scale of the provenance records, their usability and active role in the research life-cycle. We will discuss the use of dynamically generated provenance types as the approach for the integration of provenance mechanisms into a data-intensive workflow system. Enabling provenance can be transparent to the workflow user and developer, as well as fully controllable and customisable, depending from their expertise and the application's reproducibility, monitoring and validation requirements. The API that allows the realisation and adoption of a provenance type is presented, especially for what concerns the support of provenance profiling, contextualisation and precision. An actionable approach to provenance

  11. Semantic Workflows and Provenance

    NASA Astrophysics Data System (ADS)

    Gil, Y.

    2011-12-01

    While sharing and disseminating data is widely practiced across scientific communities, we have yet to recognize the importance of sharing and disseminating the analytic processes that leads to published data. Data retrieved from shared repositories and archives is often hard to interpret because we lack documentation about those processes: what models were used, what assumptions were made, what calibrations were carried out, etc. This process documentation is also key to aggregate data in a meaningful way, whether aggregating shared third party data or aggregating shared data with local sensor data collected by individual investigators. We suggest that augmenting published data with process documentation would greatly enhance our ability to find, reuse, interpret, and aggregate data and therefore have a significant impact in the utility of data repositories and archives. We will show that semantic workflows and provenance provide key technologies for capturing process documentation. Semantic workflows describe the kinds of data transformation and analysis steps used to create new data products, and can include useful constraints about why specific models were selected or parameters chosen. Provenance records can be used to publish workflow descriptions in standard formats that can be reused to enable verification and reproducibility of data products.

  12. Cell line provenance.

    PubMed

    Freshney, R Ian

    2002-07-01

    Cultured cell lines have become an extremely valuable resource, both in academic research and in industrial biotechnology. However, their value is frequently compromised by misidentification and undetected microbial contamination. As detailed elsewhere in this volume, the technology, both simple and sophisticated, is available to remedy the problems of misidentification and contamination, given the will to apply it. Combined with proper records of the origin and history of the cell line, assays for authentication and contamination contribute to the provenance of the cell line. Detailed records should start from the initiation or receipt of the cell line, and should incorporate data on the donor as well as the tissue from which the cell line was derived, should continue with details of maintenance, and include any accidental as well as deliberate deviations from normal maintenance. Records should also contain details of authentication and regular checks for contamination. With this information, preferably stored in a database, and suitable backed up, the provenance of the cell line so created makes the cell line a much more valuable resource, fit for validation in industrial applications and more likely to provide reproducible experimental results when disseminated for research in other laboratories.

  13. Laughter as an approach to vocal evolution: The bipedal theory.

    PubMed

    Provine, Robert R

    2017-02-01

    Laughter is a simple, stereotyped, innate, human play vocalization that is ideal for the study of vocal evolution. The basic approach of describing the act of laughter and when we do it has revealed a variety of phenomena of social, linguistic, and neurological significance. Findings include the acoustic structure of laughter, the minimal voluntary control of laughter, the punctuation effect (which describes the placement of laughter in conversation and indicates the dominance of speech over laughter), and the role of laughter in human matching and mating. Especially notable is the use of laughter to discover why humans can speak and other apes cannot. Quadrupeds, including our primate ancestors, have a 1:1 relation between breathing and stride because their thorax must absorb forelimb impacts during running. The direct link between breathing and locomotion limits vocalizations to short, simple utterances, such as the characteristic panting chimpanzee laugh (one sound per inward or outward breath). The evolution of bipedal locomotion freed the respiration system of its support function during running, permitting greater breath control and the selection for human-type laughter (a parsed exhalation), and subsequently the virtuosic, sustained, expiratory vocalization of speech. This is the basis of the bipedal theory of speech evolution.

  14. The evolution of hominoid cranial diversity: A quantitative genetic approach.

    PubMed

    Schroeder, Lauren; von Cramon-Taubadel, Noreen

    2017-09-12

    Hominoid cranial evolution is characterized by substantial phenotypic diversity, yet the cause of this variability has rarely been explored. Quantitative genetic techniques for investigating evolutionary processes underlying morphological divergence are dependent on the availability of good ancestral models, a problem in hominoids where the fossil record is fragmentary and poorly understood. Here, we use a maximum likelihood approach based on a Brownian motion model of evolutionary change to estimate nested hypothetical ancestral forms from 15 extant hominoid taxa. These ancestors were then used to calculate rates of evolution along each branch of a phylogenetic tree using Lande's generalized genetic distance. Our results show that hominoid cranial evolution is characterized by strong stabilizing selection. Only two instances of directional selection were detected; the divergence of Homo from its last common ancestor with Pan, and the divergence of the lesser apes from their last common ancestor with the great apes. In these two cases, selection gradients reconstructed to identify the specific traits undergoing selection indicated that selection on basicranial flexion, cranial vault expansion and facial retraction characterizes the divergence of Homo, whereas the divergence of the lesser apes was defined by selection on neurocranial size reduction. This article is protected by copyright. All rights reserved. This article is protected by copyright. All rights reserved.

  15. Quaternary coastal evolution of Oman (Arabian Peninsula) - a quantitative approach

    NASA Astrophysics Data System (ADS)

    Hoffmann, G.; Rupprechter, M.; Roepert, A.; Quraishi, K. Al; Balushi, N. Al; Grützner, C.; Reicherter, K.

    2012-04-01

    The paper reviews the Quaternary coastal evolution of Oman. Emphasise is put on quantifying the different forcing factors. The plate tectonic setting, the Quaternary climate evolution, the sea-level history and the impact of natural hazards are identified as key factors of coastal evolution. The Arabian Plate is characterized by a northward movement forming a continent-continent collision zone in the west and the Makran Subduction Zone in the east. As a result differential land movement is observable in Oman. The Quaternary climate evolution is well understood. Besides other proxies notably spelothems and aeolian deposits allow to draw a consistent picture. It is understood that changes in the position of the intertropical convergence zone result in intensity-changes of the summer monsoon. These changes are related to global atmospheric circulation patterns. Data on the sea-level history are sparse; despite general assumptions of a sea-level lowstand, correlating with the last glacial maximum, resulting in terrestrial conditions within the Arabian Gulf. Furthermore, a mid-Holocene sea level highstand in the range of +2m is documented in several locations. The coastlines of Oman are affected by tsunami and hurricanes. However, almost no instrumental or historical data on the impact of such natural hazards are available due to the isolation of the country in the past. Several Quaternary deposits have been investigated in a reconnaissance survey. There is sound geological evidence for a tsunami to have affected the coastline in 1945, with the possibility of older tsunami events being also recorded in the geological record. There is strong evidence of differential land movement along the coastline; locally indicated by marine terraces in elevations of up to 400m (Rupprechter at al. 2012). By quantifying the differential land movement for numerous sites, the sea-level history will be revealed. Ultimately the data will be utilized to form the base of a modeling approach

  16. Analytical Approach to Eigen-Emittance Evolution in Storage Rings

    SciTech Connect

    Nash, Boaz; /SLAC

    2006-05-16

    This dissertation develops the subject of beam evolution in storage rings with nearly uncoupled symplectic linear dynamics. Linear coupling and dissipative/diffusive processes are treated perturbatively. The beam distribution is assumed Gaussian and a function of the invariants. The development requires two pieces: the global invariants and the local stochastic processes which change the emittances, or averages of the invariants. A map based perturbation theory is described, providing explicit expressions for the invariants near each linear resonance, where small perturbations can have a large effect. Emittance evolution is determined by the damping and diffusion coefficients. The discussion is divided into the cases of uniform and non-uniform stochasticity, synchrotron radiation an example of the former and intrabeam scattering the latter. For the uniform case, the beam dynamics is captured by a global diffusion coefficient and damping decrement for each eigen-invariant. Explicit expressions for these quantities near coupling resonances are given. In many cases, they are simply related to the uncoupled values. Near a sum resonance, it is found that one of the damping decrements becomes negative, indicating an anti-damping instability. The formalism is applied to a number of examples, including synchrobetatron coupling caused by a crab cavity, a case of current interest where there is concern about operation near half integer {nu}{sub x}. In the non-uniform case, the moment evolution is computed directly, which is illustrated through the example of intrabeam scattering. Our approach to intrabeam scattering damping and diffusion has the advantage of not requiring a loosely-defined Coulomb Logarithm. It is found that in some situations there is a small difference between our results and the standard approaches such as Bjorken-Mtingwa, which is illustrated by comparison of the two approaches and with a measurement of Au evolution in RHIC. Finally, in combining IBS

  17. A Systems Approach to Physiologic Evolution: From Micelles to Consciousness.

    PubMed

    Torday, John S; Miller, William B

    2017-01-23

    A systems approach to evolutionary biology offers the promise of an improved understanding of the fundamental principles of life through the effective integration of many biologic disciplines. It is presented that any critical integrative approach to evolutionary development involves a paradigmatic shift in perspective, more than just the engagement of a large number of disciplines. Critical to this differing viewpoint is the recognition that all biological processes originate from the unicellular state and remain permanently anchored to that phase throughout evolutionary development despite their macroscopic appearances. Multicellular eukaryotic development can therefore be viewed as a series of connected responses to epiphenomena that proceeds from that base in continuous iterative maintenance of collective cellular homeostatic equipoise juxtaposed against an ever-changing and challenging environment. By following this trajectory of multicellular eukaryotic evolution from within unicellular First Principles of Physiology forward, the mechanistic nature of complex physiology can be identified through a step-wise analysis of a continuous arc of vertebrate evolution based upon serial exaptations. This article is protected by copyright. All rights reserved.

  18. Preparing Biology Teachers to Teach Evolution in a Project-Based Approach

    ERIC Educational Resources Information Center

    Cook, Kristin; Buck, Gayle; Park Rogers, Meredith

    2012-01-01

    This study investigates a project-based learning (PBL) approach to teaching evolution to inform efforts in teacher preparation. Data analysis of a secondary biology educator teaching evolution through a PBL approach illuminated: (1) active student voice, which allowed students to reflect on their positioning on evolution and consider multiple…

  19. Preparing Biology Teachers to Teach Evolution in a Project-Based Approach

    ERIC Educational Resources Information Center

    Cook, Kristin; Buck, Gayle; Park Rogers, Meredith

    2012-01-01

    This study investigates a project-based learning (PBL) approach to teaching evolution to inform efforts in teacher preparation. Data analysis of a secondary biology educator teaching evolution through a PBL approach illuminated: (1) active student voice, which allowed students to reflect on their positioning on evolution and consider multiple…

  20. Detrital zircon U-Pb geochronology and stratigraphy of the Cretaceous Sanjiang Basin in NE China: Provenance record of an abrupt tectonic switch in the mode and nature of the NE Asian continental margin evolution

    NASA Astrophysics Data System (ADS)

    Zhang, Feng-Qi; Chen, Han-Lin; Batt, Geoffrey E.; Dilek, Yildirim; A, Min-Na; Sun, Ming-Dao; Yang, Shu-Feng; Meng, Qi-An; Zhao, Xue-Qin

    2015-12-01

    The age spectra obtained from 505 spots of detrital zircon U-Pb ages of five representative sandstone samples from the Sanjiang Basin in NE China point to a significant change in its provenance during the Coniacian-Santonian. The predominant detrital source for the Sanjiang Basin during the early Cretaceous was the Zhangguangcai Range magmatic belt and Jiamusi Block along its western and southern periphery, whereas it changed in the late Cretaceous to its eastern periphery. The timing of these inferred changes in the detrital source regions and drainage patterns nearly coincide with the age of a regional unconformity in and across the basin. The time interval of non-deposition and unconformity development was coeval with a transitional period between an extensional tectonic regime in the early Cretaceous and a contractional deformation episode in the late Cretaceous. The Sanjiang Basin evolved during this time window from a backarc to a foreland basin. The migration of the coastal orogenic belt and the fold and thrust belt development farther inland during the late Cretaceous marked the onset of regional-scale shortening and surface uplift in the upper plate of a flat (or very shallow-dipping) subduction zone. The stratigraphic record, the detrital source and geochronology of the basinal strata, and the internal structure of the Sanjiang Basin present, therefore, an important record of a tectonic switch in the nature of continental margin evolution of Northeast Asia during the late Mesozoic.

  1. Melt inclusions in detrital spinel from the SE Alps (Italy-Slovenia): a new approach to provenance studies of sedimentary basins

    NASA Astrophysics Data System (ADS)

    Lenaz, Davide; Kamenetsky, Vadim S.; Crawford, Anthony J.; Princivalle, Francesco

    Detrital spinel is a widespread heavy mineral in sandstones from the Maastrichtian-Middle Eocene sedimentary basins in the SE Alps. Chemistry of detrital spinels from the Claut/Clauzetto and Julian Basins (N Italy and NW Slovenia) is used to constrain petrological and geochemical affinities and tectonic provenance of the source rocks. In addition, we have analysed melt inclusion compositions in the detrital volcanic spinels to better constrain the nature of their parental magmas. This is the first study of melt inclusions in detrital spinels. Two principal compositional groups of detrital spinels are recognised based on their TiO2 and Fe2+/Fe3+; one derived from peridotites, the other from basaltic volcanics. Peridotitic spinels are more abundant and have TiO2<0.2wt% and high Cr/Cr+Al (40-90), characteristic of suprasubduction zone harzburgites. Significant chemical variations among volcanic spinels (TiO2 up to 3wt%, Al2O3 12-44wt%) suggest multiple sources, with geochemically distinct characteristics, including MORB-type and backarc basin basalts, subduction-related magmas and tholeiites produced during early continental rifting. Compositions of homogenised melt inclusions in spinels with TiO2>0.2 better distinguish the differences between the compositions of their host spinels and help to further clarify the geodynamic provenance of extrusive source rocks. Several compositional groups of melt inclusions have been recognised and represent diverse magmatism of marginal basins, including MORB- and subduction-related geochemical types, as well as magmas characteristic of early continental rifting. These results, combined with the data on regional ophiolitic complexes and tectonic reconstructions favour the Internal Dinarides of Yugoslavia as a possible source area for the SE Alps sediments.

  2. Chebyshev matrix product state approach for time evolution

    NASA Astrophysics Data System (ADS)

    Halimeh, Jad C.; Kolley, Fabian; McCulloch, Ian P.

    2015-09-01

    We present and test a new algorithm for time-evolving quantum many-body systems initially proposed by Holzner et al. [Phys. Rev. B 83, 195115 (2011), 10.1103/PhysRevB.83.195115]. The approach is based on merging the matrix product state (MPS) formalism with the method of expanding the time-evolution operator in Chebyshev polynomials. We calculate time-dependent observables of a system of hardcore bosons quenched under the Bose-Hubbard Hamiltonian on a one-dimensional lattice. We compare the new algorithm to more standard methods using the MPS architecture. We find that the Chebyshev method gives numerically exact results for small times. However, the reachable times are smaller than the ones obtained with the other state-of-the-art methods. We further extend the new method using a spectral-decomposition-based projective scheme that utilizes an effective bandwidth significantly smaller than the full bandwidth, leading to longer evolution times than the nonprojective method and more efficient information storage, data compression, and less computational effort.

  3. Time Evolution of Pulsar Magnetosphere: An Implicit Approach

    NASA Astrophysics Data System (ADS)

    Sreekumar, Sushilkumar; Schlegel, Eric M.

    2017-01-01

    In this project we attempt to understand the structure of pulsar magnetosphere, its dynamics and evolution. This is done by developing a computationally intense implicit finite difference (FD) approach, under the approximation of force-free electrodynamics. Recent studies have suggested an important role of current sheets (CS) in pulsar spin down mechanisms. However, its contribution to high energy emissions, flux outflow, acceleration sites and mechanisms are not completely understood. A better resolution of CS will play a significant role in our understanding of local and global structure of the magnetosphere, which is the main objective of this work. In this first of a series of studies, we demonstrate and verify the existence of CS thereby supporting the Contopoulos et al. (CKF, 1999) type magnetosphere. This is important as CKF type magnetosphere is the new benchmark in pulsar modelling. The implementation of resistivity approach and its superiority over the traditional explicit approach will be addressed. The implicit formulation in the high conductivity limit will improve our understanding of the magnetosphere where copious amount of plasma is generated. Once a consistent global structure of the magnetosphere is addressed we will identify the local models and sites to understand the acceleration mechanisms responsible for high energy emission which dominates pulsar emission.

  4. Basaltic island sand provenance

    SciTech Connect

    Marsaglia, K.M. . Dept. of Geological Sciences)

    1992-01-01

    The Hawaiian Islands are an ideal location to study basaltic sand provenance in that they are a series of progressively older basaltic shield volcanoes with arid to humid microclimates. Sixty-two sand samples were collected from beaches on the islands of Hawaii, Maui, Oahu and Kauai and petrographically analyzed. The major sand components are calcareous bioclasts, volcanic lithic fragments, and monomineralic grains of dense minerals and plagioclase. Proportions of these components vary from island to island, with bioclastic end members being more prevalent on older islands exhibiting well-developed fringing reef systems and volcanic end members more prevalent on younger, volcanically active islands. Climatic variations across the island of Hawaii are reflected in the percentage of weathered detritus, which is greater on the wetter, northern side of the island. The groundmass of glassy, basaltic lithics is predominantly black tachylite, with lesser brown sideromelane; microlitic and lathwork textures are more common than holohyaline vitric textures. Other common basaltic volcanic lithic fragments are holocrystalline aggregates of silt-sized pyroxene or olivine, opaque minerals and plagioclase. Sands derived from alkalic lavas are texturally and compositionally indistinguishable from sands derived from tholeiitic lavas. Although Hawaiian basaltic sands overlap in composition with magmatic arc-derived sands in terms of their relative QFL, QmPK and LmLvLs percentages, they are dissimilar in that they lack felsic components and are more enriched in lathwork volcanic lithic fragments, holocrystalline volcanic lithic fragments, and dense minerals.

  5. Relational Neural Evolution Approach to Bank Failure Prediction

    NASA Astrophysics Data System (ADS)

    Abudu, Bolanle; Markose, Sheri

    2007-12-01

    Relational neural networks as a concept offers a unique opportunity for improving classification accuracy by exploiting relational structure in data. The premise is that a relational classification technique, which uses information implicit in relationships, should classify more accurately than techniques that only examine objects in isolation. In this paper, we study the use of relational neural networks for predicting bank failure. Alongside classical financial ratios normally used as predictor variables, we introduced new relational variables for the network. The relational neural network structure, specified as a combination of feed forward and recurrent neural networks, is determined by bank data through neuro-evolution. We discuss empirical results comparing performance of the relational approach to standard propositional methods used for bank failure prediction.

  6. A systemic approach for modeling biological evolution using Parallel DEVS.

    PubMed

    Heredia, Daniel; Sanz, Victorino; Urquia, Alfonso; Sandín, Máximo

    2015-08-01

    A new model for studying the evolution of living organisms is proposed in this manuscript. The proposed model is based on a non-neodarwinian systemic approach. The model is focused on considering several controversies and open discussions about modern evolutionary biology. Additionally, a simplification of the proposed model, named EvoDEVS, has been mathematically described using the Parallel DEVS formalism and implemented as a computer program using the DEVSLib Modelica library. EvoDEVS serves as an experimental platform to study different conditions and scenarios by means of computer simulations. Two preliminary case studies are presented to illustrate the behavior of the model and validate its results. EvoDEVS is freely available at http://www.euclides.dia.uned.es.

  7. Relational Neural Evolution Approach to Bank Failure Prediction

    SciTech Connect

    Abudu, Bolanle; Markose, Sheri

    2007-12-26

    Relational neural networks as a concept offers a unique opportunity for improving classification accuracy by exploiting relational structure in data. The premise is that a relational classification technique, which uses information implicit in relationships, should classify more accurately than techniques that only examine objects in isolation. In this paper, we study the use of relational neural networks for predicting bank failure. Alongside classical financial ratios normally used as predictor variables, we introduced new relational variables for the network. The relational neural network structure, specified as a combination of feed forward and recurrent neural networks, is determined by bank data through neuro-evolution. We discuss empirical results comparing performance of the relational approach to standard propositional methods used for bank failure prediction.

  8. Sandstone provenance and U-Pb ages of detrital zircons from Permian-Triassic forearc sediments within the Sukhothai Arc, northern Thailand: Record of volcanic-arc evolution in response to Paleo-Tethys subduction

    NASA Astrophysics Data System (ADS)

    Hara, Hidetoshi; Kunii, Miyuki; Miyake, Yoshihiro; Hisada, Ken-ichiro; Kamata, Yoshihito; Ueno, Katsumi; Kon, Yoshiaki; Kurihara, Toshiyuki; Ueda, Hayato; Assavapatchara, San; Treerotchananon, Anuwat; Charoentitirat, Thasinee; Charusiri, Punya

    2017-09-01

    Provenance analysis and U-Pb dating of detrital zircons in Permian-Triassic forearc sediments from the Sukhothai Arc in northern Thailand clarify the evolution of a missing arc system associated with Paleo-Tethys subduction. The turbidite-dominant formations within the forearc sediments include the Permian Ngao Group (Kiu Lom, Pha Huat, and Huai Thak formations), the Early to earliest Late Triassic Lampang Group (Phra That and Hong Hoi formations), and the Late Triassic Song Group (Pha Daeng and Wang Chin formations). The sandstones are quartzose in the Pha Huat, Huai Thak, and Wang Chin formations, and lithic wacke in the Kiu Lom, Phra That, Hong Hoi and Pha Daeng formations. The quartzose sandstones contain abundant quartz, felsic volcanic and plutonic fragments, whereas the lithic sandstones contain mainly basaltic to felsic volcanic fragments. The youngest single-grain (YSG) zircon U-Pb age generally approximates the depositional age in the study area, but in the case of the limestone-dominant Pha Huat Formation the YSG age is clearly older. On the other hand, the youngest cluster U-Pb age (YC1σ) represents the peak of igneous activity in the source area. Geological evidence, geochemical signatures, and the YC1σ ages of the sandstones have allowed us to reconstruct the Sukhothai arc evolution. The initial Sukhothai Arc (Late Carboniferous-Early Permian) developed as a continental island arc. Subsequently, there was general magmatic quiescence with minor I-type granitic activity during the Middle to early Late Permian. In the latest Permian to early Late Triassic, the Sukhothai Arc developed in tandem with Early to Middle Triassic I-type granitic activity, Middle to Late Triassic volcanism, evolution of an accretionary complex, and an abundant supply of sediments from the volcanic rocks to the trench through a forearc basin. Subsequently, the Sukhothai Arc became quiescent as the Paleo-Tethys closed after the Late Triassic. In addition, parts of sediments of

  9. Tracking fluvial response to climate change in the Pacific Northwest: a combined provenance approach using Ar and Nd isotopic systems on fine-grained sediments

    NASA Astrophysics Data System (ADS)

    VanLaningham, Sam; Duncan, Robert A.; Pisias, Nicklas G.; Graham, David W.

    2008-03-01

    Traditional provenance techniques (Nd isotopes and clay mineralogy) are combined with recently developed bulk sediment 40Ar- 39Ar radiometric methods to determine how the terrestrial sources of sediment to the Oregon continental margin have changed over the last 25,000 years. Both Pacific Northwest river-borne detritus, and sediment from piston coring site EW9504-17PC (2671 m water depth) offshore southern Oregon have been analyzed. Nd isotopic analyses of river silts show a range of 10 units in ɛNd. North of the core site, the Columbia River has ɛNd=-7.6, while the Coos River has a value of ɛNd=-10.8. Rivers proximal to the core site have more radiogenic values from north to south, of ɛNd=-5.0 (Umpqua River), ɛNd=-1.3 (Rogue River), ɛNd=-0.6 (Klamath River) and ɛNd=-3.0 (Eel River). Measured ɛNd in core sediments show subtle downcore changes, between ɛNd=-0.9 and -2.5. The bulk sediment 40Ar- 39Ar plateau ages show more notable downcore variation between 25 and 14 ka, ranging from 113.5 to 124.0 Ma, but are still within the range of bulk ages previously measured on river mouth sediments. The Nd isotopic analyses are combined with bulk sediment 40Ar- 39Ar plateau ages into a ternary mixing model to quantitatively assess the sources of terrigenous material. Mixtures are best described by three sources proximal to the core site (the Umpqua, Rogue+Klamath and Eel Rivers) from ˜14 ka to Present. Sediment deposited in the interval from 22 to 25 ka is not adequately described by the present-day rivers and requires an additional source. This additional source is best explained by an enhanced contribution from the interior Cascade volcanic arc, probably due to glaciation in the Cascade Range and the presence of pluvial Lake Modoc in the Upper Klamath Basin at this time. From 22 to 14 ka, the influence of Cascade Range sediment at the core site was overprinted by contemporaneous glaciation and sediment production in the Klamath Mountains, and possibly addition of

  10. Tracking Provenance of Earth Science Data

    NASA Technical Reports Server (NTRS)

    Tilmes, Curt; Yesha, Yelena; Halem, Milton

    2010-01-01

    Tremendous volumes of data have been captured, archived and analyzed. Sensors, algorithms and processing systems for transforming and analyzing the data are evolving over time. Web Portals and Services can create transient data sets on-demand. Data are transferred from organization to organization with additional transformations at every stage. Provenance in this context refers to the source of data and a record of the process that led to its current state. It encompasses the documentation of a variety of artifacts related to particular data. Provenance is important for understanding and using scientific datasets, and critical for independent confirmation of scientific results. Managing provenance throughout scientific data processing has gained interest lately and there are a variety of approaches. Large scale scientific datasets consisting of thousands to millions of individual data files and processes offer particular challenges. This paper uses the analogy of art history provenance to explore some of the concerns of applying provenance tracking to earth science data. It also illustrates some of the provenance issues with examples drawn from the Ozone Monitoring Instrument (OMI) Data Processing System (OMIDAPS) run at NASA's Goddard Space Flight Center by the first author.

  11. Tracking Provenance of Earth Science Data

    NASA Technical Reports Server (NTRS)

    Tilmes, Curt; Yesha, Yelena; Halem, Milton

    2010-01-01

    Tremendous volumes of data have been captured, archived and analyzed. Sensors, algorithms and processing systems for transforming and analyzing the data are evolving over time. Web Portals and Services can create transient data sets on-demand. Data are transferred from organization to organization with additional transformations at every stage. Provenance in this context refers to the source of data and a record of the process that led to its current state. It encompasses the documentation of a variety of artifacts related to particular data. Provenance is important for understanding and using scientific datasets, and critical for independent confirmation of scientific results. Managing provenance throughout scientific data processing has gained interest lately and there are a variety of approaches. Large scale scientific datasets consisting of thousands to millions of individual data files and processes offer particular challenges. This paper uses the analogy of art history provenance to explore some of the concerns of applying provenance tracking to earth science data. It also illustrates some of the provenance issues with examples drawn from the Ozone Monitoring Instrument (OMI) Data Processing System (OMIDAPS) run at NASA's Goddard Space Flight Center by the first author.

  12. Mass balance approaches to understanding evolution of dripwater chemistry

    NASA Astrophysics Data System (ADS)

    Fairchild, I. J.; Baker, A.; Andersen, M. S.; Treble, P. C.

    2015-12-01

    Forward and inverse modelling of dripwater chemistry is a fast-developing area in speleothem science. Such approaches can incorporate theoretical, parameterized or observed relationships between forcing factors and water composition, but at the heart is mass balance: a fundamental principle that provides important constraints. Mass balance has been used in speleothem studies to trace the evolution of dissolved inorganic carbon and carbon isotopes from soil to cave, and to characterize the existence and quantification of prior calcite precipitation (PCP) based on ratios of Mg and Sr to Ca. PCP effects can dominate slow drips, whereas fast drips are more likely to show a residual variability linked to soil-biomass processes. A possible configuration of a more complete mass balance model is illustrated in the figure. Even in humid temperate climates, evapotranspiration can be 50% of total atmospheric precipitation leading to substantially raised salt contents and there can be significant exchange with biomass. In more arid settings, at least seasonal soil storage of salts is likely. Golgotha Cave in SW Australia is in a Mediterranean climate with a strong summer soil moisture deficit. The land surface is forested leading to large ion fluxes related to vegetation. There are also periodic disturbances related to fire. Mass balance approaches have been applied to an 8-year monitoring record. Inter-annual trends of elements coprecipitated in speleothems from fast drips are predicted to be dominated by biomass effects.

  13. A quantitative approach to evolution of music and philosophy

    NASA Astrophysics Data System (ADS)

    Vieira, Vilson; Fabbri, Renato; Travieso, Gonzalo; Oliveira, Osvaldo N., Jr.; da Fontoura Costa, Luciano

    2012-08-01

    The development of new statistical and computational methods is increasingly making it possible to bridge the gap between hard sciences and humanities. In this study, we propose an approach based on a quantitative evaluation of attributes of objects in fields of humanities, from which concepts such as dialectics and opposition are formally defined mathematically. As case studies, we analyzed the temporal evolution of classical music and philosophy by obtaining data for 8 features characterizing the corresponding fields for 7 well-known composers and philosophers, which were treated with multivariate statistics and pattern recognition methods. A bootstrap method was applied to avoid statistical bias caused by the small sample data set, with which hundreds of artificial composers and philosophers were generated, influenced by the 7 names originally chosen. Upon defining indices for opposition, skewness and counter-dialectics, we confirmed the intuitive analysis of historians in that classical music evolved according to a master-apprentice tradition, while in philosophy changes were driven by opposition. Though these case studies were meant only to show the possibility of treating phenomena in humanities quantitatively, including a quantitative measure of concepts such as dialectics and opposition, the results are encouraging for further application of the approach presented here to many other areas, since it is entirely generic.

  14. Provenance through Time

    NASA Astrophysics Data System (ADS)

    Chandler, C. L.; Groman, R. C.; Shepherd, A.; Allison, M. D.; Kinkade, D.; Rauch, S.; Wiebe, P. H.; Glover, D. M.

    2014-12-01

    The ability to reproduce scientific results is a cornerstone of the scientific method, and access to the data upon which the results are based is essential to reproducibility. Access to the data alone is not enough though, and research communities have recognized the importance of metadata (data documentation) to enable discovery and data access, and facilitate interpretation and accurate reuse. The Biological and Chemical Oceanography Data Management Office (BCO-DMO) was first funded in late 2006 by the National Science Foundation (NSF) Division of Ocean Sciences (OCE) Biology and Chemistry Sections to help ensure that data generated during NSF OCE funded research would be preserved and available for future use. The BCO-DMO was formed by combining the formerly independent data management offices of two marine research programs: the United States Joint Global Ocean Flux Study (US JGOFS) and the US GLOBal Ocean ECosystems Dynamics (US GLOBEC) program. Since the US JGOFS and US GLOBEC programs were both active (1990s) there have been significant changes in all aspects of the research data life cycle, and the staff at BCO-DMO has modified the way in which we manage data contributed to the office. The supporting documentation that describes each dataset was originally displayed as a human-readable text file retrievable via a Web browser. BCO-DMO still offers that form because our primary audience is marine researchers using Web browser clients; however we are seeing an increased demand to support machine client access. Metadata records from the BCO-DMO data system are now extracted and published out in a variety of formats. The system supports ISO 19115, FGDC, GCMD DIF, schema.org Dataset extension, formal publication with a DOI, and RDF with semantic markup including PROV-O, FOAF and more. In the 1990s, data documentation helped researchers locate data of interest and understand the provenance sufficiently to determine fitness for purpose. Today, providing data

  15. A unified framework for managing provenance information in translational research

    PubMed Central

    2011-01-01

    Background A critical aspect of the NIH Translational Research roadmap, which seeks to accelerate the delivery of "bench-side" discoveries to patient's "bedside," is the management of the provenance metadata that keeps track of the origin and history of data resources as they traverse the path from the bench to the bedside and back. A comprehensive provenance framework is essential for researchers to verify the quality of data, reproduce scientific results published in peer-reviewed literature, validate scientific process, and associate trust value with data and results. Traditional approaches to provenance management have focused on only partial sections of the translational research life cycle and they do not incorporate "domain semantics", which is essential to support domain-specific querying and analysis by scientists. Results We identify a common set of challenges in managing provenance information across the pre-publication and post-publication phases of data in the translational research lifecycle. We define the semantic provenance framework (SPF), underpinned by the Provenir upper-level provenance ontology, to address these challenges in the four stages of provenance metadata: (a) Provenance collection - during data generation (b) Provenance representation - to support interoperability, reasoning, and incorporate domain semantics (c) Provenance storage and propagation - to allow efficient storage and seamless propagation of provenance as the data is transferred across applications (d) Provenance query - to support queries with increasing complexity over large data size and also support knowledge discovery applications We apply the SPF to two exemplar translational research projects, namely the Semantic Problem Solving Environment for Trypanosoma cruzi (T.cruzi SPSE) and the Biomedical Knowledge Repository (BKR) project, to demonstrate its effectiveness. Conclusions The SPF provides a unified framework to effectively manage provenance of translational

  16. A Geochemical and Mineralogical Approach for the Identification of Provenance of Stone Implements and Tempers in Ceramics from the Area of Mirabello in East Crete, Greece

    NASA Astrophysics Data System (ADS)

    Tsikouras, B.; Dierckx, H. M. C.; Nodarou, E.; Papoutsa, A. D.; Hatzipanagiotou, K.

    2009-04-01

    , intermediate to acid plutonic rocks occur in several outcrops in the eastern and central parts of Crete. Amphibolites and amphibolite schists are sourced in three distinct nappes occurring in Crete: the Miamou Unit, which represents an ophiolite mélange, the Phyllite-Quartzite series that contains various low to medium grade metamorphic schists and phyllites and the Asteroussia Nappe which includes medium to high grade metamorphic rocks. Several rock-samples were collected for petrographic investigation and macroscopic comparison with the stone implements, as well as for mineralogical analysis. Numerous microanalyses were performed in certain key-minerals while X-ray diffractograms were also obtained from the intermediate to acid plutonic rocks. Our results show significant chemical differences among the various lithologies. Especially amphiboles and feldspars can serve as excellent mineral indicators for provenance analysis. Through the use of various compositional plots we managed to differentiate the sources of the raw materials used for the manufacture of stone tools and those of the tempers used for pottery manufacture. We believe that we created a powerful tool in order to investigate the raw material provenance for ground stone tools and the presence and range of interaction of the various pottery workshops operating in the area of Mirabello in East Crete over a period of almost two millennia.

  17. Provenance of the Miocene Alto Tunuyán Basin (33°40‧S, Argentina) and its implications for the evolution of the Andean Range: Insights from petrography and U-Pb LA-ICPMS zircon ages

    NASA Astrophysics Data System (ADS)

    Porras, Hernán; Pinto, Luisa; Tunik, Maisa; Giambiagi, Laura; Deckart, Katja

    2016-10-01

    The Alto Tunuyán Foreland Basin in western Argentina is located immediately south of the flat-slab segment of the Central Andes and its evolution is directly related to the propagation of structures to the east. Petrographic and geochronologic studies have been performed to determine the provenance of syntectonic sediments in the basin in order to establish their relationship to the Andean orogenic activity. The analysed detrital and igneous zircons in contrast with previous data, allow us to restrict the basin age between ca. 15 and 6 Ma. Sandstones record two main contributions, one from andesitic volcanic rocks and the other from an acidic igneous source, the first probably corresponding to Miocene volcanic rocks from the Principal Cordillera (Farellones Formation) and the second to Permo-Triassic, acidic, igneous rocks from the Frontal Cordillera (Choiyoi Magmatic Province, CMP). Two secondary sources have been recorded, sedimentary and metamorphic; the first one is represented by Mesozoic rocks in the Principal Cordillera and the second by the Proterozoic/early Carboniferous Guarguaráz Complex (GC) in the Frontal Cordillera, respectively. Sandstones from the lower basin deposits (15-11 Ma) register supply pulses from the Farellones Formation reflecting the unroofing of the Principal Cordillera by uplift pulses during the middle Miocene. Sandstones from the upper basin deposits (ca. 11-9 Ma) record an increase in material derived from the CMP, reflecting important uplift of the Frontal Cordillera. A thick, ca. 9 Ma old ignimbrite within the basin indicates an eruption in the Frontal Cordillera. Detrital zircons from the CMP have been detected also in the lower basin deposits, suggesting either recycling of Mesozoic deposits containing CMP zircons or an early paleorelief of the Frontal Cordillera. The good correlation between the age of the detrital zircons of the CMP and the GC in the lower basin deposits supports recycling of Mesozoic sedimentary deposits.

  18. An evolution of image source camera attribution approaches.

    PubMed

    Jahanirad, Mehdi; Wahab, Ainuddin Wahid Abdul; Anuar, Nor Badrul

    2016-05-01

    researchers, are also critically analysed and further categorised into four different classes, namely, optical aberrations based, sensor camera fingerprints based, processing statistics based and processing regularities based, to present a classification. Furthermore, this paper aims to investigate the challenging problems, and the proposed strategies of such schemes based on the suggested taxonomy to plot an evolution of the source camera attribution approaches with respect to the subjective optimisation criteria over the last decade. The optimisation criteria were determined based on the strategies proposed to increase the detection accuracy, robustness and computational efficiency of source camera brand, model or device attribution.

  19. Interpreting Evidence: An Approach to Teaching Human Evolution in the Classroom

    ERIC Educational Resources Information Center

    DeSilva, Jeremy

    2004-01-01

    Paleoanthropology, which is the study of human evolution through fossil records, can be used as a tool for teaching human evolution in the classrooms. An updated approach to teaching human evolution and a model for explaining what is science and how it is done, is presented.

  20. Interpreting Evidence: An Approach to Teaching Human Evolution in the Classroom

    ERIC Educational Resources Information Center

    DeSilva, Jeremy

    2004-01-01

    Paleoanthropology, which is the study of human evolution through fossil records, can be used as a tool for teaching human evolution in the classrooms. An updated approach to teaching human evolution and a model for explaining what is science and how it is done, is presented.

  1. Evolution and dispersal of the genus Homo: A landscape approach.

    PubMed

    Winder, Isabelle C; Devès, Maud H; King, Geoffrey C P; Bailey, Geoffrey N; Inglis, Robyn H; Meredith-Williams, Matthew

    2015-10-01

    The notion of the physical landscape as an arena of ecological interaction and human evolution is a powerful one, but its implementation at larger geographical and temporal scales is hampered by the challenges of reconstructing physical landscape settings in the geologically active regions where the earliest evidence is concentrated. We argue that the inherently dynamic nature of these unstable landscapes has made them important agents of biological change, creating complex topographies capable of selecting for, stimulating, obstructing or accelerating the latent and emerging properties of the human evolutionary trajectory. We use this approach, drawing on the concepts and methods of active tectonics, to develop a new perspective on the origins and dispersal of the Homo genus. We show how complex topography provides an easy evolutionary pathway to full terrestrialisation in the African context, and would have further equipped members of the genus Homo with a suite of adaptive characteristics that facilitated wide-ranging dispersal across ecological and climatic boundaries into Europe and Asia by following pathways of complex topography. We compare this hypothesis with alternative explanations for hominin dispersal, and evaluate it by mapping the distribution of topographic features at varying scales, and comparing the distribution of early Homo sites with the resulting maps and with other environmental variables.

  2. Genomic and Metagenomic Approaches for Predicting Pathogen Evolution.

    PubMed

    Casas, Veronica; Maloy, Stanley

    2014-02-01

    Global climate change can alter the distribution of microbial pathogens and vectors that transmit infectious diseases, exposing humans to newly emerging or reemerging diseases. Early detection of potential pathogens and vectors in the environment can facilitate upstream interventions that limit the spread of infectious disease. Metagenomics is the analysis of DNA sequences from a population of microorganisms in a particular environment, followed by the computational reconstruction of the data to determine what organisms are present and predict their role in the environment. Defining the microbial populations associated with humans, animals, and their environment provides insight into the structure of microbial communities in any particular niche, including the abundance, diversity, and composition of the microbes and viruses present. It can also reveal the distribution of virulence genes within that niche. These data can be used to identify reservoirs of pathogens in an environment and predict environments with a high probability for evolution of new pathogens or outbreaks caused by known pathogens, thereby facilitating approaches to prevent infections of animals or humans before serious outbreaks of infectious disease.

  3. Intelligent Resource Management for Local Area Networks: Approach and Evolution

    NASA Technical Reports Server (NTRS)

    Meike, Roger

    1988-01-01

    The Data Management System network is a complex and important part of manned space platforms. Its efficient operation is vital to crew, subsystems and experiments. AI is being considered to aid in the initial design of the network and to augment the management of its operation. The Intelligent Resource Management for Local Area Networks (IRMA-LAN) project is concerned with the application of AI techniques to network configuration and management. A network simulation was constructed employing real time process scheduling for realistic loads, and utilizing the IEEE 802.4 token passing scheme. This simulation is an integral part of the construction of the IRMA-LAN system. From it, a causal model is being constructed for use in prediction and deep reasoning about the system configuration. An AI network design advisor is being added to help in the design of an efficient network. The AI portion of the system is planned to evolve into a dynamic network management aid. The approach, the integrated simulation, project evolution, and some initial results are described.

  4. A Novel Approach to Constraining Uncertain Stellar Evolution Models

    NASA Astrophysics Data System (ADS)

    Rosenfield, Philip; Girardi, Leo; Dalcanton, Julianne; Johnson, L. C.; Williams, Benjamin F.; Weisz, Daniel R.; Bressan, Alessandro; Fouesneau, Morgan

    2017-01-01

    Stellar evolution models are fundamental to nearly all studies in astrophysics. They are used to interpret spectral energy distributions of distant galaxies, to derive the star formation histories of nearby galaxies, and to understand fundamental parameters of exoplanets. Despite the success in using stellar evolution models, some important aspects of stellar evolution remain poorly constrained and their uncertainties rarely addressed. We present results using archival Hubble Space Telescope observations of 10 stellar clusters in the Magellanic Clouds to simultaneously constrain the values and uncertainties of the strength of core convective overshooting, metallicity, interstellar extinction, cluster distance, binary fraction, and age.

  5. A Scientific Approach to Teaching about Evolution and Special Creation.

    ERIC Educational Resources Information Center

    Lawson, Anton E.

    1999-01-01

    Presents a lesson that addresses the scientific aspects of the evolution versus special creation controversy by having students gather evidence from the fossil record and analyze that evidence using critical-thinking skills. Contains 13 references. (WRM)

  6. A Scientific Approach to Teaching about Evolution and Special Creation.

    ERIC Educational Resources Information Center

    Lawson, Anton E.

    1999-01-01

    Presents a lesson that addresses the scientific aspects of the evolution versus special creation controversy by having students gather evidence from the fossil record and analyze that evidence using critical-thinking skills. Contains 13 references. (WRM)

  7. Formation and evolution of galaxies: Analytical and numerical approaches

    NASA Astrophysics Data System (ADS)

    Zhang, Bing

    2001-08-01

    The effects of viscosity and clumpiness are investigated in the context of the formation and the dynamical evolution of galaxies by analytical models and numerical simulations. The major motivation of this investigation is to study how these two factors can alter the angular momentum behavior of the galaxies formed in the bottom-up formation scenario as indicated by the hierarchical CDM cosmology. We analytically modify the standard disk formation model to incorporate the effect of viscous evolution. We derive generic analytic solutions for the disk-halo system after adiabatic compression of the dark halo, with free choice of the input virialized dark halo density profile and of the specific angular momentum distribution. We derive limits on the final density profile of the halo in the central regions due to the condensation of gas. The viscous evolution can redistribute angular momentum distribution by driving material inwards to form a proto- bulge which can be formed by the bar instability in the proto-disk, and by spreading gas to large radius to form pure exponential stellar disk if the viscous evolution timescale and star formation timescale are similar. The `disk-halo' conspiracy is found to be formed better by the disk-halo interaction during the viscous evolution of disk. We investigate the relationship between the assumed initial conditions, such as halo `formation', or assembly, redshift zf, spin parameter λ, baryonic fraction F, and final disk properties such as global star formation timescale, gas fraction, and bulge-to-disk ratio. We find that the present properties of disks, such as the scale length, are compatible with a higher initial formation redshift if the re-distribution by viscous evolution is included than if it is ignored. The numerical simulations confirm many results derived in the analytical model. Further it is found that pure viscous evolution can be unstable. Possibly feedback from star formation is required to maintain a stable

  8. Sex differences, sexual selection, and ageing: an experimental evolution approach.

    PubMed

    Maklakov, Alexei A; Bonduriansky, Russell; Brooks, Robert C

    2009-10-01

    Life-history (LH) theory predicts that selection will optimize the trade-off between reproduction and somatic maintenance. Reproductive ageing and finite life span are direct consequences of such optimization. Sexual selection and conflict profoundly affect the reproductive strategies of the sexes and thus can play an important role in the evolution of life span and ageing. In theory, sexual selection can favor the evolution of either faster or slower ageing, but the evidence is equivocal. We used a novel selection experiment to investigate the potential of sexual selection to influence the adaptive evolution of age-specific LH traits. We selected replicate populations of the seed beetle Callosobruchus maculatus for age at reproduction ("Young" and "Old") either with or without sexual selection. We found that LH selection resulted in the evolution of age-specific reproduction and mortality but these changes were largely unaffected by sexual selection. Sexual selection depressed net reproductive performance and failed to promote adaptation. Nonetheless, the evolution of several traits differed between males and females. These data challenge the importance of current sexual selection in promoting rapid adaptation to environmental change but support the hypothesis that sex differences in LH-a historical signature of sexual selection-are key in shaping trait responses to novel selection.

  9. Evolution of proteins and proteomes: a phylogenetics approach

    PubMed Central

    Gabaldón, Toni

    2007-01-01

    The study of evolutionary relationships among protein sequences was one of the first applications of bioinformatics. Since then, and accompanying the wealth of biological data produced by genome sequencing and other high-throughput techniques, the use of bioinformatics in general and phylogenetics in particular has been gaining ground in the study of protein and proteome evolution. Nowadays, the use of phylogenetics is instrumental not only to infer the evolutionary relationships among species and their genome sequences, but also to reconstruct ancestral states of proteins and proteomes and hence trace the paths followed by evolution. Here I survey recent progress in the elucidation of mechanisms of protein and proteome evolution in which phylogenetics has played a determinant role. PMID:19325853

  10. The Ecology of Language Evolution. Cambridge Approaches to Language Contact.

    ERIC Educational Resources Information Center

    Mufwene, Salikoko S.

    This book explores the development of creoles and other new languages, highlighting conceptual and methodological issues for genetic linguistics and discussing the significance of ecologies that influence language evolution. It presents examples of changes in the structure, function, and vitality of languages, suggesting that similar ecologies…

  11. The Ecology of Language Evolution. Cambridge Approaches to Language Contact.

    ERIC Educational Resources Information Center

    Mufwene, Salikoko S.

    This book explores the development of creoles and other new languages, highlighting conceptual and methodological issues for genetic linguistics and discussing the significance of ecologies that influence language evolution. It presents examples of changes in the structure, function, and vitality of languages, suggesting that similar ecologies…

  12. Early Stages of the Evolution of Life: a Cybernetic Approach

    NASA Astrophysics Data System (ADS)

    Melkikh, Alexey V.; Seleznev, Vladimir D.

    2008-08-01

    Early stages of the evolution of life are considered in terms of control theory. A model is proposed for the transport of substances in a protocell possessing the property of robustness with regard to changes in the environmental concentration of a substance.

  13. A Problem-Solving Approach To the Teaching of Evolution.

    ERIC Educational Resources Information Center

    Brewer, Steve

    1996-01-01

    Describes a research program that provides insight into the nature of phylogenetic problems and problem-solving methods and how these might be applied to teaching evolution. Contains a new description of the nature of phylogenetic problems and factors contributing to their difficulty. (AIM)

  14. Convergence of Galerkin approximations for operator Riccati equations: A nonlinear evolution equation approach

    NASA Technical Reports Server (NTRS)

    Rosen, I. G.

    1988-01-01

    An approximation and convergence theory was developed for Galerkin approximations to infinite dimensional operator Riccati differential equations formulated in the space of Hilbert-Schmidt operators on a separable Hilbert space. The Riccati equation was treated as a nonlinear evolution equation with dynamics described by a nonlinear monotone perturbation of a strongly coercive linear operator. A generic approximation result was proven for quasi-autonomous nonlinear evolution system involving accretive operators which was then used to demonstrate the Hilbert-Schmidt norm convergence of Galerkin approximations to the solution of the Riccati equation. The application of the results was illustrated in the context of a linear quadratic optimal control problem for a one dimensional heat equation.

  15. A Noisy 10GB Provenance Database

    SciTech Connect

    Cheah, You-Wei; Plale, Beth; Kendall-Morwick, Joey; Leake, David; Ramakrishnan, Lavanya

    2011-06-06

    Provenance of scientific data is a key piece of the metadata record for the data's ongoing discovery and reuse. Provenance collection systems capture provenance on the fly, however, the protocol between application and provenance tool may not be reliable. Consequently, the provenance record can be partial, partitioned, and simply inaccurate. We use a workflow emulator that models faults to construct a large 10GB database of provenance that we know is noisy (that is, has errors). We discuss the process of generating the provenance database, and show early results on the kinds of provenance analysis enabled by the large provenance.

  16. Predicting Thermal Conductivity Evolution of Polycrystalline Materials Under Irradiation Using Multiscale Approach

    SciTech Connect

    Li, Dongsheng; Li, Yulan; Hu, Shenyang Y.; Sun, Xin; Khaleel, Mohammad A.

    2012-03-01

    A multiscale methodology was developed to predict the evolution of thermal conductivity of polycrystalline fuel under irradiation. In the mesoscale level, phase field model was used to predict the evolution of gas bubble microstructure. Generation of gas atoms and vacancies were taken into consideration. In the macroscopic scale, a statistical continuum mechanics model was applied to predict the anisotropic thermal conductivity evolution during irradiation. Microstructure predicted by phase field model was fed into statistical continuum mechanics model to predict properties and behavior. Influence of irradiation intensity, exposition time and morphology were investigated. This approach provides a deep understanding on microstructure evolution and property prediction from a basic scientific viewpoint.

  17. Evolution of photosynthetic prokaryotes: a maximum-likelihood mapping approach.

    PubMed Central

    Raymond, Jason; Zhaxybayeva, Olga; Gogarten, J Peter; Blankenship, Robert E

    2003-01-01

    Reconstructing the early evolution of photosynthesis has been guided in part by the geological record, but the complexity and great antiquity of these early events require molecular genetic techniques as the primary tools of inference. Recent genome sequencing efforts have made whole genome data available from representatives of each of the five phyla of bacteria with photosynthetic members, allowing extensive phylogenetic comparisons of these organisms. Here, we have undertaken whole genome comparisons using maximum likelihood to compare 527 unique sets of orthologous genes from all five photosynthetic phyla. Substantiating recent whole genome analyses of other prokaryotes, our results indicate that horizontal gene transfer (HGT) has played a significant part in the evolution of these organisms, resulting in genomes with mosaic evolutionary histories. A small plurality phylogenetic signal was observed, which may be a core of remnant genes not subject to HGT, or may result from a propensity for gene exchange between two or more of the photosynthetic organisms compared. PMID:12594930

  18. Biological evolution of replicator systems: towards a quantitative approach.

    PubMed

    Martin, Osmel; Horvath, J E

    2013-04-01

    The aim of this work is to study the features of a simple replicator chemical model of the relation between kinetic stability and entropy production under the action of external perturbations. We quantitatively explore the different paths leading to evolution in a toy model where two independent replicators compete for the same substrate. To do that, the same scenario described originally by Pross (J Phys Org Chem 17:312-316, 2004) is revised and new criteria to define the kinetic stability are proposed. Our results suggest that fast replicator populations are continually favored by the effects of strong stochastic environmental fluctuations capable to determine the global population, the former assumed to be the only acting evolution force. We demonstrate that the process is continually driven by strong perturbations only, and that population crashes may be useful proxies for these catastrophic environmental fluctuations. As expected, such behavior is particularly enhanced under very large scale perturbations, suggesting a likely dynamical footprint in the recovery patterns of new species after mass extinction events in the Earth's geological past. Furthermore, the hypothesis that natural selection always favors the faster processes may give theoretical support to different studies that claim the applicability of maximum principles like the Maximum Metabolic Flux (MMF) or Maximum Entropy Productions Principle (MEPP), seen as the main goal of biological evolution.

  19. Biological Evolution of Replicator Systems: Towards a Quantitative Approach

    NASA Astrophysics Data System (ADS)

    Martin, Osmel; Horvath, J. E.

    2013-04-01

    The aim of this work is to study the features of a simple replicator chemical model of the relation between kinetic stability and entropy production under the action of external perturbations. We quantitatively explore the different paths leading to evolution in a toy model where two independent replicators compete for the same substrate. To do that, the same scenario described originally by Pross (J Phys Org Chem 17:312-316, 2004) is revised and new criteria to define the kinetic stability are proposed. Our results suggest that fast replicator populations are continually favored by the effects of strong stochastic environmental fluctuations capable to determine the global population, the former assumed to be the only acting evolution force. We demonstrate that the process is continually driven by strong perturbations only, and that population crashes may be useful proxies for these catastrophic environmental fluctuations. As expected, such behavior is particularly enhanced under very large scale perturbations, suggesting a likely dynamical footprint in the recovery patterns of new species after mass extinction events in the Earth's geological past. Furthermore, the hypothesis that natural selection always favors the faster processes may give theoretical support to different studies that claim the applicability of maximum principles like the Maximum Metabolic Flux (MMF) or Maximum Entropy Productions Principle (MEPP), seen as the main goal of biological evolution.

  20. Research traceability using provenance services for biomedical analysis.

    PubMed

    Anjum, Ashiq; Bloodsworth, Peter; Branson, Andrew; Habib, Irfan; McClatchey, Richard; Solomonides, Tony; Soomro, Kamran; The Neugrid Consortium

    2010-01-01

    We outline the approach being developed in the neuGRID project to use provenance management techniques for the purposes of capturing and preserving the provenance data that emerges in the specification and execution of workflows in biomedical analyses. In the neuGRID project a provenance service has been designed and implemented that is intended to capture, store, retrieve and reconstruct the workflow information needed to facilitate users in conducting user analyses. We describe the architecture of the neuGRID provenance service and discuss how the CRISTAL system from CERN is being adapted to address the requirements of the project and then consider how a generalised approach for provenance management could emerge for more generic application to the (Health)Grid community.

  1. Evolution.

    ERIC Educational Resources Information Center

    Mayr, Ernst

    1978-01-01

    Traces the history of evolution theory from Lamarck and Darwin to the present. Discusses natural selection in detail. Suggests that, besides biological evolution, there is also a cultural evolution which is more rapid than the former. (MA)

  2. Evolution.

    ERIC Educational Resources Information Center

    Mayr, Ernst

    1978-01-01

    Traces the history of evolution theory from Lamarck and Darwin to the present. Discusses natural selection in detail. Suggests that, besides biological evolution, there is also a cultural evolution which is more rapid than the former. (MA)

  3. A Quantitative Approach to Analyzing Genome Reductive Evolution Using Protein–Protein Interaction Networks: A Case Study of Mycobacterium leprae

    PubMed Central

    Akinola, Richard O.; Mazandu, Gaston K.; Mulder, Nicola J.

    2016-01-01

    The advance in high-throughput sequencing technologies has yielded complete genome sequences of several organisms, including complete bacterial genomes. The growing number of these available sequenced genomes has enabled analyses of their dynamics, as well as the molecular and evolutionary processes which these organisms are under. Comparative genomics of different bacterial genomes have highlighted their genome size and gene content in association with lifestyles and adaptation to various environments and have contributed to enhancing our understanding of the mechanisms of their evolution. Protein–protein functional interactions mediate many essential processes for maintaining the stability of the biological systems under changing environmental conditions. Thus, these interactions play crucial roles in the evolutionary processes of different organisms, especially for obligate intracellular bacteria, proven to generally have reduced genome sizes compared to their nearest free-living relatives. In this study, we used the approach based on the Renormalization Group (RG) analysis technique and the Maximum-Excluded-Mass-Burning (MEMB) model to investigate the evolutionary process of genome reduction in relation to the organization of functional networks of two organisms. Using a Mycobacterium leprae (MLP) network in comparison with a Mycobacterium tuberculosis (MTB) network as a case study, we show that reductive evolution in MLP was as a result of removal of important proteins from neighbors of corresponding orthologous MTB proteins. While each orthologous MTB protein had an increase in number of interacting partners in most instances, the corresponding MLP protein had lost some of them. This work provides a quantitative model for mapping reductive evolution and protein–protein functional interaction network organization in terms of roles played by different proteins in the network structure. PMID:27066064

  4. An approach of community evolution based on gravitational relationship refactoring in dynamic networks

    NASA Astrophysics Data System (ADS)

    Yin, Guisheng; Chi, Kuo; Dong, Yuxin; Dong, Hongbin

    2017-04-01

    In this paper, an approach of community evolution based on gravitational relationship refactoring between the nodes in a dynamic network is proposed, and it can be used to simulate the process of community evolution. A static community detection algorithm and a dynamic community evolution algorithm are included in the approach. At first, communities are initialized by constructing the core nodes chains, the nodes can be iteratively searched and divided into corresponding communities via the static community detection algorithm. For a dynamic network, an evolutionary process is divided into three phases, and behaviors of community evolution can be judged according to the changing situation of the core nodes chain in each community. Experiments show that the proposed approach can achieve accuracy and availability in the synthetic and real world networks.

  5. The evolution of “Life”: A Metadarwinian integrative approach

    PubMed Central

    De Loof, Arnold

    2017-01-01

    ABSTRACT It is undeniably very logical to first formulate an unambiguous definition of “Life” before engaging in defining the parameters instrumental to Life's evolution. Because nearly everybody assumes, erroneously in my opinion, that catching Life's essence in a single sentence is impossible, this way of thinking remained largely unexplored in evolutionary theory. Upon analyzing what exactly happens at the transition from “still alive” to “just dead,” the following definition emerged. What we call “Life” (L) is an activity. It is nothing other than the total sum (∑) of all communication acts (C) executed, at moment t, by entities organized as sender-receiver compartments: L = ∑C Such “living” entities are self-electrifying and talking ( = communicating) aggregates of fossil stardust operating in an environment heavily polluted by toxic calcium. Communication is a multifaceted, complex process that is seldom well explained in introductory textbooks of biology. Communication is instrumental to adaptation because, at the cellular level, any act of communication is in fact a problem-solving act. It can be logically deduced that not Natural Selection itself but communication/problem-solving activity preceding selection is the universal driving force of evolution. This is against what textbooks usually claim, although doubt on the status of Natural Selection as driving force has been around for long. Finally, adopting the sender-receiver with its 2 memory systems (genetic and cognitive, both with their own rules) and 2 types of progeny (”physical children” and “pupils”) as the universal unit of architecture and function of all living entities, also enables the seamless integration of cultural and organic evolution, another long-standing tough problem in evolutionary theory. Paraphrasing Theodosius Dobzhansky, the very essence of biology is: “Nothing in biology and evolutionary theory makes sense except in the light of the ability of

  6. Unravelling the evolution of autumn colours: an interdisciplinary approach.

    PubMed

    Archetti, Marco; Döring, Thomas F; Hagen, Snorre B; Hughes, Nicole M; Leather, Simon R; Lee, David W; Lev-Yadun, Simcha; Manetas, Yiannis; Ougham, Helen J; Schaberg, Paul G; Thomas, Howard

    2009-03-01

    Leaf colour change is commonly observed in temperate deciduous forests in autumn. This is not simply a side effect of leaf senescence, and, in the past decade, several hypotheses have emerged to explain the evolution of autumn colours. Yet a lack of crosstalk between plant physiologists and evolutionary ecologists has resulted in slow progress, and so the adaptive value of this colour change remains a mystery. Here we provide an interdisciplinary summary of the current body of knowledge on autumn colours, and discuss unresolved issues and future avenues of research that might help reveal the evolutionary meaning of this spectacle of nature.

  7. Understanding bias in provenance studies

    NASA Astrophysics Data System (ADS)

    Garzanti, Eduardo; Andò, Sergio; Malusà, Marco; Vezzoli, Giovanni

    2010-05-01

    Innumerable pieces of information are stored in the sedimentary archive. Each single sediment layer contains billions of detrital grains, and every grain preserves imprints of its geological story. If we learn to read, compare, and combine these messages properly, through a deeper understanding of physical and chemical processes that modify sediment composition during the sedimentary cycle, provenance analysis may eventually enable us to reconstruct more accurately the geological processes that shaped the Earth's crust in the past. Interpreting detrital modes is not straightforward because provenance signals issued from source rocks become progressively blurred by multiple noises in the sedimentary environment ("environmental bias"; Komar, 2007), and finally during post-depositional history ("diagenetic bias"; Morton and Hallsworth, 2007). During transport and deposition, detrital minerals are segregated in different size fractions and environments according to their size, density and shape (Rubey, 1933; Garzanti et al., 2008). Heavy-mineral concentration can increase by an order of magnitude due to selective-entrainment effects, with potentially overwhelming impact on chemical composition and provenance estimates based on detrital-geochronology data (Garzanti et al., 2009). Conversely, heavy-mineral concentration is typically reduced by an order of magnitude in Alpine and Himalayan foreland-basin deposits older than the Pleistocene (Garzanti and Andò, 2007). Extensive chemical dissolution can occur even prior to deposition during weathering in hot humid climates (Velbel, 2007). Primary provenance signals can be isolated and assessed by studying first modern sediments in hyperarid settings (i.e., free from diagenetic and weathering bias). Next, weathering, hydraulic-sorting, and diagenetic effects can be singled out by analysing sediments of similar provenance produced in contrasting climatic conditions, sediments transported in diverse modes and deposited in

  8. Self-organizing maps in geothermal exploration-A new approach for understanding geochemical processes and fluid evolution

    NASA Astrophysics Data System (ADS)

    Brehme, Maren; Bauer, Klaus; Nukman, Mochamad; Regenspurg, Simona

    2017-04-01

    Understanding geochemical processes is an important part of geothermal exploration to get information about the source and evolution of geothermal fluids. However, in most cases knowledge of fluid properties is based on few parameters determined in samples from the shallow subsurface. This study presents a new approach that allows to conclude from the combination of a variety of these data on processes occurring at depth in a geothermal reservoir. The neural network clustering technique called ;self-organizing maps; (SOMs) successfully distinguished two different geothermal settings based on a hydrochemical database and disclosed the source, evolution and flow pathways of geothermal fluids. Scatter plots, as shown in this study, are appropriate presentations of element concentrations and the chemical interaction of water and rock at depth. One geological setting presented here is marked by fault dominated fluid pathways and minor influence of volcanic affected fluids with high concentrations of HCO3, Ca and Sr. The second is a magmatically dominated setting showing strong alteration features in volcanic rocks and accommodates acidic fluids with high SO4 and Si concentrations. Former studies, i.e., Giggenbach (1988), suggested Cl, HCO3 and SO4 to be generally the most important elements for understanding hydrochemical processes in geothermal reservoirs. Their relation has been widely used to classify different water types in geothermal fields. However, this study showed that non-standard elements are at least of same importance to reveal different fluid types in geothermal systems. Therefore, this study is an extended water classification approach using SOM for element correlations. SOM have been proven to be a successful method for analyzing even relatively small hydrochemical datasets in geothermal applications.

  9. Protein Engineering by Combined Computational and In Vitro Evolution Approaches.

    PubMed

    Rosenfeld, Lior; Heyne, Michael; Shifman, Julia M; Papo, Niv

    2016-05-01

    Two alternative strategies are commonly used to study protein-protein interactions (PPIs) and to engineer protein-based inhibitors. In one approach, binders are selected experimentally from combinatorial libraries of protein mutants that are displayed on a cell surface. In the other approach, computational modeling is used to explore an astronomically large number of protein sequences to select a small number of sequences for experimental testing. While both approaches have some limitations, their combination produces superior results in various protein engineering applications. Such applications include the design of novel binders and inhibitors, the enhancement of affinity and specificity, and the mapping of binding epitopes. The combination of these approaches also aids in the understanding of the specificity profiles of various PPIs.

  10. PAV ontology: provenance, authoring and versioning

    PubMed Central

    2013-01-01

    We analyze and compare PAV with related approaches, namely Provenance Vocabulary (PRV), DC Terms and BIBFRAME. We identify similarities and analyze differences between those vocabularies and PAV, outlining strengths and weaknesses of our proposed model. We specify SKOS mappings that align PAV with DC Terms. We conclude the paper with general remarks on the applicability of PAV. PMID:24267948

  11. PAV ontology: provenance, authoring and versioning.

    PubMed

    Ciccarese, Paolo; Soiland-Reyes, Stian; Belhajjame, Khalid; Gray, Alasdair Jg; Goble, Carole; Clark, Tim

    2013-11-22

    approaches, namely Provenance Vocabulary (PRV), DC Terms and BIBFRAME. We identify similarities and analyze differences between those vocabularies and PAV, outlining strengths and weaknesses of our proposed model. We specify SKOS mappings that align PAV with DC Terms. We conclude the paper with general remarks on the applicability of PAV.

  12. Phylogenetic approach to the evolution of color term systems.

    PubMed

    Haynie, Hannah J; Bowern, Claire

    2016-11-29

    The naming of colors has long been a topic of interest in the study of human culture and cognition. Color term research has asked diverse questions about thought and communication, but no previous research has used an evolutionary framework. We show that there is broad support for the most influential theory of color term development (that most strongly represented by Berlin and Kay [Berlin B, Kay P (1969) (Univ of California Press, Berkeley, CA)]); however, we find extensive evidence for the loss (as well as gain) of color terms. We find alternative trajectories of color term evolution beyond those considered in the standard theories. These results not only refine our knowledge of how humans lexicalize the color space and how the systems change over time; they illustrate the promise of phylogenetic methods within the domain of cognitive science, and they show how language change interacts with human perception.

  13. Phylogenetic approach to the evolution of color term systems

    PubMed Central

    Haynie, Hannah J.

    2016-01-01

    The naming of colors has long been a topic of interest in the study of human culture and cognition. Color term research has asked diverse questions about thought and communication, but no previous research has used an evolutionary framework. We show that there is broad support for the most influential theory of color term development (that most strongly represented by Berlin and Kay [Berlin B, Kay P (1969) (Univ of California Press, Berkeley, CA)]); however, we find extensive evidence for the loss (as well as gain) of color terms. We find alternative trajectories of color term evolution beyond those considered in the standard theories. These results not only refine our knowledge of how humans lexicalize the color space and how the systems change over time; they illustrate the promise of phylogenetic methods within the domain of cognitive science, and they show how language change interacts with human perception. PMID:27849594

  14. Evolution of Cool Close Binaries - Approach to Contact

    NASA Astrophysics Data System (ADS)

    Stępień, K.

    2011-06-01

    As a part of a larger project, a set of 27 evolutionary models of cool close binaries was computed under the assumption that their evolution is influenced by the magnetized winds blowing from both components. Short period binaries with the initial periods of 1.5 d, 2.0 d and 2.5 d were considered. For each period three values of 1.3 Msun, 1.1 Msun and 0.9 Msun were taken as the initial masses of the more massive components. The initial masses of the less massive components were adjusted to avoid extreme mass ratios. Here the results of the computations of the first evolutionary phase are presented, which starts from the initial conditions and ends when the more massive component reaches its critical Roche lobe. In all considered cases this phase lasts for several Gyr. For binaries with the higher total mass and/or longer initial periods this time is equal to, or longer than the main sequence life time of the more massive component. For the remaining binaries it amounts to a substantial fraction of this life time. From the statistical analysis of models, the predicted period distribution of detached binaries with periods shorter than 2 d was obtained and compared to the observed distribution from the ASAS data. An excellent agreement was obtained under the assumption that the period distribution in this range is determined solely by magnetic braking (MB), i.e., the mass and angular momentum loss due to the magnetized winds, as considered in the present paper. This result indicates, in particular, that virtually all cool detached binaries with periods of a few tenths of a day, believed to be the immediate progenitors of W UMa-type stars, were formed from young detached systems with periods around 2-3 d. MB is the dominant formation mechanism of cool contact binaries. It operates on the time scale of several Gyr rendering them rather old, with age of 6-10 Gyr. The results of the present analysis will be used as input data to investigate the subsequent evolution of the

  15. Computational Approaches to Viral Evolution and Rational Vaccine Design

    NASA Astrophysics Data System (ADS)

    Bhattacharya, Tanmoy

    2006-10-01

    Viral pandemics, including HIV, are a major health concern across the world. Experimental techniques available today have uncovered a great wealth of information about how these viruses infect, grow, and cause disease; as well as how our body attempts to defend itself against them. Nevertheless, due to the high variability and fast evolution of many of these viruses, the traditional method of developing vaccines by presenting a heuristically chosen strain to the body fails and an effective intervention strategy still eludes us. A large amount of carefully curated genomic data on a number of these viruses are now available, often annotated with disease and immunological context. The availability of parallel computers has now made it possible to carry out a systematic analysis of this data within an evolutionary framework. I will describe, as an example, how computations on such data has allowed us to understand the origins and diversification of HIV, the causative agent of AIDS. On the practical side, computations on the same data is now being used to inform choice or defign of optimal vaccine strains.

  16. Random Matrix Approach to Quantum Adiabatic Evolution Algorithms

    NASA Technical Reports Server (NTRS)

    Boulatov, Alexei; Smelyanskiy, Vadier N.

    2004-01-01

    We analyze the power of quantum adiabatic evolution algorithms (Q-QA) for solving random NP-hard optimization problems within a theoretical framework based on the random matrix theory (RMT). We present two types of the driven RMT models. In the first model, the driving Hamiltonian is represented by Brownian motion in the matrix space. We use the Brownian motion model to obtain a description of multiple avoided crossing phenomena. We show that the failure mechanism of the QAA is due to the interaction of the ground state with the "cloud" formed by all the excited states, confirming that in the driven RMT models. the Landau-Zener mechanism of dissipation is not important. We show that the QAEA has a finite probability of success in a certain range of parameters. implying the polynomial complexity of the algorithm. The second model corresponds to the standard QAEA with the problem Hamiltonian taken from the Gaussian Unitary RMT ensemble (GUE). We show that the level dynamics in this model can be mapped onto the dynamics in the Brownian motion model. However, the driven RMT model always leads to the exponential complexity of the algorithm due to the presence of the long-range intertemporal correlations of the eigenvalues. Our results indicate that the weakness of effective transitions is the leading effect that can make the Markovian type QAEA successful.

  17. The Open Provenance Model: an Overview

    SciTech Connect

    Moreau, Luc; Freire, Juliana; Futrelle, Joe; McGrath, Robert E.; Myers, Jim; Paulson, Patrick R.

    2008-11-19

    The Open Provenance Model (OPM) is a model for provenance that is designed to meet the following requirements: { To allow provenance information to be exchanged between systems, by means of a compatibility layer based on a shared provenance model. { To allow developers to build and share tools that operate on such provenance model. { To dene the model in a precise, technology-agnostic manner. { To support a digital representation of provenance for any \\thing", whether produced by computer systems or not. { To dene a core set of rules that identify the valid inferences that can be made on provenance graphs.

  18. Provenance management in Swift with implementation details.

    SciTech Connect

    Gadelha, L. M. R; Clifford, B.; Mattoso, M.; Wilde, M.; Foster, I.

    2011-04-01

    The Swift parallel scripting language allows for the specification, execution and analysis of large-scale computations in parallel and distributed environments. It incorporates a data model for recording and querying provenance information. In this article we describe these capabilities and evaluate interoperability with other systems through the use of the Open Provenance Model. We describe Swift's provenance data model and compare it to the Open Provenance Model. We also describe and evaluate activities performed within the Third Provenance Challenge, which consisted of implementing a specific scientific workflow, capturing and recording provenance information of its execution, performing provenance queries, and exchanging provenance information with other systems. Finally, we propose improvements to both the Open Provenance Model and Swift's provenance system.

  19. Bridging Inter- and Intraspecific Trait Evolution with a Hierarchical Bayesian Approach.

    PubMed

    Kostikova, Anna; Silvestro, Daniele; Pearman, Peter B; Salamin, Nicolas

    2016-05-01

    The evolution of organisms is crucially dependent on the evolution of intraspecific variation. Its interactions with selective agents in the biotic and abiotic environments underlie many processes, such as intraspecific competition, resource partitioning and, eventually, species formation. Nevertheless, comparative models of trait evolution neither allow explicit testing of hypotheses related to the evolution of intraspecific variation nor do they simultaneously estimate rates of trait evolution by accounting for both trait mean and variance. Here, we present a model of phenotypic trait evolution using a hierarchical Bayesian approach that simultaneously incorporates interspecific and intraspecific variation. We assume that species-specific trait means evolve under a simple Brownian motion process, whereas species-specific trait variances are modeled with Brownian or Ornstein-Uhlenbeck processes. After evaluating the power of the method through simulations, we examine whether life-history traits impact evolution of intraspecific variation in the Eriogonoideae (buckwheat family, Polygonaceae). Our model is readily extendible to more complex scenarios of the evolution of inter- and intraspecific variation and presents a step toward more comprehensive comparative models for macroevolutionary studies.

  20. File level provenance tracking in CMS

    SciTech Connect

    Jones, C.D.; Kowalkowski, J.; Paterno, M.; Sexton-Kennedy, L.; Tanenbaum, W.; Riley, D.S.; /Cornell U., LEPP

    2009-05-01

    The CMS off-line framework stores provenance information within CMS's standard ROOT event data files. The provenance information is used to track how each data product was constructed, including what other data products were read to do the construction. We will present how the framework gathers the provenance information, the efforts necessary to minimize the space used to store the provenance in the file and the tools that will be available to use the provenance.

  1. [Modern evolutional developmental biology: mechanical and molecular genetic or phenotypic approaches?].

    PubMed

    Vorob'eva, É I

    2010-01-01

    Heightened interest in the evolutionary problems of developmental biology in the 1980s was due to the success of molecular genetics and disappointment in the synthetic theory of evolution, where the chapters of embryology and developmental biology seem to have been left out. Modern evo-devo, which turned out to be antipodean to the methodology of the synthetic theory of evolution, propagandized in the development of evolutionary problems only the mechanical and molecular genetic approach to the evolution of ontogenesis, based on cellular and intercellular interactions. The phonotypical approach to the evaluation of evolutionary occurrences in ontogenesis, which aids in the joining of the genetic and epigenetic levels of research, the theory of natural selection, the nomogenetic conception, and the problem of the wholeness of the organism in onto- and phylogenesis may be against this. The phenotypic approach to ontogenesis is methodologically the most perspective for evolutionary developmental biology.

  2. Random matrix approach to quantum adiabatic evolution algorithms

    SciTech Connect

    Boulatov, A.; Smelyanskiy, V.N.

    2005-05-15

    We analyze the power of the quantum adiabatic evolution algorithm (QAA) for solving random computationally hard optimization problems within a theoretical framework based on random matrix theory (RMT). We present two types of driven RMT models. In the first model, the driving Hamiltonian is represented by Brownian motion in the matrix space. We use the Brownian motion model to obtain a description of multiple avoided crossing phenomena. We show that nonadiabatic corrections in the QAA are due to the interaction of the ground state with the 'cloud' formed by most of the excited states, confirming that in driven RMT models, the Landau-Zener scenario of pairwise level repulsions is not relevant for the description of nonadiabatic corrections. We show that the QAA has a finite probability of success in a certain range of parameters, implying a polynomial complexity of the algorithm. The second model corresponds to the standard QAA with the problem Hamiltonian taken from the RMT Gaussian unitary ensemble (GUE). We show that the level dynamics in this model can be mapped onto the dynamics in the Brownian motion model. For this reason, the driven GUE model can also lead to polynomial complexity of the QAA. The main contribution to the failure probability of the QAA comes from the nonadiabatic corrections to the eigenstates, which only depend on the absolute values of the transition amplitudes. Due to the mapping between the two models, these absolute values are the same in both cases. Our results indicate that this 'phase irrelevance' is the leading effect that can make both the Markovian- and GUE-type QAAs successful.

  3. Phylogenomic Insights into Mouse Evolution Using a Pseudoreference Approach

    PubMed Central

    Sarver, Brice A.J.; Keeble, Sara; Cosart, Ted; Tucker, Priscilla K.; Dean, Matthew D.

    2017-01-01

    Comparative genomic studies are now possible across a broad range of evolutionary timescales, but the generation and analysis of genomic data across many different species still present a number of challenges. The most sophisticated genotyping and down-stream analytical frameworks are still predominantly based on comparisons to high-quality reference genomes. However, established genomic resources are often limited within a given group of species, necessitating comparisons to divergent reference genomes that could restrict or bias comparisons across a phylogenetic sample. Here, we develop a scalable pseudoreference approach to iteratively incorporate sample-specific variation into a genome reference and reduce the effects of systematic mapping bias in downstream analyses. To characterize this framework, we used targeted capture to sequence whole exomes (∼54 Mbp) in 12 lineages (ten species) of mice spanning the Mus radiation. We generated whole exome pseudoreferences for all species and show that this iterative reference-based approach improved basic genomic analyses that depend on mapping accuracy while preserving the associated annotations of the mouse reference genome. We then use these pseudoreferences to resolve evolutionary relationships among these lineages while accounting for phylogenetic discordance across the genome, contributing an important resource for comparative studies in the mouse system. We also describe patterns of genomic introgression among lineages and compare our results to previous studies. Our general approach can be applied to whole or partitioned genomic data and is easily portable to any system with sufficient genomic resources, providing a useful framework for phylogenomic studies in mice and other taxa. PMID:28338821

  4. Scapular dyskinesia: evolution towards a systems-based approach

    PubMed Central

    Smith, Michael J

    2015-01-01

    Historically, scapular dyskinesia has been used to describe an isolated clinical entity whereby an abnormality in positioning, movement or function of the scapula is present. Based upon this, treatment approaches have focused on addressing local isolated muscle activity. Recently, however, there has been a progressive move towards viewing the scapula as being part of a wider system of movement that is regulated and controlled by multiple factors, including the wider kinetic chain and individual patient-centred requirements. We therefore propose a paradigm shift whereby scapular dyskinesia is seen not in isolation but is considered within the broader context of patient-centred care and an entire neuromuscular system. PMID:27583003

  5. Detrital zircon record of Paleozoic and Mesozoic meta-sedimentary strata in the eastern part of the Baoshan block: Implications of their provenance and the tectonic evolution of the southeastern margin of the Tibetan plateau

    NASA Astrophysics Data System (ADS)

    Li, Dapeng; Chen, Yuelong; Hou, Kejun; Lu, Zhen; Cui, Di

    2015-06-01

    The Baoshan block is one of the important members in the southeastern margin of the Tibetan Plateau. Cambrian to Jurassic (meta-) sedimentary strata and their metamorphic counterparts were well preserved in the eastern part of the Baoshan block. Zircon U-Pb dating, trace elements, and Hf isotope data for both the Cambrian to Jurassic (meta-) sedimentary sequences and the Lincang granite were used to deduce the provenance of sediments and crustal affinity with eastern Gondwanaland. The Lincang granite outcropped in the Fengqing area is typical S-type, with crystallization age of ~ 230 Ma and narrow range of zircon εHf(t) values from - 15.5 to - 10. Detrital zircons from Paleozoic strata range in age from Archean to early Paleozoic, with age peaks at ~ 2.5, ~ 0.95, and ~ 0.6 Ga. Triassic age peak (~ 230 Ma) was also detected in the Jurassic strata. Detrital zircon εHf(t) values exhibit a wide range from negative to positive for each of the four major age groups, showing the host magma of zircons from these groups have diverse sources. The Baoshan block should be along the Indian margin as the Qiangtang, Tengchong and Simao-Indochina blocks in Early Paleozoic based on the provenance analyses. Sediment inputs eroded from both the Lincang granite and the coeval igneous rocks in the Baoshan and Gongshan blocks were the dominant contributions to the Jurassic strata after the amalgation of the Baoshan and Simao-Indochina blocks. Tectonic processes linking dispersion of the Baoshan-Sibumasu terrane from the Gondwana supercontinent to the collision with the Simao-Indochina block and the deposition of the Cambrian to Jurassic sedimentary sequences were reconstructed.

  6. Evolution of Minimally Invasive Approaches to the Sella and Parasellar Region

    PubMed Central

    Louis, Robert G.; Eisenberg, Amy; Barkhoudarian, Garni; Griffiths, Chester; Kelly, Daniel F.

    2014-01-01

    Introduction Given advancements in endoscopic image quality, instrumentation, surgical navigation, skull base closure techniques, and anatomical understanding, the endonasal endoscopic approach has rapidly evolved into a widely utilized technique for removal of sellar and parasellar tumors. Although pituitary adenomas and Rathke cleft cysts constitute the majority of lesions removed via this route, craniopharyngiomas, clival chordomas, parasellar meningiomas, and other lesions are increasingly removed using this approach. Paralleling the evolution of the endonasal route to the parasellar region, the supraorbital eyebrow craniotomy has also been increasingly used as an alternative minimally invasive approach to reach this skull base region. Similar to the endonasal route, the supraorbital route has been greatly facilitated by advances in endoscopy, along with development of more refined, low-profile instrumentation and surgical navigation technology. Objectives This review, encompassing both transcranial and transsphenoidal routes, will recount the high points and advances that have made minimally invasive approaches to the sellar region possible, the evolution of these approaches, and their relative indications and technical nuances. Data Synthesis The literature is reviewed regarding the evolution of surgical approaches to the sellar region beginning with the earliest attempts and emphasizing technological advances, which have allowed the evolution of the modern technique. The surgical techniques for both endoscopic transsphenoidal and supraorbital approaches are described in detail. The relative indications for each approach are highlighted using case illustrations. Conclusions Although tremendous advances have been made in transitioning toward minimally invasive transcranial and transsphenoidal approaches to the sella, further work remains to be done. Together, the endonasal endoscopic and the supraorbital endoscope-assisted approaches are complementary

  7. Preventing Exploits Against Software of Uncertain Provenance (PEASOUP)

    DTIC Science & Technology

    2015-05-01

    results of the research and development of PEASOUP (Preventing Exploits Against Software of Uncertain Provenance), a technology that enables the safe...Preventing Exploits Against Software of Uncertain Provenance), a technology that enables the safe execution of software executables. PEASOUP...Products and Transferable Technology 5 2.2 Use of Third-Party COTS Products 7 2.3 Overview of the Technical Approach and Plan 8 2.4 2.4.1 The (Offline

  8. How can a multimodal approach to primate communication help us understand the evolution of communication?

    PubMed

    Waller, Bridget M; Liebal, Katja; Burrows, Anne M; Slocombe, Katie E

    2013-07-18

    Scientists studying the communication of non-human animals are often aiming to better understand the evolution of human communication, including human language. Some scientists take a phylogenetic perspective, where the goal is to trace the evolutionary history of communicative traits, while others take a functional perspective, where the goal is to understand the selection pressures underpinning specific traits. Both perspectives are necessary to fully understand the evolution of communication, but it is important to understand how the two perspectives differ and what they can and cannot tell us. Here, we suggest that integrating phylogenetic and functional questions can be fruitful in better understanding the evolution of communication. We also suggest that adopting a multimodal approach to communication might help to integrate phylogenetic and functional questions, and provide an interesting avenue for research into language evolution.

  9. An interdisciplinary systems approach to study sperm physiology and evolution.

    PubMed

    Shi, Linda Z; Nascimento, Jaclyn; Botvinick, Elliot; Durrant, Barbara; Berns, Michael W

    2011-01-01

    Optical trapping is a noninvasive biophotonic tool that has been developed to study the physiological and biomechanical properties of cells. The custom-designed optical system is built to direct near-infrared laser light into an inverted microscope to create a single-point three-dimensional gradient laser trap at the microscope focal point. A real-time automated tracking and trapping system (RATTS) is described that provides a remote user-friendly robotic interface. The combination of laser tweezers, fluorescent imaging, and RATTS can measure sperm swimming speed and swimming force simultaneously with mitochondrial membrane potential (MMP). The roles of two sources of adenosine triphosphate in sperm motility/energetics are studied: oxidative phosphorylation, which occurs in the mitochondria located in the sperm midpiece, and glycolysis, which occurs along the length of the sperm tail (flagellum). The effects of glucose, oxidative phosphorylation inhibitors, and glycolytic inhibitors on human sperm motility are studied. This combination of photonic physical and engineering tools has been used to examine the evolutionary effect of sperm competition in primates. The results demonstrate a correlation between mating type and sperm motility: sperm from polygamous (multi-partner) primate species swim faster and with greater force than sperm from polygynous (single partner) primate species. In summary, engineering and biological systems are combined to provide a powerful interdisciplinary approach to study the complex biological systems that drive the sperm toward the egg.

  10. Evolution of agricultural water use in India: a systems approach

    NASA Astrophysics Data System (ADS)

    Hora, T.; Basu, N. B.

    2016-12-01

    Groundwater plays an important role in improving the resilience of agriculture practices by mitigating the risk associated with unreliable and seasonal rainfalls. This has been an important driver in satisfying the food demand for an ever increasing population across the world. However, the inability to manage this large but limited freshwater reserve has resulted in a sharp decline in water table levels, with India being at the forefront of this problem. This study looks at the temporal trajectory of groundwater extraction in India over a 40 year time span during which well irrigation has evolved to become a central component of agriculture there. Using a systems approach, we identify the regional hot-spots of unsustainable groundwater extraction and then analyze its relationship with the environmental, economic and social components of the region. Early results indicate that the state of Punjab has been overexploiting its groundwater resources since the early 1980's with a 22% jump in groundwater extraction after the introduction of a free electricity policy, with a concomitant reduction in the number of marginal farmers by 36%. This is in contrast with the state of Tamil Nadu, in which groundwater extraction is less severe, but the number of marginal farmers has increased.

  11. Launch Services, a Proven Model

    NASA Astrophysics Data System (ADS)

    Trafton, W. C.; Simpson, J.

    2002-01-01

    From a commercial perspective, the ability to justify "leap frog" technology such as reusable systems has been difficult to justify because the estimated 5B to 10B investment is not supported in the current flat commercial market coupled with an oversupply of launch service suppliers. The market simply does not justify investment of that magnitude. Currently, next generation Expendable Launch Systems, including Boeing's Delta IV, Lockheed Martin's Atlas 5, Ariane V ESCA and RSC's H-IIA are being introduced into operations signifying that only upgrades to proven systems are planned to meet the changes in anticipated satellite demand (larger satellites, more lifetime, larger volumes, etc.) in the foreseeable future. We do not see a new fleet of ELVs emerging beyond that which is currently being introduced, only continuous upgrades of the fleet to meet the demands. To induce a radical change in the provision of launch services, a Multinational Government investment must be made and justified by World requirements. The commercial market alone cannot justify such an investment. And if an investment is made, we cannot afford to repeat previous mistakes by relying on one system such as shuttle for commercial deployment without having any back-up capability. Other issues that need to be considered are national science and security requirements, which to a large extent fuels the Japanese, Chinese, Indian, Former Soviet Union, European and United States space transportation entries. Additionally, this system must support or replace current Space Transportation Economies with across-the-board benefits. For the next 10 to 20 years, Multinational cooperation will be in the form of piecing together launch components and infrastructure to supplement existing launch systems and reducing the amount of non-recurring investment while meeting the future requirements of the End-User. Virtually all of the current systems have some form of multinational participation: Sea Launch

  12. Can Reaction Mechanisms Be Proven?

    NASA Astrophysics Data System (ADS)

    Buskirk, Allen; Baradaran, Hediyeh

    2009-05-01

    "Can Reaction Mechanisms Be Proven?" generated spirited responses from its reviewers. The reviews were approximately evenly divided, and all were of very high quality. The authors agreed with the editor’s proposal that the reviewers convert their reviews into rebuttals or affirmations of the authors’ position for publication along with the article, which has been revised based on the reviews. Most agreed to such a process and their comments appear here. We hope that publication of this paper and well-reasoned rebuttals such as those provided here will initiate a wide-ranging discussion. JCE will provide an online forum for further discussion of the issue. Our hope is that both faculty and students will contribute their opinions and ideas to this discussion. See Reviewer Comments: Brown Lewis Yoon Wade

  13. Software and Workflow Provenance: Documenting Scientific Methods

    NASA Astrophysics Data System (ADS)

    Gil, Y.

    2016-12-01

    While major effort has been devoted to data provenance, the provenance of software and workflows is not as well understood. Software artifacts have their own provenance in terms of how they were created, what theories or models are behind them, and how they are derived from earlier versions or prior implementations. Workflows also evolve to reflect changes in science methods, as they are extended or assumptions lifted. These provenance records may be created separately from the provenance records of the articles themselves, but are needed to fully document the provenance of new scientific results in the published record. These are issues that the EarthCube OntoSoft project and the Geoscience Papers of the Future initiative are exploring. This presentation will discuss the requirements for capturing software and workflow provenance, the integration of those provenance records with provenance of new results in an article, and the integration of data provenance with software and workflow provenance. The presentation will also discuss how provenance records can support automated credit assignment, so that the explicit provenance records of the results in a paper can be automatically analyzed to extract credit to the software and workflows used to generate the results.

  14. The Natural Selection: Identifying Student Misconceptions through an Inquiry-Based, Critical Approach to Evolution

    ERIC Educational Resources Information Center

    Robbins, Jennifer R.; Roy, Pamela

    2007-01-01

    We invited 141 non-science major undergraduates to share and then challenge their preconceptions about evolution in a four-lesson inquiry lab unit that integrated diverse topics with rigorous assessment. Our experience suggests that an inquiring approach to evolutionary theory can be highly persuasive.

  15. Data Provenance in Photogrammetry Through Documentation Protocols

    NASA Astrophysics Data System (ADS)

    Carboni, N.; Bruseker, G.; Guillem, A.; Bellido Castañeda, D.; Coughenour, C.; Domajnko, M.; de Kramer, M.; Ramos Calles, M. M.; Stathopoulou, E. K.; Suma, R.

    2016-06-01

    Documenting the relevant aspects in digitisation processes such as photogrammetry in order to provide a robust provenance for their products continues to present a challenge. The creation of a product that can be re-used scientifically requires a framework for consistent, standardised documentation of the entire digitisation pipeline. This article provides an analysis of the problems inherent to such goals and presents a series of protocols to document the various steps of a photogrammetric workflow. We propose this pipeline, with descriptors to track all phases of digital product creation in order to assure data provenance and enable the validation of the operations from an analytic and production perspective. The approach aims to support adopters of the workflow to define procedures with a long term perspective. The conceptual schema we present is founded on an analysis of information and actor exchanges in the digitisation process. The metadata were defined through the synthesis of previous proposals in this area and were tested on a case study. We performed the digitisation of a set of cultural heritage artefacts from an Iron Age burial in Ilmendorf, Germany. The objects were captured and processed using different techniques, including a comparison of different imaging tools and algorithms. This augmented the complexity of the process allowing us to test the flexibility of the schema for documenting complex scenarios. Although we have only presented a photogrammetry digitisation scenario, we claim that our schema is easily applicable to a multitude of 3D documentation processes.

  16. Restful Implementation of Catalogue Service for Geospatial Data Provenance

    NASA Astrophysics Data System (ADS)

    Jiang, L. C.; Yue, P.; Lu, X. C.

    2013-10-01

    Provenance, also known as lineage, is important in understanding the derivation history of data products. Geospatial data provenance helps data consumers to evaluate the quality and reliability of geospatial data. In a service-oriented environment, where data are often consumed or produced by distributed services, provenance could be managed by following the same service-oriented paradigm. The Open Geospatial Consortium (OGC) Catalogue Service for the Web (CSW) is used for the registration and query of geospatial data provenance by extending ebXML Registry Information Model (ebRIM). Recent advance of the REpresentational State Transfer (REST) paradigm has shown great promise for the easy integration of distributed resources. RESTful Web Service aims to provide a standard way for Web clients to communicate with servers based on REST principles. The existing approach for provenance catalogue service could be improved by adopting the RESTful design. This paper presents the design and implementation of a catalogue service for geospatial data provenance following RESTful architecture style. A middleware named REST Converter is added on the top of the legacy catalogue service to support a RESTful style interface. The REST Converter is composed of a resource request dispatcher and six resource handlers. A prototype service is developed to demonstrate the applicability of the approach.

  17. Comparative genetic approaches to the evolution of human brain and behavior.

    PubMed

    Vallender, Eric J

    2011-01-01

    With advances in genomic technologies, the amount of genetic data available to scientists today is vast. Genomes are now available or planned for 14 different primate species and complete resequencing of numerous human individuals from numerous populations is underway. Moreover, high-throughput deep sequencing is quickly making whole genome efforts within the reach of single laboratories allowing for unprecedented studies. Comparative genetic approaches to the identification of the underlying basis of human brain, behavior, and cognitive ability are moving to the forefront. Two approaches predominate: inter-species divergence comparisons and intra-species polymorphism studies. These methodological differences are useful for different time scales of evolution and necessarily focus on different evolutionary events in the history of primate and hominin evolution. Inter-species divergence is more useful in studying large scale primate, or hominoid, evolution whereas intra-species polymorphism can be more illuminating of recent hominin evolution. These differences in methodological utility also extend to studies of differing genetic substrates; current divergence studies focus primarily on protein evolution whereas polymorphism studies are substrate ambivalent. Some of the issues inherent in these studies can be ameliorated by current sequencing capabilities whereas others remain intractable. New avenues are also being opened that allow for the incorporation of novel substrates and approaches. In the post-genomic era, the study of human evolution, specifically as it relates to the brain, is becoming more complete focusing increasingly on the totality of the system and better conceptualizing the entirety of the genetic changes that have lead to the human phenotype today.

  18. Comparative genetic approaches to the evolution of human brain and behavior

    PubMed Central

    Vallender, Eric J.

    2012-01-01

    With advances in genomic technologies the amount of genetic data available to scientists today is vast. Genomes are now available or planned for fourteen different primate species and complete resequencing of numerous human individuals from numerous populations is underway. Moreover, high-throughput deep sequencing is quickly making whole genome efforts within the reach of single laboratories allowing for unprecedented studies. Comparative genetic approaches to the identification of the underlying basis of human brain, behavior and cognitive ability are moving to the forefront. Two approaches predominate: inter-species divergence comparisons and intra-species polymorphism studies. These methodological differences are useful for different time scales of evolution and necessarily focus on different evolutionary events in the history of primate and hominin evolution. Inter-species divergence is more useful in studying large scale primate, or hominoid, evolution whereas intra-species polymorphism can be more illuminating of recent hominin evolution. These differences in methodological utility also extend to studies of differing genetic substrates; current divergence studies focus primarily on protein evolution while polymorphism studies are substrate ambivalent. Some of the issues inherent in these studies can be ameliorated by current sequencing capabilities while others remain intractable. New avenues are also being opened that allow for the incorporation of novel substrates and approaches. In the post-genomic era the study of human evolution, specifically as it relates to the brain, is becoming more complete focusing increasingly on the totality of the system and better conceptualizing the entirety of the genetic changes that have lead to the human phenotype today. PMID:21140466

  19. Earth’s thermal evolution with multiple convection modes: A Monte-Carlo approach

    NASA Astrophysics Data System (ADS)

    Höink, Tobias; Lenardic, Adrian; Jellinek, A. Mark

    2013-08-01

    We present a thermal evolution model, based on the results of recent numerical simulations, in which we consider that different sized oceanic plates are associated with different modes of surface motion (mobile-lid and sluggish-lid tectonics). These different modes are, in turn, associated with different heat loss scalings. Varying initial conditions and system parameters systematically we run several thousand thermal models that we compare with constraints on present-day mantle temperature, present-day Urey ratio and overall minimum core heat flow. The dual heat loss mode approach readily satisfies the Urey ratio constraint that is unexplained by classic thermal evolution models.

  20. Federated provenance of oceanographic research cruises: from metadata to data

    NASA Astrophysics Data System (ADS)

    Thomas, Rob; Leadbetter, Adam; Shepherd, Adam

    2016-04-01

    more formally in data journals. Use of the SPARQL 1.1 standard allows queries to be federated across these endpoints to create a distributed network of provenance documents. Future research directions will add further nodes to the federated network of oceanographic research cruise provenance to determine the true scalability of this approach, and will involve analysis of and possible evolution of the data release lifecycle ontology. References Nitin Arora et al., 2006. Information object design pattern for modeling domain specific knowledge. 1st ECOOP Workshop on Domain-Specific Program Development. Simon Cox, 2015. Pitfalls in alignment of observation models resolved using PROV as an upper ontology. Abstract IN33F-07 presented at the American Geophysical Union Fall Meeting, 14-18 December, San Francisco. Adam Leadbetter & Justin Buck, 2015. Where did my data layer come from?" The semantics of data release. Geophysical Research Abstracts 17, EGU2015-3746-1. Xiaogang Ma et al., 2014. Ontology engineering in provenance enablement for the National Climate Assessment. Environmental Modelling & Software 61, 191-205. http://dx.doi.org/10.1016/j.envsoft.2014.08.002

  1. From Back-arc Drifting to Arc Accretion: the Late Jurassic-Early Cretaceous Evolution of the Guerrero Terrane Recorded by a Major Provenance Change in Sandstones from the Sierra de los Cuarzos, Central Mexico

    NASA Astrophysics Data System (ADS)

    Palacios Garcia, N. B.; Martini, M.

    2014-12-01

    The Guerrero terrane composed of Middle Jurassic-Early Cretaceous arc assemblages, were drifted from the North American continental mainland during lower Early Cretaceous spreading in the Arperos back arc basin, and subsequently accreted back to the continental margin in the late Aptian. Although the accretion of the Guerrero terrane represents one of the major tectonic processes that shaped the southern North American Pacific margin, the stratigraphic record related to such a regional event was not yet recognized in central Mexico. Due to the Sierra de los Cuarzos is located just 50 km east of the Guerrero terrane suture belt, its stratigraphic record should be highly sensitive to first order tectonic changes and would record a syn-tectonic deposits related to this major event. In that study area, were identified two main Upper Jurassic-Lower Cretaceous clastic units. The Sierra de los Cuarzos formation represents the lowermost exposed stratigraphic record. Sedimentary structures, sandstones composition, and U-Pb detrital zircon ages document that the Sierra de los Cuarzos formation reflects a vigorous mass wasting along the margin of the North American continental mainland, representing the eastern side of the Arperos back arc basin. Sandstones of the Sierra de los Cuarzos formation are free from detrital contributions related to the Guerrero terrane juvenile sources, indicating that the Arperos Basin acted like an efficient sedimentological barrier that inhibited the influence of the arc massifs on the continental mainland deposits. The Sierra de los Cuarzos formation is overlain by submarine slope deposits of the Pelones formation, which mark a sudden change in the depositional conditions. Provenance analysis documents that sandstones from the Pelones formation were fed by the mafic to intermediate arc assemblages of the Guerrero terrane, as well as by quartz-rich sources of the continental mainland, suggesting that, by the time of deposition of the Pelones

  2. Provenance of the terrestrial planets.

    PubMed

    Wetherill, G W

    1994-01-01

    Earlier work on the simultaneous accumulation of the asteroid belt and the terrestrial planets is extended to investigate the relative contribution to the final planets made by material from different heliocentric distances. As before, stochastic variations intrinsic to the accumulation processes lead to a variety of final planetary configurations, but include systems having a number of features similar to our solar system. Fifty-nine new simulations are presented, from which thirteen are selected as more similar to our solar system than the others. It is found that the concept of "local feeding zones" for each final terrestrial planet has no validity for this model. Instead, the final terrestrial planets receive major contributions from bodies ranging from 0.5 to at least 2.5 AU, and often to greater distances. Nevertheless, there is a correlation between the final heliocentric distance of a planet and its average provenance. Together with the effect of stochastic fluctuations, this permits variation in the composition of the terrestrial planets, such as the difference in the decompressed density of Earth and Mars. Biologically important light elements, derived from the asteroidal region, are likely to have been significant constituents of the Earth during its formation.

  3. PROX: Approximated Summarization of Data Provenance

    PubMed Central

    Ainy, Eleanor; Bourhis, Pierre; Davidson, Susan B.; Deutch, Daniel; Milo, Tova

    2016-01-01

    Many modern applications involve collecting large amounts of data from multiple sources, and then aggregating and manipulating it in intricate ways. The complexity of such applications, combined with the size of the collected data, makes it difficult to understand the application logic and how information was derived. Data provenance has been proven helpful in this respect in different contexts; however, maintaining and presenting the full and exact provenance may be infeasible, due to its size and complex structure. For that reason, we introduce the notion of approximated summarized provenance, where we seek a compact representation of the provenance at the possible cost of information loss. Based on this notion, we have developed PROX, a system for the management, presentation and use of data provenance for complex applications. We propose to demonstrate PROX in the context of a movies rating crowd-sourcing system, letting participants view provenance summarization and use it to gain insights on the application and its underlying data. PMID:27570843

  4. PROX: Approximated Summarization of Data Provenance.

    PubMed

    Ainy, Eleanor; Bourhis, Pierre; Davidson, Susan B; Deutch, Daniel; Milo, Tova

    2016-03-01

    Many modern applications involve collecting large amounts of data from multiple sources, and then aggregating and manipulating it in intricate ways. The complexity of such applications, combined with the size of the collected data, makes it difficult to understand the application logic and how information was derived. Data provenance has been proven helpful in this respect in different contexts; however, maintaining and presenting the full and exact provenance may be infeasible, due to its size and complex structure. For that reason, we introduce the notion of approximated summarized provenance, where we seek a compact representation of the provenance at the possible cost of information loss. Based on this notion, we have developed PROX, a system for the management, presentation and use of data provenance for complex applications. We propose to demonstrate PROX in the context of a movies rating crowd-sourcing system, letting participants view provenance summarization and use it to gain insights on the application and its underlying data.

  5. Tracking Provenance in ORNL's Flexible Research Platforms

    SciTech Connect

    Hensley, Zachary P; Sanyal, Jibonananda; New, Joshua Ryan

    2013-08-01

    Provenance is dened as information about the origin of objects, a concept that applies to both physical and digital objects and often overlaps both. The use of provenance in systems designed for research is an important but forgotten feature. Provenance allows for proper and exact tracking of information, its use, its lineage, its derivations and other metadata that are important for correctly adhering to the scien- tic method. In our project's prescribed use of provenance, researchers can determine detailed information about the use of sensor data in their experiments on ORNL's Flexible Research Platforms (FRPs). Our project's provenance system, Provenance Data Management System (ProvDMS), tracks information starting with the creation of information by an FRP sensor. The system determines station information, sensor information, and sensor channel information. The system allows researchers to derive generations of experiments from the sensor data and tracks their hierarchical flow. Key points can be seen in the history of the information as part of the information's workflow. The concept of provenance and its usage in science is relatively new and while used in other cases around the world, our project's provenance diers in a key area. To keep track of provenance, most systems must be designed or redesigned around the new provenance system. Our system is designed as a cohesive but sepa- rate entity and allows for researchers to continue using their own methods of analysis without being constrained in their ways in order to track the provenance. We have designed ProvDMS using a lightweight provenance library, Core Provenance Library (CPL) v.6 In addition to keeping track of sensor data experiments and its provenance, ProvDMS also provides a web-enabled visualization of the inheritance.

  6. Understanding the Evolution of Mammalian Brain Structures; the Need for a (New) Cerebrotype Approach

    PubMed Central

    Willemet, Romain

    2012-01-01

    The mammalian brain varies in size by a factor of 100,000 and is composed of anatomically and functionally distinct structures. Theoretically, the manner in which brain composition can evolve is limited, ranging from highly modular (“mosaic evolution”) to coordinated changes in brain structure size (“concerted evolution”) or anything between these two extremes. There is a debate about the relative importance of these distinct evolutionary trends. It is shown here that the presence of taxa-specific allometric relationships between brain structures makes a taxa-specific approach obligatory. In some taxa, the evolution of the size of brain structures follows a unique, coordinated pattern, which, in addition to other characteristics at different anatomical levels, defines what has been called here a “taxon cerebrotype”. In other taxa, no clear pattern is found, reflecting heterogeneity of the species’ lifestyles. These results suggest that the evolution of brain size and composition depends on the complex interplay between selection pressures and constraints that have changed constantly during mammalian evolution. Therefore the variability in brain composition between species should not be considered as deviations from the normal, concerted mammalian trend, but in taxa and species-specific versions of the mammalian brain. Because it forms homogenous groups of species within this complex “space” of constraints and selection pressures, the cerebrotype approach developed here could constitute an adequate level of analysis for evo-devo studies, and by extension, for a wide range of disciplines related to brain evolution. PMID:24962772

  7. Preliminary Depositional and Provenance Records of Mesozoic Basin Evolution and Cenozoic Shortening in the High Andes, La Ramada Fold-Thrust Belt, Southern-Central Andes (32-33°S)

    NASA Astrophysics Data System (ADS)

    Mackaman-Lofland, C.; Horton, B. K.; Fuentes, F.; Constenius, K. N.; McKenzie, R.; Alvarado, P. M.

    2015-12-01

    The Argentinian Andes define key examples of retroarc shortening and basin evolution above a zone of active subduction. The La Ramada fold-thrust belt (RFTB) in the High Andes provides insights into the relative influence and temporal records of diverse convergent margin processes (e.g. flat-slab subduction, convergent wedge dynamics, structural inversion). The RFTB contains Mesozoic extensional basin strata deformed by later Andean shortening. New detrital zircon U-Pb analyses of Mesozoic rift sediments reveal: (1) a dominant Permo-Triassic age signature (220-280 Ma) associated with proximal sources of effective basement (Choiyoi Group) during Triassic synrift deposition; (2) upsection younging of maximum depositional ages from Late Triassic through Early Cretaceous (230 to 100 Ma) with the increasing influence of western Andean arc sources; and (3) a significant Late Cretaceous influx of Paleozoic (~350-550 Ma) and Proterozoic (~650-1300 Ma) populations during the earliest shift from back-arc post-extensional subsidence to upper-plate shortening. The Cenozoic detrital record of the Manantiales foreland basin (between the Frontal Cordillera and Precordillera) records RFTB deformation prior to flat-slab subduction. A Permo-Triassic Choiyoi age signature dominates the Miocene succession, consistent with sources in the proximal Espinacito range. Subordinate Mesozoic (~80-250 Ma) to Proterozoic (~850-1800 Ma) U-Pb populations record exhumation of the Andean magmatic arc and recycling of different structural levels in the RFTB during thrusting/inversion of Mesozoic rift basin strata and subjacent Paleozoic units. Whereas maximum depositional ages of sampled Manantiales units cluster at 18-20 Ma, the Estancia Uspallata basin (~50 km to the south) shows consistent upsection younging of Cenozoic populations attributed to proximal volcanic centers. Ongoing work will apply low-temperature thermochronology to pinpoint basin accumulation histories and thrust timing.

  8. Orbiting binary black hole evolutions with a multipatch high order finite-difference approach

    SciTech Connect

    Pazos, Enrique; Tiglio, Manuel; Duez, Matthew D.; Kidder, Lawrence E.; Teukolsky, Saul A.

    2009-07-15

    We present numerical simulations of orbiting black holes for around 12 cycles, using a high order multipatch approach. Unlike some other approaches, the computational speed scales almost perfectly for thousands of processors. Multipatch methods are an alternative to adaptive mesh refinement, with benefits of simplicity and better scaling for improving the resolution in the wave zone. The results presented here pave the way for multipatch evolutions of black hole-neutron star and neutron star-neutron star binaries, where high resolution grids are needed to resolve details of the matter flow.

  9. Distinguishing Provenance Equivalence of Earth Science Data

    NASA Technical Reports Server (NTRS)

    Tilmes, Curt; Yesha, Ye; Halem, M.

    2010-01-01

    Reproducibility of scientific research relies on accurate and precise citation of data and the provenance of that data. Earth science data are often the result of applying complex data transformation and analysis workflows to vast quantities of data. Provenance information of data processing is used for a variety of purposes, including understanding the process and auditing as well as reproducibility. Certain provenance information is essential for producing scientifically equivalent data. Capturing and representing that provenance information and assigning identifiers suitable for precisely distinguishing data granules and datasets is needed for accurate comparisons. This paper discusses scientific equivalence and essential provenance for scientific reproducibility. We use the example of an operational earth science data processing system to illustrate the application of the technique of cascading digital signatures or hash chains to precisely identify sets of granules and as provenance equivalence identifiers to distinguish data made in an an equivalent manner.

  10. Leveraging Data Provenance to Enhance Cyber Resilience

    DTIC Science & Technology

    2016-11-01

    system perspective [6], [21], [27], [26], [30]. System layer provenance also offers gapless descriptions of user space activity, effectively making...every application that runs on the system provenance-aware. Unfortunately, the semantic gap between kernel and user space can make system provenance...controversy [31]. An overview of the LPM architecture is shown in Figure 1. LPM instruments the Linux kernel with a 178 dedicated user space kernel space

  11. Genes, hormones, and circuits: an integrative approach to study the evolution of social behavior.

    PubMed

    O'Connell, Lauren A; Hofmann, Hans A

    2011-08-01

    Tremendous progress has been made in our understanding of the ultimate and proximate mechanisms underlying social behavior, yet an integrative evolutionary analysis of its underpinnings has been difficult. In this review, we propose that modern genomic approaches can facilitate such studies by integrating four approaches to brain and behavior studies: (1) animals face many challenges and opportunities that are ecologically and socially equivalent across species; (2) they respond with species-specific, yet quantifiable and comparable approach and avoidance behaviors; (3) these behaviors in turn are regulated by gene modules and neurochemical codes; and (4) these behaviors are governed by brain circuits such as the mesolimbic reward system and the social behavior network. For each approach, we discuss genomic and other studies that have shed light on various aspects of social behavior and its underpinnings and suggest promising avenues for future research into the evolution of neuroethological systems. Copyright © 2010 Elsevier Inc. All rights reserved.

  12. Special Issue: The First Provenance Challenge

    SciTech Connect

    Moreau, Luc; Ludaescher, Bertram T.; Altintas, Ilkay; Barga, Roger S.; Bowers, Shawn; Callahan, Steven P.; Chin, George; Clifford, Ben; Cohen, Shirley; Cohen-Boulakia, Sarah; Davidson, Susan; Deelman, Ewa; digiampietri, Luciano; Foster, Ian T.; Freire, Juliana; Frew, James; Futrelle, Joe; Gibson, Tara D.; Gil, Yolanda; Goble, Carole; Golbeck, Jennifer; Groth, Paul; Holland, David A.; Jiang, Sheng; Kim, Jihie; Koop, David; Krenek, Ales; McPhillips, Timothy; Mehta, Gaurang; Miles, Simon; Metzger, Dominic; Munroe, Steve; Myers, James D.; Plale, Beth A.; Podhorszki, norbert; Ratnakar, Varun; Emanuele , Santos; scheidegger, Carlos E.; Schuchardt, Karen L.; Seltzer, Margo I.; Simmhan, Yogesh L.; Claudio, Silva T.; Slaughter, Peter; Stephan, Eric G.; Stevens, Robert; Turi, Daniele; Vo, Huy T.; Wilde, Mike J.; Zhao, Jun; Zhao, Yong

    2008-04-01

    The first Provenance Challenge was set up in order to provide a forum for the community to help understand the capabilities of different provenance systems and the expressiveness of their provenance representations. To this end, a Functional Magnetic Resonance Imaging workflow was defined, which participants had to either simulate or run in order to produce some provenance representation, from which a set of identified queries had to be implemented and executed. Sixteen teams responded to the challenge, and submitted their inputs. In this paper, we present the challenge workflow and queries, and summarise the participants contributions.

  13. Shuffled complex evolution approach for effective and efficient surface wave analysis

    NASA Astrophysics Data System (ADS)

    Song, Xianhai; Tang, Li; Lv, Xiaochun; Fang, Hongping; Gu, Hanming

    2012-05-01

    Inversion of Rayleigh wave dispersion curves is challenging for most local-search methods due to its high nonlinearity and to its multimodality. In this paper, we proposed and tested a new Rayleigh wave dispersion curve inversion scheme called the shuffled complex evolution (SCE) approach, which is based on a synthesis of four global optimization strategies that have proved successful for global optimization: (a) combination of probabilistic and deterministic approaches; (b) the strategy of clustering; (c) systematic evolution of a complex of points spanning the space, in the direction of global improvement; and (d) competitive evolution. Incorporating these four global optimization strategies into the inverse procedure greatly enhances the performance of the SCE method because these steps not only can effectively locate the promising areas in the solution space for a global minimum but also avoid its wandering near the global minimum in the final stage of search. The proposed inverse procedure was applied to nonlinear inversion of fundamental-mode Rayleigh wave dispersion curves for near-surface shear (S)-wave velocity profiles. The calculation efficiency and stability of the inversion scheme are tested on four synthetic models and a real-world example from a waste disposal site in NE Italy. A comparative analysis with genetic algorithms (GA), marginal posterior probability density (MPPD) estimation, and simulated annealing (SA) is also made in the present study to further evaluate the performance of the proposed approach. Results from both synthetic and actual field data demonstrate that shuffled complex evolution algorithm promises to be robust, effective, and efficient for high-frequency surface wave analysis.

  14. Evolution

    NASA Astrophysics Data System (ADS)

    Peter, Ulmschneider

    When we are looking for intelligent life outside the Earth, there is a fundamental question: Assuming that life has formed on an extraterrestrial planet, will it also develop toward intelligence? As this is hotly debated, we will now describe the development of life on Earth in more detail in order to show that there are good reasons why evolution should culminate in intelligent beings.

  15. Anatomical diversity and regressive evolution in trichomanoid filmy ferns (Hymenophyllaceae): a phylogenetic approach.

    PubMed

    Dubuisson, Jean-Yves; Hennequin, Sabine; Bary, Sophie; Ebihara, Atsushi; Boucheron-Dubuisson, Elodie

    2011-12-01

    To infer the anatomical evolution of the Hymenophyllaceae (filmy ferns) and to test previously suggested scenarios of regressive evolution, we performed an exhaustive investigation of stem anatomy in the most variable lineage of the family, the trichomanoids, using a representative sampling of 50 species. The evolution of qualitative and quantitative anatomical characters and possibly related growth-forms was analyzed using a maximum likelihood approach. Potential correlations between selected characters were then statistically tested using a phylogenetic comparative method. Our investigations support the anatomical homogeneity of this family at the generic and sub-generic levels. Reduced and sub-collateral/collateral steles likely derived from an ancestral massive protostele, and sub-collateral/collateral types appear to be related to stem thickness reduction and root apparatus regression. These results corroborate the hypothesis of regressive evolution in the lineage, in terms of morphology as well as anatomy. In addition, a heterogeneous cortex, which is derived in the lineage, appears to be related to a colonial strategy and likely to a climbing phenotype. The evolutionary hypotheses proposed in this study lay the ground for further evolutionary analyses that take into account trichomanoid habitats and accurate ecological preferences.

  16. Performance of shortleaf pine provenances in Missouri

    Treesearch

    David Gwaze; Jennifer Myszewski; John Kabrick

    2007-01-01

    Two shortleaf pine (Pinus echinata Mill.) provenance tests established by the USDA Forest Service North Central Research Station as part of the South-wide Southern Pine Seed Source Study were examined to determine the most suitable seed sources for planting in Missouri. Each test comprised seven different provenances from six to seven states in the...

  17. Intergranular Strain Evolution During Biaxial Loading: A Multiscale FE-FFT Approach

    NASA Astrophysics Data System (ADS)

    Upadhyay, M. V.; Capek, J.; Van Petegem, S.; Lebensohn, R. A.; Van Swygenhoven, H.

    2017-05-01

    Predicting the macroscopic and microscopic mechanical response of metals and alloys subjected to complex loading conditions necessarily requires a synergistic combination of multiscale material models and characterization techniques. This article focuses on the use of a multiscale approach to study the difference between intergranular lattice strain evolution for various grain families measured during in situ neutron diffraction on dog bone and cruciform 316L samples. At the macroscale, finite element simulations capture the complex coupling between applied forces and gauge stresses in cruciform geometries. The predicted gauge stresses are used as macroscopic boundary conditions to drive a mesoscale full-field elasto-viscoplastic fast Fourier transform crystal plasticity model. The results highlight the role of grain neighborhood on the intergranular strain evolution under uniaxial and equibiaxial loading.

  18. Intergranular Strain Evolution During Biaxial Loading: A Multiscale FE-FFT Approach

    NASA Astrophysics Data System (ADS)

    Upadhyay, M. V.; Capek, J.; Van Petegem, S.; Lebensohn, R. A.; Van Swygenhoven, H.

    2017-03-01

    Predicting the macroscopic and microscopic mechanical response of metals and alloys subjected to complex loading conditions necessarily requires a synergistic combination of multiscale material models and characterization techniques. This article focuses on the use of a multiscale approach to study the difference between intergranular lattice strain evolution for various grain families measured during in situ neutron diffraction on dog bone and cruciform 316L samples. At the macroscale, finite element simulations capture the complex coupling between applied forces and gauge stresses in cruciform geometries. The predicted gauge stresses are used as macroscopic boundary conditions to drive a mesoscale full-field elasto-viscoplastic fast Fourier transform crystal plasticity model. The results highlight the role of grain neighborhood on the intergranular strain evolution under uniaxial and equibiaxial loading.

  19. Addressing controversies in science education: a pragmatic approach to evolution education

    NASA Astrophysics Data System (ADS)

    Hildebrand, David; Bilica, Kimberly; Capps, John

    2008-09-01

    Science education controversies typically prove more intractable than those in scientific research because they involve a wider range of considerations (e.g., epistemic, social, ethical, political, and religious). How can educators acknowledge central issues in a controversy (such as evolution)? How can such problems be addressed in a way that is ethically sensitive and intellectually responsible? Drawing in part on pragmatic philosopher John Dewey, our solution is politically proactive, philosophically pragmatic, and grounded in research. Central to our proposal is (1) steps toward creating a philosophical “total attitude” that is democratic, imaginative, and hypothetical; (2) a deeper understanding of how scientific theories can be pragmatically true; and (3) an assessment of differing pedagogical approaches for teaching evolution in the classroom.

  20. Dhat syndrome: Evolution of concept, current understanding, and need of an integrated approach

    PubMed Central

    Kar, Sujita Kumar; Sarkar, Siddharth

    2015-01-01

    Dhat syndrome has often been construed as a culture-bound sexual neurosis of the Indian subcontinent. Symptoms similar to that of Dhat syndrome has been described in other cultures across different time periods. The present paper looks at the evolution of the concept of Dhat syndrome in India. The review also takes an overview of the current understanding of this syndrome in terms of nosological status as a distinct entity and its “culture-bound” status. The narrative finally attempts to discuss the integrated approach for the treatment of this disorder. PMID:26538854

  1. Episodic chromosomal evolution in Planipapillus (Onychophora: Peripatopsidae): a phylogenetic approach to evolutionary dynamics and speciation.

    PubMed

    Rockman, Matthew V; Rowell, David M

    2002-01-01

    Planipapillus, a clade of onychophorans from southeastern Australia, exhibits substantial chromosomal variation. In the context of a robust phylogeny based on nuclear and mitochondrial sequence data, we evaluate models of chromosomal evolution and speciation that differ in the roles assigned to selection, mutation, and drift. Permutation tests suggest that all chromosome rearrangements in the clade have been centric fusions and, on the basis of parsimony and maximum-likelihood methods with independent estimates of branch lengths, we conclude that at least 31 centric fusions have been fixed in Planipapillus. A likelihood-ratio test approach, which is independent of our point estimates of ancestral states, rejects an evolutionary model in which the mutation rate is constant and centric fusions are effectively neutral. In contrast to the nucleotide sequence data, which are consistent with neutrality and rate constancy, centric fusions in Planipapillus are underdominant, spontaneous fusion rates vary among lineages, or both. We predict an inverse relationship between rates of chromosomal evolution and historical population size. Chromosomal evolution may play a role in speciation in Planipapillus, both by interactions between centric fusions with monobrachial homology and by the accumulation of multiple weakly underdominant fusions.

  2. Provenance and basin evolution, Zhada basin, southwestern Tibet

    NASA Astrophysics Data System (ADS)

    Saylor, J.; Decelles, P.; Gehrels, G.; Kapp, P.

    2007-12-01

    The Zhada basin is a late Miocene - Pliocene intermontane basin situated at high elevations in the Himalayan hinterland. The fluvial and lacustrine sediments of the Zhada formation are undeformed and sit in angular unconformity above the deformed Tethyan Sedimentary Sequence (TSS). The basin sits just south of the Indus suture in a structural position occupied elsewhere in the Himalayan orogen by some of the highest mountains on earth, including Everest. The occurrence of a basin at this location demands explanation. Currently, the Sutlej River flows parallel to the structural grain of the Himalaya, westward through the basin, towards the Leo Pargil (Qusum) range. Near the range front it takes a sharp southward turn, cuts across the structural grain of the Himalaya and out into the Gangetic foreland. Palaeocurrent indicators in the lower part of the Zhada formation show that the basin originated as a northwest flowing axial river. Palaeocurrent indicators are consistently northwest oriented, even to within to within 10 km of the Leo Pargil range front in the north-western end of the basin. This implies that at the onset of sedimentation in Zhada basin the Leo Pargil range was not a barrier as it is today. In the upper part of the Zhada formation, palaeocurrent indicators are generally directed towards the centre of the basin. In the central and southern portions of the basin this indicates a transition from an axial, northwest flowing river to prograding fluvial and alluvial fans. However, in the north-western part of the basin the change between lower and upper Zhada formation involves a complete drainage reversal. This change in palaeocurrent orientation is also reflected in the detrital zircon signal from basin sediments. Low in the Zhada formation the detrital zircon signal is dominated by zircons from the Kailash (Gangdese) batholith (or associated extrusives, see below). However, higher in the sections, a local source, either from the TSS or the core of the Leo Pargil range dominates the detrital zircon signal. Finally, there is a shift in the sandstone composition from unmetamorphosed sedimentary lithic fragments and extrusive felsic volcanic fragments in the lower part of the Zhada formation to metasedimentary and metaigneous fragments in the upper part of the Zhada formation. This is likely linked either to unroofing of the source terrain or a change to another source terrain. Based on the palaeocurrent and detrital zircon data, a change to another source terrain is favoured. This combination of evidence suggests that the Zhada basin evolved from a through-going fluvial plain to a dammed lake primarily due to uplift of the Leo Pargil range. This uplift would have dammed and ponded the river, and exposed higher grade metamorphic rocks at the surface for incorporation into Zhada formation sandstones. It also would have introduced a new source for detrital zircons. Uplift of the Leo Pargil range along a low angle normal fault would also have evacuated portions of the mid-crust, providing a mechanism for subsidence in the Zhada region. Lacustrine sedimentation would have coincided with progradation of marginal alluvial fans and would have continued until the basin was filled in to the level of a new spill point. At this time incision and re- establishment of the Sutlej River would have occurred.

  3. Provenance Storage, Querying, and Visualization in PBase

    SciTech Connect

    Kianmajd, Parisa; Ludascher, Bertram; Missier, Paolo; Chirigati, Fernando; Wei, Yaxing; Koop, David; Dey, Saumen

    2015-01-01

    We present PBase, a repository for scientific workflows and their corresponding provenance information that facilitates the sharing of experiments among the scientific community. PBase is interoperable since it uses ProvONE, a standard provenance model for scientific workflows. Workflows and traces are stored in RDF, and with the support of SPARQL and the tree cover encoding, the repository provides a scalable infrastructure for querying the provenance data. Furthermore, through its user interface, it is possible to: visualize workflows and execution traces; visualize reachability relations within these traces; issue SPARQL queries; and visualize query results.

  4. Effects of Extrinsic Mortality on the Evolution of Aging: A Stochastic Modeling Approach

    PubMed Central

    Shokhirev, Maxim Nikolaievich; Johnson, Adiv Adam

    2014-01-01

    The evolutionary theories of aging are useful for gaining insights into the complex mechanisms underlying senescence. Classical theories argue that high levels of extrinsic mortality should select for the evolution of shorter lifespans and earlier peak fertility. Non-classical theories, in contrast, posit that an increase in extrinsic mortality could select for the evolution of longer lifespans. Although numerous studies support the classical paradigm, recent data challenge classical predictions, finding that high extrinsic mortality can select for the evolution of longer lifespans. To further elucidate the role of extrinsic mortality in the evolution of aging, we implemented a stochastic, agent-based, computational model. We used a simulated annealing optimization approach to predict which model parameters predispose populations to evolve longer or shorter lifespans in response to increased levels of predation. We report that longer lifespans evolved in the presence of rising predation if the cost of mating is relatively high and if energy is available in excess. Conversely, we found that dramatically shorter lifespans evolved when mating costs were relatively low and food was relatively scarce. We also analyzed the effects of increased predation on various parameters related to density dependence and energy allocation. Longer and shorter lifespans were accompanied by increased and decreased investments of energy into somatic maintenance, respectively. Similarly, earlier and later maturation ages were accompanied by increased and decreased energetic investments into early fecundity, respectively. Higher predation significantly decreased the total population size, enlarged the shared resource pool, and redistributed energy reserves for mature individuals. These results both corroborate and refine classical predictions, demonstrating a population-level trade-off between longevity and fecundity and identifying conditions that produce both classical and non

  5. Bedform genesis and evolution in bedrock substrates: a new experimental approach

    NASA Astrophysics Data System (ADS)

    Parsons, D. R.; Yin, N.; Peakall, J.

    2014-12-01

    Most previous studies on the genesis and evolution of bedforms have focused on aggradational bedforms within cohesionless sediments, with very few investigations that concern either erosive bedform genesis and evolution or bedrock channel abrasion processes. The study presented here details experiments that involve the genesis and formation of erosional bedform features within natural (soft clay) cohesive sediment beds and analogue bedrock substrates by modelling clay under the effect of both open-channel plain water flows, and sediment-laden flows. A new approach without using plaster-of-Paris or real bedrock developed provides a feasible method to simulate the genesis and evolution of the erosional bedforms in cohesive sediment beds and sculpted forms in bedrock channels on relatively short time-scales in the laboratory by using a realistic substrate substitute.A series of flume experiments are presented herein where the undrained shear strength of two different kinds of substrate material is systematically varied under constant flow conditions. Experiments using plain water flow indicated that erosive bedforms in cohesive sediment substrate cannot be produced only under the effect of sediment-free flow. Particulate-laden flows do form erosional bedforms in both kinds of clay beds and the shear strength of the bed material plays a key role in determining the diversity of erosional features forming on such substrates. Optimisation of modelling clay beds has enabled us to successfully replicate a suite of bedrock bedforms, including potholes, flutes, longitudinal furrows, etc., that have clear equivalents to those observed in bedrock rivers and contributed to investigate the genesis and evolution process of them and explore the flow structures within and above them in experimental analogue bedrock substrate for the first time.

  6. Phylogenetic approach for inferring the origin and functional evolution of bacterial ADP-ribosylation superfamily.

    PubMed

    Chellapandi, P; Sakthishree, S; Bharathi, M

    2013-09-01

    Bacterial ADP-ribosyltransferases (BADPRTs) are extensively contributed to determine the strain-specific virulence state and pathogenesis in human hosts. Understanding molecular evolution and functional diversity of the BADPRTs is an important standpoint to describe the fundamental behind in the vaccine designing for bacterial infections. In the present study, we have evaluated the origin and functional evolution of conserved domains within the BADPRTs by analyzing their sequence-function relationship. To represent the evolution history of BADPRTs, phylogenetic trees were constructed based on their protein sequence, structure and conserved domains using different evolutionary programs. Sequence divergence and genetic diversity were studied herein to deduce the functional evolution of conserved domains across the family and superfamily. The results of sequence similarity search have shown that three hypothetical proteins (above 90%) were identical to the members of BADPRTs and their functions were annotated by phylogenetic approach. Phylogenetic analysis of this study has revealed the family members of BADPRTs were phylogenetically related to one another, functionally diverged within the same family, and dispersed into closely related bacteria. The presence of core substitution pattern in the conserved domains would determine the family-specific function of BADPRTs. Functional diversity of the BADPRTs was exclusively distinguished by Darwinian positive selection (diphtheria toxin C and pertussis toxin S) and neutral selection (arginine ADP-ribosyltransferase, enterotoxin A and binary toxin A) acting on the existing domains. Many of the family members were sharing their sequence-specific features from members in the arginine ADP-ribosyltransferase family. Conservative functions of members in the BADPRTs have shown to be expanded only within closely related families, and retained as such in pathogenic bacteria by evolutionary process (domain duplication or

  7. Effects of extrinsic mortality on the evolution of aging: a stochastic modeling approach.

    PubMed

    Shokhirev, Maxim Nikolaievich; Johnson, Adiv Adam

    2014-01-01

    The evolutionary theories of aging are useful for gaining insights into the complex mechanisms underlying senescence. Classical theories argue that high levels of extrinsic mortality should select for the evolution of shorter lifespans and earlier peak fertility. Non-classical theories, in contrast, posit that an increase in extrinsic mortality could select for the evolution of longer lifespans. Although numerous studies support the classical paradigm, recent data challenge classical predictions, finding that high extrinsic mortality can select for the evolution of longer lifespans. To further elucidate the role of extrinsic mortality in the evolution of aging, we implemented a stochastic, agent-based, computational model. We used a simulated annealing optimization approach to predict which model parameters predispose populations to evolve longer or shorter lifespans in response to increased levels of predation. We report that longer lifespans evolved in the presence of rising predation if the cost of mating is relatively high and if energy is available in excess. Conversely, we found that dramatically shorter lifespans evolved when mating costs were relatively low and food was relatively scarce. We also analyzed the effects of increased predation on various parameters related to density dependence and energy allocation. Longer and shorter lifespans were accompanied by increased and decreased investments of energy into somatic maintenance, respectively. Similarly, earlier and later maturation ages were accompanied by increased and decreased energetic investments into early fecundity, respectively. Higher predation significantly decreased the total population size, enlarged the shared resource pool, and redistributed energy reserves for mature individuals. These results both corroborate and refine classical predictions, demonstrating a population-level trade-off between longevity and fecundity and identifying conditions that produce both classical and non

  8. Volcanic evolution of Hecates Tholus, Mars: a multiple working hypothesis approach

    NASA Astrophysics Data System (ADS)

    de Pablo, M. A.; Lopez, I.; Martin, F.; Marquez, A.

    Hecates Tholus, Mars: a multiple working hypothesis approach M.A. de Pablo, I. López, F. Martín and A. Márquez Área de Geología. ESCET. Universidad Rey Juan Carlos. Madrid, Spain. (miguelangel.depablo@urjc.es) Hecates Tholus is a 180 x 150 km wide volcano located at the Elysium volcanic province in the Martian lowlands (32 N, 210 W). In addition to several nested calderas, the volcano shows several geological characteristics indicative of a complex volcanic evolution: (1) the volcano does not show a perfect conical shape, but topographic contours map shows an NW-SE oriented elliptical shape; (2) Western lower flank of Hecates Tholus is characterized by a large depression with a complex perimeter, including a semi-circular depression interpreted as the result of recent explosive volcanic activity. However, the main depression has not receive a clear explanation in relation with the evolution of the volcano; (3) North and Northeastern flanks of Hecates Tholus show sets of prominent concentric scarps eroded by fluvial channels; (4) the source of water of some channels is located at pits and pit chains; (5) Western flank of the volcano is covered by smooth and slightly cratered materials, which in some cases is filling channels and impact craters. This material is quite similar to the alleged glacial- related material filling the main depression of Hecates Tholus western lower flank. In order to study the geological evolution of Hecates Tholus we follow a multiple working hypotheses aproximation. The processes explored to explain the structural evolution of the volcano, include: (1) volcanic spreading, (2) lateral volcanic activity, (3) development of large landslides, (4) hydrothermal activity, and (5) regional tectonic deformation. We discuss these hypotheses and their implications, in order to establish the more feasible volcanic history of Hecates Tholus.

  9. General-relativistic approach to the nonlinear evolution of collisionless matter

    SciTech Connect

    Matarrese, S.; Pantano, O. ); Saez, D. )

    1993-02-15

    A new general-relativistic algorithm is developed to study the nonlinear evolution of scalar (density) perturbations of an irrotational collisionless fluid up to shell crossing, under the approximation of neglecting the interaction with tensor (gravitational-wave) perturbations. The dynamics of each fluid element is separately followed in its own inertial rest frame by a system of twelve coupled first-order ordinary differential equations, which can be further reduced to six under very general conditions. Initial conditions are obtained in a cosmological framework, from linear theory, in terms of a single gauge-invariant potential. Physical observables, which are expressed in the Lagrangian form at different times, can be traced back to the Eulerian picture by solving supplementary first-order differential equations for the relative position vectors of neighboring fluid elements. Similarly to the Zel'dovich approximation, in our approach the evolution of each fluid element is completely determined by the local initial conditions and can be independently followed up to the time when it enters a multistream region. Unlike the Zel'dovich approximation, however, our approach is correct also in three dimensions (except for the possible role of gravitational waves). The accuracy of our numerical procedure is tested by integrating the nonlinear evolution of a spherical perturbation in an otherwise spatially flat Friedmann-Robertson-Walker universe and comparing the results with the exact Tolman-Bondi solution for the same initial profile. An exact solution for the planar symmetric case is also given, which turns out to be locally identical to the Zel'dovich solution.

  10. The floral morphospace--a modern comparative approach to study angiosperm evolution.

    PubMed

    Chartier, Marion; Jabbour, Florian; Gerber, Sylvain; Mitteroecker, Philipp; Sauquet, Hervé; von Balthazar, Maria; Staedler, Yannick; Crane, Peter R; Schönenberger, Jürg

    2014-12-01

    Morphospaces are mathematical representations used for studying the evolution of morphological diversity and for the evaluation of evolved shapes among theoretically possible ones. Although widely used in zoology, they--with few exceptions--have been disregarded in plant science and in particular in the study of broad-scale patterns of floral structure and evolution. Here we provide basic information on the morphospace approach; we review earlier morphospace applications in plant science; and as a practical example, we construct and analyze a floral morphospace. Morphospaces are usually visualized with the help of ordination methods such as principal component analysis (PCA) or nonmetric multidimensional scaling (NMDS). The results of these analyses are then coupled with disparity indices that describe the spread of taxa in the space. We discuss these methods and apply modern statistical tools to the first and only angiosperm-wide floral morphospace published by Stebbins in 1951. Despite the incompleteness of Stebbins’ original dataset, our analyses highlight major, angiosperm-wide trends in the diversity of flower morphology and thereby demonstrate the power of this previously neglected approach in plant science.

  11. The floral morphospace – a modern comparative approach to study angiosperm evolution

    PubMed Central

    Chartier, Marion; Jabbour, Florian; Gerber, Sylvain; Mitteroecker, Philipp; Sauquet, Hervé; von Balthazar, Maria; Staedler, Yannick; Crane, Peter R.; Schönenberger, Jürg

    2017-01-01

    Summary Morphospaces are mathematical representations used for studying the evolution of morphological diversity and for the evaluation of evolved shapes among theoretically possible ones. Although widely used in zoology, they – with few exceptions – have been disregarded in plant science and in particular in the study of broad-scale patterns of floral structure and evolution. Here we provide basic information on the morphospace approach; we review earlier morphospace applications in plant science; and as a practical example, we construct and analyze a floral morphospace. Morphospaces are usually visualized with the help of ordination methods such as principal component analysis (PCA) or nonmetric multidimensional scaling (NMDS). The results of these analyses are then coupled with disparity indices that describe the spread of taxa in the space. We discuss these methods and apply modern statistical tools to the first and only angiosperm-wide floral morphospace published by Stebbins in 1951. Despite the incompleteness of Stebbins’ original dataset, our analyses highlight major, angiosperm-wide trends in the diversity of flower morphology and thereby demonstrate the power of this previously neglected approach in plant science. PMID:25539005

  12. Library selection and directed evolution approaches to engineering targeted viral vectors.

    PubMed

    Jang, Jae-Hyung; Lim, Kwang-il; Schaffer, David V

    2007-10-15

    Gene therapy, to delivery of genetic material to a patient for therapeutic benefit, has significant promise for translating basic knowledge of disease mechanism into biomedical treatments. The clinical development of the field has been slowed, however, by the need for improvements in the properties and capabilities of gene delivery vehicles. Vehicles based on viruses offer the potential for efficient gene delivery, but because viruses did not evolve to serve human therapeutic needs, many of their properties require significant improvement, including their safety, efficiency, and capacity for targeted gene delivery. Since viruses are highly complex biological entities, engineering such properties at the molecular level can be challenging. However, there has been significant progress in developing approaches that mimic the mechanisms by which viruses arose in the first place. In particular, library-based selection, the generation of one diverse genetic library and selection for new properties, and directed evolution, based on the multiple rounds of library generation and selection for iterative improvement of function, have strong potential in engineering novel properties into these complex biomolecular assemblies. This review will discuss progress in the application of peptide display, library selection, and directed evolution technologies toward engineering vectors based on retrovirus, adeno-associated virus, and adenovirus that are capable of targeted delivery to specific cell types. In addition to creating biomedically useful products, these approaches have future potential to yield novel insights into viral structure-function relationships. Copyright 2007 Wiley Periodicals, Inc.

  13. Multi-analytical approach applied to the provenance study of marbles used as covering slabs in the archaeological submerged site of Baia (Naples, Italy): The case of the "Villa con ingresso a protiro"

    NASA Astrophysics Data System (ADS)

    Ricca, Michela; Belfiore, Cristina Maria; Ruffolo, Silvestro Antonio; Barca, Donatella; De Buergo, Monica Alvarez; Crisci, Gino Mirocle; La Russa, Mauro Francesco

    2015-12-01

    This paper is focused on archaeometric investigations of white marbles taken from the submerged archaeological site of Baia (Naples). The marine area includes the ruins of this ancient Roman city, whose structures range from luxurious maritime villas and imperial buildings with private thermae and tabernae, to more simple and modest houses. Analyses were carried out on fifty marble fragments of covering slabs, belonging to several pavements of the monumental villa, called the Villa con ingresso a protiro, in order to ascertain their provenance. The most distinctive properties of marbles are their variety of textural property especially regarding grain size (MGS), associated with the Mn content and the variation of stable isotopes. These features, supported by the contribution of other variables and studies, establish the basis for the correct identification of the marbles. For this purpose, minero-petrographic and geochemical techniques were used. Results were compared with literature data of white marbles commonly used in antiquity, especially in the Mediterranean basin and showed that a variety of precious marbles from Carrara, Docimium (Afyon), Thasos-D, Aphrodisias, Proconnesos (Marmara), Paros and Pentelicon were used in the ancient roman city of Baia, confirming the importance of the submerged archaeological site and also allowing researchers to broaden the existing database.

  14. Constructive Approaches for Understanding the Origin of Self-Replication and Evolution

    PubMed Central

    Ichihashi, Norikazu; Yomo, Tetsuya

    2016-01-01

    The mystery of the origin of life can be divided into two parts. The first part is the origin of biomolecules: under what physicochemical conditions did biomolecules such as amino acids, nucleotides, and their polymers arise? The second part of the mystery is the origin of life-specific functions such as the replication of genetic information, the reproduction of cellular structures, metabolism, and evolution. These functions require the coordination of many different kinds of biological molecules. A direct strategy to approach the second part of the mystery is the constructive approach, in which life-specific functions are recreated in a test tube from specific biological molecules. Using this approach, we are able to employ design principles to reproduce life-specific functions, and the knowledge gained through the reproduction process provides clues as to their origins. In this mini-review, we introduce recent insights gained using this approach, and propose important future directions for advancing our understanding of the origins of life. PMID:27420098

  15. An R package for statistical provenance analysis

    NASA Astrophysics Data System (ADS)

    Vermeesch, Pieter; Resentini, Alberto; Garzanti, Eduardo

    2016-05-01

    This paper introduces provenance, a software package within the statistical programming environment R, which aims to facilitate the visualisation and interpretation of large amounts of sedimentary provenance data, including mineralogical, petrographic, chemical and isotopic provenance proxies, or any combination of these. provenance comprises functions to: (a) calculate the sample size required to achieve a given detection limit; (b) plot distributional data such as detrital zircon U-Pb age spectra as Cumulative Age Distributions (CADs) or adaptive Kernel Density Estimates (KDEs); (c) plot compositional data as pie charts or ternary diagrams; (d) correct the effects of hydraulic sorting on sandstone petrography and heavy mineral composition; (e) assess the settling equivalence of detrital minerals and grain-size dependence of sediment composition; (f) quantify the dissimilarity between distributional data using the Kolmogorov-Smirnov and Sircombe-Hazelton distances, or between compositional data using the Aitchison and Bray-Curtis distances; (e) interpret multi-sample datasets by means of (classical and nonmetric) Multidimensional Scaling (MDS) and Principal Component Analysis (PCA); and (f) simplify the interpretation of multi-method datasets by means of Generalised Procrustes Analysis (GPA) and 3-way MDS. All these tools can be accessed through an intuitive query-based user interface, which does not require knowledge of the R programming language. provenance is free software released under the GPL-2 licence and will be further expanded based on user feedback.

  16. Soft-computing approach to plasma evolution tracking in tokamak reactors

    NASA Astrophysics Data System (ADS)

    Morabito, Francesco C.

    1997-10-01

    Qualitative information about the structure of a mapping can surely be of help in learning a mapping by a collection of input-output pairs. However, there are conditions in which time and some other constraints make guessing the only plausible means for interpreting data. In this paper, the problem of the plasma boundary reconstruction in 'Tokamak' nuclear fusion rectors is assessed. The problem is formulated as an inverse 'identification' problem and the mapping is derived by a properly generated database of simulated experiments. Real data coming from experiments are also available to validate both numerically generated data and extracted model. The identification problem is solved for two different databases by using neural networks and more conventional models. The introduction of techniques derived from soft computing is shown to improve the performance in various respects. Dynamic identification systems appear to be rather demanding also for such systems, for the need of rapidly interpreting real time data for discharge control. Soft computing approaches may yet yield some low cost ways to take decisions during plasma evolution. The approximate analysis of experimental data could also improve the knowledge on the particular problem allowing an evolution of the knowledge base. Experimental data related to ASDEX-Upgrade machine are presented in this work and preliminary processed. Soft computing techniques also allow to simply get ideas about two other interesting problems in plasma engineering, namely, the fault tolerance and the minimization of the number of sensors.

  17. Modeling of microstructure evolution in direct metal laser sintering: A phase field approach

    NASA Astrophysics Data System (ADS)

    Nandy, Jyotirmoy; Sarangi, Hrushikesh; Sahoo, Seshadev

    2017-02-01

    Direct Metal Laser Sintering (DMLS) is a new technology in the field of additive manufacturing, which builds metal parts in a layer by layer fashion directly from the powder bed. The process occurs within a very short time period with rapid solidification rate. Slight variations in the process parameters may cause enormous change in the final build parts. The physical and mechanical properties of the final build parts are dependent on the solidification rate which directly affects the microstructure of the material. Thus, the evolving of microstructure plays a vital role in the process parameters optimization. Nowadays, the increase in computational power allows for direct simulations of microstructures during materials processing for specific manufacturing conditions. In this study, modeling of microstructure evolution of Al-Si-10Mg powder in DMLS process was carried out by using a phase field approach. A MATLAB code was developed to solve the set of phase field equations, where simulation parameters include temperature gradient, laser scan speed and laser power. The effects of temperature gradient on microstructure evolution were studied and found that with increase in temperature gradient, the dendritic tip grows at a faster rate.

  18. A population memetics approach to cultural evolution in chaffinch song: meme diversity within populations.

    PubMed

    Lynch, A; Baker, A J

    1993-04-01

    We investigated cultural evolution in populations of common chaffinches (Fringilla coelebs) in the Atlantic islands (Azores, Madeira, Canaries) and neighboring continental regions (Morocco, Iberia) by employing a population memetics approach. To quantify variability within populations, we used the concept of a song meme, defined as a single syllable or a series of linked syllables capable of being transmitted. The frequency distribution of memes within populations generally fit a neutral model in which there is an equilibrium between mutation, migration, and drift, which suggests that memes are functionally equivalent. The diversity of memes of single syllables is significantly greater in the Azores compared to all other regions, consistent with higher population densities of chaffinches there. On the other hand, memes of two to five syllables have greater diversity in Atlantic island and Moroccan populations compared to their Iberian counterparts. This higher diversity emanates from a looser syntax and increased recombination in songs, presumably because of relaxed selection for distinctive songs in these peripheral and depauperate avifaunas. We urge comparative population memetic studies of other species of songbirds and predict that they will lead to a formulation of a general theory for the cultural evolution of bird song analogous to population genetics theory for biological traits.

  19. Cultural transmission and the evolution of human behaviour: a general approach based on the Price equation.

    PubMed

    El Mouden, C; André, J-B; Morin, O; Nettle, D

    2014-02-01

    Transmitted culture can be viewed as an inheritance system somewhat independent of genes that is subject to processes of descent with modification in its own right. Although many authors have conceptualized cultural change as a Darwinian process, there is no generally agreed formal framework for defining key concepts such as natural selection, fitness, relatedness and altruism for the cultural case. Here, we present and explore such a framework using the Price equation. Assuming an isolated, independently measurable culturally transmitted trait, we show that cultural natural selection maximizes cultural fitness, a distinct quantity from genetic fitness, and also that cultural relatedness and cultural altruism are not reducible to or necessarily related to their genetic counterparts. We show that antagonistic coevolution will occur between genes and culture whenever cultural fitness is not perfectly aligned with genetic fitness, as genetic selection will shape psychological mechanisms to avoid susceptibility to cultural traits that bear a genetic fitness cost. We discuss the difficulties with conceptualizing cultural change using the framework of evolutionary theory, the degree to which cultural evolution is autonomous from genetic evolution, and the extent to which cultural change should be seen as a Darwinian process. We argue that the nonselection components of evolutionary change are much more important for culture than for genes, and that this and other important differences from the genetic case mean that different approaches and emphases are needed for cultural than genetic processes. © 2013 The Authors. Journal of Evolutionary Biology © 2013 European Society For Evolutionary Biology.

  20. A POPULATION MEMETICS APPROACH TO CULTURAL EVOLUTION IN CHAFFINCH SONG: DIFFERENTIATION AMONG POPULATIONS.

    PubMed

    Lynch, Alejandro; Baker, Allan J

    1994-04-01

    We investigated cultural evolution in populations of common chaffinches (Fringilla coelebs) in the Atlantic islands (Azores, Madeira, and Canaries) and neighboring continental regions (Morocco and Iberia) by employing a population-memetic approach. To quantify differentiation, we used the concept of a song meme, defined as a single syllable or a series of linked syllables capable of being transmitted. The levels of cultural differentiation are higher among the Canaries populations than among the Azorean ones, even though the islands are on average closer to each other geographically. This is likely the result of reduced levels of migration, lower population sizes, and bottlenecks (possibly during the colonization of these populations) in the Canaries; all these factors produce a smaller effective population size and therefore accentuate the effects of differentiation by random drift. Significant levels of among-population differentiation in the Azores, in spite of substantial levels of migration, attest to the differentiating effects of high mutation rates of memes, which allow the accumulation of new mutants in different populations before migration can disperse them throughout the entire region. © 1994 The Society for the Study of Evolution.

  1. MODEL OF THE FIELD LINE RANDOM WALK EVOLUTION AND APPROACH TO ASYMPTOTIC DIFFUSION IN MAGNETIC TURBULENCE

    SciTech Connect

    Snodin, A. P.; Ruffolo, D.; Matthaeus, W. H. E-mail: david.ruf@mahidol.ac.th

    2013-01-01

    The turbulent random walk of magnetic field lines plays an important role in the transport of plasmas and energetic particles in a wide variety of astrophysical situations, but most theoretical work has concentrated on determination of the asymptotic field line diffusion coefficient. Here we consider the evolution with distance of the field line random walk using a general ordinary differential equation (ODE), which for most cases of interest in astrophysics describes a transition from free streaming to asymptotic diffusion. By challenging theories of asymptotic diffusion to also describe the evolution, one gains insight on how accurately they describe the random walk process. Previous theoretical work has effectively involved closure of the ODE, often by assuming Corrsin's hypothesis and a Gaussian displacement distribution. Approaches that use quasilinear theory and prescribe the mean squared displacement ({Delta}x {sup 2}) according to free streaming (random ballistic decorrelation, RBD) or asymptotic diffusion (diffusive decorrelation, DD) can match computer simulation results, but only over specific parameter ranges, with no obvious 'marker' of the range of validity. Here we make use of a unified description in which the ODE determines ({Delta}x {sup 2}) self-consistently, providing a natural transition between the assumptions of RBD and DD. We find that the minimum kurtosis of the displacement distribution provides a good indicator of whether the self-consistent ODE is applicable, i.e., inaccuracy of the self-consistent ODE is associated with non-Gaussian displacement distributions.

  2. Trickle-down evolution: an approach to getting major evolutionary adaptive changes into textbooks and curricula.

    PubMed

    Padian, Kevin

    2008-08-01

    Although contemporary high school and college textbooks of biology generally cover the principles and data of microevolution (genetic and populational change) and speciation rather well, coverage of what is known of the major changes in evolution (macroevolution), and how the evidence is understood is generally poor to nonexistent. It is critical to improve this because acceptance of evolution by the American public rests on the understanding of how we know what we know about the emergence of major new taxonomic groups, and about their adaptations, behaviors, and ecologies in geologic time. An efficient approach to this problem is to improve the illustrations in college textbooks to show the consilience of different lines of fossil, morphological, and molecular evidence mapped on phylogenies. Such "evograms" will markedly improve traditional illustrations of phylogenies, "menageries," and "companatomies." If "evograms" are installed at the college level, the basic principles and evidence of macroevolution will be more likely taught in K-12, thus providing an essential missing piece in biological education.

  3. A new design approach based on differential evolution algorithm for geometric optimization of magnetorheological brakes

    NASA Astrophysics Data System (ADS)

    Le-Duc, Thang; Ho-Huu, Vinh; Nguyen-Thoi, Trung; Nguyen-Quoc, Hung

    2016-12-01

    In recent years, various types of magnetorheological brakes (MRBs) have been proposed and optimized by different optimization algorithms that are integrated in commercial software such as ANSYS and Comsol Multiphysics. However, many of these optimization algorithms often possess some noteworthy shortcomings such as the trap of solutions at local extremes, or the limited number of design variables or the difficulty of dealing with discrete design variables. Thus, to overcome these limitations and develop an efficient computation tool for optimal design of the MRBs, an optimization procedure that combines differential evolution (DE), a gradient-free global optimization method with finite element analysis (FEA) is proposed in this paper. The proposed approach is then applied to the optimal design of MRBs with different configurations including conventional MRBs and MRBs with coils placed on the side housings. Moreover, to approach a real-life design, some necessary design variables of MRBs are considered as discrete variables in the optimization process. The obtained optimal design results are compared with those of available optimal designs in the literature. The results reveal that the proposed method outperforms some traditional approaches.

  4. A subgradient approach for constrained binary optimization via quantum adiabatic evolution

    NASA Astrophysics Data System (ADS)

    Karimi, Sahar; Ronagh, Pooya

    2017-08-01

    Outer approximation method has been proposed for solving the Lagrangian dual of a constrained binary quadratic programming problem via quantum adiabatic evolution in the literature. This should be an efficient prescription for solving the Lagrangian dual problem in the presence of an ideally noise-free quantum adiabatic system. However, current implementations of quantum annealing systems demand methods that are efficient at handling possible sources of noise. In this paper, we consider a subgradient method for finding an optimal primal-dual pair for the Lagrangian dual of a constrained binary polynomial programming problem. We then study the quadratic stable set (QSS) problem as a case study. We see that this method applied to the QSS problem can be viewed as an instance-dependent penalty-term approach that avoids large penalty coefficients. Finally, we report our experimental results of using the D-Wave 2X quantum annealer and conclude that our approach helps this quantum processor to succeed more often in solving these problems compared to the usual penalty-term approaches.

  5. The evolution of Harvey Cushing's surgical approach to pituitary tumors from transsphenoidal to transfrontal.

    PubMed

    Cohen-Gadol, Aaron A; Laws, Edward R; Spencer, Dennis D; De Salles, Antonio A F

    2005-08-01

    The evolution of transsphenoidal surgery represents a special chapter in the progress of neurosurgery. Although Cushing initially advocated a transsphenoidal approach to pituitary tumors, he became disenchanted with this approach, ultimately favoring the subfrontal or "transfrontal" route late in his career. Other neurosurgeons followed Cushing's example, and the fate of transsphenoidal surgery entered a dark era in 1929. A review of Cushing's patients' records reveals that his abandonment of the transsphenoidal route was primarily related to the limitations of this approach in providing effective resection of large pituitary lesions-the symptomatic tumor recurrence rate after this procedure was substantial. Furthermore, given the preoperative uncertainty about the suprasellar extension of pituitary tumors prior to modern neuroimaging, the transfrontal route assured Cushing an adequate decompression of the optic chiasm. By 1927, Cushing's mastery of intracranial surgery was accompanied by the use of electrosurgical methods that enabled him to remove sellar lesions through the transfrontal route safely and with timely and effective restoration of visual loss. Transsphenoidal surgery remained relatively dormant, awaiting the efforts and enthusiasm of Norman Dott who bridged the gap between Cushing and Gerard Guiot, the surgeon who revitalized transsphenoidal adenomectomy for future generations of pituitary surgeons.

  6. Evolution of thrombectomy approaches and devices for acute stroke: a technical review.

    PubMed

    Spiotta, Alejandro M; Chaudry, M Imran; Hui, Ferdinand K; Turner, Raymond D; Kellogg, Ryan T; Turk, Aquilla S

    2015-01-01

    While intravenous administration of tissue plasminogen activator (tPA) remains the only FDA-approved treatment modality for acute ischemic stroke, many patients do not meet the criteria for intravenous tPA and are offered intra-arterial therapy. Rapid advances in devices and approaches have marked the evolution of thrombectomy over the past decade from rudimentary mechanical disruption, followed by intra-arterial thrombolytic infusions to increasingly effective thrombectomy devices. We review the critical advancements in thrombectomy technique that have evolved and the key anatomic and technical challenges they address, from first-generation Merci retrieval systems to second-generation Penumbra aspiration systems and third-generation stent retrievers, as well as nuances of their uses to maximize their effectiveness. We also highlight more recent advances that offer patients hope for more expedient vessel recanalization.

  7. Galaxy evolution simulation of the basement of linguo-combinatorial approach

    NASA Astrophysics Data System (ADS)

    Ignatyev, Mikhail B.

    2015-08-01

    Galaxy - complex self-organizing systems, therefore they are subject to the identified patterns of development of complex systems (see. M.B.Ignatyev "The linguo-combinatorial simulation in modern physics"\\ J. of Modern Physics? USA, 2012, No 1, p.7-11). As part of the linguo- combinatorial approach complex systems described by the equivalent equation with arbitrary coefficients, the matrix of which depends on the number of variables and the number of restrictions. The number of arbitrary coefficients is determined by the number of combinations of n by m + 1, where n - the number of different elements of the galaxy, m - the number of constraints imposed on them. The number of arbitrary coefficients characterizes the adaptive capacity of the galactic system. In the evolution of a galaxy passes through a maximum adaptation and gradually turns into a rigid system that either die or are transformed through creative transition - see Fig. .Fig. Transformation of developing galaxies, n1 evolution of galaxies on the basement of linguo- combinatorial approach.

  8. Respiratory consequences of prematurity: evolution of a diagnosis and development of a comprehensive approach

    PubMed Central

    Maitre, Nathalie L.; Ballard, Roberta A.; Ellenberg, Jonas H.; Davis, Stephanie D.; Greenberg, James M.

    2015-01-01

    Bronchopulmonary dysplasia (BPD) is the most common respiratory consequence of premature birth and contributes to significant short- and long-term morbidity, mortality, and resource utilization. Initially defined as a radiographic, clinical, and histopathologic entity, the chronic lung disease known as BPD has evolved as obstetrical and neonatal care have improved the survival of lower gestational age infants. Now, definitions based on need for supplemental oxygen at 28 days and or 36 weeks provide a useful reference point in the NICU, but are no longer based on histopathologic findings, and are neither designed to predict longer-term respiratory consequences nor to study the evolution of a multifactorial disease. The aims of this review are to critically examine the evolution of the diagnosis of BPD and the challenges inherent to current classifications. We found that the increasing use of respiratory support strategies that administer ambient air without supplemental oxygen confounds oxygen-based definitions of BPD. Furthermore, lack of reproducible, genetic, biochemical, and physiologic biomarkers limits the ability to identify impending BPD for early intervention, quantify disease severity for standardized classification and approaches, and reliably predict the long-term outcomes. More comprehensive, multidisciplinary approaches to overcome these challenges involve longitudinal observation of extremely preterm infants, not only those with BPD, using genetic, environmental, physiologic and clinical data as well as large databases of patient samples. The Prematurity and Respiratory Outcomes Program (PROP) will provide such a framework to address these challenges through high-resolution characterization of both NICU and post-NICU discharge outcomes. PMID:25811285

  9. A surrogate approach to study the evolution of noncoding DNA elements that organize eukaryotic genomes.

    PubMed

    Vermaak, Danielle; Bayes, Joshua J; Malik, Harmit S

    2009-01-01

    Comparative genomics provides a facile way to address issues of evolutionary constraint acting on different elements of the genome. However, several important DNA elements have not reaped the benefits of this new approach. Some have proved intractable to current day sequencing technology. These include centromeric and heterochromatic DNA, which are essential for chromosome segregation as well as gene regulation, but the highly repetitive nature of the DNA sequences in these regions make them difficult to assemble into longer contigs. Other sequences, like dosage compensation X chromosomal sites, origins of DNA replication, or heterochromatic sequences that encode piwi-associated RNAs, have proved difficult to study because they do not have recognizable DNA features that allow them to be described functionally or computationally. We have employed an alternate approach to the direct study of these DNA elements. By using proteins that specifically bind these noncoding DNAs as surrogates, we can indirectly assay the evolutionary constraints acting on these important DNA elements. We review the impact that such "surrogate strategies" have had on our understanding of the evolutionary constraints shaping centromeres, origins of DNA replication, and dosage compensation X chromosomal sites. These have begun to reveal that in contrast to the view that such structural DNA elements are either highly constrained (under purifying selection) or free to drift (under neutral evolution), some of them may instead be shaped by adaptive evolution and genetic conflicts (these are not mutually exclusive). These insights also help to explain why the same elements (e.g., centromeres and replication origins), which are so complex in some eukaryotic genomes, can be simple and well defined in other where similar conflicts do not exist.

  10. Understanding Student Approaches to Learning Evolution in the Context of their Perceptions of the Relationship between Science and Religion

    NASA Astrophysics Data System (ADS)

    Yasri, Pratchayapong; Mancy, Rebecca

    2014-01-01

    This study investigates a range of positions that learners take on the relationship between science and religion and the potential for these positions to explain student approaches when learning about evolution. A phenomenographic study based on interviews with nine students studying in Christian high schools in Thailand led to the identification of five distinct positions on the relationship between science and religion. Each position was associated with a characteristic pattern of learning about evolution that could be explained as an attempt by the students to align their particular learning approach with their position. Three of the positions have the potential to support scientifically valid understandings of evolution while avoiding emotional conflict. We suggest that knowledge of the range of positions and associated learning approaches can help educators to focus on the form and timing of support of benefit to those holding different viewpoints.

  11. Evaluation of filesystem provenance visualization tools.

    PubMed

    Borkin, Michelle A; Yeh, Chelsea S; Boyd, Madelaine; Macko, Peter; Gajos, Krzysztof Z; Seltzer, Margo; Pfister, Hanspeter

    2013-12-01

    Having effective visualizations of filesystem provenance data is valuable for understanding its complex hierarchical structure. The most common visual representation of provenance data is the node-link diagram. While effective for understanding local activity, the node-link diagram fails to offer a high-level summary of activity and inter-relationships within the data. We present a new tool, InProv, which displays filesystem provenance with an interactive radial-based tree layout. The tool also utilizes a new time-based hierarchical node grouping method for filesystem provenance data we developed to match the user's mental model and make data exploration more intuitive. We compared InProv to a conventional node-link based tool, Orbiter, in a quantitative evaluation with real users of filesystem provenance data including provenance data experts, IT professionals, and computational scientists. We also compared in the evaluation our new node grouping method to a conventional method. The results demonstrate that InProv results in higher accuracy in identifying system activity than Orbiter with large complex data sets. The results also show that our new time-based hierarchical node grouping method improves performance in both tools, and participants found both tools significantly easier to use with the new time-based node grouping method. Subjective measures show that participants found InProv to require less mental activity, less physical activity, less work, and is less stressful to use. Our study also reveals one of the first cases of gender differences in visualization; both genders had comparable performance with InProv, but women had a significantly lower average accuracy (56%) compared to men (70%) with Orbiter.

  12. Variational B-spline level-set: a linear filtering approach for fast deformable model evolution.

    PubMed

    Bernard, Olivier; Friboulet, Denis; Thévenaz, Philippe; Unser, Michael

    2009-06-01

    In the field of image segmentation, most level-set-based active-contour approaches take advantage of a discrete representation of the associated implicit function. We present in this paper a different formulation where the implicit function is modeled as a continuous parametric function expressed on a B-spline basis. Starting from the active-contour energy functional, we show that this formulation allows us to compute the solution as a restriction of the variational problem on the space spanned by the B-splines. As a consequence, the minimization of the functional is directly obtained in terms of the B-spline coefficients. We also show that each step of this minimization may be expressed through a convolution operation. Because the B-spline functions are separable, this convolution may in turn be performed as a sequence of simple 1-D convolutions, which yields an efficient algorithm. As a further consequence, each step of the level-set evolution may be interpreted as a filtering operation with a B-spline kernel. Such filtering induces an intrinsic smoothing in the algorithm, which can be controlled explicitly via the degree and the scale of the chosen B-spline kernel. We illustrate the behavior of this approach on simulated as well as experimental images from various fields.

  13. Integrative Approaches for Studying Mitochondrial and Nuclear Genome Co-evolution in Oxidative Phosphorylation

    PubMed Central

    Sunnucks, Paul; Morales, Hernán E.; Lamb, Annika M.; Pavlova, Alexandra; Greening, Chris

    2017-01-01

    In animals, interactions among gene products of mitochondrial and nuclear genomes (mitonuclear interactions) are of profound fitness, evolutionary, and ecological significance. Most fundamentally, the oxidative phosphorylation (OXPHOS) complexes responsible for cellular bioenergetics are formed by the direct interactions of 13 mitochondrial-encoded and ∼80 nuclear-encoded protein subunits in most animals. It is expected that organisms will develop genomic architecture that facilitates co-adaptation of these mitonuclear interactions and enhances biochemical efficiency of OXPHOS complexes. In this perspective, we present principles and approaches to understanding the co-evolution of these interactions, with a novel focus on how genomic architecture might facilitate it. We advocate that recent interdisciplinary advances assist in the consolidation of links between genotype and phenotype. For example, advances in genomics allow us to unravel signatures of selection in mitochondrial and nuclear OXPHOS genes at population-relevant scales, while newly published complete atomic-resolution structures of the OXPHOS machinery enable more robust predictions of how these genes interact epistatically and co-evolutionarily. We use three case studies to show how integrative approaches have improved the understanding of mitonuclear interactions in OXPHOS, namely those driving high-altitude adaptation in bar-headed geese, allopatric population divergence in Tigriopus californicus copepods, and the genome architecture of nuclear genes coding for mitochondrial functions in the eastern yellow robin. PMID:28316610

  14. Comparative approaches to the evolution of reproductive isolation: a comment on Scopece et al. 2007.

    PubMed

    Sobel, James M; Randle, April M

    2009-08-01

    Speciation can be driven by the evolution of many forms of reproductive isolation. Comparative study is a powerful approach for elucidating the relative importance of individual isolating barriers in the speciation process. A recent contribution by Scopece and colleagues provides comparative data for two groups of deceptive pollination orchids and aims to test hypotheses about which forms of isolation are most important in the two clades. The authors compare pollinator isolation and postmating isolation between the two orchid groups, and conclude that food-deceptive orchid species have less isolation by pollinator specificity than sexually deceptive species, and that postmating isolation is more important in the food-deceptive clade. Although we find this approach to be novel and potentially powerful, these conclusions are called into question by the methods used to define and select species and quantify pollinator isolation. Definition and selection of taxa were performed in a biased manner that undermines the ability to infer general patterns of speciation. Furthermore, pollinator isolation was calculated inconsistently for the two groups under study, effectively nullifying the comparison.

  15. A holomorph approach to xiphosuran evolution--a case study on the ontogeny of Euproops.

    PubMed

    Haug, Carolin; Van Roy, Peter; Leipner, Angelika; Funch, Peter; Rudkin, David M; Schöllmann, Lothar; Haug, Joachim T

    2012-09-01

    Specimens of Euproops sp. (Xiphosura, Chelicerata) from the Carboniferous Piesberg quarry near Osnabrück, Germany, represent a relatively complete growth series of 10 stages. Based on this growth sequence, morphological changes throughout the ontogeny can be identified. The major change affects the shape of the epimera of the opisthosoma. In earlier stages, they appear very spine-like, whereas in later stages the bases of these spine-like structures become broader; the broadened bases are then successively drawn out distally. In the most mature stage known, the epimera are of trapezoidal shape and approach each other closely to form a complete flange around the thoracetron (=fused tergites of the opisthosoma). These ontogenetic changes question the taxonomic status of different species of Euproops, as the latter appear to correspond to different stages of the ontogenetic series reconstructed from the Piesberg specimens. This means that supposed separate species could, in fact, represent different growth stages of a single species. It could alternatively indicate that heterochrony (=evolutionary change of developmental timing) plays an important role in the evolution of Xiphosura. We propose a holomorph approach, i.e., reconstructing ontogenetic sequences for fossil and extant species as a sound basis for a taxonomic, phylogenetic, and evolutionary discussion of Xiphosura.

  16. Flame-based processing as a practical approach for manufacturing hydrogen evolution electrodes

    NASA Astrophysics Data System (ADS)

    Roller, Justin; Renner, Julie; Yu, Haoran; Capuano, Chris; Kwak, Tony; Wang, Yang; Carter, C. Barry; Ayers, Kathy; Mustain, William E.; Maric, Radenka

    2014-12-01

    Catalyst structure and morphology are inevitably dictated by the synthesis route, which in-turn dictates catalyst activity, stability and utilization in the electrode. Reactive spray deposition technology (RSDT) is a promising synthesis route for electrode manufacturing because of the potential to achieve high-throughput processing under a diverse range of process configurations. This work investigates several unique approaches to Pt catalyst deposition using jet-flame synthesis for water electrolysis electrodes. Direct application of the catalyst film onto Nafion 117 and carbon paper is explored along with approaches to dispersing the Pt onto carbon or TinO2n-1. Operational challenges relating to the harsh conditions of H2 evolution and electrode adhesion are addressed by adding binder and catalyst support to the electrode structure. The RSDT technology produces an electrode, coated directly onto Nafion 117®, with a 20-fold reduction in Pt loading while maintaining high in-cell performance (2.1 V at 2 A cm-2) compared to an industry-level baseline. Durability testing at 1.8 A cm-2, 400 psi differential pressure and a temperature of 50 °C yields a consistent potential of ∼2.2 V for over 1100 h without failure. The same electrode applied directly to carbon paper resulted in a voltage of ∼2.1 V for ∼600 h without failure.

  17. Subgrouping patients with low back pain: evolution of a classification approach to physical therapy.

    PubMed

    Fritz, Julie M; Cleland, Joshua A; Childs, John D

    2007-06-01

    The development of valid classification methods to assist the physical therapy management of patients with low back pain has been recognized as a research priority. There is also growing evidence that the use of a classification approach to physical therapy results in better clinical outcomes than the use of alternative management approaches. In 1995 Delitto and colleagues proposed a classification system intended to inform and direct the physical therapy management of patients with low back pain. The system described 4 classifications of patients with low back pain (manipulation, stabilization, specific exercise, and traction). Each classification could be identified by a unique set of examination criteria, and was associated with an intervention strategy believed to result in the best outcomes for the patient. The system was based on expert opinion and research evidence available at the time. A substantial amount of research has emerged in the years since the introduction of this classification system, including the development of clinical prediction rules, providing new evidence for the examination criteria used to place a patient into a classification and for the optimal intervention strategies for each classification. New evidence should continually be incorporated into existing classification systems. The purpose of this clinical commentary is to review this classification system, its evolution and current status, and to discuss its implications for the classification of patients with low back pain.

  18. An innovative approach to predict technology evolution for the desoldering of printed circuit boards: A perspective from China and America.

    PubMed

    Wang, Chen; Zhao, Wu; Wang, Jie; Chen, Ling; Luo, Chun-Jing

    2016-06-01

    The printed circuit boards basis of electronic equipment have seen a rapid growth in recent years and played a significant role in modern life. Nowadays, the fact that electronic devices upgrade quickly necessitates a proper management of waste printed circuit boards. Non-destructive desoldering of waste printed circuit boards becomes the first and the most crucial step towards recycling electronic components. Owing to the diversity of materials and components, the separation process is difficult, which results in complex and expensive recovery of precious materials and electronic components from waste printed circuit boards. To cope with this problem, we proposed an innovative approach integrating Theory of Inventive Problem Solving (TRIZ) evolution theory and technology maturity mapping system to forecast the evolution trends of desoldering technology of waste printed circuit boards. This approach can be applied to analyse the technology evolution, as well as desoldering technology evolution, then research and development strategy and evolution laws can be recommended. As an example, the maturity of desoldering technology is analysed with a technology maturity mapping system model. What is more, desoldering methods in different stages are analysed and compared. According to the analysis, the technological evolution trends are predicted to be 'the law of energy conductivity' and 'increasing the degree of idealisation'. And the potential technology and evolutionary state of waste printed circuit boards are predicted, offering reference for future waste printed circuit boards recycling.

  19. A computational approach to modelling magma ocean evolution in 2-D and 3-D

    NASA Astrophysics Data System (ADS)

    Tackley, Paul; Lourenco, Diogo; Fomin, Ilya

    2017-04-01

    Models of magma ocean evolution have typically been performed in 1-D (e.g. Abe, PEPI 1997; Solomatov and Stevenson, JGR 1993; Elkins-Tanton EPSL 2008). However, 1-D models may miss important aspects of the process, in particular the possible development of solid-state convection before the magma ocean has completely crystallised, and possible large-scale overturn driven by thermal and/or compositional gradients. On the other hand, fully resolving magma ocean evolution in 2-D or 3-D would be extremely challenging due to the small time-scales and length-scales associated with turbulent convection in the magma and the extreme viscosity contrast between regions of high melt fraction and regions of low melt fraction, which are separated by a rheological threshold associated with the solid forming an interconnected matrix. Here, an intermediate approach to treat these has been implemented within the framework of the mantle convection code StagYY (Tackley, PEPI 2008). The basic approach is to resolve processes that occur in the mostly solid state (i.e. below the rheological threshold) while parameterising processes that occur in the mostly liquid state, based largely on the works of Y. Abe. Thus, turbulent convection in magma-rich regions is treated using an effective thermal conductivity based on mixing-length theory, and segregation of solid and liquid is treated using Darcy's law for low melt fractions or crystal settling (offset by vigorous convection) for high melt fractions. At the outer surface a combined radiative-conductive heat balance is implemented, including the temperature drop over a very thin ( cm) thermal boundary layer and reduction of radiative heat loss by an atmosphere. Key to the whole process is petrology: the coexisting compositions of magma and solid under various conditions including possible fractionation, and for this different approaches have been parameterised ranging from a simple basalt-harzburgite parameterisation to a bi-eutectic lower

  20. Community Education Proven Practices II: Networking Strategies.

    ERIC Educational Resources Information Center

    Arkansas State Dept. of Education, Little Rock.

    Designed to be used by those who wish to initiate or further develop community education programs at the state and local levels, this publication is one of a series of "Proven Practices" developed by federally-funded state and local community education projects. The booklet describes the administrative design and the process used to…

  1. Applying Content Management to Automated Provenance Capture

    SciTech Connect

    Schuchardt, Karen L.; Gibson, Tara D.; Stephan, Eric G.; Chin, George

    2008-04-10

    Workflows and data pipelines are becoming increasingly valuable in both computational and experimen-tal sciences. These automated systems are capable of generating significantly more data within the same amount of time than their manual counterparts. Automatically capturing and recording data prove-nance and annotation as part of these workflows is critical for data management, verification, and dis-semination. Our goal in addressing the provenance challenge was to develop and end-to-end system that demonstrates real-time capture, persistent content management, and ad-hoc searches of both provenance and metadata using open source software and standard protocols. We describe our prototype, which extends the Kepler workflow tools for the execution environment, the Scientific Annotation Middleware (SAM) content management software for data services, and an existing HTTP-based query protocol. Our implementation offers several unique capabilities, and through the use of standards, is able to pro-vide access to the provenance record to a variety of commonly available client tools.

  2. Provenance testing at Michigan Technological University

    Treesearch

    Robert L. Sajdak

    1970-01-01

    The location of M.T.U. in the Keweenaw Peninsula of Upper Michigan provides some unique advantages and disadvantages in provenance testing and tree improvement research. Extremes in summer and winter temperatures are uncommon because of the moderating effect of Lake Superior. Near the Lake we have about 140 frost-free days while inland the frost-free season is only 80...

  3. Macroscopic dielectric function within time-dependent density functional theory—Real time evolution versus the Casida approach

    NASA Astrophysics Data System (ADS)

    Sander, Tobias; Kresse, Georg

    2017-02-01

    Linear optical properties can be calculated by solving the time-dependent density functional theory equations. Linearization of the equation of motion around the ground state orbitals results in the so-called Casida equation, which is formally very similar to the Bethe-Salpeter equation. Alternatively one can determine the spectral functions by applying an infinitely short electric field in time and then following the evolution of the electron orbitals and the evolution of the dipole moments. The long wavelength response function is then given by the Fourier transformation of the evolution of the dipole moments in time. In this work, we compare the results and performance of these two approaches for the projector augmented wave method. To allow for large time steps and still rely on a simple difference scheme to solve the differential equation, we correct for the errors in the frequency domain, using a simple analytic equation. In general, we find that both approaches yield virtually indistinguishable results. For standard density functionals, the time evolution approach is, with respect to the computational performance, clearly superior compared to the solution of the Casida equation. However, for functionals including nonlocal exchange, the direct solution of the Casida equation is usually much more efficient, even though it scales less beneficial with the system size. We relate this to the large computational prefactors in evaluating the nonlocal exchange, which renders the time evolution algorithm fairly inefficient.

  4. Nested modeling approach to quantify sediment transport pathways and temporal variability of barrier island evolution

    NASA Astrophysics Data System (ADS)

    Long, J. W.; Dalyander, S.; Sherwood, C. R.; Thompson, D. M.; Plant, N. G.

    2012-12-01

    The Chandeleur Islands, situated off the coast of Louisiana in the Gulf of Mexico, comprise a sand-starved barrier island system that has been disintegrating over the last decade. The persistent sediment transport in this area is predominantly directed alongshore but overwash and inundation during storm conditions has fragmented the island and reduced the subaerial extent by almost 75% since 2001. From 2010-2011 a sand berm was constructed along the Gulf side of the island adding 20 million cubic yards of sediment to this barrier island system. The redistribution of this sediment, particularly whether it remains in the active system and progrades the barrier island, has been evaluated using a series of numerical models and an extensive set of in situ and remote sensing observations. We have developed a coupled numerical modeling system capable of simulating morphologic evolution of the sand berm and barrier island using observations and predictions of regional and nearshore oceanographic processes. A nested approach provides large scale oceanographic information to force island evolution in a series of smaller grids, including two nearshore domains that are designed to simulate (1) the persistent alongshore sediment transport O(months-years) and (2) the overwash and breaching of the island/berm due to cross-shore forcing driven by winter cold fronts and tropical storms (O(hours-days)). The coupled model is evaluated using the observations of waves, water levels, currents, and topographic/morphologic change. Modeled processes are then used to identify the dominant sediment transport pathways and quantify the role of alongshore and cross-shore sediment transport in evolving the barrier island over a range of temporal scales.

  5. Modeling for Matrix Multicracking Evolution of Cross-ply Ceramic-Matrix Composites Using Energy Balance Approach

    NASA Astrophysics Data System (ADS)

    Longbiao, Li

    2015-12-01

    The matrix multicracking evolution of cross-ply ceramic-matrix composites (CMCs) has been investigated using energy balance approach. The multicracking of cross-ply CMCs was classified into five modes, i.e., (1) mode 1: transverse multicracking; (2) mode 2: transverse multicracking and matrix multicracking with perfect fiber/matrix interface bonding; (3) mode 3: transverse multicracking and matrix multicracking with fiber/matrix interface debonding; (4) mode 4: matrix multicracking with perfect fiber/matrix interface bonding; and (5) mode 5: matrix multicracking with fiber/matrix interface debonding. The stress distributions of four cracking modes, i.e., mode 1, mode 2, mode 3 and mode 5, are analysed using shear-lag model. The matrix multicracking evolution of mode 1, mode 2, mode 3 and mode 5, has been determined using energy balance approach. The effects of ply thickness and fiber volume fraction on matrix multicracking evolution of cross-ply CMCs have been investigated.

  6. Simulating mesoscale coastal evolution for decadal coastal management: A new framework integrating multiple, complementary modelling approaches

    NASA Astrophysics Data System (ADS)

    van Maanen, Barend; Nicholls, Robert J.; French, Jon R.; Barkwith, Andrew; Bonaldo, Davide; Burningham, Helene; Brad Murray, A.; Payo, Andres; Sutherland, James; Thornhill, Gillian; Townend, Ian H.; van der Wegen, Mick; Walkden, Mike J. A.

    2016-03-01

    Coastal and shoreline management increasingly needs to consider morphological change occurring at decadal to centennial timescales, especially that related to climate change and sea-level rise. This requires the development of morphological models operating at a mesoscale, defined by time and length scales of the order 101 to 102 years and 101 to 102 km. So-called 'reduced complexity' models that represent critical processes at scales not much smaller than the primary scale of interest, and are regulated by capturing the critical feedbacks that govern landform behaviour, are proving effective as a means of exploring emergent coastal behaviour at a landscape scale. Such models tend to be computationally efficient and are thus easily applied within a probabilistic framework. At the same time, reductionist models, built upon a more detailed description of hydrodynamic and sediment transport processes, are capable of application at increasingly broad spatial and temporal scales. More qualitative modelling approaches are also emerging that can guide the development and deployment of quantitative models, and these can be supplemented by varied data-driven modelling approaches that can achieve new explanatory insights from observational datasets. Such disparate approaches have hitherto been pursued largely in isolation by mutually exclusive modelling communities. Brought together, they have the potential to facilitate a step change in our ability to simulate the evolution of coastal morphology at scales that are most relevant to managing erosion and flood risk. Here, we advocate and outline a new integrated modelling framework that deploys coupled mesoscale reduced complexity models, reductionist coastal area models, data-driven approaches, and qualitative conceptual models. Integration of these heterogeneous approaches gives rise to model compositions that can potentially resolve decadal- to centennial-scale behaviour of diverse coupled open coast, estuary and inner

  7. A new approach to the automatic identification of organism evolution using neural networks.

    PubMed

    Kasperski, Andrzej; Kasperska, Renata

    2016-01-01

    Automatic identification of organism evolution still remains a challenging task, which is especially exiting, when the evolution of human is considered. The main aim of this work is to present a new idea to allow organism evolution analysis using neural networks. Here we show that it is possible to identify evolution of any organisms in a fully automatic way using the designed EvolutionXXI program, which contains implemented neural network. The neural network has been taught using cytochrome b sequences of selected organisms. Then, analyses have been carried out for the various exemplary organisms in order to demonstrate capabilities of the EvolutionXXI program. It is shown that the presented idea allows supporting existing hypotheses, concerning evolutionary relationships between selected organisms, among others, Sirenia and elephants, hippopotami and whales, scorpions and spiders, dolphins and whales. Moreover, primate (including human), tree shrew and yeast evolution has been reconstructed.

  8. Understanding Student Approaches to Learning Evolution in the Context of Their Perceptions of the Relationship between Science and Religion

    ERIC Educational Resources Information Center

    Yasri, Pratchayapong; Mancy, Rebecca

    2014-01-01

    This study investigates a range of positions that learners take on the relationship between science and religion and the potential for these positions to explain student approaches when learning about evolution. A phenomenographic study based on interviews with nine students studying in Christian high schools in Thailand led to the identification…

  9. Understanding Student Approaches to Learning Evolution in the Context of Their Perceptions of the Relationship between Science and Religion

    ERIC Educational Resources Information Center

    Yasri, Pratchayapong; Mancy, Rebecca

    2014-01-01

    This study investigates a range of positions that learners take on the relationship between science and religion and the potential for these positions to explain student approaches when learning about evolution. A phenomenographic study based on interviews with nine students studying in Christian high schools in Thailand led to the identification…

  10. Characterizing Provenance in Visualization and Data Analysis: An Organizational Framework of Provenance Types and Purposes

    SciTech Connect

    Ragan, Eric; Alex, Endert; Sanyal, Jibonananda; Chen, Jian

    2016-01-01

    While the primary goal of visual analytics research is to improve the quality of insights and findings, a substantial amount of research in provenance has focused on the history of changes and advances throughout the analysis process. The term, provenance, has been used in a variety of ways to describe different types of records and histories related to visualization. The existing body of provenance research has grown to a point where the consolidation of design knowledge requires cross-referencing a variety of projects and studies spanning multiple domain areas. We present an organizational framework of the different types of provenance information and purposes for why they are desired in the field of visual analytics. Our organization is intended to serve as a framework to help researchers specify types of provenance and coordinate design knowledge across projects. We also discuss the relationships between these factors and the methods used to capture provenance information. In addition, our organization can be used to guide the selection of evaluation methodology and the comparison of study outcomes in provenance research

  11. Characterizing Provenance in Visualization and Data Analysis: An Organizational Framework of Provenance Types and Purposes

    DOE PAGES

    Ragan, Eric; Alex, Endert; Sanyal, Jibonananda; ...

    2016-01-01

    While the primary goal of visual analytics research is to improve the quality of insights and findings, a substantial amount of research in provenance has focused on the history of changes and advances throughout the analysis process. The term, provenance, has been used in a variety of ways to describe different types of records and histories related to visualization. The existing body of provenance research has grown to a point where the consolidation of design knowledge requires cross-referencing a variety of projects and studies spanning multiple domain areas. We present an organizational framework of the different types of provenance informationmore » and purposes for why they are desired in the field of visual analytics. Our organization is intended to serve as a framework to help researchers specify types of provenance and coordinate design knowledge across projects. We also discuss the relationships between these factors and the methods used to capture provenance information. In addition, our organization can be used to guide the selection of evaluation methodology and the comparison of study outcomes in provenance research« less

  12. Titian: Data Provenance Support in Spark.

    PubMed

    Interlandi, Matteo; Shah, Kshitij; Tetali, Sai Deep; Gulzar, Muhammad Ali; Yoo, Seunghyun; Kim, Miryung; Millstein, Todd; Condie, Tyson

    2015-11-01

    Debugging data processing logic in Data-Intensive Scalable Computing (DISC) systems is a difficult and time consuming effort. Today's DISC systems offer very little tooling for debugging programs, and as a result programmers spend countless hours collecting evidence (e.g., from log files) and performing trial and error debugging. To aid this effort, we built Titian, a library that enables data provenance-tracking data through transformations-in Apache Spark. Data scientists using the Titian Spark extension will be able to quickly identify the input data at the root cause of a potential bug or outlier result. Titian is built directly into the Spark platform and offers data provenance support at interactive speeds-orders-of-magnitude faster than alternative solutions-while minimally impacting Spark job performance; observed overheads for capturing data lineage rarely exceed 30% above the baseline job execution time.

  13. Provenance and annotation for visual exploration systems.

    PubMed

    Groth, Dennis P; Streefkerk, Kristy

    2006-01-01

    Exploring data using visualization systems has been shown to be an extremely powerful technique. However, one of the challenges with such systems is an inability to completely support the knowledge discovery process. More than simply looking at data, users will make a semipermanent record of their visualizations by printing out a hard copy. Subsequently, users will mark and annotate these static representations, either for dissemination purposes or to augment their personal memory of what was witnessed. In this paper, we present a model for recording the history of user explorations in visualization environments, augmented with the capability for users to annotate their explorations. A prototype system is used to demonstrate how this provenance information can be recalled and shared. The prototype system generates interactive visualizations of the provenance data using a spatio-temporal technique. Beyond the technical details of our model and prototype, results from a controlled experiment that explores how different history mechanisms impact problem solving in visualization environments are presented.

  14. Provenance Representation in the Global Change Information System (GCIS)

    NASA Technical Reports Server (NTRS)

    Tilmes, Curt

    2012-01-01

    Global climate change is a topic that has become very controversial despite strong support within the scientific community. It is common for agencies releasing information about climate change to be served with Freedom of Information Act (FOIA) requests for everything that led to that conclusion. Capturing and presenting the provenance, linking to the research papers, data sets, models, analyses, observation instruments and satellites, etc. supporting key findings has the potential to mitigate skepticism in this domain. The U.S. Global Change Research Program (USGCRP) is now coordinating the production of a National Climate Assessment (NCA) that presents our best understanding of global change. We are now developing a Global Change Information System (GCIS) that will present the content of that report and its provenance, including the scientific support for the findings of the assessment. We are using an approach that will present this information both through a human accessible web site as well as a machine readable interface for automated mining of the provenance graph. We plan to use the developing W3C PROV Data Model and Ontology for this system.

  15. Time-dependent evolution of rock slopes by a multi-modelling approach

    NASA Astrophysics Data System (ADS)

    Bozzano, F.; Della Seta, M.; Martino, S.

    2016-06-01

    This paper presents a multi-modelling approach that incorporates contributions from morpho-evolutionary modelling, detailed engineering-geological modelling and time-dependent stress-strain numerical modelling to analyse the rheological evolution of a river valley slope over approximately 102 kyr. The slope is located in a transient, tectonically active landscape in southwestern Tyrrhenian Calabria (Italy), where gravitational processes drive failures in rock slopes. Constraints on the valley profile development were provided by a morpho-evolutionary model based on the correlation of marine and river strath terraces. Rock mass classes were identified through geomechanical parameters that were derived from engineering-geological surveys and outputs of a multi-sensor slope monitoring system. The rock mass classes were associated to lithotechnical units to obtain a high-resolution engineering-geological model along a cross section of the valley. Time-dependent stress-strain numerical modelling reproduced the main morpho-evolutionary stages of the valley slopes. The findings demonstrate that a complex combination of eustatism, uplift and Mass Rock Creep (MRC) deformations can lead to first-time failures of rock slopes when unstable conditions are encountered up to the generation of stress-controlled shear zones. The multi-modelling approach enabled us to determine that such complex combinations may have been sufficient for the first-time failure of the S. Giovanni slope at approximately 140 ka (MIS 7), even without invoking any trigger. Conversely, further reactivations of the landslide must be related to triggers such as earthquakes, rainfall and anthropogenic activities. This failure involved a portion of the slope where a plasticity zone resulted from mass rock creep that evolved with a maximum strain rate of 40% per thousand years, after the formation of a river strath terrace. This study demonstrates that the multi-modelling approach presented herein is a useful

  16. Obsidian provenance research in the Americas.

    PubMed

    Glascock, Michael D

    2002-08-01

    The characterization of archaeological materials to support provenance research has grown rapidly over the past few decades. Volcanic obsidian has several unique properties that make it the ideal archaeological material for studying prehistoric trade and exchange. This Account describes our laboratory's development of a systematic methodology for the characterization of obsidian sources and artifacts from Mesoamerica and other regions of North and South America in support of archaeological research.

  17. Evolution of the management approach for pulmonary atresia with intact ventricular septum

    PubMed Central

    Mi, Y P; Chau, A K T; Chiu, C S W; Yung, T C; Lun, K S; Cheung, Y F

    2005-01-01

    Objective: To review the evolution of the management approach for pulmonary atresia with intact ventricular septum (PAIVS) in the past two decades and to assess its impact on patient outcomes. Design and patients: Retrospective review of the management and outcomes of 94 patients (55 male patients) with PAIVS diagnosed between July 1980 and August 2003. Settings: Tertiary paediatric cardiac centre. Results: Seven patients died before interventions. Of the remaining 87 patients who underwent intervention at a median age of 9 days (from 1 day to 2 years), 12 had right ventricular outflow tract reconstruction (RVOTR), 42 had closed pulmonary valvotomy (CPV), and 15 had laser assisted valvotomy with balloon valvoplasty. A systemic–pulmonary shunt was inserted in 18 patients, six of whom had subsequent RVOTR (n  =  4) or laser assisted valvotomy (n  =  2). Since 1990, catheter intervention accounted for 38% (17 of 45) of the right ventricular outflow procedures. The mean (SEM) freedom from reintervention was 93 (7)%, 71 (12)%, and 57 (13)% after RVOTR, 75 (7)%, 40 (8)%, and 14 (6)% after CPV, and 54 (13)%, 24 (12)%, and 16 (10)% after laser assisted valvotomy at one month, six months, and one year, respectively (RVOTR versus CPV, p < 0.001; RVOTR versus laser assisted valvotomy, p  =  0.001). Low cardiac output syndrome was significantly less common after catheter intervention than after RVOTR (0% v 44%, p  =  0.003) or CPV (0% v 29%, p  =  0.01). The overall mean (SEM) survival was 77 (5)% and 70 (5)% at one and five years, respectively, and the overall mortality was 33% (29 of 87). There were no significant differences in survival between the three groups. Conclusions: Multiple interventions are often required in the treatment algorithm of PAIVS. The shift towards increased use of the transcatheter approach has reduced the occurrence of postprocedural low cardiac output syndrome. PMID:15831657

  18. Nonstationary porosity evolution in mixing zone in coastal carbonate aquifer using an alternative modeling approach.

    PubMed

    Laabidi, Ezzeddine; Bouhlila, Rachida

    2015-07-01

    In the last few decades, hydrogeochemical problems have benefited from the strong interest in numerical modeling. One of the most recognized hydrogeochemical problems is the dissolution of the calcite in the mixing zone below limestone coastal aquifer. In many works, this problem has been modeled using a coupling algorithm between a density-dependent flow model and a geochemical model. A related difficulty is that, because of the high nonlinearity of the coupled set of equations, high computational effort is needed. During calcite dissolution, an increase in permeability can be identified, which can induce an increase in the penetration of the seawater into the aquifer. The majority of the previous studies used a fully coupled reactive transport model in order to model such problem. Romanov and Dreybrodt (J Hydrol 329:661-673, 2006) have used an alternative approach to quantify the porosity evolution in mixing zone below coastal carbonate aquifer at steady state. This approach is based on the analytic solution presented by Phillips (1991) in his book Flow and Reactions in Permeable Rock, which shows that it is possible to decouple the complex set of equation. This equation is proportional to the square of the salinity gradient, which can be calculated using a density driven flow code and to the reaction rate that can be calculated using a geochemical code. In this work, this equation is used in nonstationary step-by-step regime. At each time step, the quantity of the dissolved calcite is quantified, the change of porosity is calculated, and the permeability is updated. The reaction rate, which is the second derivate of the calcium equilibrium concentration in the equation, is calculated using the PHREEQC code (Parkhurst and Apello 1999). This result is used in GEODENS (Bouhlila 1999; Bouhlila and Laabidi 2008) to calculate change of the porosity after calculating the salinity gradient. For the next time step, the same protocol is used but using the updated porosity

  19. A global approach for solving evolutive heat transfer for image denoising and inpainting.

    PubMed

    Auclair-Fortier, Marie-Flavie; Ziou, Djemel

    2006-09-01

    This paper proposes an alternative to partial differential equations (PDEs) for solving problems in computer vision based on evolutive heat transfer. Traditionally, the method for solving such physics-based problems is to discretize and solve a PDE by a purely mathematical process. Instead of using the PDE, we propose to use the global heat principle and to decompose it into basic laws. We show that some of these laws admit an exact global version since they arise from conservative principles. We also show that the assumptions made about the other basic Iaws can be made wisely, taking into account knowledge about the problem and the domain. The numerical scheme is derived in a straightforward way from the modeled problem, thus providing a physical explanation for each step in the solution. The advantage of such an approach is that it minimizes the approximations made during the whole process and it modularizes it, allowing changing the application to a great number of problems. We apply the scheme to two applications: image denoising and inpainting which are modeled with heat transfer. For denoising, we propose a new approximation for the conductivity coefficient and we add thin lines to the features in order to block diffusion.

  20. Experimental approaches to evaluate the contributions of candidate protein-coding mutations to phenotypic evolution.

    PubMed

    Storz, Jay F; Zera, Anthony J

    2011-01-01

    Identifying mechanisms of molecular adaptation can provide important insights into the process of phenotypic evolution, but it can be exceedingly difficult to quantify the phenotypic effects of specific mutational changes. To verify the adaptive significance of genetically based changes in protein function, it is necessary to document functional differences between the products of derived and wild-type alleles and to demonstrate that such differences impinge on higher-level physiological processes (and ultimately, fitness). In the case of metabolic enzymes, this requires documenting in vivo differences in reaction rate that give rise to differences in flux through the pathway in which the enzymes function. These measured differences in pathway flux should then give rise to differences in cellular or systemic physiology that affect fitness-related variation in whole-organism performance. Efforts to establish these causal connections between genotype, phenotype, and fitness require experiments that carefully control for environmental variation and background genetic variation. Here, we discuss experimental approaches to evaluate the contributions of amino-acid mutations to adaptive phenotypic change. We discuss conceptual and methodological issues associated with in vitro and in vivo studies of protein function, and the evolutionary insights that can be gleaned from such studies. We also discuss the importance of isolating the effects of individual mutations to distinguish between positively selected substitutions that directly contribute to improvements in protein function versus positively selected, compensatory substitutions that mitigate negative pleiotropic effects of antecedent changes.

  1. SU(1,1) Lie algebraic approach for the evolution of the quantum inflationary universe

    NASA Astrophysics Data System (ADS)

    Choi, Jeong Ryeol

    2013-03-01

    Quantum behavior of scalar fields and vacuum energy density in the inflationary universe are investigated using SU(1,1) Lie algebraic approach. Wave functions describing the evolution of scalar fields that have been thought to have driven cosmic inflation are identified in several possible quantum states at the early stage of the universe, such as the Fock state, the Glauber coherent state, and the SU(1,1) coherent states. In particular, we focus in this research on two important classes of the SU(1,1) coherent states, which are the so-called even and odd coherent states and the Perelomov coherent state. It is shown in the spatially flat universe driven by a single scalar field that the probability densities in all these states have converged to the origin (ϕ = 0, where ϕ is the scalar field) as time goes by. This outcome implies that the vacuum energy density characterized by the scalar field dissipates with time. The probability density in the matter-dominated era converged more rapidly than that in the radiation-dominated era. Hence, we can confirm that the progress of dissipation for the vacuum energy density became faster as the matter era began after the end of the early dominance of radiation. This consequence is, indeed, in agreement with the results of our previous researches in cosmology (for example, see [Chin. Phys. C 35 (2011) 233] and references there in).

  2. [Migrant workers: evolution of the Israel health system approach to the new social issue].

    PubMed

    Leventhal, Alex; Berlowitz, Yitzhak; Chemtob, Daniel

    2003-09-01

    The immigration of workers from poor countries to Israel began in earnest in 1993, and by 2003 their number had reached 250,000, the majority without work permits. In this article we describe the evolution of the Israeli approach to providing health services to migrant workers, noting particularly the swings between exclusion and inclusion, ranging from providing only the most minimal services to providing a complete health services package. The National Insurance Institute was the first to provide benefits to documented migrant workers, mandating compensation benefits for those injured at work or in terrorist incidents. The health care sector provided an ever-increasing package of health benefits for documented migrant workers, culminating in the Foreign Workers Law of 2000 obligating employers to insure workers with a health package similar to that of Israeli citizens. The provision of health services to undocumented migrant workers and their families arose more gradually, but ultimately included the full range of mother and child preventive health services, school health services, provision of ambulatory medical care by volunteer physicians members of human rights organization, the possibility of enrolling their children at a reduced premium in Meuchedet Health Fund, free diagnostic and treatment services for tuberculosis and sexually transmitted diseases, free antiretroviral treatment of HIV-positive pregnant women, and, finally, the ability to obtain gas masks for a token deposit prior to the Iraq War of 2003

  3. A New Fokker–Planck Approach for the Relaxation-driven Evolution of Galactic Nuclei

    NASA Astrophysics Data System (ADS)

    Vasiliev, Eugene

    2017-10-01

    We present an approach for simulating the collisional evolution of spherical isotropic stellar systems based on the one-dimensional Fokker–Planck equation. A novel aspect is that we use the phase volume as the argument of the distribution function instead of the traditionally used energy, which facilitates the solution. The publicly available code PhaseFlow implements a high-accuracy finite-element method for the Fokker–Planck equation, and can handle multiple-component systems, optionally with the central black hole and taking into account loss-cone effects and star formation. We discuss the energy balance in the general setting, and in application to the Bahcall–Wolf cusp around a central black hole, for which we derive a perturbative solution. We stress that the cusp is not a steady-state structure, but rather evolves in amplitude while retaining an approximately ρ \\propto {r}-7/4 density profile. Finally, we apply the method to the nuclear star cluster of the milky Way, and illustrate a possible evolutionary scenario in which a two-component system of lighter main-sequence stars and stellar-mass black holes develops a Bahcall–Wolf cusp in the heavier component and a weaker ρ \\propto {r}-3/2 cusp in the lighter, visible component, over the period of several Gyr. The present-day density profile is consistent with the recently detected mild cusp inside the central parsec, and is weakly sensitive to initial conditions.

  4. Physics and evolution of obscured X-ray sources: a multiwavelength approach

    NASA Astrophysics Data System (ADS)

    Brusa, Marcella

    2004-06-01

    Observations at high energies yield important information on the structure and nature of AGN; when coupled with deep optical and near-infrared (photometric and spectroscopic) follow-up, they provide constraints on the mass of the growing black holes and, therefore, are essential to better understand the nature of the various components of the X-ray background light and can be used as test for the accretion paradigm. Conversely, optical and near-infrared surveys of galaxies are crucial to discriminate between different cosmological scenarios (e.g. hierarchical or monolithic growth of the structures) and, thus, to recover the galaxy evolution path. In this framework, in the first part of the thesis, I will discuss the main results from an extensive program of multiwavelength observations of hard X-ray selected sources serendipitously discovered in XMM-Newton fields over ~1 deg^2 (the HELLAS2XMM survey). With a complementary approach to that of hard X-ray surveys, in order to investigate the link between nuclear activity and the galaxy formation, in the second part of the thesis I will present XMM-Newton and Chandra observations of photometric and spectroscopically selected Extremely Red Objects (EROs).

  5. Novel Approaches to Manipulating Bacterial Pathogen Biofilms: Whole-Systems Design Philosophy and Steering Microbial Evolution.

    PubMed

    Penn, Alexandra S

    2016-01-01

    Understanding and manipulating bacterial biofilms is crucial in medicine, ecology and agriculture and has potential applications in bioproduction, bioremediation and bioenergy. Biofilms often resist standard therapies and the need to develop new means of intervention provides an opportunity to fundamentally rethink our strategies. Conventional approaches to working with biological systems are, for the most part, "brute force", attempting to effect control in an input and effort intensive manner and are often insufficient when dealing with the inherent non-linearity and complexity of living systems. Biological systems, by their very nature, are dynamic, adaptive and resilient and require management tools that interact with dynamic processes rather than inert artefacts. I present an overview of a novel engineering philosophy which aims to exploit rather than fight those properties, and hence provide a more efficient and robust alternative. Based on a combination of evolutionary theory and whole-systems design, its essence is what I will call systems aikido; the basic principle of aikido being to interact with the momentum of an attacker and redirect it with minimal energy expenditure, using the opponent's energy rather than one's own. In more conventional terms, this translates to a philosophy of equilibrium engineering, manipulating systems' own self-organisation and evolution so that the evolutionarily or dynamically stable state corresponds to a function which we require. I illustrate these ideas with a description of a proposed manipulation of environmental conditions to alter the stability of co-operation in the context of Pseudomonas aeruginosa biofilm infection of the cystic fibrosis lung.

  6. A Molecular Approach to the Study of Green Algal Evolution and Early Terrestrial Ecosystems

    NASA Astrophysics Data System (ADS)

    Kodner, R. B.; Summons, R. E.; Knoll, A. H.

    2004-12-01

    The biological nature of pre-land plant terrestrial ecosystems remains an enigmatic chapter of the history of life on earth due to lack of fossil evidence. Molecular phylogenies have shown that Charophycean green algae are the closest relatives of the bryophytes, which have been hypothesized to be the earliest divergent land plants. However, there is no fossil evidence to support this relationship nor is there a reliable fossil record of the earliest land plants. Microfossils representing the earliest land plants appear to have a bryophytes affinity based on limited morphological comparisons but this remains controversial. We are applying a biomolecular approach to study both green algal evolution and its relation to bryophytes using the resistant biopolymer algaenan and phytosterols as biological markers. Algaenan has been shown to have high preservation potential and may be the primary component of enigmatic microfossils assumed to be of algal origin. Algaenan and the green algal sterols, stigmasterol and sitosterol, may also be the precursors of n-alkanes and the hydrocarbon stigmastane that are major components of many Neoproterozoic bitumens. The biological nature and phylogenetic distribution of algaenan is still not well understood. Here we explore the presence and structure of algaenans in terrestrial green algae and bryophytes in relation to their phylogenetic distributions.

  7. High resolution remote sensing image segmentation based on graph theory and fractal net evolution approach

    NASA Astrophysics Data System (ADS)

    Yang, Y.; Li, H. T.; Han, Y. S.; Gu, H. Y.

    2015-06-01

    Image segmentation is the foundation of further object-oriented image analysis, understanding and recognition. It is one of the key technologies in high resolution remote sensing applications. In this paper, a new fast image segmentation algorithm for high resolution remote sensing imagery is proposed, which is based on graph theory and fractal net evolution approach (FNEA). Firstly, an image is modelled as a weighted undirected graph, where nodes correspond to pixels, and edges connect adjacent pixels. An initial object layer can be obtained efficiently from graph-based segmentation, which runs in time nearly linear in the number of image pixels. Then FNEA starts with the initial object layer and a pairwise merge of its neighbour object with the aim to minimize the resulting summed heterogeneity. Furthermore, according to the character of different features in high resolution remote sensing image, three different merging criterions for image objects based on spectral and spatial information are adopted. Finally, compared with the commercial remote sensing software eCognition, the experimental results demonstrate that the efficiency of the algorithm has significantly improved, and the result can maintain good feature boundaries.

  8. Mechanistic approach for nitride fuel evolution and fission product release under irradiation

    NASA Astrophysics Data System (ADS)

    Dolgodvorov, A. P.; Ozrin, V. D.

    2017-01-01

    A model for describing uranium-plutonium mixed nitride fuel pellet burning was developed. Except fission products generating, the model includes impurities of oxygen and carbon. Nitrogen behaviour in nitride fuel was analysed and the nitrogen chemical potential in solid solution with uranium-plutonium nitride was constructed. The chemical program module was tested with the help of thermodynamic equilibrium phase distribution calculation. Results were compared with analogous data in literature, quite good agreement was achieved, especially for uranium sesquinitride, metallic species and some oxides. Calculation of a process of nitride fuel burning was also conducted. Used mechanistic approaches for fission product evolution give the opportunity to find fission gas release fractions and also volumes of intergranular secondary phases. Calculations present that the most massive secondary phases are the oxide and metallic phases. Oxide phase contain approximately 1 % wt of substance over all time of burning with slightly increasing of content. Metallic phase has considerable rising of mass and by the last stage of burning it contains about 0.6 % wt of substance. Intermetallic phase has less increasing rate than metallic phase and include from 0.1 to 0.2 % wt over all time of burning. The highest element fractions of released gaseous fission products correspond to caesium and iodide.

  9. The stones and historic mortars of the Santissima Trinità di Saccargia Romanesque Basilica (Sardinia, Italy): a multi-analytical techniques' approach for the study of their features and provenance

    NASA Astrophysics Data System (ADS)

    Columbu, Stefano; Palomba, Marcella; Sitzia, Fabio

    2015-04-01

    A research project devoted to the study of building materials of the Romanesque churches in Sardinia is currently underway. One of the objectives of the project is to focus the mineral, chemical-physical and petrographic characterisation of the construction materials, as well as the alteration processes. To make a contribution to the preservation of Sardinian monuments, we suggests a new approach to define the different alteration-modes of rocks in function of their local exposure to the weather, studying: 1) the changes of physical properties on surface of stone (porosity, water absorption, micro-morphology) determined through laboratory tests and photogrammetry observations, 2) the alteration phases present on surface (e.g., secondary minerals, soluble salts) determined by mineralogical and chemical investigations. This methodological approach will allow to select appropriate, suitable and compatible materials for replacing the original altered one's, and to plan appropriate strategies devoted to the restoration work. In this paper the geomaterials used for construct the Santissima Trinità di Saccargia Basilica have been investigated. The church, finished in 1116 over the ruins of a pre-existing monastery, is the most important Romanesque site in the island. Have been studied the chemical alterations and physical decay of two different stones, as volcanic rocks (i.e., basalt) and sedimentary rocks (i.e., limestones) used in bichromy on the Basilica. The main purpose is to observe the different modes of alteration of these two lithologies with different petrophysical characteristics, placed in the same conditions of weathering. Macroscopic evidences show that the limestones, while not having a high porosity, they were strongly affected by alteration phenomena, especially in the outer surface of ashlars, due to the solubilization of the carbonate matrix. The basalt rocks show no obvious physical alteration. Occasionally, in some ashlar located in basal zone of the

  10. Implementing Provenance Collection in a Legacy Data Product Generation System

    NASA Astrophysics Data System (ADS)

    Conover, H.; Ramachandran, R.; Kulkarni, A.; Beaumont, B.; McEniry, M.; Graves, S. J.; Goodman, H.

    2012-12-01

    NASA has been collecting, storing, archiving and distributing vast amounts of Earth science data derived from satellite observations for several decades now. The raw data collected from the different sensors undergoes many different transformations before it is distributed to the science community as climate-research-quality data products. These data transformations include calibration, geolocation, and conversion of the instrument counts into meaningful geophysical parameters, and may include reprojection and/or spatial and temporal averaging as well. In the case of many Earth science data systems, the science algorithms and any ancillary data files used for these transformations are delivered as a "black box" to be integrated into the data system's processing framework. In contrast to an experimental workflow that may vary with each iteration, such systems use consistent, well-engineered processes to apply the same science algorithm to each well-defined set of inputs in order to create standard data products. Even so, variability is inevitably introduced. There may be changes made to the algorithms, different ancillary datasets may be used, underlying hardware and software may get upgraded, etc. Furthermore, late-arriving input data, operator error, or other processing anomalies may necessitate regeneration and replacement of a particular set of data files and any downstream products. These variations need to be captured, documented and made accessible to the scientific community so they can be properly accounted for in analyses. This presentation describes an approach to provenance capture, storage and dissemination implemented at the NASA Science Investigator-led Processing System (SIPS) for the AMSR-E (Advanced Microwave Scanning Radiometer - Earth Observing System) instrument. Key considerations in adding provenance capabilities to this legacy data system include: (1) granularity of provenance information captured, (2) additional context information needed

  11. Geoscience Australia's enterprise application of provenance standards and systems for physical and digital objects

    NASA Astrophysics Data System (ADS)

    Kemp, C.; Car, N. J.

    2016-12-01

    Geoscience Australia (GA) is a government agency that provides advice on the geology and geography of Australia. It is the custodian of many digital and physical datasets of national significance. For several years GA has been implementing an enterprise approach to provenance management. The goal for transparency and reproducibility for all of GA's information products; an objective supported at the highest levels and explicitly listed in its Science Principles. Currently GA is finalising a set of enterprise tools to assist with provenance management and rolling out provenance reporting to different science areas. GA has adopted or developed: provenance storage systems; provenance collection code libraries (for use within automated systems); reporting interfaces (for manual use) and provenance representation capability within legacy catalogues. Using these tools within GA's science areas involves modelling the scenario first and then assessing whether the area has its data managed in such a way that allows links to data within provenance to be resolvable in perpetuity. We don't just want to represent provenance (demonstrating transparency), we want to access data via provenance (allowing for reproducibility). A subtask of GA's current work is to link physical samples to information products (datasets, reports, papers) by uniquely and persistently identifying samples using International GeoSample Numbers and then modelling automated & manual laboratory workflows and associated tasks, such as data delivery to corporate databases using the W3C's PROV Data Model. We use PROV DM throughout our modelling and systems. We are also moving to deliver all sample and digital dataset metadata across the agency in the Web Ontology Language (OWL) and exposing it via Linked Data methods in order to allow Semantic Web querying of multiple systems allowing provenance to be leveraged using as a single method and query point. Through the Science First Transformation Program GA is

  12. Querying Provenance Information: Basic Notions and an Example from Paleoclimate Reconstruction

    NASA Astrophysics Data System (ADS)

    Stodden, V.; Ludaescher, B.; Bocinsky, K.; Kintigh, K.; Kohler, T.; McPhillips, T.; Rush, J.

    2016-12-01

    Computational models are used to reconstruct and explain past environments and to predict likely future environments. For example, Bocinsky and Kohler have performed a 2,000-year reconstruction of the rain-fed maize agricultural niche in the US Southwest. The resulting academic publications not only contain traditional method descriptions, figures, etc. but also links to code and data for basic transparency and reproducibility. Examples include ResearchCompendia.org and the new project "Merging Science and Cyberinfrastructure Pathways: The Whole Tale." Provenance information provides a further critical element to understand a published study and to possibly extend or challenge the findings of the original authors. We present different notions and uses of provenance information using a computational archaeology example, e.g., the common use of "provenance for others" (for transparency and reproducibility), but also the more elusive but equally important use of "provenance for self". To this end, we distinguish prospective provenance (a.k.a. workflow) from retrospective provenance (a.k.a. data lineage) and show how combinations of both forms of provenance can be used to answer different kinds of important questions about a workflow and its execution. Since many workflows are developed using scripting or special purpose languages such as Python and R, we employ an approach and toolkit called YesWorkflow that brings provenance modeling, capture, and querying into the realm of scripting. YesWorkflow employs the basic W3C PROV standard, as well as the ProvONE extension for sharing and exchanging retrospective and prospective provenance information, respectively. Finally, we argue that the utility of provenance information should be maximized by developing different kinds provenance questions and queries during the early phases of computational workflow design and implementation.

  13. Structure and Evolution of Mediterranean Forest Research: A Science Mapping Approach

    PubMed Central

    Nardi, Pierfrancesco; Di Matteo, Giovanni; Palahi, Marc; Scarascia Mugnozza, Giuseppe

    2016-01-01

    This study aims at conducting the first science mapping analysis of the Mediterranean forest research in order to elucidate its research structure and evolution. We applied a science mapping approach based on co-term and citation analyses to a set of scientific publications retrieved from the Elsevier’s Scopus database over the period 1980–2014. The Scopus search retrieved 2,698 research papers and reviews published by 159 peer-reviewed journals. The total number of publications was around 1% (N = 17) during the period 1980–1989 and they reached 3% (N = 69) in the time slice 1990–1994. Since 1995, the number of publications increased exponentially, thus reaching 55% (N = 1,476) during the period 2010–2014. Within the thirty-four years considered, the retrieved publications were published by 88 countries. Among them, Spain was the most productive country, publishing 44% (N = 1,178) of total publications followed by Italy (18%, N = 482) and France (12%, N = 336). These countries also host the ten most productive scientific institutions in terms of number of publications in Mediterranean forest subjects. Forest Ecology and Management and Annals of Forest Science were the most active journals in publishing research in Mediterranean forest. During the period 1980–1994, the research topics were poorly characterized, but they become better defined during the time slice 1995–1999. Since 2000s, the clusters become well defined by research topics. Current status of Mediterranean forest research (20092014) was represented by four clusters, in which different research topics such as biodiversity and conservation, land-use and degradation, climate change effects on ecophysiological responses and soil were identified. Basic research in Mediterranean forest ecosystems is mainly conducted by ecophysiological research. Applied research was mainly represented by land-use and degradation, biodiversity and conservation and fire research topics. The citation analyses

  14. Structure and Evolution of Mediterranean Forest Research: A Science Mapping Approach.

    PubMed

    Nardi, Pierfrancesco; Di Matteo, Giovanni; Palahi, Marc; Scarascia Mugnozza, Giuseppe

    2016-01-01

    This study aims at conducting the first science mapping analysis of the Mediterranean forest research in order to elucidate its research structure and evolution. We applied a science mapping approach based on co-term and citation analyses to a set of scientific publications retrieved from the Elsevier's Scopus database over the period 1980-2014. The Scopus search retrieved 2,698 research papers and reviews published by 159 peer-reviewed journals. The total number of publications was around 1% (N = 17) during the period 1980-1989 and they reached 3% (N = 69) in the time slice 1990-1994. Since 1995, the number of publications increased exponentially, thus reaching 55% (N = 1,476) during the period 2010-2014. Within the thirty-four years considered, the retrieved publications were published by 88 countries. Among them, Spain was the most productive country, publishing 44% (N = 1,178) of total publications followed by Italy (18%, N = 482) and France (12%, N = 336). These countries also host the ten most productive scientific institutions in terms of number of publications in Mediterranean forest subjects. Forest Ecology and Management and Annals of Forest Science were the most active journals in publishing research in Mediterranean forest. During the period 1980-1994, the research topics were poorly characterized, but they become better defined during the time slice 1995-1999. Since 2000s, the clusters become well defined by research topics. Current status of Mediterranean forest research (20092014) was represented by four clusters, in which different research topics such as biodiversity and conservation, land-use and degradation, climate change effects on ecophysiological responses and soil were identified. Basic research in Mediterranean forest ecosystems is mainly conducted by ecophysiological research. Applied research was mainly represented by land-use and degradation, biodiversity and conservation and fire research topics. The citation analyses revealed highly

  15. Multi-scale Science: Supporting Emerging Practice with Semantically Derived Provenance

    SciTech Connect

    Myers, James D.; Pancerella, Carmen M.; Lansing, Carina S.; Schuchardt, Karen L.; Didier, Brett T.; Ashish, N., Goble, C

    2003-10-20

    Scientific progress is becoming increasingly dependent of our ability to study phenomena at multiple scales and from multiple perspectives. The ability to recontextualize third party data within the semantic and syntactic framework of a given research project is increasingly seen as a primary barrier in multi-scale science. Within the Collaboratory for Multiscale Chemical Science (CMCS) project, we are developing a general-purpose informatics-based approach that emphasizes ''on-demand'' metadata creation, configurable data translations, and semantic mapping to support the rapidly increasing and continually evolving requirements for managing data, metadata, and data relationships in such projects. A concrete example of this approach is the design of the CMCS provenance subsystem. The concept of provenance varies across communities, and multiple independent applications contribute to and use provenance. In CMCS, we have developed generic tools for viewing provenance relationships and for using them to, for example, scope notifications and searches. These tools rely on a configurable concept of provenance defined in terms of other relationships. The result is a very flexible mechanism capable of tracking data provenance across many disciplines and supporting multiple uses of provenance information.

  16. Comparative genomic and phylogenetic approaches to characterize the role of genetic recombination in mycobacterial evolution.

    PubMed

    Smith, Silvia E; Showers-Corneli, Patrice; Dardenne, Caitlin N; Harpending, Henry H; Martin, Darren P; Beiko, Robert G

    2012-01-01

    The genus Mycobacterium encompasses over one hundred named species of environmental and pathogenic organisms, including the causative agents of devastating human diseases such as tuberculosis and leprosy. The success of these human pathogens is due in part to their ability to rapidly adapt to their changing environment and host. Recombination is the fastest way for bacterial genomes to acquire genetic material, but conflicting results about the extent of recombination in the genus Mycobacterium have been reported. We examined a data set comprising 18 distinct strains from 13 named species for evidence of recombination. Genomic regions common to all strains (accounting for 10% to 22% of the full genomes of all examined species) were aligned and concatenated in the chromosomal order of one mycobacterial reference species. The concatenated sequence was screened for evidence of recombination using a variety of statistical methods, with each proposed event evaluated by comparing maximum-likelihood phylogenies of the recombinant section with the non-recombinant portion of the dataset. Incongruent phylogenies were identified by comparing the site-wise log-likelihoods of each tree using multiple tests. We also used a phylogenomic approach to identify genes that may have been acquired through horizontal transfer from non-mycobacterial sources. The most frequent associated lineages (and potential gene transfer partners) in the Mycobacterium lineage-restricted gene trees are other members of suborder Corynebacterinae, but more-distant partners were identified as well. In two examined cases of potentially frequent and habitat-directed transfer (M. abscessus to Segniliparus and M. smegmatis to Streptomyces), observed sequence distances were small and consistent with a hypothesis of transfer, while in a third case (M. vanbaalenii to Streptomyces) distances were larger. The analyses described here indicate that whereas evidence of recombination in core regions within the genus is

  17. Phenotypic evolution of human craniofacial morphology after admixture: a geometric morphometrics approach.

    PubMed

    Martínez-Abadías, Neus; González-José, Rolando; González-Martín, Antonio; Van der Molen, Silvina; Talavera, Arturo; Hernández, Patricia; Hernández, Miquel

    2006-03-01

    An evolutionary, diachronic approach to the phenotypic craniofacial pattern arisen in a human population after high levels of admixture and gene flow was achieved by means of geometric morphometrics. Admixture has long been studied after molecular data. Nevertheless, few efforts have been made to explain the morphological outcome in human craniofacial samples. The Spanish-Amerindian contact can be considered a good scenario for such an analysis. Here we present a comparative analysis of craniofacial shape changes observed between two putative ancestor groups, Spanish and precontact Aztecs, and two diachronic admixed groups, corresponding to early and late colonial periods from the Mexico's Central Valley. Quantitative shape comparisons of Amerindian, Spanish, and admixed groups were used to test the expectations of quantitative genetics for admixture events. In its simplest form, this prediction states that an admixed group will present phenotypic values falling between those of both parental groups. Results show that, in general terms, although the human skull is a complex, integrated structure, the craniofacial morphology observed fits the theoretical expectations of quantitative genetics. Thus, it is predictive of population structure and history. In fact, results obtained after the craniofacial analysis are in accordance with previous molecular and historical interpretations, providing evidence that admixture is a main microevolutionary agent influencing modern Mexican gene pool. However, expectations are not straightforward when moderate shape changes are considered. Deviations detected at localized structures, such as the upper and lower face, highlight the evolution of a craniofacial pattern exclusively inherent to the admixed groups, indicating that quantitative characters might respond to admixture in a complicated, nondirectional way. (c) 2005 Wiley-Liss, Inc.

  18. From static to dynamic provenance analysis-Sedimentary petrology upgraded

    NASA Astrophysics Data System (ADS)

    Garzanti, Eduardo

    2016-05-01

    The classical approach to sandstone petrology, established in the golden years of plate tectonics and based on the axiom that "detrital modes of sandstone suites primarily reflect the different tectonic settings of provenance terranes," has represented a benchmark for decades. The composition of sand and sandstone, however, simply provides us with a distorted image of the lithological structure of source terranes and gives us little clue whether they are allochthonous or autochthonous, orogenic or anorogenic, young or old. What we may able to see reflected in detrital modes is the nature of source terranes (continental, arc, oceanic) and the tectonostratigraphic level reached by erosion in space and time. The proposed new approach to the petrology of sand and sandstone (1) starts with a simple classification scheme circulated since the 1960s, which is purely descriptive, objective, and free of ill-defined ambiguous terms and (2) focuses on the nature and tectonostratigraphic level of source terranes. Further steps are essential to upgrade provenance analysis. Acquiring knowledge from modern settings is needed to properly identify and wherever possible correct for physical and chemical processes introducing environmental and diagenetic bias and thus address nature's complexities with adequate conceptual tools. Equally important is the integration of multiple techniques, ideally including bulk-sediment, multi-mineral, and single-mineral methods. Bulk-sediment petrography remains the fundamental approach that allows us to capture the most precious source of direct provenance information, represented by the mineralogy and texture of rock fragments. Bulk-sediment geochemistry, applicable also to silt and clay carried in suspension, is a superior method to check for hydraulic sorting, chemical weathering, and fertility of detrital minerals in different sediment sources. Detrital geochronology, thermochronology, and isotope geochemistry reveal the diverse time structures

  19. DNA DSB measurements and modelling approaches based on gamma-H2AX foci time evolution

    NASA Astrophysics Data System (ADS)

    Esposito, Giuseppe; Campa, Alessandro; Antonelli, Francesca; Mariotti, Luca; Belli, Mauro; Giardullo, Paola; Simone, Giustina; Antonella Tabocchini, Maria; Ottolenghi, Andrea

    DNA double strand breaks (DSBs) induced by ionising radiation are considered the main dam-age related to the deleterious consequences in the cells. Unrepaired or mis-repaired DSBs can cause mutations or loss of chromosome regions which can eventually lead to cell death or neo-plastic transformation. Quantification of the number and complexity of DSBs induced by low doses of radiation remains a complex problem. About ten years ago Rogakou et al. proposed an immunofluorescent technique able to detect even a single DSB per cell. This approach is based on the serine 139 phosphorylation of many molecules (up to 2000) of histone H2AX (γg-H2AX) following the induction of a DSB in the DNA. DSB can be visualized as foci by immunofluores-cence by using phospho-specific antibodies, so that enumeration of foci can be used to measure DSB induction and processing. It is still not completely clear how γ-H2AX dephosphorylation takes place; however it has been related with DSB repair, in particular with the efficiency of DSB repair. In this work we analyse the H2AX phosphorylation-dephosphorylation kinetics after irradiation of primary human fibroblasts (AG1522 cell line) with radiation of differing quality, that is γ-rays and α-particles (125 keV/µm), with the aim of comparing the time evolution of γ-H2AX foci. Our results show that, after a dose of 0.5 Gy, both γ-rays and α-particles induce the maximum number of γ-H2AX foci within 30 minutes from irradiation, that this number depends on the radiation type and is consistent with the number of track traversal in α-irradiated nuclei, that the dephosphorylation kinetics are very different, being the α-induced foci rate of disappearence slower than that of γ-induced foci. In this work a modellistic approach to estimate the number of DSB induced by γ-rays detectable by using the γ-H2AX assay is presented. The competing processes of appearance and disappearance of visible foci will be modeled taking into account the

  20. The Influence of Ecohydrologic Dynamics on Landscape Evolution: a Stochastic Approach

    NASA Astrophysics Data System (ADS)

    Deal, E.; Favre Pugin, A. C.; Botter, G.; Braun, J.

    2015-12-01

    The stream power incision model (SPIM) has a long history of use in modeling landscape evolution. Despite simplifications made in its formulation, it has emerged over the last 30 years as a powerful tool to interpret the histories of tectonically active landscapes and to understand how they evolve over millions of years. However, intense interest in the relationship between climate and erosion has revealed that the standard SPIM has some significant shortcomings. First, it fails to account for the role of erosion thresholds, which have been shown to be important and require an approach that addresses the variable or stochastic nature of erosion processes and drivers. Second, the standard SPIM does not address the influence of catchment hydrology, which modulates the incoming precipitation to produce discharge that in turn drives fluvial erosion. Hydrological processes alter in particular the frequency and magnitude of extreme events which are highly relevant for landscape erosion. To address these weaknesses we introduce a new analytical stochastic-threshold formulation of the stream power incision model that is driven by probabilistic hydrology. The hydrological model incorporates a stochastic description of soil moisture which takes into account the random nature of the rainfall forcing and the dynamics of the soil layer. The soil layer dynamics include infiltration and evapotranspiration which are both modelled as being dependent on the time varying soil moisture level (state dependent). The stochastic approach allows us to integrate these effects over long periods of time to understand their influence on the longterm average erosion rate without the need to explicitly model processes on the short timescales where they are relevant. Our model can therefore represent the role of soil properties (thickness, porosity) and vegetation (through evapotranspiration rates) in the longterm catchment-wide water balance, and in turn the longterm erosion rate. We identify

  1. An event-driven approach for studying gene block evolution in bacteria.

    PubMed

    Ream, David C; Bankapur, Asma R; Friedberg, Iddo

    2015-07-01

    Gene blocks are genes co-located on the chromosome. In many cases, gene blocks are conserved between bacterial species, sometimes as operons, when genes are co-transcribed. The conservation is rarely absolute: gene loss, gain, duplication, block splitting and block fusion are frequently observed. An open question in bacterial molecular evolution is that of the formation and breakup of gene blocks, for which several models have been proposed. These models, however, are not generally applicable to all types of gene blocks, and consequently cannot be used to broadly compare and study gene block evolution. To address this problem, we introduce an event-based method for tracking gene block evolution in bacteria. We show here that the evolution of gene blocks in proteobacteria can be described by a small set of events. Those include the insertion of genes into, or the splitting of genes out of a gene block, gene loss, and gene duplication. We show how the event-based method of gene block evolution allows us to determine the evolutionary rateand may be used to trace the ancestral states of their formation. We conclude that the event-based method can be used to help us understand the formation of these important bacterial genomic structures. The software is available under GPLv3 license on http://github.com/reamdc1/gene_block_evolution.git. Supplementary online material: http://iddo-friedberg.net/operon-evolution © The Author 2015. Published by Oxford University Press.

  2. A Bayesian Approach to the Evolution of Metabolic Networks on a Phylogeny

    PubMed Central

    Mithani, Aziz; Preston, Gail M.; Hein, Jotun

    2010-01-01

    The availability of genomes of many closely related bacteria with diverse metabolic capabilities offers the possibility of tracing metabolic evolution on a phylogeny relating the genomes to understand the evolutionary processes and constraints that affect the evolution of metabolic networks. Using simple (independent loss/gain of reactions) or complex (incorporating dependencies among reactions) stochastic models of metabolic evolution, it is possible to study how metabolic networks evolve over time. Here, we describe a model that takes the reaction neighborhood into account when modeling metabolic evolution. The model also allows estimation of the strength of the neighborhood effect during the course of evolution. We present Gibbs samplers for sampling networks at the internal node of a phylogeny and for estimating the parameters of evolution over a phylogeny without exploring the whole search space by iteratively sampling from the conditional distributions of the internal networks and parameters. The samplers are used to estimate the parameters of evolution of metabolic networks of bacteria in the genus Pseudomonas and to infer the metabolic networks of the ancestral pseudomonads. The results suggest that pathway maps that are conserved across the Pseudomonas phylogeny have a stronger neighborhood structure than those which have a variable distribution of reactions across the phylogeny, and that some Pseudomonas lineages are going through genome reduction resulting in the loss of a number of reactions from their metabolic networks. PMID:20700467

  3. A Bayesian approach to the evolution of metabolic networks on a phylogeny.

    PubMed

    Mithani, Aziz; Preston, Gail M; Hein, Jotun

    2010-08-05

    The availability of genomes of many closely related bacteria with diverse metabolic capabilities offers the possibility of tracing metabolic evolution on a phylogeny relating the genomes to understand the evolutionary processes and constraints that affect the evolution of metabolic networks. Using simple (independent loss/gain of reactions) or complex (incorporating dependencies among reactions) stochastic models of metabolic evolution, it is possible to study how metabolic networks evolve over time. Here, we describe a model that takes the reaction neighborhood into account when modeling metabolic evolution. The model also allows estimation of the strength of the neighborhood effect during the course of evolution. We present Gibbs samplers for sampling networks at the internal node of a phylogeny and for estimating the parameters of evolution over a phylogeny without exploring the whole search space by iteratively sampling from the conditional distributions of the internal networks and parameters. The samplers are used to estimate the parameters of evolution of metabolic networks of bacteria in the genus Pseudomonas and to infer the metabolic networks of the ancestral pseudomonads. The results suggest that pathway maps that are conserved across the Pseudomonas phylogeny have a stronger neighborhood structure than those which have a variable distribution of reactions across the phylogeny, and that some Pseudomonas lineages are going through genome reduction resulting in the loss of a number of reactions from their metabolic networks.

  4. Actualistic Ophiolite Provenance: The Cyprus Case.

    PubMed

    Garzanti; Andò; Scutellà

    2000-03-01

    The island of Cyprus represents an excellent site to assess quantitatively petrologic clastic response to actively obducting oceanic sources in order to define an actualistic reference for ophiolite provenance, in terms of framework composition and heavy mineral suites. An improved methodology, an extension of the classic ternary QFL logic to include a wider spectrum of key indexes and ratios, provides an accurate synthesis of modal data and allows differentiation of three main petrographic provinces and at least seven subprovinces. Diagnostic signatures of detritus from various levels of an oceanic lithospheric source, and criteria for distinguishing provenance from suprasubduction versus mid-oceanic ophiolites are also outlined. Modern sands derived from the Troodos Ophiolite contain variable proportions of largely pelagic carbonate to chert, boninite to basalt, diabase to metabasite, plagiogranite to gabbroic, and cumulate grains supplied from progressively deeper-seated levels of the multilayered oceanic crust. Dense minerals are mainly clinopyroxenes (diopside), prevailing over orthopyroxenes (enstatite, hypersthene, clinoenstatite), hornblende, tremolite/actinolite, and epidote. Where serpentinized mantle harzburgites have been unroofed, detritus is markedly enriched in cellular serpentinite grains and enstatite, with still negligible olivine and spinel. Sedimentaclastic sands dominated by chert (Mamonia Province) or carbonate grains (Kyrenia Province) are deposited along the southern and northern shores of the island, respectively. Compositions of Cyprus sands are virtually unaffected by climatic, sedimentary, or anthropic processes; recycling of sandstones from foreign sources is a major process only in the Karpaz Peninsula. Petrographic analysis also provides an independent mean to identify prevalent directions of longshore sand transport.

  5. RAPD profile variation amongst provenances of neem.

    PubMed

    Farooqui, N; Ranade, S A; Sane, P V

    1998-08-01

    Neem, described as a tree for solving global problems, is an evergreen, long-lived, multipurpose tree of the tropics with a wide distribution range in India. It is believed to be highly cross-pollinated. Inter-provenance variations have been reported in neem in case of morphological and physiological characters. Yet no reports about the genetic determinism for these variations are available to our knowledge. In order to have an idea about the extent and/or nature of genetic (DNA) variation in neem, the powerful RAPD technique has been employed. RAPD profiles of 34 accessions/provenances of neem were generated with 200 decamer random primers, of which the data from the 49 primers, that resulted in reproducible amplification products, were considered for analysis. Based on the presence/absence of bands, a similarity matrix was computed. Dendrogram was constructed by UPGMA method based on the pairwise similarities amongst the RAPD profiles. The similarities in RAPD profiles amongst the different DNAs was more than that expected due to the cross-pollinated nature of the tree and furthermore, these more-than-expected similarities were not due to random chance. These results suggest that neem may have a narrow genetic base.

  6. Provenance of sediments from Sumatra, Indonesia

    NASA Astrophysics Data System (ADS)

    Liebermann, Christof; Hall, Robert; Gough, Amy

    2017-04-01

    The island of Sumatra is situated at the south-western margin of the Indonesian archipelago. Sumatra is affected by active continental margin volcanism along the Sunda Trench, west of Sumatra as a result of active northeast subduction of the Indian plate under the Eurasian plate. Exposures of the Palaeozoic meta-sedimentary basement are mainly limited in extent to the northeast-southwest trending Barisan Mountain chain. The younger Cenozoic rocks are widespread across Sumatra, but can be grouped into structurally subdivided 'fore-arc', 'intramontane', and 'back-arc' basins. However, the formation of the basins pre-dates the current magmatic arc, thus a classical arc-related generation model can not be applied. The Cenozoic formations are well studied due to hydrocarbon enrichment, but little is known about their provenance history. A comprehensive sedimentary provenance study of the Cenozoic formations can aid in the wider understanding of Sumatran petroleum plays, can contribute to palaeographic reconstruction of western SE Asia, and might help to simplify the overall stratigraphy of Sumatra. This work represents a multi-proxy provenance study of sedimentary rocks from the main Cenozoic basins of Sumatra, alongside sediment from present-day river systems. The project refines the provenance in two ways: first, by studying the heavy mineral assemblages of the targeted formations, and secondly, by U-Pb detrital zircon dating using LA-ICP-MS to identify the age-range of the potential sediment sources. Preliminary U-Pb zircon age-data of >1500 concordant grains (10% discordant cut-off), heavy mineral compositions, and thin section analysis from two fieldwork seasons indicate a mixed provenance model, with a proximal igneous source, and mature basement rocks. An increase of the proximal signature in Lower-Miocene strata indicated by the occurrence of unstable heavy mineral phases such as apatite, and clinopyroxene suggests a major change of the source at the Oligocene

  7. The Open Provenance Model core specification (v1.1)

    SciTech Connect

    Moreau, Luc; Clifford, Ben; Freire, Juliana; Futrelle, Joe; Gil, Yolanda; Groth, Paul; Kwasnikowska, Natalia; Miles, Simon; Missier, Paolo; Myers, Jim; Plale, Beth; Simmhan, Yogesh; Stephan, Eric; den Bussche, Jan Van

    2011-06-01

    The Open Provenance Model is a model of provenance that is designed to meet the following requirements: (1) To allow provenance information to be ex- changed between systems, by means of a compatibility layer based on a shared provenance model. (2) To allow developers to build and share tools that operate on such a provenance model. (3) To deFIne provenance in a precise, technology- agnostic manner. (4) To support a digital representation of provenance for any “thing, whether produced by computer systems or not. (5) To allow multiple levels of description to coexist. (6) To deFIne a core set of rules that identify the valid inferences that can be made on provenance representation. This docu- ment contains the speciFIcation of the Open Provenance Model (v1.1) resulting from a commChallenge.

  8. Mutational analysis employing a phylogenetic mass tree approach in a study of the evolution of the influenza virus.

    PubMed

    Akand, Elma H; Downard, Kevin M

    2017-07-01

    A mass based approach has been advanced to enable mutations associated with the evolution of proteins to be both charted and interrogated using phylogenetic trees built solely from the masses of peptides generated upon protein proteolysis. The modified MassTree algorithm identifies and displays all such mutations and calculates the frequency of a particular mutation across a tree. Its significance in terms of its position(s) on the tree is scored, where mutations that occur toward the basis of the tree are weighted more favourably. A comparison with data generated from a conventional sequence based tree demonstrates the reliability of mutational analysis employing this approach. Although illustrated for the study of the evolution of influenza hemagglutinin in this work, the approach has far broader applicability and can be applied to investigate the evolution of any organism. In the case of simple microorganisms this can be achieved even without the separation of component proteins. Given the central role that mass map or fingerprint data plays in protein identification in proteomics, this work demonstrates that such data can be successfully employed in a phylogenetics strategy to better understand and predict future evolutionary trends from the perspective of functional proteins expressed by the organism. Copyright © 2017. Published by Elsevier Inc.

  9. Provenance and recycling of Arabian desert sand

    NASA Astrophysics Data System (ADS)

    Garzanti, Eduardo; Vermeesch, Pieter; Andò, Sergio; Vezzoli, Giovanni; Valagussa, Manuel; Allen, Kate; Kadi, Khalid A.; Al-Juboury, Ali I. A.

    2013-05-01

    This study seeks to determine the ultimate origin of aeolian sand in Arabian deserts by high-resolution petrographic and heavy-mineral techniques combined with zircon U-Pb geochronology. Point-counting is used here as the sole method by which unbiased volume percentages of heavy minerals can be obtained. A comprehensive analysis of river and wadi sands from the Red Sea to the Bitlis-Zagros orogen allowed us to characterize all potential sediment sources, and thus to quantitatively constrain provenance of Arabian dune fields. Two main types of aeolian sand can be distinguished. Quartzose sands with very poor heavy-mineral suites including zircon occupy most of the region comprising the Great Nafud and Rub' al-Khali Sand Seas, and are largely recycled from thick Lower Palaeozoic quartzarenites with very minor first-cycle contributions from Precambrian basement, Mesozoic carbonate rocks, or Neogene basalts. Instead, carbonaticlastic sands with richer lithic and heavy-mineral populations characterize coastal dunes bordering the Arabian Gulf from the Jafurah Sand Sea of Saudi Arabia to the United Arab Emirates. The similarity with detritus carried by the axial Tigris-Euphrates system and by transverse rivers draining carbonate rocks of the Zagros indicates that Arabian coastal dunes largely consist of far-travelled sand, deposited on the exposed floor of the Gulf during Pleistocene lowstands and blown inland by dominant Shamal northerly winds. A dataset of detrital zircon U-Pb ages measured on twelve dune samples and two Lower Palaeozoic sandstones yielded fourteen identical age spectra. The age distributions all show a major Neoproterozoic peak corresponding to the Pan-African magmatic and tectonic events by which the Arabian Shield was assembled, with minor late Palaeoproterozoic and Neoarchean peaks. A similar U-Pb signature characterizes also Jafurah dune sands, suggesting that zircons are dominantly derived from interior Arabia, possibly deflated from the Wadi al

  10. Unpacking boxes: Integration of molecular, morphological and ecological approaches reveals extensive patterns of reticulate evolution in box eucalypts.

    PubMed

    Flores-Rentería, Lluvia; Rymer, Paul D; Riegler, Markus

    2017-03-01

    Reticulate evolution by hybridization is considered a common process shaping the evolution of many plant species, however, reticulation could also be due to incomplete lineage sorting in biodiverse systems. For our study we selected a group of closely related plant taxa with contrasting yet partially overlapping geographic distributions and different population sizes, to distinguish between reticulated patterns due to hybridization and incomplete lineage sorting. We predicted that sympatric or proximal populations of different species are more likely to have gene flow than geographically distant populations of the same widespread species. Furthermore, for species with restricted distributions, and therefore, small effective population sizes, we predicted complete lineage sorting. Eastern grey box eucalypt species (Eucalyptus supraspecies Moluccanae) provide an ideal system to explore patterns of reticulate evolution. They form a diverse, recently evolved and phylogenetically undefined group within Eucalyptus, with overlapping morphological features and hybridization in nature. We used a multi-faceted approach, combining analyses of chloroplast and nuclear DNA, as well as seedling morphology, flowering time and ecological spatial differentiation in order to test for species delimitation and reticulate evolution in this group. The multiple layers of results were consistent and suggested a lack of monophyly at different hierarchical levels due to multidirectional gene flow among several species, challenging species delimitation. Chloroplast and nuclear haplotypes were shared among different species in geographic proximity, consistent with hybridization zones. Furthermore, species with restricted distributions appeared better resolved due to lineage sorting in the absence of hybridization. We conclude that a combination of molecular, morphological and ecological approaches is required to disentangle patterns of reticulate evolution in the box eucalypts. Published by

  11. An event-driven approach for studying gene block evolution in bacteria

    PubMed Central

    Ream, David C.; Bankapur, Asma R.; Friedberg, Iddo

    2015-01-01

    Motivation: Gene blocks are genes co-located on the chromosome. In many cases, gene blocks are conserved between bacterial species, sometimes as operons, when genes are co-transcribed. The conservation is rarely absolute: gene loss, gain, duplication, block splitting and block fusion are frequently observed. An open question in bacterial molecular evolution is that of the formation and breakup of gene blocks, for which several models have been proposed. These models, however, are not generally applicable to all types of gene blocks, and consequently cannot be used to broadly compare and study gene block evolution. To address this problem, we introduce an event-based method for tracking gene block evolution in bacteria. Results: We show here that the evolution of gene blocks in proteobacteria can be described by a small set of events. Those include the insertion of genes into, or the splitting of genes out of a gene block, gene loss, and gene duplication. We show how the event-based method of gene block evolution allows us to determine the evolutionary rateand may be used to trace the ancestral states of their formation. We conclude that the event-based method can be used to help us understand the formation of these important bacterial genomic structures. Availability and implementation: The software is available under GPLv3 license on http://github.com/reamdc1/gene_block_evolution.git. Supplementary online material: http://iddo-friedberg.net/operon-evolution Contact: i.friedberg@miamioh.edu Supplementary information: Supplementary data are available at Bioinformatics online. PMID:25717195

  12. Standardized wellheads proven economical for subsea operations

    SciTech Connect

    Moreira, C.C.; Silva Paulo, C.A. )

    1994-05-02

    A standardization program for subsea wellheads and completion equipment has made development of Brazil's offshore fields more economical and efficient. The resulting operational flexibility associated with the use of field-proven equipment and procedures saves rig time and can reduce production loss during workovers. Additionally, investments can be rationalized economically by installing part of the completion equipment at the end of the drilling job and then delaying purchase and installation of the christmas tree and the flow lines until installation of the production platform. Savings are also realized from the reduction in the number of spare parts and tools. Moreover, the savings related to improved operations exceed considerably those from equipment acquisition and storage. Thus, the greatest benefit is the operational flexibility. The paper discusses initial standards, the subsea programs, philosophy, implementation, diver-assisted trees, diverless trees, and economics.

  13. Titian: Data Provenance Support in Spark

    PubMed Central

    Interlandi, Matteo; Shah, Kshitij; Tetali, Sai Deep; Gulzar, Muhammad Ali; Yoo, Seunghyun; Kim, Miryung; Millstein, Todd; Condie, Tyson

    2015-01-01

    Debugging data processing logic in Data-Intensive Scalable Computing (DISC) systems is a difficult and time consuming effort. Today’s DISC systems offer very little tooling for debugging programs, and as a result programmers spend countless hours collecting evidence (e.g., from log files) and performing trial and error debugging. To aid this effort, we built Titian, a library that enables data provenance—tracking data through transformations—in Apache Spark. Data scientists using the Titian Spark extension will be able to quickly identify the input data at the root cause of a potential bug or outlier result. Titian is built directly into the Spark platform and offers data provenance support at interactive speeds—orders-of-magnitude faster than alternative solutions—while minimally impacting Spark job performance; observed overheads for capturing data lineage rarely exceed 30% above the baseline job execution time. PMID:26726305

  14. Modeling the Provenance of Crater Ejecta

    NASA Astrophysics Data System (ADS)

    Huang, Ya-Huei; Minton, David A.

    2014-11-01

    The cratering history of the Moon provides a way to study the violent early history of our early solar system. Nevertheless, we are still limited in our ability to interpret the lunar cratering history because the complex process of generation and subsequent transportation and destruction of impact melt products is relatively poorly understood. Here we describe a preliminary model for the transport of datable impact melt products by craters over Gy timescales on the lunar surface. We use a numerical model based on the Maxwell Z-model to model the exhumation and transport of ejecta material from within the excavation flow of a transient crater. We describe our algorithm for rapidly estimating the provenance of ejecta material for use in a Monte Carlo cratering code capable of simulating lunar cratering over Gy timescales.

  15. Biopsy-proven childhood glomerulonephritis in Johor.

    PubMed

    Khoo, J J; Pee, S; Thevarajah, B; Yap, Y C; Chin, C K

    2004-06-01

    There has been no published study of biopsy-proven childhood glomerulonephritis in Malaysia. To determine the pattern of childhood glomerulonephritis in Johor, Malaysia from a histopathological perspective and the various indications used for renal biopsy in children. Retrospective study was done of all renal biopsies from children under 16 years of age, received in Sultanah Aminah Hospital, Johor between 1994 and 2001. The histopathological findings were reviewed to determine the pattern of biopsy-proven glomerulonephritis. The indications for biopsy, mode of therapy given after biopsy and the clinical outcome were studied. 122 adequate biopsies were received, 9 children had repeat biopsies. Of the 113 biopsies, minimal change disease formed the most common histopathological diagnosis (40.7%) while lupus nephritis formed the most common secondary glomerulonephritis (23.0%). The main indications for biopsy were nephrotic syndrome (50.8%), lupus nephritis (25.4%) and renal impairment (13.1%). The mode of therapy was changed in 59.8% of the children. Of 106 patients followed-up, 84 children were found to have normal renal function in remission or on treatment. 4 patients developed chronic renal impairment and 16 reached end stage renal disease. Five of the 16 children with end stage disease had since died while 11 were on renal replacement therapy. Another 2 patients died of other complications. The pattern of childhood GN in our study tended to reflect the more severe renal parenchymal diseases in children and those requiring more aggressive treatment. This was because of our criteria of selection (indication) for renal biopsy. Renal biopsy where performed appropriately in selected children may not only be a useful investigative tool for histological diagnosis and prognosis but may help clinicians plan the optimal therapy for these children.

  16. Role of transcriptional regulation in the evolution of plant phenotype: A dynamic systems approach.

    PubMed

    Rodríguez-Mega, Emiliano; Piñeyro-Nelson, Alma; Gutierrez, Crisanto; García-Ponce, Berenice; Sánchez, María De La Paz; Zluhan-Martínez, Estephania; Álvarez-Buylla, Elena R; Garay-Arroyo, Adriana

    2015-03-02

    A growing body of evidence suggests that alterations in transcriptional regulation of genes involved in modulating development are an important part of phenotypic evolution, and this can be documented among species and within populations. While the effects of differential transcriptional regulation in organismal development have been preferentially studied in animal systems, this phenomenon has also been addressed in plants. In this review, we summarize evidence for cis-regulatory mutations, trans-regulatory changes and epigenetic modifications as molecular events underlying important phenotypic alterations, and thus shaping the evolution of plant development. We postulate that a mechanistic understanding of why such molecular alterations have a key role in development, morphology and evolution will have to rely on dynamic models of complex regulatory networks that consider the concerted action of genetic and nongenetic components, and that also incorporate the restrictions underlying the genotype to phenotype mapping process. Developmental Dynamics, 2015. © 2015 Wiley Periodicals, Inc.

  17. Impact of time and space evolution of ion tracks in nonvolatile memory cells approaching nanoscale

    NASA Astrophysics Data System (ADS)

    Cellere, G.; Paccagnella, A.; Murat, M.; Barak, J.; Akkerman, A.; Harboe-Sorensen, R.; Virtanen, A.; Visconti, A.; Bonanomi, M.

    2010-12-01

    Swift heavy ions impacting on matter lose energy through the creation of dense tracks of charges. The study of the space and time evolution of energy exchange allows understanding the single event effects behavior in advanced microelectronic devices. In particular, the shrinking of minimum feature size of most advanced memory devices makes them very interesting test vehicles to study these effects since the device and the track dimensions are comparable; hence, measured effects are directly correlated with the time and space evolution of the energy release. In this work we are studying the time and space evolution of ion tracks by using advanced non volatile memories and Monte Carlo simulations. Experimental results are very well explained by the theoretical calculations.

  18. An ecological and behavioural approach to hominin evolution during the Pliocene

    NASA Astrophysics Data System (ADS)

    Macho, Gabriele A.

    2014-07-01

    The study considers the turnover in hominins, together with carnivorans and other primates, at 3.5 Ma against an environmental backdrop. Communalities are identified between evolving guilds that may directly inform hominin evolution. These are the evolution of (a) dietary generalists and (b) evidence for sociality in carnivores, baboons and hominins. Sociality and behavioural flexibility are regarded advantageous for the procurement of resources while, at the same time, reducing intraspecific competition; in primates it may initially also have served to reduce predation risk. Behavioural flexibility explains the evolutionary success of Panthera leo, Papio and Homo. Viewed within a wider palaeoecological and environmental context, it is possible that sociality in hominins, including allocare, were triggered by abiotic changes at about 3.5 Ma. If confirmed in future studies, this would mark the beginning of hominin life history evolution.

  19. A Markov random field approach for modeling spatio-temporal evolution of microstructures

    NASA Astrophysics Data System (ADS)

    Acar, Pinar; Sundararaghavan, Veera

    2016-10-01

    The following problem is addressed: ‘Can one synthesize microstructure evolution over a large area given experimental movies measured over smaller regions?’ Our input is a movie of microstructure evolution over a small sample window. A Markov random field (MRF) algorithm is developed that uses this data to estimate the evolution of microstructure over a larger region. Unlike the standard microstructure reconstruction problem based on stationary images, the present algorithm is also able to reconstruct time-evolving phenomena such as grain growth. Such an algorithm would decrease the cost of full-scale microstructure measurements by coupling mathematical estimation with targeted small-scale spatiotemporal measurements. The grain size, shape and orientation distribution statistics of synthesized polycrystalline microstructures at different times are compared with the original movie to verify the method.

  20. Impact of time and space evolution of ion tracks in nonvolatile memory cells approaching nanoscale

    SciTech Connect

    Cellere, G.; Paccagnella, A.; Harboe-Sorensen, R.; Visconti, A.; Bonanomi, M.

    2010-12-15

    Swift heavy ions impacting on matter lose energy through the creation of dense tracks of charges. The study of the space and time evolution of energy exchange allows understanding the single event effects behavior in advanced microelectronic devices. In particular, the shrinking of minimum feature size of most advanced memory devices makes them very interesting test vehicles to study these effects since the device and the track dimensions are comparable; hence, measured effects are directly correlated with the time and space evolution of the energy release. In this work we are studying the time and space evolution of ion tracks by using advanced non volatile memories and Monte Carlo simulations. Experimental results are very well explained by the theoretical calculations.

  1. A Hybrid Particle Swarm with Differential Evolution Operator Approach (DEPSO) for Linear Array Synthesis

    NASA Astrophysics Data System (ADS)

    Sarkar, Soham; Das, Swagatam

    In recent years particle swarm optimization emerges as one of the most efficient global optimization tools. In this paper, a hybrid particle swarm with differential evolution operator, termed DEPSO, is applied for the synthesis of linear array geometry. Here, the minimum side lobe level and null control, both are obtained by optimizing the spacing between the array elements by this technique. Moreover, a statistical comparison is also provided to establish its performance against the results obtained by Genetic Algorithm (GA), classical Particle Swarm Optimization (PSO), Tabu Search Algorithm (TSA), Differential Evolution (DE) and Memetic Algorithm (MA).

  2. Evolutions of nearly maximally spinning black hole binaries using the moving puncture approach

    NASA Astrophysics Data System (ADS)

    Zlochower, Yosef; Healy, James; Lousto, Carlos O.; Ruchlin, Ian

    2017-08-01

    We demonstrate that numerical relativity codes based on the "moving punctures" formalism are capable of evolving nearly maximally spinning black hole binaries. We compare a new evolution of an equal-mass, aligned-spin binary with dimensionless spin χ =0.99 using puncture-based data with recent simulations of the SXS Collaboration. We find that the overlap of our new waveform with the published results of the SXS Collaboration is larger than 0.999. To generate our new waveform, we use the recently introduced HiSpID puncture data, the CCZ4 evolution system, and a modified lapse condition that helps keep the horizon radii reasonably large.

  3. Heritability construction for provenance and family selection

    Treesearch

    Fan H. Kung; Calvin F. Bey

    1977-01-01

    Concepts and procedures for heritability estimations through the variance components and the unified F-statistics approach are described. The variance components approach is illustrated by five possible family selection schemes within a diallel mating test, while the unified F-statistics approach is demonstrated by a geographic variation study. In a balance design, the...

  4. A Provenance Visualization Tool for Global Earth Observation System of Systems

    NASA Astrophysics Data System (ADS)

    Closa Santos, Guillem; Masó Pau, Joan

    2013-04-01

    The widespread use of the distributed environments in the Geographic Information Systems field had generated a broader access and a broader interchange of geographic information. This huge quantity of information, the heterogeneity of the origin of the data, and the complex functionalities involved in the creation of some geographical products can generate some problems in the reliability assessment process. Hence, this can affect to the quality of the results obtained from processing geographic information. In order to increase the trust of the data, the collection and the accessibility of detailed lineage information including responsibilities parties (part of the metadata that refers to the origin and the processes undertaken to obtain a specific geographic product, also known as provenance), is crucial to evaluate the quality of the resulting knowledge, to estimate the trustworthiness level offered by the Agents and the Processes, as well as to allow the reproducibility of the geographical information. Even there are several works related to this topic and some models have been created to integrate provenance information into the metadata standards, there are still some challenges in provenance-aware applications, like the interoperability of the provenance formats, automatic provenance registration and provenance visualization tools. The first goal of this communication is to analyze the state of the art in provenance visualization by comparing different approaches and methods. Secondly, we propose a tool for provenance visualization in Global Earth Observation System of Systems (GEOSS) considering also the relation between provenance information and workflow processing in distributed environments e.g. Web Processing Services. This work is done in the context of the GeoViQua FP7 project.

  5. Fagus sylvatica L. provenances maintain different leaf metabolic profiles and functional response

    NASA Astrophysics Data System (ADS)

    Aranda, Ismael; Sánchez-Gómez, David; de Miguel, Marina; Mancha, Jose Antonio; Guevara, María Angeles; Cadahía, Estrella; Fernández de Simón, María Brígida

    2017-07-01

    Most temperate forest tree species will suffer important environmental changes as result of the climate change. Adaptiveness to local conditions could change at different sites in the future. In this context, the study of intra-specific variability is important to clarify the singularity of different local populations. Phenotypic differentiation between three beech provenances covering a wide latitudinal range (Spain/ES, Germany/DE and Sweden/SE), was studied in a greenhouse experiment. Non-target leaf metabolite profiles and ecophysiological response was analyzed in well-watered and water stressed seedlings. There was a provenance-specific pattern in the relative concentrations of some leaf metabolites regardless watering treatment. The DE and SE from the center and north of the distribution area of the species showed a clear differentiation from the ES provenance in the relative concentration of some metabolites. Thus the ES provenance from the south maintained larger relative concentration of some organic and amino acids (e.g. fumaric and succinic acids or valine and isoleucine), and in some secondary metabolites (e.g. kaempferol, caffeic and ferulic acids). The ecophysiological response to mild water stress was similar among the three provenances as a consequence of the moderate water stress applied to seedlings, although leaf N isotope composition (δ15N) and leaf C:N ratio were higher and lower respectively in DE than in the other two provenances. This would suggest potential differences in the capacity to uptake and post-process nitrogen according to provenance. An important focus of the study was to address for the first time inter-provenance leaf metabolic diversity in beech from a non-targeted metabolic profiling approach that allowed differentiation of the three studied provenances.

  6. Provenance research: investigation of genetic diversity associated with geography

    Treesearch

    Robert Z. Callaham

    1963-01-01

    Provenance in forestry refers to the population of trees growing at n particular place of origin. Provenance research defines the genetic and environmental components of phenotypic variation associated with geographic source. Information on provenance is important in assuring sources of seed to give well-adapted, productive trees and in directing breeding of...

  7. Scientific Workflows + Provenance = Better (Meta-)Data Management

    NASA Astrophysics Data System (ADS)

    Ludaescher, B.; Cuevas-Vicenttín, V.; Missier, P.; Dey, S.; Kianmajd, P.; Wei, Y.; Koop, D.; Chirigati, F.; Altintas, I.; Belhajjame, K.; Bowers, S.

    2013-12-01

    The origin and processing history of an artifact is known as its provenance. Data provenance is an important form of metadata that explains how a particular data product came about, e.g., how and when it was derived in a computational process, which parameter settings and input data were used, etc. Provenance information provides transparency and helps to explain and interpret data products. Other common uses and applications of provenance include quality control, data curation, result debugging, and more generally, 'reproducible science'. Scientific workflow systems (e.g. Kepler, Taverna, VisTrails, and others) provide controlled environments for developing computational pipelines with built-in provenance support. Workflow results can then be explained in terms of workflow steps, parameter settings, input data, etc. using provenance that is automatically captured by the system. Scientific workflows themselves provide a user-friendly abstraction of the computational process and are thus a form of ('prospective') provenance in their own right. The full potential of provenance information is realized when combining workflow-level information (prospective provenance) with trace-level information (retrospective provenance). To this end, the DataONE Provenance Working Group (ProvWG) has developed an extension of the W3C PROV standard, called D-PROV. Whereas PROV provides a 'least common denominator' for exchanging and integrating provenance information, D-PROV adds new 'observables' that described workflow-level information (e.g., the functional steps in a pipeline), as well as workflow-specific trace-level information ( timestamps for each workflow step executed, the inputs and outputs used, etc.) Using examples, we will demonstrate how the combination of prospective and retrospective provenance provides added value in managing scientific data. The DataONE ProvWG is also developing tools based on D-PROV that allow scientists to get more mileage from provenance metadata

  8. A general patterning approach by manipulating the evolution of two-dimensional liquid foams

    PubMed Central

    Huang, Zhandong; Su, Meng; Yang, Qiang; Li, Zheng; Chen, Shuoran; Li, Yifan; Zhou, Xue; Li, Fengyu; Song, Yanlin

    2017-01-01

    The evolution of gas-liquid foams has been an attractive topic for more than half a century. However, it remains a challenge to manipulate the evolution of foams, which restricts the development of porous materials with excellent mechanical, thermal, catalytic, electrical or acoustic properties. Here we report a strategy to manipulate the evolution of two-dimensional (2D) liquid foams with a micropatterned surface. We demonstrate that 2D liquid foams can evolve beyond Ostwald ripening (large bubbles always consuming smaller ones). By varying the arrangement of pillars on the surface, we have prepared various patterns of foams in which the size, shape and position of the bubbles can be precisely controlled. Furthermore, these patterned bubbles can serve as a template for the assembly of functional materials, such as nanoparticles and conductive polymers, into desired 2D networks with nanoscale resolution. This methodology provides new insights in controlling curvature-driven evolution and opens a general route for the assembly of functional materials. PMID:28134337

  9. Insights into the Diversity of Attitudes Concerning Evolution and Creation: A Multidimensional Approach

    ERIC Educational Resources Information Center

    Konneman, Christiane; Asshoff, Roman; Hammann, Marcus

    2016-01-01

    The main aim of this paper is to describe high school students' attitudes concerning evolution and creation, with a focus on (1) attitudes toward evolutionary theory, (2) attitudes toward the Biblical accounts of creation, (3) creationist beliefs, and (4) scientistic beliefs. Latent class analyses revealed seven attitude profiles in a sample of…

  10. Addressing Controversies in Science Education: A Pragmatic Approach to Evolution Education

    ERIC Educational Resources Information Center

    Hildebrand, David; Bilica, Kimberly; Capps, John

    2008-01-01

    Science education controversies typically prove more intractable than those in scientific research because they involve a wider range of considerations (e.g., epistemic, social, ethical, political, and religious). How can educators acknowledge central issues in a controversy (such as evolution)? How can such problems be addressed in a way that is…

  11. Computers in Biological Education: Simulation Approaches. Genetics and Evolution. CAL Research Group Technical Report No. 13.

    ERIC Educational Resources Information Center

    Murphy, P. J.

    Three examples of genetics and evolution simulation concerning Mendelian inheritance, genetic mapping, and natural selection are used to illustrate the use of simulations in modeling scientific/natural processes. First described is the HERED series, which illustrates such phenomena as incomplete dominance, multiple alleles, lethal alleles,…

  12. Computers in Biological Education: Simulation Approaches. Genetics and Evolution. CAL Research Group Technical Report No. 13.

    ERIC Educational Resources Information Center

    Murphy, P. J.

    Three examples of genetics and evolution simulation concerning Mendelian inheritance, genetic mapping, and natural selection are used to illustrate the use of simulations in modeling scientific/natural processes. First described is the HERED series, which illustrates such phenomena as incomplete dominance, multiple alleles, lethal alleles,…

  13. A general patterning approach by manipulating the evolution of two-dimensional liquid foams

    NASA Astrophysics Data System (ADS)

    Huang, Zhandong; Su, Meng; Yang, Qiang; Li, Zheng; Chen, Shuoran; Li, Yifan; Zhou, Xue; Li, Fengyu; Song, Yanlin

    2017-01-01

    The evolution of gas-liquid foams has been an attractive topic for more than half a century. However, it remains a challenge to manipulate the evolution of foams, which restricts the development of porous materials with excellent mechanical, thermal, catalytic, electrical or acoustic properties. Here we report a strategy to manipulate the evolution of two-dimensional (2D) liquid foams with a micropatterned surface. We demonstrate that 2D liquid foams can evolve beyond Ostwald ripening (large bubbles always consuming smaller ones). By varying the arrangement of pillars on the surface, we have prepared various patterns of foams in which the size, shape and position of the bubbles can be precisely controlled. Furthermore, these patterned bubbles can serve as a template for the assembly of functional materials, such as nanoparticles and conductive polymers, into desired 2D networks with nanoscale resolution. This methodology provides new insights in controlling curvature-driven evolution and opens a general route for the assembly of functional materials.

  14. A Genomic Approach to Examine the Complex Evolution of Laurasiatherian Mammals

    PubMed Central

    Hallström, Björn M.; Schneider, Adrian; Zoller, Stefan; Janke, Axel

    2011-01-01

    Recent phylogenomic studies have failed to conclusively resolve certain branches of the placental mammalian tree, despite the evolutionary analysis of genomic data from 32 species. Previous analyses of single genes and retroposon insertion data yielded support for different phylogenetic scenarios for the most basal divergences. The results indicated that some mammalian divergences were best interpreted not as a single bifurcating tree, but as an evolutionary network. In these studies the relationships among some orders of the super-clade Laurasiatheria were poorly supported, albeit not studied in detail. Therefore, 4775 protein-coding genes (6,196,263 nucleotides) were collected and aligned in order to analyze the evolution of this clade. Additionally, over 200,000 introns were screened in silico, resulting in 32 phylogenetically informative long interspersed nuclear elements (LINE) insertion events. The present study shows that the genome evolution of Laurasiatheria may best be understood as an evolutionary network. Thus, contrary to the common expectation to resolve major evolutionary events as a bifurcating tree, genome analyses unveil complex speciation processes even in deep mammalian divergences. We exemplify this on a subset of 1159 suitable genes that have individual histories, most likely due to incomplete lineage sorting or introgression, processes that can make the genealogy of mammalian genomes complex. These unexpected results have major implications for the understanding of evolution in general, because the evolution of even some higher level taxa such as mammalian orders may sometimes not be interpreted as a simple bifurcating pattern. PMID:22164244

  15. Insights into the Diversity of Attitudes Concerning Evolution and Creation: A Multidimensional Approach

    ERIC Educational Resources Information Center

    Konneman, Christiane; Asshoff, Roman; Hammann, Marcus

    2016-01-01

    The main aim of this paper is to describe high school students' attitudes concerning evolution and creation, with a focus on (1) attitudes toward evolutionary theory, (2) attitudes toward the Biblical accounts of creation, (3) creationist beliefs, and (4) scientistic beliefs. Latent class analyses revealed seven attitude profiles in a sample of…

  16. Real-space renormalization-group approach to field evolution equations.

    PubMed

    Degenhard, Andreas; Rodríguez-Laguna, Javier

    2002-03-01

    An operator formalism for the reduction of degrees of freedom in the evolution of discrete partial differential equations (PDE) via real-space renormalization group is introduced, in which cell overlapping is the key concept. Applications to (1+1)-dimensional PDEs are presented for linear and quadratic equations that are first order in time.

  17. Analysing Coastal Evolution With EO Data: A Multi-Sensor Approach

    NASA Astrophysics Data System (ADS)

    Palazzo, Francesco; del Frate, Fabio; Baiocchi, Valerio; Lelo, Keti; Latini, Daniele; Minchella, Andrea; Remondiere, Sylvie

    2013-12-01

    The new generation of satellite systems, featuring increased frequency of observations as well as better ground resolution compared to the past is opening new possibilities in support to coastal evolution monitoring. This paper provides some of the results obtained by a multidisciplinary team aiming to analyse the feasibility to use such data in support to coastal management studies.

  18. Convergent evolution of the adaptive immune response in jawed vertebrates and cyclostomes: An evolutionary biology approach based study.

    PubMed

    Morales Poole, Jose Ricardo; Paganini, Julien; Pontarotti, Pierre

    2017-10-01

    Two different adaptive immune systems (AIS) are present in the two phyla of vertebrates (jawed vertebrates and cyclostomes). The jawed vertebrate system is based on IG/TCR/RAG/MHC while the cyclostome system is based on VLRCs and AID-like enzymes both systems using homologous Cell types (B-cell and B-cell Like, T-cell and T-cell like). We will present our current view of the evolution of these two AISs and present alternative hypotheses that could explain the apparent convergent evolution of the two systems. We will also discuss why comparative immunology analyses should be based on evolutionary biology approaches and not on the scale of progress one. Copyright © 2017 Elsevier Ltd. All rights reserved.

  19. Evolution of conformational changes in the dynamics of small biological molecules: a hybrid MD/RRK approach.

    PubMed

    Segev, Elad; Grumbach, Mikael; Gerber, Robert Benny

    2006-11-14

    The dynamics of long timescale evolution of conformational changes in small biological molecules is described by a hybrid molecular dynamics/RRK algorithm. The approach employs classical trajectories for transitions between adjacent structures separated by a low barrier, and the classical statistical RRK approximation when the barrier involved is high. In determining the long-time dynamics from an initial structure to a final structure of interest, an algorithm is introduced for determining the most efficient pathways (sequence of the intermediate conformers). This method uses the Dijkstra algorithm for finding optimal paths on networks. Three applications of the method using an AMBER force field are presented: a detailed study of conformational transitions in a blocked valine dipeptide; a multiple reaction path study of the blocked valine tripeptide; and the evolution in time from the beta hairpin to alpha helix structure of a blocked alanine hexapeptide. Advantages and limitations of the method are discussed in light of the results.

  20. Leveraging The Open Provenance Model as a Multi-Tier Model for Global Climate Research

    SciTech Connect

    Stephan, Eric G.; Halter, Todd D.; Ermold, Brian D.

    2010-12-08

    Global climate researchers rely upon many forms of sensor data and analytical methods to help profile subtle changes in climate conditions. The U.S. Department of Energy's Atmospheric Radiation Measurement (ARM) program provides researchers with curated Value Added Products (VAPs) resulting from continuous sensor data streams, data fusion, and modeling. The ARM operations staff and software development teams (data producers) rely upon a number of techniques to ensure strict quality control (QC) and quality assurance (QA) standards are maintained. Climate researchers (data consumers) are highly interested in obtaining as much provenance (data quality, data pedigree) as possible to establish data trustworthiness. Currently all the provenance is not easily attainable or identifiable without significant efforts to extract and piece together information from configuration files, log files, codes, and status information from ARM databases. The need for a formalized approach to managing provenance became paramount with the planned addition of 120 new instruments, new data products, and data collection scaling to half a terabyte daily. Last year our research identified the need for a multi-tier provenance model to enable the data consumer easy access to the provenance for their data. This year we are leveraging the Open Provenance Model as a foundational construct that serves the needs of both the VAP producers and consumers, we are organizing the provenance in different tiers of granularity to model VAP lineage, causality at the component level within a VAP, and the causality for each time step as samples are being assembled within the VAP. This paper shares our implementation strategy and how the ARM operations staff and the climate research community can greatly benefit from this approach to more effectively assess and quantify VAP provenance.

  1. Lithofacies control in detrital zircon provenance studies: Insights from the Cretaceous Methow basin, southern Canadian Cordillera

    USGS Publications Warehouse

    DeGraaff-Surpless, K.; Mahoney, J.B.; Wooden, J.L.; McWilliams, M.O.

    2003-01-01

    High-frequency sampling for detrital zircon analysis can provide a detailed record of fine-scale basin evolution by revealing the temporal and spatial variability of detrital zircon ages within clastic sedimentary successions. This investigation employed detailed sampling of two sedimentary successions in the Methow/Methow-Tyaughton basin of the southern Canadian Cordillera to characterize the heterogeneity of detrital zircon signatures within single lithofacies and assess the applicability of detrital zircon analysis in distinguishing fine-scale provenance changes not apparent in lithologic analysis of the strata. The Methow/Methow-Tyaughton basin contains two distinct stratigraphic sequences of middle Albian to Santonian clastic sedimentary rocks: submarine-fan deposits of the Harts Pass Formation/Jackass Mountain Group and fluvial deposits of the Winthrop Formation. Although both stratigraphic sequences displayed consistent ranges in detrital zircon ages on a broad scale, detailed sampling within each succession revealed heterogeneity in the detrital zircon age distributions that was systematic and predictable in the turbidite succession but unpredictable in the fluvial succession. These results suggest that a high-density sampling approach permits interpretation of finescale changes within a lithologically uniform turbiditic sedimentary succession, but heterogeneity within fluvial systems may be too large and unpredictable to permit accurate fine-scale characterization of the evolution of source regions. The robust composite detrital zircon age signature developed for these two successions permits comparison of the Methow/Methow-Tyaughton basin age signature with known plutonic source-rock ages from major plutonic belts throughout the Cretaceous North American margin. The Methow/Methow-Tyaughton basin detrital zircon age signature matches best with source regions in the southern Canadian Cordillera, requiring that the basin developed in close proximity to the

  2. Liver fluke isolates: a question of provenance.

    PubMed

    Fairweather, I

    2011-02-28

    A survey of literature on experimental infections with the liver fluke, Fasciola hepatica published between 2005 and 2009 has revealed a general lack of information on where fluke material (i.e. metacercariae) was sourced from. Even less information was given on the drug status of the fluke isolate used, which is a particular concern for those studies that involved anthelmintics. In these two respects, information on the liver fluke lags far behind that for nematodes, where such information is given almost as a matter of course. Of additional concern is that, at times, information about the source and drug history of fluke isolates was incorrect. The overall aim of the review is to demonstrate why it is important to provide as much information as possible on what fluke material is being used. It also attempts to correct some of the errors in the literature and gather together what information is available about the provenance of those isolates that have been used in recent experimental studies. Copyright © 2010 Elsevier B.V. All rights reserved.

  3. Provenance of Norphlet sandstone, northern Gulf Coast

    SciTech Connect

    Ryan, W.P.; Ward, W.C.; Kuglar, R.L.

    1987-09-01

    The Upper Jurassic Norphlet sandstone of the northern Gulf Coast is predominantly subarkose, with some arkose in the eastern area and sublitharenite and quartzarenite in the western area. Despite great depths of burial and despite feldspar and rock-fragment constituents, diagenesis has not appreciably altered the composition of Norphlet sandstone. Therefore, reconstruction of original composition of Norphlet sandstone presented little difficulty. Variation in detrital modes of the Norphlet suggests compositionally distinct source terranes. Samples from Florida, Alabama, and Mississippi reflect the influence of metamorphic and plutonic rocks of the Appalachian Piedmont Province and of Triassic-Jurassic volcanic rocks. Sandstones in east Texas, northern Louisiana, and southern Arkansas were derived from sedimentary and metasedimentary rocks of the Ouachita system. The Arbuckle Mountains and Llano uplift may have supplied trace amounts of quartzo-feldspathic and volcanic-rock fragments to the extreme western part of the study area. Norphlet sandstones represent a mixture of collision-orogen-derived sediment from the Appalachian and/or Ouachita system and continental-block-derived sediment from paleohighs and uplifts within the Gulf basin. However, Norphlet sandstones plot in the craton-interior and transitional-continental fields on Q-F-L and QM-F-Lt tectonic-provenance diagrams, because of mineralogically mature source rocks, elimination of unstable grains by abrasion and sorting during deposition, and/or sediment mixing from different source terranes.

  4. Mineralogical and geochemical evidence of Quachita provenance

    SciTech Connect

    Sutton, S.J. . Dept. of Earth Resources); Land, L.S.; Hutson, F. . Dept. of Geological Science); Awwiller, D.N. . Dept. of Geology)

    1994-03-01

    Provenance of the extremely thick Ouachita flysch has not been specifically identified, despite several recent studies. Detrital mineral compositions, Sm-Nd model ages, and single zircon dates strongly suggest that several sources contributed sediment that became well-mixed before deposition. Sm-Nd model ages are nearly uniform for flysch samples, regardless of geographic position or exact stratigraphic position. These ages appear to rule out significant contribution by a Paleozoic island arc, and suggest a single source, multiple sources with similar model ages, or thorough mixing of sources with different model ages. In contrast, single zircon ages are variable, including Archean, Proterozoic, and Paleozoic ages. These ages indicate multiple sediment sources, including some external to North America. The zircon ages, however, may not be generally representative of Ouachita sediment sources because they were obtained on zircons far larger than typical Ouachita detrital zircons. The Sm-Nd model ages and single zircon ages can both be explained if sediment entering the Ouachita Trough came from multiple sources, but was already thoroughly mixed before entering the trough. Such mixing is also suggested by detrital mineral analyses. Muscovite, garnet, and tourmaline have been analyzed.

  5. An interactive approach based on a discrete differential evolution algorithm for a class of integer bilevel programming problems

    NASA Astrophysics Data System (ADS)

    Li, Hong; Zhang, Li; Jiao, Yong-Chang

    2016-07-01

    This paper presents an interactive approach based on a discrete differential evolution algorithm to solve a class of integer bilevel programming problems, in which integer decision variables are controlled by an upper-level decision maker and real-value or continuous decision variables are controlled by a lower-level decision maker. Using the Karush--Kuhn-Tucker optimality conditions in the lower-level programming, the original discrete bilevel formulation can be converted into a discrete single-level nonlinear programming problem with the complementarity constraints, and then the smoothing technique is applied to deal with the complementarity constraints. Finally, a discrete single-level nonlinear programming problem is obtained, and solved by an interactive approach. In each iteration, for each given upper-level discrete variable, a system of nonlinear equations including the lower-level variables and Lagrange multipliers is solved first, and then a discrete nonlinear programming problem only with inequality constraints is handled by using a discrete differential evolution algorithm. Simulation results show the effectiveness of the proposed approach.

  6. Evolution of Decision Rules Used for IT Portfolio Management: An Inductive Approach

    NASA Astrophysics Data System (ADS)

    Karhade, Prasanna P.; Shaw, Michael J.; Subramanyam, Ramanath

    IT portfolio management and the related planning decisions for IT-dependent initiatives are critical to organizational performance. Building on the logic of appropriateness theoretical framework, we define an important characteristic of decision rules used during IT portfolio planning; rule appropriateness with regards to the risk-taking criterion. We propose that rule appropriateness will be an important factor explaining the evolution of rules over time. Using an inductive learning methodology, we analyze a unique dataset of actual IT portfolio planning decisions spanning two consecutive years within one organization. We present systematic comparative analysis of the evolution of rules used in planning over two years to validate our research proposition. We find that rules that were inappropriate in the first year are being redefined to design appropriate rules for use in the second year. Our work provides empirical evidence demonstrating organizational learning and improvements in IT portfolio planning capabilities.

  7. Adaptive cluster expansion approach for predicting the structure evolution of graphene oxide

    SciTech Connect

    Li, Xi-Bo; Guo, Pan; Wang, D.; Liu, Li-Min; Zhang, Yongsheng

    2014-12-14

    An adaptive cluster expansion (CE) method is used to explore surface adsorption and growth processes. Unlike the traditional CE method, suitable effective cluster interaction (ECI) parameters are determined, and then the selected fixed number of ECIs is continually optimized to predict the stable configurations with gradual increase of adatom coverage. Comparing with traditional CE method, the efficiency of the adaptive CE method could be greatly enhanced. As an application, the adsorption and growth of oxygen atoms on one side of pristine graphene was carefully investigated using this method in combination with first-principles calculations. The calculated results successfully uncover the structural evolution of graphene oxide for the different numbers of oxygen adatoms on graphene. The aggregation behavior of the stable configurations for different oxygen adatom coverages is revealed for increasing coverages of oxygen atoms. As a targeted method, adaptive CE can also be applied to understand the evolution of other surface adsorption and growth processes.

  8. Spatial Autocatalytic Dynamics: An Approach to Modeling Prebiotic Evolution. Chapter 1

    NASA Technical Reports Server (NTRS)

    Stassinopoulos, Dimitris; Colombano, Silvano P.; Lohn , Jason D.; Haith, Gary L.; Scargle, Jeffrey; Liang, Shoudan; Lee, T. K.

    1999-01-01

    This paper addresses the origin of robust and evolvable metabolic functions, and the conditions under which it took place. We propose that spatial considerations, traditionally ignored, are essential to answering these important questions in prebiotic evolution. Our probabilistic cellular automaton model, based on work on autocatalytic metabolisms by Eigen, Kauffman, and others, has biologically interesting dynamical behavior that is missed if spatial extension is ignored.

  9. Future of DAQ Frameworks and Approaches, and Their Evolution towards the Internet of Things

    NASA Astrophysics Data System (ADS)

    Neufeld, Niko

    2015-12-01

    Nowadays, a DAQ system is a complex network of processors, sensors and many other active devices. Historically, providing a framework for DAQ has been a very important role of host institutes of experiments. Reviewing evolution of such DAQ frameworks is a very interesting subject of the conference. “Internet of Things” is a recent buzz word but a DAQ framework could be a good example of IoT.

  10. Evolution of a lamellar system with diffusion and reaction: A scaling approach

    NASA Astrophysics Data System (ADS)

    Muzzio, F. J.; Ottino, J. M.

    1989-07-01

    We study, by means of computer simulation and scaling analysis, the time evolution of one-dimensional arrays of reactive lamellae described by various initial striation thickness distributions. An infinitely fast reaction A+B-->2P occurs at the junctures of the lamellae. As the reaction proceeds thin striations are eaten by thick neighboring striations altering the distribution. The system converges toward a universal striation thickness distribution.

  11. Sobolev gradient approach for the time evolution related to energy minimization of Ginzburg-Landau functionals

    NASA Astrophysics Data System (ADS)

    Raza, Nauman; Sial, Sultan; Siddiqi, Shahid S.

    2009-04-01

    The Sobolev gradient technique has been discussed previously in this journal as an efficient method for finding energy minima of certain Ginzburg-Landau type functionals [S. Sial, J. Neuberger, T. Lookman, A. Saxena, Energy minimization using Sobolev gradients: application to phase separation and ordering, J. Comput. Phys. 189 (2003) 88-97]. In this article a Sobolev gradient method for the related time evolution is discussed.

  12. Securing Provenance of Distributed Processes in an Untrusted Environment

    NASA Astrophysics Data System (ADS)

    Syalim, Amril; Nishide, Takashi; Sakurai, Kouichi

    Recently, there is much concern about the provenance of distributed processes, that is about the documentation of the origin and the processes to produce an object in a distributed system. The provenance has many applications in the forms of medical records, documentation of processes in the computer systems, recording the origin of data in the cloud, and also documentation of human-executed processes. The provenance of distributed processes can be modeled by a directed acyclic graph (DAG) where each node represents an entity, and an edge represents the origin and causal relationship between entities. Without sufficient security mechanisms, the provenance graph suffers from integrity and confidentiality problems, for example changes or deletions of the correct nodes, additions of fake nodes and edges, and unauthorized accesses to the sensitive nodes and edges. In this paper, we propose an integrity mechanism for provenance graph using the digital signature involving three parties: the process executors who are responsible in the nodes' creation, a provenance owner that records the nodes to the provenance store, and a trusted party that we call the Trusted Counter Server (TCS) that records the number of nodes stored by the provenance owner. We show that the mechanism can detect the integrity problem in the provenance graph, namely unauthorized and malicious “authorized” updates even if all the parties, except the TCS, collude to update the provenance. In this scheme, the TCS only needs a very minimal storage (linear with the number of the provenance owners). To protect the confidentiality and for an efficient access control administration, we propose a method to encrypt the provenance graph that allows access by paths and compartments in the provenance graph. We argue that encryption is important as a mechanism to protect the provenance data stored in an untrusted environment. We analyze the security of the integrity mechanism, and perform experiments to measure

  13. Metabolic Networks of Sodalis glossinidius: A Systems Biology Approach to Reductive Evolution

    PubMed Central

    Belda, Eugeni; Silva, Francisco J.; Peretó, Juli; Moya, Andrés

    2012-01-01

    Background Genome reduction is a common evolutionary process affecting bacterial lineages that establish symbiotic or pathogenic associations with eukaryotic hosts. Such associations yield highly reduced genomes with greatly streamlined metabolic abilities shaped by the type of ecological association with the host. Sodalis glossinidius, the secondary endosymbiont of tsetse flies, represents one of the few complete genomes available of a bacterium at the initial stages of this process. In the present study, genome reduction is studied from a systems biology perspective through the reconstruction and functional analysis of genome-scale metabolic networks of S. glossinidius. Results The functional profile of ancestral and extant metabolic networks sheds light on the evolutionary events underlying transition to a host-dependent lifestyle. Meanwhile, reductive evolution simulations on the extant metabolic network can predict possible future evolution of S. glossinidius in the context of genome reduction. Finally, knockout simulations in different metabolic systems reveal a gradual decrease in network robustness to different mutational events for bacterial endosymbionts at different stages of the symbiotic association. Conclusions Stoichiometric analysis reveals few gene inactivation events whose effects on the functionality of S. glossinidius metabolic systems are drastic enough to account for the ecological transition from a free-living to host-dependent lifestyle. The decrease in network robustness across different metabolic systems may be associated with the progressive integration in the more stable environment provided by the insect host. Finally, reductive evolution simulations reveal the strong influence that external conditions exert on the evolvability of metabolic systems. PMID:22292008

  14. The Evolution of Galaxies. III - From Simple Approaches to Self-Consistent Models.

    NASA Astrophysics Data System (ADS)

    Hensler, G.; Stasińska, G.; Harfst, S.; Kroupa, P.; Theis, Chr.

    2003-07-01

    Galaxies have a history. This has become clear from recent sky surveys which have shown that distant galaxies, formed early in the life of the Universe, differ from the nearby ones. New observational windows at ultraviolet, infrared and millimetric wavelengths (provided by ROSAT, IRAM, IUE, IRAS, ISO) have revealed that galaxies contain a wealth of components: very hot gas, atomic hydrogen, molecules, dust, dark matter...A significant advance is expected from the results of new instruments (VLT, FIRST, XMM) which will=0D=0Aallow one to explore the most distant Universe. Three Euroconferences were planned to punctuate this new epoch in galactic research, bringing together specialists in various fields of Astronomy. The first one, held in Granada (Spain) in May 2000, addressed the observational clues. The second one took place in October 2001 in St. Denis de la Réunion (France) and reviewed the basic building blocks and small-scale processes in galaxy evolution. The third conference was held in Kiel (Germany) in July 2002 and addressed the appropriate modelling of galaxy evolution from their cosmological formation to their presently observable structures. This book contains the proceedings of the third conference and presents the actual state-of-the-art of modelling galaxy evolution. Link: http://www.wkap.nl/prod/b/1-4020-1182-2

  15. Evolution of a Community-Based Participatory Approach in a Rural and Remote Dementia Care Research Program

    PubMed Central

    Morgan, Debra; Crossley, Margaret; Stewart, Norma; Kirk, Andrew; Forbes, Dorothy; D’Arcy, Carl; Dal Bello-Haas, Vanina; McBain, Lesley; O’Connell, Megan; Bracken, Joanne; Kosteniuk, Julie; Cammer, Allison

    2015-01-01

    Background Community-based participatory research (CBPR) approaches are valuable strategies for addressing complex health and social problems and powerful tools to support effective transformation of social and health policy to better meet the needs of diverse stakeholders. Objectives Since 1997, our team has utilized CBPR approaches to improve health service delivery for persons with dementia and their caregivers in rural and remote settings. We describe the evolution of our approach, including benefits, challenges, and lessons learned over the last 15 years. Methods A multistage approach initiated an ongoing CBPR research program in rural dementia care and shaped its direction based on stakeholders’ recommendation to prioritize both community and facility-based care. Strategies to develop and foster collaborative partnerships have included travel to rural and remote regions, province-wide community meetings, stakeholder workshops, creation of a Decision-Maker Advisory Council to provide ongoing direction to the overall program, development of diverse project-specific advisory groups, and a highly successful and much anticipated annual knowledge exchange and team-building event. Lessons Learned Partnering with stakeholders in the full research process has enhanced the research quality, relevance, application, and sustainability. These benefits have supported the team’s evolution from a relatively traditional focus to an integrated approach guiding all aspects of our research. Conclusions Developing and sustaining the full range of stakeholder and decision-maker partnerships is resource-and time-intensive, but our experience shows that community-based participatory strategies are highly suited to health services research that is designed to support sustainable service delivery improvements. PMID:25435560

  16. Data Provenance Architecture for the Geosciences

    NASA Astrophysics Data System (ADS)

    Murphy, F.; Irving, D. H.

    2012-12-01

    The pace at which geoscientific insights inform societal development quickens with time and these insights drive decisions and actions of ever-increasing human and economic significance. Until recently academic, commercial and government bodies have maintained distinct bodies of knowledge to support scientific enquiry as well as societal development. However, it has become clear that the curation of the body of data is an activity of equal or higher social and commercial value. We address the community challenges in the curation of, access to, and analysis of scientific data including: the tensions between creators, providers and users; incentives and barriers to sharing; ownership and crediting. We also discuss the technical and financial challenges in maximising the return on the effort made in generating geoscientific data. To illustrate how these challenges might be addressed in the broader geoscientific domain, we describe the high-level data governance and analytical architecture in the upstream Oil Industry. This domain is heavily dependent on costly and highly diverse geodatasets collected and assimilated over timeframes varying from seconds to decades. These data must support both operational decisions at the minute-hour timefame and strategic and economic decisions of enterprise or national scale, and yet be sufficiently robust to last the life of a producing field. We develop three themes around data provenance, data ownership and business models for data curation. 1/ The overarching aspiration is to ensure that data provenance and quality is maintained along the analytical workflow. Hence if data on which a publication or report changes, the report and its publishers can be notified and we describe a mechanism by which dependent knowledge products can be flagged. 2/ From a cost and management point of view we look at who "owns" data especially in cases where the cost of curation and stewardship is significant compared to the cost of acquiring the data

  17. GIS and paleoanthropology: incorporating new approaches from the geospatial sciences in the analysis of primate and human evolution.

    PubMed

    Anemone, R L; Conroy, G C; Emerson, C W

    2011-01-01

    The incorporation of research tools and analytical approaches from the geospatial sciences is a welcome trend for the study of primate and human evolution. The use of remote sensing (RS) imagery and geographic information systems (GIS) allows vertebrate paleontologists, paleoanthropologists, and functional morphologists to study fossil localities, landscapes, and individual specimens in new and innovative ways that recognize and analyze the spatial nature of much paleoanthropological data. Whether one is interested in locating and mapping fossiliferous rock units in the field, creating a searchable and georeferenced database to catalog fossil localities and specimens, or studying the functional morphology of fossil teeth, bones, or artifacts, the new geospatial sciences provide an essential element in modern paleoanthropological inquiry. In this article we review recent successful applications of RS and GIS within paleoanthropology and related fields and argue for the importance of these methods for the study of human evolution in the twenty first century. We argue that the time has come for inclusion of geospatial specialists in all interdisciplinary field research in paleoanthropology, and suggest some promising areas of development and application of the methods of geospatial science to the science of human evolution.

  18. Mode and tempo in the evolution of socio-political organization: reconciling 'Darwinian' and 'Spencerian' evolutionary approaches in anthropology.

    PubMed

    Currie, Thomas E; Mace, Ruth

    2011-04-12

    Traditional investigations of the evolution of human social and political institutions trace their ancestry back to nineteenth century social scientists such as Herbert Spencer, and have concentrated on the increase in socio-political complexity over time. More recent studies of cultural evolution have been explicitly informed by Darwinian evolutionary theory and focus on the transmission of cultural traits between individuals. These two approaches to investigating cultural change are often seen as incompatible. However, we argue that many of the defining features and assumptions of 'Spencerian' cultural evolutionary theory represent testable hypotheses that can and should be tackled within a broader 'Darwinian' framework. In this paper we apply phylogenetic comparative techniques to data from Austronesian-speaking societies of Island South-East Asia and the Pacific to test hypotheses about the mode and tempo of human socio-political evolution. We find support for three ideas often associated with Spencerian cultural evolutionary theory: (i) political organization has evolved through a regular sequence of forms, (ii) increases in hierarchical political complexity have been more common than decreases, and (iii) political organization has co-evolved with the wider presence of hereditary social stratification.

  19. Sedimentary provenance of Maastrichtian oil shales, Central Eastern Desert, Egypt

    NASA Astrophysics Data System (ADS)

    Fathy, Douaa; Wagreich, Michael; Mohamed, Ramadan S.; Zaki, Rafat

    2017-04-01

    Maastrichtian oil shales are distributed within the Central Eastern Desert in Egypt. In this study elemental geochemical data have been applied to investigate the probable provenance of the sedimentary detrital material of the Maastrichtian oil shale beds within the Duwi and the Dakhla formations. The Maastrichtian oil shales are characterized by the enrichment in Ca, P, Mo, Ni, Zn, U, Cr and Sr versus post-Archean Australian shales (PAAS). The chondrite-normalized patterns of the Maastrichtian oil shale samples are showing LREE enrichment, HREE depletion, slightly negative Eu anomaly, no obvious Ce anomaly and typical shale-like PAAS-normalized patterns. The total REE well correlated with Si, Al, Fe, K and Ti, suggesting that the REE of the Maastrichtian oil shales are derived from terrigenous source. Chemical weathering indices such as Chemical Index of Alteration (CIA), Chemical Proxy of Alteration (CPA) and Plagioclase Index of Alteration (PIA) indicate moderate to strong chemical weathering. We suggest that the Maastrichtian oil shale is mainly derived from first cycle rocks especially intermediate rocks without any significant inputs from recycled or mature sources. The proposed data illustrated the impact of the parent material composition on evolution of oil shale chemistry. Furthermore, the paleo-tectonic setting of the detrital source rocks for the Maastrichtian oil shale is probably related to Proterozoic continental island arcs

  20. Coastline evolution of Portuguese low-lying sandy coast in the last 50 years: an integrated approach

    NASA Astrophysics Data System (ADS)

    Ponte Lira, Cristina; Nobre Silva, Ana; Taborda, Rui; Freire de Andrade, Cesar

    2016-06-01

    Regional/national-scale information on coastline rates of change and trends is extremely valuable, but these studies are scarce. A widely accepted standardized methodology for analysing long-term coastline change has been difficult to achieve, but it is essential to conduct an integrated and holistic approach to coastline evolution and hence support coastal management actions. Additionally, databases providing knowledge on coastline evolution are of key importance to support both coastal management experts and users.The main objective of this work is to present the first systematic, national-scale and consistent long-term coastline evolution data of Portuguese mainland low-lying sandy coasts.The methodology used quantifies coastline evolution using a unique and robust coastline indicator (the foredune toe), which is independent of short-term changes.The dataset presented comprises (1) two polyline sets, mapping the 1958 and 2010 sandy beach-dune system coastline, both optimized for working at 1 : 50 000 scale or smaller; (2) one polyline set representing long-term change rates between 1958 and 2010, each estimated at 250 m; and (3) a table with minimum, maximum and mean of evolution rates for sandy beach-dune system coastline. All science data produced here are openly accessible at https://doi.pangaea.de/10.1594/PANGAEA.859136 and can be used in other studies.Results show beach erosion as the dominant trend, with a mean change rate of -0.24 ± 0.01 m year-1 for all mainland Portuguese beach-dune systems. Although erosion is dominant, this evolution is variable in signal and magnitude in different coastal sediment cells and also within each cell. The most relevant beach erosion issues were found in the coastal stretches of Espinho-Torreira and Costa Nova-Praia de Mira, Cova da Gala-Leirosa, and Cova do Vapor-Costa da Caparica. The coastal segments Minho River-Nazaré and Costa da Caparica

  1. Exploring the past and the future of protein evolution with ancestral sequence reconstruction: the 'retro' approach to protein engineering.

    PubMed

    Gumulya, Yosephine; Gillam, Elizabeth M J

    2017-01-01

    A central goal in molecular evolution is to understand the ways in which genes and proteins evolve in response to changing environments. In the absence of intact DNA from fossils, ancestral sequence reconstruction (ASR) can be used to infer the evolutionary precursors of extant proteins. To date, ancestral proteins belonging to eubacteria, archaea, yeast and vertebrates have been inferred that have been hypothesized to date from between several million to over 3 billion years ago. ASR has yielded insights into the early history of life on Earth and the evolution of proteins and macromolecular complexes. Recently, however, ASR has developed from a tool for testing hypotheses about protein evolution to a useful means for designing novel proteins. The strength of this approach lies in the ability to infer ancestral sequences encoding proteins that have desirable properties compared with contemporary forms, particularly thermostability and broad substrate range, making them good starting points for laboratory evolution. Developments in technologies for DNA sequencing and synthesis and computational phylogenetic analysis have led to an escalation in the number of ancient proteins resurrected in the last decade and greatly facilitated the use of ASR in the burgeoning field of synthetic biology. However, the primary challenge of ASR remains in accurately inferring ancestral states, despite the uncertainty arising from evolutionary models, incomplete sequences and limited phylogenetic trees. This review will focus, firstly, on the use of ASR to uncover links between sequence and phenotype and, secondly, on the practical application of ASR in protein engineering. © 2017 The Author(s); published by Portland Press Limited on behalf of the Biochemical Society.

  2. Data provenance assurance in the cloud using blockchain

    NASA Astrophysics Data System (ADS)

    Shetty, Sachin; Red, Val; Kamhoua, Charles; Kwiat, Kevin; Njilla, Laurent

    2017-05-01

    Ever increasing adoption of cloud technology scales up the activities like creation, exchange, and alteration of cloud data objects, which create challenges to track malicious activities and security violations. Addressing this issue requires implementation of data provenance framework so that each data object in the federated cloud environment can be tracked and recorded but cannot be modified. The blockchain technology gives a promising decentralized platform to build tamper-proof systems. Its incorruptible distributed ledger/blockchain complements the need of maintaining cloud data provenance. In this paper, we present a cloud based data provenance framework using block chain which traces data record operations and generates provenance data. We anchor provenance data records into block chain transactions, which provide validation on provenance data and preserve user privacy at the same time. Once the provenance data is uploaded to the global block chain network, it is extremely challenging to tamper the provenance data. Besides, the provenance data uses hashed user identifiers prior to uploading so the blockchain nodes cannot link the operations to a particular user. The framework ensures that the privacy is preserved. We implemented the architecture on ownCloud, uploaded records to blockchain network, stored records in a provenance database and developed a prototype in form of a web service.

  3. Automatic Provenance Recording for Scientific Data using Trident

    NASA Astrophysics Data System (ADS)

    Simmhan, Y.; Barga, R.; van Ingen, C.

    2008-12-01

    Provenance is increasingly recognized as being critical to the understanding and reuse of scientific datasets. Given the rapid generation of scientific data from sensors and computational model results, it is not practical to manually record provenance for data and automated techniques for provenance capture are essential. Scientific workflows provide a framework for representing computational models and complex transformations of scientific data, and present a means for tracking the operations performed to derive a dataset. The Trident Scientific Workbench is a workflow system that natively incorporates provenance capture of data derived as part of the workflow execution. The applications used as part of a Trident workflow can execute on a remote computational cluster, such as a supercomputing center on in the Cloud, or on the local desktop of the researcher, and provenance on data derived by the applications is seamlessly captured. Scientists also have the option to annotate the provenance metadata using domain specific tags such as, for example, GCMD keywords. The provenance records thus captured can be exported in the Open Provenance Model* XML format that is emerging as a provenance standard in the eScience community or visualized as a graph of data and applications. The Trident workflow system and provenance recorded by it has been successfully applied in the Neptune oceanography project and is presently being tested in the Pan-STARRS astronomy project. *http://twiki.ipaw.info/bin/view/Challenge/OPM

  4. Iterative saturation mutagenesis: a powerful approach to engineer proteins by systematically simulating Darwinian evolution.

    PubMed

    Acevedo-Rocha, Carlos G; Hoebenreich, Sabrina; Reetz, Manfred T

    2014-01-01

    Iterative saturation mutagenesis (ISM) is a widely applicable and powerful strategy for the efficient directed evolution of enzymes. First, one or more amino acid positions from the chosen enzyme are assigned to multi-residue sites (i.e., groups of amino acids or "multisites"). Then, the residues in each multisite are mutated with a user-defined randomization scheme to all canonical amino acids or a reduced amino acid alphabet. Subsequently, the genes of chosen variants (usually the best but not necessarily) are used as templates for saturation mutagenesis at other multisites, and the process is repeated until the desired degree of biocatalyst improvement has been achieved. Addressing multisites iteratively results in a so-called ISM scheme or tree with various upward branches or pathways. The systematic character of ISM simulates in vitro the natural process of Darwinian evolution: variation (library creation), selection (library screening), and amplification (template chosen for the next round of randomization). However, the main feature of ISM that distinguishes it from other directed evolution methods is the systematic probing of a defined segment of the protein sequence space, as it has been shown that ISM is much more efficient in terms of biocatalyst optimization than random methods such as error-prone PCR. In addition, ISM trees have also shed light on the emergence of epistasis, thereby rationally improving the strategies for evolving better enzymes. ISM was developed to improve catalytic properties such as rate, substrate scope, stereo- and regioselectivity using the Combinatorial Active-site Saturation Test (CAST), as well as chemical and thermal stability employing the B-Factor Iterative Test (B-FIT). However, ISM can also be invoked to manipulate such protein properties as binding affinity among other possibilities, including protein-protein interactions. Herein, we provide general guidelines for ISM, using CAST as the case study in the quest to

  5. Assessing the Impact of Landscape Evolution on Carbon Dynamics: A Coupled Physically-Based Modelling Approach

    NASA Astrophysics Data System (ADS)

    Dialynas, Y. G.; Bastola, S.; Billings, S. A.; Bras, R. L.

    2014-12-01

    Soil erosion and deposition play an important role in the global carbon (C) cycle, constituting an important driver of atmospheric CO2. Clarification of the net effect of landscape evolution on the C cycle may be achieved using coupled fully-distributed modelling of hydro-geomorphic and biogeochemical processes. We developed a distributed model of soil organic C (SOC) dynamics within an existing coupled physically-based hydro-geomorphic model (tRIBS - Erosion) to simulate the effects of soil erosion and deposition on C dynamics at basin scale. The SOC mass balance is analytically formulated at each cell using temporally variant, continuous vertical profiles of SOC content and SOC production and oxidation rate constants derived from SOC turnover characteristics. Landscape evolution feedbacks on C dynamics include the redistribution of eroded SOC, and the alteration of the SOC production and oxidation throughout the corresponding vertical profiles due to geomorphic perturbations. At each time step, model outputs include lateral and vertical C fluxes, and SOC content, at each soil column. We applied the model to the Calhoun Experimental Forest in South Carolina, which constitutes a forest recovering from agricultural land degradation prior to the mid-20th century. To test performance we carried out a point comparison against a spreadsheet-based model, SOrCERO (Soil Organic Carbon, Erosion, Replacement, and Oxidation) of SOC dynamics, which estimates effects of SOC erosion and altered SOC production and oxidation on CO2 release at an eroding profile. At a point, time integrated results from the two models were comparable. The proposed model has the additional advantage of being able to quantify C sinks and sources across the landscape in a spatially explicit manner, by systematically accounting for topographic controls on C dynamics. Sensitivity analysis suggested that the alteration of SOC production and oxidation due to landscape evolution and management practices

  6. Hydrochemical evolution and groundwater flow processes in the Galilee and Eromanga basins, Great Artesian Basin, Australia: a multivariate statistical approach.

    PubMed

    Moya, Claudio E; Raiber, Matthias; Taulis, Mauricio; Cox, Malcolm E

    2015-03-01

    The Galilee and Eromanga basins are sub-basins of the Great Artesian Basin (GAB). In this study, a multivariate statistical approach (hierarchical cluster analysis, principal component analysis and factor analysis) is carried out to identify hydrochemical patterns and assess the processes that control hydrochemical evolution within key aquifers of the GAB in these basins. The results of the hydrochemical assessment are integrated into a 3D geological model (previously developed) to support the analysis of spatial patterns of hydrochemistry, and to identify the hydrochemical and hydrological processes that control hydrochemical variability. In this area of the GAB, the hydrochemical evolution of groundwater is dominated by evapotranspiration near the recharge area resulting in a dominance of the Na-Cl water types. This is shown conceptually using two selected cross-sections which represent discrete groundwater flow paths from the recharge areas to the deeper parts of the basins. With increasing distance from the recharge area, a shift towards a dominance of carbonate (e.g. Na-HCO3 water type) has been observed. The assessment of hydrochemical changes along groundwater flow paths highlights how aquifers are separated in some areas, and how mixing between groundwater from different aquifers occurs elsewhere controlled by geological structures, including between GAB aquifers and coal bearing strata of the Galilee Basin. The results of this study suggest that distinct hydrochemical differences can be observed within the previously defined Early Cretaceous-Jurassic aquifer sequence of the GAB. A revision of the two previously recognised hydrochemical sequences is being proposed, resulting in three hydrochemical sequences based on systematic differences in hydrochemistry, salinity and dominant hydrochemical processes. The integrated approach presented in this study which combines different complementary multivariate statistical techniques with a detailed assessment of the

  7. The provenance of Taklamakan desert sand

    NASA Astrophysics Data System (ADS)

    Rittner, Martin; Vermeesch, Pieter; Carter, Andrew; Bird, Anna; Stevens, Thomas; Garzanti, Eduardo; Andò, Sergio; Vezzoli, Giovanni; Dutt, Ripul; Xu, Zhiwei; Lu, Huayu

    2016-03-01

    Sand migration in the vast Taklamakan desert within the Tarim Basin (Xinjiang Uyghur Autonomous region, PR China) is governed by two competing transport agents: wind and water, which work in diametrically opposed directions. Net aeolian transport is from northeast to south, while fluvial transport occurs from the south to the north and then west to east at the northern rim, due to a gradual northward slope of the underlying topography. We here present the first comprehensive provenance study of Taklamakan desert sand with the aim to characterise the interplay of these two transport mechanisms and their roles in the formation of the sand sea, and to consider the potential of the Tarim Basin as a contributing source to the Chinese Loess Plateau (CLP). Our dataset comprises 39 aeolian and fluvial samples, which were characterised by detrital-zircon U-Pb geochronology, heavy-mineral, and bulk-petrography analyses. Although the inter-sample differences of all three datasets are subtle, a multivariate statistical analysis using multidimensional scaling (MDS) clearly shows that Tarim desert sand is most similar in composition to rivers draining the Kunlun Shan (south) and the Pamirs (west), and is distinctly different from sediment sources in the Tian Shan (north). A small set of samples from the Junggar Basin (north of the Tian Shan) yields different detrital compositions and age spectra than anywhere in the Tarim Basin, indicating that aeolian sediment exchange between the two basins is minimal. Although river transport dominates delivery of sand into the Tarim Basin, wind remobilises and reworks the sediment in the central sand sea. Characteristic signatures of main rivers can be traced from entrance into the basin to the terminus of the Tarim River, and those crossing the desert from the south to north can seasonally bypass sediment through the sand sea. Smaller ephemeral rivers from the Kunlun Shan end in the desert and discharge their sediment there. Both river run

  8. Everything is autoimmune until proven otherwise.

    PubMed

    Shoenfeld, Yehuda

    2013-10-01

    diseases that have either an inflammatory and/or specific autoimmune response, we have to keep an open eye because everything is potentially autoimmune until proven otherwise.

  9. Enhanced provenance interpretation using combined U-Pb and (U-Th)/He double dating of detrital zircon grains from lower Miocene strata, proximal Gulf of Mexico Basin, North America

    NASA Astrophysics Data System (ADS)

    Xu, Jie; Stockli, Daniel F.; Snedden, John W.

    2017-10-01

    Detrital zircon U-Pb analysis is an effective approach for investigating sediment provenance by relating crystallization age to potential crystalline source terranes. Studies of large passive margin basins, such as the Gulf of Mexico Basin, that have received sediment from multiple terranes with non-unique crystallization ages or sedimentary strata, benefit from additional constraints to better elucidate provenance interpretation. In this study, U-Pb and (U-Th)/He double dating analyses on single zircons from the lower Miocene sandstones in the northern Gulf of Mexico Basin reveal a detailed history of sediment source evolution. U-Pb age data indicate that most zircon originated from five major crystalline provinces, including the Western Cordillera Arc (<250 Ma), the Appalachian-Ouachita orogen (500-260 Ma), the Grenville (1300-950 Ma) orogen, the Mid-Continent Granite-Rhyolite (1500-1300 Ma), and the Yavapai-Mazatzal (1800-1600 Ma) terranes as well as sparse Pan-African (700-500 Ma) and Canadian Shield (>1800 Ma) terranes. Zircon (U-Th)/He ages record tectonic cooling and exhumation in the U.S. since the Mesoproterozoic related to the Grenville to Laramide Orogenies. The combined crystallization and cooling information from single zircon double dating can differentiate volcanic and plutonic zircons. Importantly, the U-Pb-He double dating approach allows for the differentiation between multiple possible crystallization-age sources on the basis of their subsequent tectonic evolution. In particular, for Grenville zircons that are present in all of lower Miocene samples, four distinct zircon U-Pb-He age combinations are recognizable that can be traced back to four different possible sources. The integrated U-Pb and (U-Th)/He data eliminate some ambiguities and improves the provenance interpretation for the lower Miocene strata in the northern Gulf of Mexico Basin and illustrate the applicability of this approach for other large-scale basins to reconstruct sediment

  10. Managing the Evolution of an Enterprise Architecture using a MAS-Product-Line Approach

    NASA Technical Reports Server (NTRS)

    Pena, Joaquin; Hinchey, Michael G.; Resinas, manuel; Sterritt, Roy; Rash, James L.

    2006-01-01

    We view an evolutionary system ns being n software product line. The core architecture is the unchanging part of the system, and each version of the system may be viewed as a product from the product line. Each "product" may be described as the core architecture with sonre agent-based additions. The result is a multiagent system software product line. We describe an approach to such n Software Product Line-based approach using the MaCMAS Agent-Oriented nzethoclology. The approach scales to enterprise nrchitectures as a multiagent system is an approprinre means of representing a changing enterprise nrchitectclre nnd the inferaction between components in it.

  11. An approach of orthology detection from homologous sequences under minimum evolution.

    PubMed

    Kim, Kyung Mo; Sung, Samsun; Caetano-Anollés, Gustavo; Han, Jae Yong; Kim, Heebal

    2008-10-01

    In the field of phylogenetics and comparative genomics, it is important to establish orthologous relationships when comparing homologous sequences. Due to the slight sequence dissimilarity between orthologs and paralogs, it is prone to regarding paralogs as orthologs. For this reason, several methods based on evolutionary distance, phylogeny and BLAST have tried to detect orthologs with more precision. Depending on their algorithmic implementations, each of these methods sometimes has increased false negative or false positive rates. Here, we developed a novel algorithm for orthology detection that uses a distance method based on the phylogenetic criterion of minimum evolution. Our algorithm assumes that sets of sequences exhibiting orthologous relationships are evolutionarily less costly than sets that include one or more paralogous relationships. Calculation of evolutionary cost requires the reconstruction of a neighbor-joining (NJ) tree, but calculations are unaffected by the topology of any given NJ tree. Unlike tree reconciliation, our algorithm appears free from the problem of incorrect topologies of species and gene trees. The reliability of the algorithm was tested in a comparative analysis with two other orthology detection methods using 95 manually curated KOG datasets and 21 experimentally verified EXProt datasets. Sensitivity and specificity estimates indicate that the concept of minimum evolution could be valuable for the detection of orthologs.

  12. Controversy in Biology Classrooms-Citizen Science Approaches to Evolution and Applications to Climate Change Discussions.

    PubMed

    Yoho, Rachel A; Vanmali, Binaben H

    2016-03-01

    The biological sciences encompass topics considered controversial by the American public, such as evolution and climate change. We believe that the development of climate change education in the biology classroom is better informed by an understanding of the history of the teaching of evolution. A common goal for science educators should be to engender a greater respect for and appreciation of science among students while teaching specific content knowledge. Citizen science has emerged as a viable yet underdeveloped method for engaging students of all ages in key scientific issues that impact society through authentic data-driven scientific research. Where successful, citizen science may open avenues of communication and engagement with the scientific process that would otherwise be more difficult to achieve. Citizen science projects demonstrate versatility in education and the ability to test hypotheses by collecting large amounts of often publishable data. We find a great possibility for science education research in the incorporation of citizen science projects in curriculum, especially with respect to "hot topics" of socioscientific debate based on our review of the findings of other authors. Journal of Microbiology & Biology Education.

  13. Controversy in Biology Classrooms—Citizen Science Approaches to Evolution and Applications to Climate Change Discussions

    PubMed Central

    Yoho, Rachel A.; Vanmali, Binaben H.

    2016-01-01

    The biological sciences encompass topics considered controversial by the American public, such as evolution and climate change. We believe that the development of climate change education in the biology classroom is better informed by an understanding of the history of the teaching of evolution. A common goal for science educators should be to engender a greater respect for and appreciation of science among students while teaching specific content knowledge. Citizen science has emerged as a viable yet underdeveloped method for engaging students of all ages in key scientific issues that impact society through authentic data-driven scientific research. Where successful, citizen science may open avenues of communication and engagement with the scientific process that would otherwise be more difficult to achieve. Citizen science projects demonstrate versatility in education and the ability to test hypotheses by collecting large amounts of often publishable data. We find a great possibility for science education research in the incorporation of citizen science projects in curriculum, especially with respect to “hot topics” of socioscientific debate based on our review of the findings of other authors. Journal of Microbiology & Biology Education PMID:27047604

  14. Microbial experimental evolution as a novel research approach in the Vibrionaceae and squid-Vibrio symbiosis

    PubMed Central

    Soto, William; Nishiguchi, Michele K.

    2014-01-01

    The Vibrionaceae are a genetically and metabolically diverse family living in aquatic habitats with a great propensity toward developing interactions with eukaryotic microbial and multicellular hosts (as either commensals, pathogens, and mutualists). The Vibrionaceae frequently possess a life history cycle where bacteria are attached to a host in one phase and then another where they are free from their host as either part of the bacterioplankton or adhered to solid substrates such as marine sediment, riverbeds, lakebeds, or floating particulate debris. These two stages in their life history exert quite distinct and separate selection pressures. When bound to solid substrates or to host cells, the Vibrionaceae can also exist as complex biofilms. The association between bioluminescent Vibrio spp. and sepiolid squids (Cephalopoda: Sepiolidae) is an experimentally tractable model to study bacteria and animal host interactions, since the symbionts and squid hosts can be maintained in the laboratory independently of one another. The bacteria can be grown in pure culture and the squid hosts raised gnotobiotically with sterile light organs. The partnership between free-living Vibrio symbionts and axenic squid hatchlings emerging from eggs must be renewed every generation of the cephalopod host. Thus, symbiotic bacteria and animal host can each be studied alone and together in union. Despite virtues provided by the Vibrionaceae and sepiolid squid-Vibrio symbiosis, these assets to evolutionary biology have yet to be fully utilized for microbial experimental evolution. Experimental evolution studies already completed are reviewed, along with exploratory topics for future study. PMID:25538686

  15. Evolution, Interaction, and Intrinsic Properties of Dislocations in Intermetallics: Anisotropic 3D Dislocation Dynamics Approach

    SciTech Connect

    Chen, Qian

    2008-01-01

    The generation, motion, and interaction of dislocations play key roles during the plastic deformation process of crystalline solids. 3D Dislocation Dynamics has been employed as a mesoscale simulation algorithm to investigate the collective and cooperative behavior of dislocations. Most current research on 3D Dislocation Dynamics is based on the solutions available in the framework of classical isotropic elasticity. However, due to some degree of elastic anisotropy in almost all crystalline solids, it is very necessary to extend 3D Dislocation Dynamics into anisotropic elasticity. In this study, first, the details of efficient and accurate incorporation of the fully anisotropic elasticity into 3D discrete Dislocation Dynamics by numerically evaluating the derivatives of Green's functions are described. Then the intrinsic properties of perfect dislocations, including their stability, their core properties and disassociation characteristics, in newly discovered rare earth-based intermetallics and in conventional intermetallics are investigated, within the framework of fully anisotropic elasticity supplemented with the atomistic information obtained from the ab initio calculations. Moreover, the evolution and interaction of dislocations in these intermetallics as well as the role of solute segregation are presented by utilizing fully anisotropic 3D dislocation dynamics. The results from this work clearly indicate the role and the importance of elastic anisotropy on the evolution of dislocation microstructures, the overall ductility and the hardening behavior in these systems.

  16. Modeling the evolution of lithium-ion particle contact distributions using a fabric tensor approach

    SciTech Connect

    Stershic, A. J.; Simunovic, S.; Nanda, J.

    2015-08-25

    Electrode microstructure and processing can strongly influence lithium-ion battery performance such as capacity retention, power, and rate. Battery electrodes are multi-phase composite structures wherein conductive diluents and binder bond active material to a current collector. The structure and response of this composite network during repeated electrochemical cycling directly affects battery performance characteristics. We propose the fabric tensor formalism for describing the structure and evolution of the electrode microstructure. Fabric tensors are directional measures of particulate assemblies based on inter-particle connectivity, relating to the structural and transport properties of the electrode. Fabric tensor analysis is applied to experimental data-sets for positive electrode made of lithium nickel manganese cobalt oxide, captured by X-ray tomography for several compositions and consolidation pressures. We show that fabric tensors capture the evolution of inter-particle contact distribution and are therefore good measures for the internal state of and electronic transport within the electrode. The fabric tensor analysis is also applied to Discrete Element Method (DEM) simulations of electrode microstructures using spherical particles with size distributions from the tomography. Furthermore, these results do not follow the experimental trends, which indicates that the particle size distribution alone is not a sufficient measure for the electrode microstructures in DEM simulations.

  17. Conceptual and empirical problems with game theoretic approaches to language evolution

    PubMed Central

    Watumull, Jeffrey; Hauser, Marc D.

    2014-01-01

    The importance of game theoretic models to evolutionary theory has been in formulating elegant equations that specify the strategies to be played and the conditions to be satisfied for particular traits to evolve. These models, in conjunction with experimental tests of their predictions, have successfully described and explained the costs and benefits of varying strategies and the dynamics for establishing equilibria in a number of evolutionary scenarios, including especially cooperation, mating, and aggression. Over the past decade or so, game theory has been applied to model the evolution of language. In contrast to the aforementioned scenarios, however, we argue that these models are problematic due to conceptual confusions and empirical difficiences. In particular, these models conflate the comptutations and representations of our language faculty (mechanism) with its utility in communication (function); model languages as having different fitness functions for which there is no evidence; depend on assumptions for the starting state of the system, thereby begging the question of how these systems evolved; and to date, have generated no empirical studies at all. Game theoretic models of language evolution have therefore failed to advance how or why language evolved, or why it has the particular representations and computations that it does. We conclude with some brief suggestions for how this situation might be ameliorated, enabling this important theoretical tool to make substantive empirical contributions. PMID:24678305

  18. Evolution, interaction, and intrinsic properties of dislocations in intermetallics: Anisotropic three-dimensional dislocation dynamics approach

    NASA Astrophysics Data System (ADS)

    Chen, Qian

    The generation, motion, and interaction of dislocations play key roles during the plastic deformation process of crystalline solids. 3D Dislocation Dynamics has been employed as a mesoscale simulation algorithm to investigate the collective and cooperative behavior of dislocations. Most current research on 3D Dislocation Dynamics is based on the solutions available in the framework of classical isotropic elasticity. However, due to some degree of elastic anisotropy in almost all crystalline solids, it is very necessary to extend 3D Dislocation Dynamics into anisotropic elasticity. In this study, first, the details of efficient and accurate incorporation of the fully anisotropic elasticity into 3D discrete Dislocation Dynamics by numerically evaluating the derivatives of Green's functions are described. Then the intrinsic properties of perfect dislocations, including their stability, their core properties and disassociation characteristics, in newly discovered rare earth-based intermetallics and in conventional intermetallics are investigated, within the framework of fully anisotropic elasticity supplemented with the atomistic information obtained from the ab initio calculations. Moreover, the evolution and interaction of dislocations in these intermetallics as well as the role of solute segregation are presented by utilizing fully anisotropic 3D dislocation dynamics. The results from this work clearly indicate the role and the importance of elastic anisotropy on the evolution of dislocation microstructures, the overall ductility and the hardening behavior in these systems.

  19. A joint shape evolution approach to medical image segmentation using expectation-maximization algorithm.

    PubMed

    Farzinfar, Mahshid; Teoh, Eam Khwang; Xue, Zhong

    2011-11-01

    This study proposes an expectation-maximization (EM)-based curve evolution algorithm for segmentation of magnetic resonance brain images. In the proposed algorithm, the evolution curve is constrained not only by a shape-based statistical model but also by a hidden variable model from image observation. The hidden variable model herein is defined by the local voxel labeling, which is unknown and estimated by the expected likelihood function derived from the image data and prior anatomical knowledge. In the M-step, the shapes of the structures are estimated jointly by encoding the hidden variable model and the statistical prior model obtained from the training stage. In the E-step, the expected observation likelihood and the prior distribution of the hidden variables are estimated. In experiments, the proposed automatic segmentation algorithm is applied to multiple gray nuclei structures such as caudate, putamens and thalamus of three-dimensional magnetic resonance imaging in volunteers and patients. As for the robustness and accuracy of the segmentation algorithm, the results of the proposed EM-joint shape-based algorithm outperformed those obtained using the statistical shape model-based techniques in the same framework and a current state-of-the-art region competition level set method.

  20. Oligocene Provenance, Drainage Morphology, and Topography of the Nevadaplano

    NASA Astrophysics Data System (ADS)

    Cassel, E. J.; Henry, C. D.; Graham, S. A.; Chamberlain, C. P.; Grove, M.

    2011-12-01

    Debate surrounds the origin, uplift, and evolution of the northern Sierra Nevada and western Basin and Range. Many consider the Late Cretaceous to early Cenozoic Sierra to have formed the western edge of a high elevation plateau that covered much of what is now Nevada. The topography, extent, and drainage of this plateau remain uncertain. We integrate local paleovalley morphology and alluvial conglomerate stratigraphy with regional assessments of sediment and volcanic provenance and paleo-elevations across the proposed ancestral "Nevadaplano" to gain a better understanding of the early Cenozoic geomorphic evolution of the region, and to assess the possible tectonic and climatic drivers for that evolution. A sequence of Oligocene rhyolitic ignimbrites is preserved from eastern Nevada to the western foothills of the modern Sierra, commonly overlying a basal alluvial/fluvial coarse sand- to cobble-size conglomerate. The stratigraphy and provenance of these units, based on clast composition, detrital zircon and 40Ar/39Ar geochronology, and TREE geochemistry, demonstrates the presence of an active westward-draining fluvial system in the late Eocene to early Oligocene. Although dominated by Mesozoic batholith sources, detrital zircon populations from fluvial deposits in the northern Sierra contain 2-20% zircon grains with U-Pb ages from 42.7 to 33.0 Ma, which were likely sourced from Eocene volcanic rocks in northern Nevada, and 5-30% Precambrian zircon grains, reflecting derivation from basement metamorphic belts of the Sierra, as well as possible contributions from Nevada. Hydrated volcanic glass from overlying ignimbrites was used as a proxy for δD of Oligocene meteoric water, which reflects the effect of ancient topography on precipitation. δD decreases gradually from west to east across what is now northern Nevada, although at a significantly lower gradient than Oligocene δD across the Sierra. δD of volcanic glass across Nevada decreases from values ranging from

  1. Multitechnique characterization of lapis lazuli for provenance study.

    PubMed

    Lo Giudice, Alessandro; Re, Alessandro; Calusi, Silvia; Giuntini, Lorenzo; Massi, Mirko; Olivero, Paolo; Pratesi, Giovanni; Albonico, Maria; Conz, Elisa

    2009-12-01

    Lapis lazuli is one of the oldest precious stone, being used for glyptic as early as 7,000 years ago: jewels, amulets, seals, and inlays are examples of objects produced using this material. Only a few sources of lapis lazuli exist in the world due to the low probability of geological conditions in which it can form, so that the possibility to associate the raw material to man-made objects helps to reconstruct trade routes. Since art objects produced using lapis lazuli are valuable, only nondestructive investigations can be carried out to identify the provenance of the raw materials. Ionoluminescence (IL) is a good candidate for this task. Similar to cathodoluminescence (CL), IL consists in the collection of luminescence spectra induced by megaelectronvolt ion (usually protons) irradiation. The main advantage of IL consists in the possibility of working in air while measuring simultaneously the composition of major and trace elements by means of complementary ion beam analysis techniques like particle-induced X-ray emission (PIXE) or particle-induced gamma-ray emission (PIGE). In the present work, a systematic study of the luminescence properties of lapis lazuli under charged particle irradiation is reported. In the first phase, a multitechnique approach was adopted (CL, scanning electron microscopy with microanalysis, micro-Raman) to characterize luminescent minerals. This characterization was propaedeutic for IL/PIXE/PIGE measurements carried out on significant areas selected on the basis of results obtained previously. Criteria to identify provenance of lapis lazuli from four of the main sources (Afghanistan, Pamir Mountains in Tajikistan, Chile, and Siberia) were proposed.

  2. Provenance In Sensor Data Management: A Cohesive, Independent Solution

    SciTech Connect

    Hensley, Zachary P; Sanyal, Jibonananda; New, Joshua Ryan

    2014-01-01

    In today's information-driven workplaces, data is constantly undergoing transformations and being moved around. The typical business-as-usual approach is to use email attachments, shared network locations, databases, and now, the cloud. More often than not, there are multiple versions of the data sitting in different locations and users of this data are confounded by the lack of metadata describing its provenance, or in other words, its lineage. Our project is aimed to solve this issue in the context of sensor data. The Oak Ridge National Laboratory's Building Technologies Research and Integration Center has reconfigurable commercial buildings deployed on the Flexible Research Platforms (FRPs). These FRPs are instrumented with a large number of sensors which measure a number of variables such as HVAC efficiency, relative humidity, and temperature gradients across doors, windows, and walls. Sub-minute resolution data from hundreds of channels is acquired. This sensor data, traditionally, was saved to a shared network location which was accessible to a number of scientists for performing complicated simulation and analysis tasks. The sensor data also participates in elaborate quality assurance exercises as a result of inherent faults. Sometimes, faults are induced to observe building behavior. It became apparent that proper scientific controls required not just managing the data acquisition and delivery, but to also manage the metadata associated with temporal subsets of the sensor data. We built a system named ProvDMS, or Provenance Data Management System for the FRPs, which would both allow researchers to retrieve data of interest as well as trace data lineage. This provides researchers a one-stop shop for comprehensive views of various data transformation allowing researchers to effectively trace their data to its source so that experiments, and derivations of experiments, may be reused and reproduced without much overhead of the repeatability of experiments that

  3. Detrital shocked minerals: microstructural provenance indicators of impact craters

    NASA Astrophysics Data System (ADS)

    Cavosie, A. J.

    2014-12-01

    The study of detrital shocked minerals (DSMs) merges planetary science, sedimentology, mineralogy/crystallography, accessory mineral geochemistry, and geochronology, with the goal of identifying and determining provenance of shock metamorphosed sand grains. Diagnostic high-pressure impact-generated microstructures (planar fractures, planar deformation features) are readily identified on external grain surfaces using standard SEM imaging methods (BSE), and when found, unambiguously confirm an impact origin for a given sand grain. DSMs, including quartz, zircon, monazite, and apatite, have thus far been documented at the Vredefort Dome [1,2,3], Sudbury [4], Rock Elm [5], and Santa Fe [6,7] impact structures. DSMs have been identified in alluvium, colluvium, beach sand, and glacial deposits. Two main processes are recognized that imply the global siliciclastic record contains DSMs: they survive extreme distal transport, and they survive 'deep time' lithification. Distal transport: In South Africa, shocked minerals are preserved in alluvium from the Vaal River >750 km downstream from the Vredefort impact; SHRIMP U-Pb geochronology has confirmed the origin of detrital shocked zircon and monazite from shocked Vredefort bedrock [2]. Vredefort-derived shocked zircons have also been found at the mouth of the Orange River on the Atlantic coast, having travelled ~2000 km downriver from Vredefort [8]. Deep time preservation: Vredefort-derived shocked zircon and quartz has been documented in glacial diamictite from the 300 Myr-old Dwyka Group in South Africa. Shocked minerals were thus entrained and transported in Paleozoic ice sheets that passed over Vredefort [9]. An impact crater can thus be viewed as a unique 'point source', in some cases for billions of years [2,4]; DSMs thus have applications in studying eroded impact craters, sedimentary provenance, landscape evolution, and long-term sediment transport processes throughout the geologic record. This work was supported by

  4. Applications of biotite inclusion composition to zircon provenance determination

    NASA Astrophysics Data System (ADS)

    Bell, Elizabeth A.; Boehnke, Patrick; Mark Harrison, T.

    2017-09-01

    Detrital zircons are the only confirmed surviving remnants of >4.03 Ga crust while younger detrital zircons provide a parallel record of more recent crustal evolution to that preserved in crystalline rocks. Zircons often preserve inclusions that may provide clues as to the origins of out-of-context grains in the sedimentary record. Previous studies have established that inclusions of biotite in magmatic zircon are compositionally well-matched to biotite in the source rock matrix, although a direct application to ancient detrital zircons has not been made. A number of studies have documented variations in the Fe, Mg, and Al contents of magmatic biotite from different source rocks and tectonic settings, suggesting that biotite inclusions may indeed serve as provenance indicators for detrital zircons. Consistent with earlier studies, we find that the FeO*/MgO ratio of magmatic biotite from continental arcs, collisional, and within-plate settings varies with relative oxidation state as well as whole-rock FeO*/MgO, while its Al2O3/(FeO* + MgO) varies with whole-rock A/CNK (molar Al/(2 ṡ Ca + Na + K)). Biotite from oxidized metaluminous and reduced S-type granitoids can be readily distinguished from each other using FeO*/MgO and Al2O3/(FeO* + MgO), while biotite from reduced I-type and oxidized peraluminous granites may in some cases be more ambiguous. Biotite from peralkaline and reduced A-type granites are also distinguishable from all other categories by Al2O3/(FeO* + MgO) and FeO*/MgO, respectively. Biotite inclusions in Hadean zircons from Jack Hills, Western Australia indicate a mixture of metaluminous and reduced S-type host rocks, while inclusions in 3.6-3.8 Ga detrital zircons from the Nuvvuagittuq Supracrustal Belt indicate more oxidized peraluminous magmas. These results highlight the diversity of felsic materials on the early Earth and suggest that biotite inclusions are applicable to zircon provenance throughout the sedimentary record.

  5. Pathways to Provenance: "DACS" and Creator Descriptions

    ERIC Educational Resources Information Center

    Weimer, Larry

    2007-01-01

    "Describing Archives: A Content Standard" breaks important ground for American archivists in its distinction between creator descriptions and archival material descriptions. Implementations of creator descriptions, many using Encoded Archival Context (EAC), are found internationally. "DACS"'s optional approach of describing…

  6. Molecular Corridor Based Approach for Description of Evolution of Secondary Organic Aerosols

    NASA Astrophysics Data System (ADS)

    Li, Y., Sr.; Poeschl, U.; Shiraiwa, M.

    2015-12-01

    Organic aerosol is ubiquitous in the atmosphere and its major component is secondary organic aerosol (SOA). Formation and evolution of SOA is a complex process involving coupled chemical reactions and mass transport in the gas and particle phases (Shiraiwa et al., 2014). Current air quality models do not embody the full spectrum of reaction and transport processes, nor do they identify the dominant rate-limiting steps in SOA formation, resulting in the significant underprediction of observed SOA concentrations, which precludes reliable quantitative predictions of aerosols and their environmental impacts. Recently, it has been suggested that the SOA chemical evolution can be represented well by "molecular corridor" with a tight inverse correlation between molar mass and volatility of SOA oxidation products (Shiraiwa et al., 2014). Here we further analyzed the structure, molar mass and volatility of 31,000 unique organic compounds. These compounds include oxygenated organic compounds as well as nitrogen- and sulfur-containing organics such as amines, organonitrates, and organosulfates. Results show that most of those compounds fall into this two-dimensional (2-D) space, which is constrained by two boundary lines corresponding to the volatility of n -alkanes CnH2n+2 and sugar alcohols CnH2n+2On. A method to predict the volatility of nitrogen- and sulfur- containing compounds is developed based on those 31,000 organic compounds. It is shown that the volatility can be well predicted as a function of chemical composition numbers, providing a way to apply this 2-D space to organic compounds observed in real atmosphere. A comprehensive set of observation data from laboratory experiments, field campaigns and indoor measurements is mapped to the molecular corridor. This 2-D space can successfully grasp the properties of organic compounds formed in different atmospheric conditions. The molecular corridor represents a new framework in which chemical and physical properties as

  7. Deciphering the brittle evolution of SW Norway through a combined structural, mineralogical and geochronological approach

    NASA Astrophysics Data System (ADS)

    Scheiber, Thomas; Viola, Giulio; Fredin, Ola; Zwingmann, Horst; Wilkinson, Camilla Maya; Ganerød, Morgan

    2016-04-01

    SW Norway has experienced a complex brittle history after cessation of the Caledonian orogeny, and the recent discoveries of major hydrocarbon reserves in heavily fractured and weathered basement offshore SW Norway has triggered a renewed interest in understanding this complex tectonic evolution. In this contribution we present results from a multidisciplinary study combining lineament analysis, field work, paleo-stress inversion, mineralogical characterization and radiometric dating in the Bømlo area of SW Norway in order to develop a tectonic model for the brittle evolution of this important region. The study area mainly consists of the Rolvsnes granodiorite (U-Pb zircon age of ca. 466 Ma), which is devoid of penetrative ductile deformation features. The first identified brittle faults are muscovite-bearing top-to-the-NNW thrusts and E-W striking dextral strike-slip faults decorated with stretched biotite. These are mechanically compatible and are assigned to the same NNW-SSE transpressional regime. Ar-Ar muscovite and biotite dates of ca. 450 Ma (Late Ordovician) indicate fault activity in the course of a Taconian-equivalent orogenic event. During the subsequent Silurian Laurentia-Baltica collision variably oriented, lower-grade chlorite and epidote-coated faults formed in response to a ENE-WSW compressional stress regime. A large number of mainly N-S striking normal faults consist of variably thick fault gouge cores with illite, quartz, kaolinite, calcite and epidote mineralizations, accommodating mainly E-W extension. K-Ar dating of illites separated from representative fault gouges and zones of altered granodiorite constrain deformation ranging from the Permian to the Late Jurassic, indicating a long history of crustal extension where faults were repeatedly activated. In addition, a set of ca. SW-NE striking faults associated with alteration zones give Cretaceous dates, either representing a young phase of NW-SE extension or reactivation of previously formed

  8. The evolution and functions of laughter and humor: a synthetic approach.

    PubMed

    Gervais, Matthew; Wilson, David Sloan

    2005-12-01

    A number of recent hypotheses have attempted to explain the ultimate evolutionary origins of laughter and humor. However most of these have lacked breadth in their evolutionary frameworks while neglecting the empirical existence of two distinct types of laughter--Duchenne and non-Duchenne--and the implications of this distinction for the evolution of laughter as a signal. Most of these hypotheses have also been proposed in relative isolation of each other and remain disjointed from the relevant empirical literature. Here we attempt to remedy these shortcomings through a synthesis of previous laughter and humor research followed by (i) a reevaluation of this research in light of theory and data from several relevant disciplines, and (ii) the proposal of a synthetic evolutionary framework that takes into account phylogeny and history as well as proximate mechanisms and adaptive significance. We consider laughter to have been a preadaptation that was gradually elaborated and co-opted through both biological and cultural evolution. We hypothesize that Duchenne laughter became fully ritualized in early hominids between 4 and 2 mya as a medium for playful emotional contagion. This mechanism would have coupled the emotions of small hominid groups and promoted resource-building social play during the fleeting periods of safety and satiation that characterized early bipedal life. We further postulate that a generalized class of nonserious social incongruity would have been a reliable indicator of such safe times and thereby came to be a potent distal elicitor of laughter and playful emotion. This class of stimuli had its origins in primate social play and was the foundation for formal human humor. Within this framework, Duchenne laughter and protohumor were well established in the hominid biobehavioral repertoire when more cognitively sophisticated traits evolved in the hominid line between 2 mya and the present. The prior existence of laughter and humor allowed them to be

  9. Towards a common provenance model for research publications

    NASA Astrophysics Data System (ADS)

    Fu, L.; Ma, X.; West, P.; Beaulieu, S. E.; Di Stefano, M.; Fox, P. A.

    2014-12-01

    Provenance is information about entities, activities, and people involved in producing a piece of data or thing, which can be used to form assessments about its quality, reliability or trustworthiness. In a research publication, provenance includes entities, activities and people involved in the process leading to the parts of the publication such as figures, tables, paragraphs etc. Such information is often desirable for the readers to correctly interpret publication content and enables them to evaluate the credibility of the reported results by digging into the software in use, source data and responsible agents or even reproducing the results themselves. In this presentation, we will describe our ontology designed to model the preparing process of research publications based on our experience from two projects, both focusing on provenance capturing for research publications. The first project is about capturing provenance information for a National Climate Assessment (NCA) report of the US Global Change Research Program (USGCRP), and the second about capturing provenance information for an Ecosystem Status Report (ESR) of the Northeast Fisheries Science Center (NEFSC). Both projects base their provenance modeling on the W3C Provenance ontology (PROV-O), which proves to be an effective way to create models for provenance capturing. We will illustrate the commonalities and differences between use cases of these two projects and how we derive a common model from models specifically designed to capture provenance information for each of the projects.

  10. Stream-piracy impact on the long-term evolution of the Meuse basin. Physical approach "modeling with GOLEM"

    NASA Astrophysics Data System (ADS)

    Benaichouche, A.; Stab, O.; Cojan, I.; Brulhet, J.; Tijani, M.; Tessier, B.

    2012-04-01

    Landscape evolution results of antagonistic processes. In the Paris basin (France): tectonic uplift seems to be globally balanced by river incision. But the dynamic equilibrium of the relief can be disturbed by other processes and singularities may appear. A remarkable example is observed in the Meuse basin (NE of France), where the river is actually perched at more than +50m above the surrounding valleys: the Marne valley to the west and the Moselle valley to the east. This special morphology is the result of several stream piracies (at the expense of the Meuse) which has interested numerous researchers since a long time (Davis 1895, Blache 1943, Lesson-Quinif 2001 & Le Roux Harmand 1997-2009…). The most important ones of these piracies are: 1) the well-known capture of the Haute-Moselle by a tributary of the Meurthe near Toul; 2) at the north-west, the capture of the river Aire by the Aisne. On-going evolution suggests that similar events can be expected in the long-term future. Where and when next streams piracies could occur, what consequences may be expected? Our approach is to simulate the dynamic evolution of the landscape with an improved version of GOLEM (Geomorphic / Orogenic Landscape Evolution Model - LEM), software developed by Tucker & Slingerland in 1994 (http://csdms.colorado.edu/wiki/Model:GOLEM). The LEM characterizes erosion by incorporating diffusion and advection equations whose parameters must be fixed, according to local conditions. First simulations for next millions years with « detachment-limited » mode, let us locate several potential captures of the Meuse river by tributaries of the Moselle, therefore inducing a complete reorganization of the hydrographic network. The results of the localizations agree with local topography/geometry analysis. The first capture induces the propagation of a knickpoint and a significant lowering of the upstream part of the Meuse's basin. Downstream of the capture, the orientation of the abandoned valley

  11. Dynamical evolution of the Oort cloud. I. A Monte Carlo simulation. II. A theoretical approach

    SciTech Connect

    Remy, F.; Mignard, F.

    1985-07-01

    A Monte Carlo model is used to trace the dynamical evolution of the Oort cloud of comets to its ultimate end. After a review of previous simulations, the necessity of considering perturbations of the aphelion distance because of passing stars, the density of passing stars, and the three-body problem of sun-star-comet is discussed. For convenience, the solar gravitation is assumed to be zero as a star passes. It is also assumed that the initial cometary distribution had a perihelion near the orbits of Uranus-Neptune. Six orbital elements are calculated to obtain orbital distributions for the population in the Oort cloud. The cloud is estimated to contain 10 trillion comets, which would satisfy the present apparition rate of new comets. 34 references.

  12. Competition-colonization dynamics: An ecology approach to quasispecies dynamics and virulence evolution in RNA viruses.

    PubMed

    Ojosnegros, Samuel; Beerenwinkel, Niko; Domingo, Esteban

    2010-07-01

    A single and purified clone of foot-and-mouth disease virus diversified in cell culture into two subpopulations that were genetically distinct. The subpopulation with higher virulence was a minority and was suppressed by the dominant but less virulent one. These two populations follow the competitioncolonization dynamics described in ecology. Virulent viruses can be regarded as colonizers because they killed the cells faster and they spread faster. The attenuated subpopulation resembles competitors because of its higher replication efficiency in coinfected cells. Our results suggest a new model for the evolution of virulence which is based on interactions between components of the quasispecies. Competition between viral mutants takes place at two levels, intracellular competition and competition for new cells. The two strategies are subjected to densitydependent selection.

  13. A Knowledge-based Evolution Algorithm approach to political districting problem

    NASA Astrophysics Data System (ADS)

    Chou, Chung-I.

    2011-01-01

    The political districting problem is to study how to partition a comparatively large zone into many minor electoral districts. In our previously works, we have mapped this political problem onto a q-state Potts model system by using statistical physics methods. The political constraints (such as contiguity, population equality, etc.) are transformed to an energy function with interactions between sites or external fields acting on the system. Several optimization algorithms such as simulated annealing method and genetic algorithm have been applied to this problem. In this report, we will show how to apply the Knowledge-based Evolution Algorithm (KEA) to the problem. Our test objects include two real cities (Taipei and Kaohsiung) and the simulated cities. The results showed the KEA can reach the same minimum which has been found by using other methods in each test case.

  14. The evolution of cosmic-ray-mediated magnetohydrodynamic shocks: A two-fluid approach

    NASA Technical Reports Server (NTRS)

    Jun, Byung-Il; Clarke, David A.; Norman, Michael L.

    1994-01-01

    We study the shock structure and acceleration efficiency of cosmic-ray mediated Magnetohydrodynamic (MHD) shocks both analytically and numerically by using a two-fluid model. Our model includes the dynamical effect of magnetic fields and cosmic rays on a background thermal fluid. The steady state solution is derived by following the technique of Drury & Voelk (1981) and compared to numerical results. We explore the time evolution of plane-perpendicular, piston-driven shocks. From the results of analytical and numerical studies, we conclude that the mean magnetic field plays an important role in the structure and acceleration efficiency of cosmic-ray mediated MHD shocks. The acceleration of cosmic-ray particles becomes less efficient in the presence of strong magnetic pressure since the field makes the shock less compressive. This feature is more prominent at low Mach numbers than at high Mach numbers.

  15. Co-Evolution of Opinion and Strategy in Persuasion Dynamics:. AN Evolutionary Game Theoretical Approach

    NASA Astrophysics Data System (ADS)

    Ding, Fei; Liu, Yun; Li, Yong

    In this paper, a new model of opinion formation within the framework of evolutionary game theory is presented. The model simulates strategic situations when people are in opinion discussion. Heterogeneous agents adjust their behaviors to the environment during discussions, and their interacting strategies evolve together with opinions. In the proposed game, we take into account payoff discount to join a discussion, and the situation that people might drop out of an unpromising game. Analytical and emulational results show that evolution of opinion and strategy always tend to converge, with utility threshold, memory length, and decision uncertainty parameters influencing the convergence time. The model displays different dynamical regimes when we set differently the rule when people are at a loss in strategy.

  16. The evolution of stable magnetic fields in stars: an analytical approach

    NASA Astrophysics Data System (ADS)

    Mestel, Leon; Moss, David

    2010-07-01

    The absence of a rigorous proof of the existence of dynamically stable, large-scale magnetic fields in radiative stars has been for many years a missing element in the fossil field theory for the magnetic Ap/Bp stars. Recent numerical simulations, by Braithwaite & Spruit and Braithwaite & Nordlund, have largely filled this gap, demonstrating convincingly that coherent global scale fields can survive for times of the order of the main-sequence lifetimes of A stars. These dynamically stable configurations take the form of magnetic tori, with linked poloidal and toroidal fields, that slowly rise towards the stellar surface. This paper studies a simple analytical model of such a torus, designed to elucidate the physical processes that govern its evolution. It is found that one-dimensional numerical calculations reproduce some key features of the numerical simulations, with radiative heat transfer, Archimedes' principle, Lorentz force and Ohmic decay all playing significant roles.

  17. A multiscale approach to defect evolution in tungsten under helium irradiation

    NASA Astrophysics Data System (ADS)

    Valles, G.; Cazalilla, A. L.; Gonzalez, C.; Martin-Bragado, I.; Prada, A.; Iglesias, R.; Perlado, J. M.; Rivera, A.

    2015-06-01

    We have studied He irradiation in tungsten from a multiscale point of view: Density Functional Theory (DFT) to obtain the binding energies of He to vacancy clusters, Binary Collision Approximation (BCA) and Molecular Dynamics (MD) to produce defect cascades and Object Kinetic Monte Carlo (OKMC) to study their evolution in larger temporal and spatial scales. A comparison between BCA and MD cascades produced by PKA at different energies has been done at different temperatures: at high temperature and at high PKA energies the OKMC results clearly depend on the defect cascades. 625 keV pulsed He ion irradiation has been simulated with cascades obtained by means of BCA and MD. The results show that in the case of ion irradiation, BCA results can provide good OKMC results. However, in the case of neutron irradiation producing high energy PKAs, BCA cascades clearly overestimate the number of FPs, which may have a strong influence on the OKMC results.

  18. Organisms, organizations and interactions: an information theory approach to biocultural evolution.

    PubMed

    Wallace, R; Wallace, R G

    1999-08-01

    The language metaphor of theoretical biology, proposed by Waddington in 1972, provides a basis for the formal examination of how different self-reproducing structures interact in an extended evolutionary context. Such interactions have become central objects of study in fields ranging from human evolution-genes and culture-to economics-firms, markets and technology. Here we use the Shannon-McMillan Theorem, one of the fundamental asymptotic relations of probability theory, to study the 'weakest' and hence most universal, forms of interaction between generalized languages. We propose that the co-evolving gene-culture structure that permits human ultra-sociality emerged in a singular coagulation of genetic and cultural 'languages', in the general sense of the word. Human populations have since hosted series of culture-only speciations and coagulations, events that, in this formulation, do not become mired in the 'meme' concept.

  19. Evolution and Classification of Myosins, a Paneukaryotic Whole-Genome Approach

    PubMed Central

    Sebé-Pedrós, Arnau; Grau-Bové, Xavier; Richards, Thomas A.; Ruiz-Trillo, Iñaki

    2014-01-01

    Myosins are key components of the eukaryotic cytoskeleton, providing motility for a broad diversity of cargoes. Therefore, understanding the origin and evolutionary history of myosin classes is crucial to address the evolution of eukaryote cell biology. Here, we revise the classification of myosins using an updated taxon sampling that includes newly or recently sequenced genomes and transcriptomes from key taxa. We performed a survey of eukaryotic genomes and phylogenetic analyses of the myosin gene family, reconstructing the myosin toolkit at different key nodes in the eukaryotic tree of life. We also identified the phylogenetic distribution of myosin diversity in terms of number of genes, associated protein domains and number of classes in each taxa. Our analyses show that new classes (i.e., paralogs) and domain architectures were continuously generated throughout eukaryote evolution, with a significant expansion of myosin abundance and domain architectural diversity at the stem of Holozoa, predating the origin of animal multicellularity. Indeed, single-celled holozoans have the most complex myosin complement among eukaryotes, with paralogs of most myosins previously considered animal specific. We recover a dynamic evolutionary history, with several lineage-specific expansions (e.g., the myosin III-like gene family diversification in choanoflagellates), convergence in protein domain architectures (e.g., fungal and animal chitin synthase myosins), and important secondary losses. Overall, our evolutionary scheme demonstrates that the ancestral eukaryote likely had a complex myosin repertoire that included six genes with different protein domain architectures. Finally, we provide an integrative and robust classification, useful for future genomic and functional studies on this crucial eukaryotic gene family. PMID:24443438

  20. Experimental Approach Reveals the Role of alx1 in the Evolution of the Echinoderm Larval Skeleton.

    PubMed

    Koga, Hiroyuki; Fujitani, Haruka; Morino, Yoshiaki; Miyamoto, Norio; Tsuchimoto, Jun; Shibata, Tomoko F; Nozawa, Masafumi; Shigenobu, Shuji; Ogura, Atsushi; Tachibana, Kazunori; Kiyomoto, Masato; Amemiya, Shonan; Wada, Hiroshi

    2016-01-01

    Over the course of evolution, the acquisition of novel structures has ultimately led to wide variation in morphology among extant multicellular organisms. Thus, the origins of genetic systems for new morphological structures are a subject of great interest in evolutionary biology. The larval skeleton is a novel structure acquired in some echinoderm lineages via the activation of the adult skeletogenic machinery. Previously, VEGF signaling was suggested to have played an important role in the acquisition of the larval skeleton. In the present study, we compared expression patterns of Alx genes among echinoderm classes to further explore the factors involved in the acquisition of a larval skeleton. We found that the alx1 gene, originally described as crucial for sea urchin skeletogenesis, may have also played an essential role in the evolution of the larval skeleton. Unlike those echinoderms that have a larval skeleton, we found that alx1 of starfish was barely expressed in early larvae that have no skeleton. When alx1 overexpression was induced via injection of alx1 mRNA into starfish eggs, the expression patterns of certain genes, including those possibly involved in skeletogenesis, were altered. This suggested that a portion of the skeletogenic program was induced solely by alx1. However, we observed no obvious external phenotype or skeleton. We concluded that alx1 was necessary but not sufficient for the acquisition of the larval skeleton, which, in fact, requires several genetic events. Based on these results, we discuss how the larval expression of alx1 contributed to the acquisition of the larval skeleton in the putative ancestral lineage of echinoderms.

  1. Evolution and classification of myosins, a paneukaryotic whole-genome approach.

    PubMed

    Sebé-Pedrós, Arnau; Grau-Bové, Xavier; Richards, Thomas A; Ruiz-Trillo, Iñaki

    2014-02-01

    Myosins are key components of the eukaryotic cytoskeleton, providing motility for a broad diversity of cargoes. Therefore, understanding the origin and evolutionary history of myosin classes is crucial to address the evolution of eukaryote cell biology. Here, we revise the classification of myosins using an updated taxon sampling that includes newly or recently sequenced genomes and transcriptomes from key taxa. We performed a survey of eukaryotic genomes and phylogenetic analyses of the myosin gene family, reconstructing the myosin toolkit at different key nodes in the eukaryotic tree of life. We also identified the phylogenetic distribution of myosin diversity in terms of number of genes, associated protein domains and number of classes in each taxa. Our analyses show that new classes (i.e., paralogs) and domain architectures were continuously generated throughout eukaryote evolution, with a significant expansion of myosin abundance and domain architectural diversity at the stem of Holozoa, predating the origin of animal multicellularity. Indeed, single-celled holozoans have the most complex myosin complement among eukaryotes, with paralogs of most myosins previously considered animal specific. We recover a dynamic evolutionary history, with several lineage-specific expansions (e.g., the myosin III-like gene family diversification in choanoflagellates), convergence in protein domain architectures (e.g., fungal and animal chitin synthase myosins), and important secondary losses. Overall, our evolutionary scheme demonstrates that the ancestral eukaryote likely had a complex myosin repertoire that included six genes with different protein domain architectures. Finally, we provide an integrative and robust classification, useful for future genomic and functional studies on this crucial eukaryotic gene family.

  2. Experimental Approach Reveals the Role of alx1 in the Evolution of the Echinoderm Larval Skeleton

    PubMed Central

    Koga, Hiroyuki; Fujitani, Haruka; Morino, Yoshiaki; Miyamoto, Norio; Tsuchimoto, Jun; Shibata, Tomoko F.; Nozawa, Masafumi; Shigenobu, Shuji; Ogura, Atsushi; Tachibana, Kazunori; Kiyomoto, Masato; Amemiya, Shonan; Wada, Hiroshi

    2016-01-01

    Over the course of evolution, the acquisition of novel structures has ultimately led to wide variation in morphology among extant multicellular organisms. Thus, the origins of genetic systems for new morphological structures are a subject of great interest in evolutionary biology. The larval skeleton is a novel structure acquired in some echinoderm lineages via the activation of the adult skeletogenic machinery. Previously, VEGF signaling was suggested to have played an important role in the acquisition of the larval skeleton. In the present study, we compared expression patterns of Alx genes among echinoderm classes to further explore the factors involved in the acquisition of a larval skeleton. We found that the alx1 gene, originally described as crucial for sea urchin skeletogenesis, may have also played an essential role in the evolution of the larval skeleton. Unlike those echinoderms that have a larval skeleton, we found that alx1 of starfish was barely expressed in early larvae that have no skeleton. When alx1 overexpression was induced via injection of alx1 mRNA into starfish eggs, the expression patterns of certain genes, including those possibly involved in skeletogenesis, were altered. This suggested that a portion of the skeletogenic program was induced solely by alx1. However, we observed no obvious external phenotype or skeleton. We concluded that alx1 was necessary but not sufficient for the acquisition of the larval skeleton, which, in fact, requires several genetic events. Based on these results, we discuss how the larval expression of alx1 contributed to the acquisition of the larval skeleton in the putative ancestral lineage of echinoderms. PMID:26866800

  3. Evolution of single practice trends in the surgical approach to the undescended testicle.

    PubMed

    Cuda, Scott P; Srinivasan, Arun K; Kalisvaart, Jonathan; Kirsch, Andrew J

    2011-06-01

    The surgical approach to palpable and nonpalpable testicles has changed with increasing use of a single scrotal incision and laparoscopy, respectively. We identified current trends in the surgical approach to undescended testicles in the practice of a single surgeon at our institution. A total of 580 orchiopexies were performed in 554 patients by a single surgeon between January 2002 and July 2009. Study inclusion criteria were palpable and nonpalpable primary undescended testicles. Patients were stratified into groups based on the date of the initial procedure by year. A retrospective chart review was performed and the surgical approach in each patient was recorded as laparoscopic, transinguinal abdominal, inguinal or scrotal. During the 7-year period the percent of orchiopexies performed through a single scrotal incision increased from approximately 15% to a high of 63%. The overall percent of cases performed through a standard inguinal incision decreased from 65% to 17% and the percent performed through a transinguinal abdominal approach decreased from 15% to 0% in the 2 most recent years tabulated. The use of laparoscopy increased from 3% to 17%. Substantial trends were observed among the 3 groups. The percent of procedures performed through a scrotal incision increased during the 7-year period while the percent of inguinal and transinguinal abdominal procedures decreased concomitantly with no increase in morbidity. Selected use of scrotal approach orchiopexy is safe and effective for palpable undescended testicles. Copyright © 2011 American Urological Association Education and Research, Inc. Published by Elsevier Inc. All rights reserved.

  4. Convergence and dissonance: evolution in private-sector approaches to disease management and care coordination.

    PubMed

    Mays, Glen P; Au, Melanie; Claxton, Gary

    2007-01-01

    Disease management (DM) approaches survived the 1990s backlash against managed care because of their potential for consumer-friendly cost containment, but purchasers have been cautious about investing heavily in them because of uncertainty about return on investment. This study examines how private-sector approaches to DM have evolved over the past two years in the midst of the movement toward consumer-driven health care. Findings indicate that these programs have become standard features of health plan design, despite a thin evidence base concerning their effectiveness. Uncertainties remain regarding how well these programs will function within benefit designs that require higher consumer cost sharing.

  5. Nuclear Thermal Rocket (Ntr) Propulsion: A Proven Game-Changing Technology for Future Human Exploration Missions

    NASA Technical Reports Server (NTRS)

    Borowski, Stanley K.; McCurdy, David R.; Packard, Thomas W.

    2012-01-01

    The NTR represents the next evolutionary step in high performance rocket propulsion. It generates high thrust and has a specific impulse (Isp) of approx.900 seconds (s) or more V twice that of today s best chemical rockets. The technology is also proven. During the previous Rover and NERVA (Nuclear Engine for Rocket Vehicle Applications) nuclear rocket programs, 20 rocket reactors were designed, built and ground tested. These tests demonstrated: (1) a wide range of thrust; (2) high temperature carbide-based nuclear fuel; (3) sustained engine operation; (4) accumulated lifetime; and (5) restart capability V all the requirements needed for a human mission to Mars. Ceramic metal cermet fuel was also pursued, as a backup option. The NTR also has significant growth and evolution potential. Configured as a bimodal system, it can generate electrical power for the spacecraft. Adding an oxygen afterburner nozzle introduces a variable thrust and Isp capability and allows bipropellant operation. In NASA s recent Mars Design Reference Architecture (DRA) 5.0 study, the NTR was selected as the preferred propulsion option because of its proven technology, higher performance, lower launch mass, simple assembly and mission operations. In contrast to other advanced propulsion options, NTP requires no large technology scale-ups. In fact, the smallest engine tested during the Rover program V the 25,000 lbf (25 klbf) Pewee engine is sufficient for human Mars missions when used in a clustered engine arrangement. The Copernicus crewed spacecraft design developed in DRA 5.0 has significant capability and a human exploration strategy is outlined here that uses Copernicus and its key components for precursor near Earth asteroid (NEA) and Mars orbital missions prior to a Mars landing mission. Initially, the basic Copernicus vehicle can enable reusable 1-year round trip human missions to candidate NEAs like 1991 JW and Apophis in the late 2020 s to check out vehicle systems. Afterwards, the

  6. Provenance and sediment fluxes in the Irrawaddy (Ayeyarwadi) River

    NASA Astrophysics Data System (ADS)

    Garzanti, Eduardo; Wang, Jiangang; Vezzoli, Giovanni; Limonta, Mara

    2016-04-01

    .5 and 2.0 Ga (Limonta et al., 2016). Forward mixing calculations based on integrated petrographic and heavy-mineral data (Garzanti et al., 2012) indicate that 60±10% of the total sediment flux is supplied by the Chindwin River and that upper Irrawaddy sand is supplied mainly by the Nmai headwater branch but also significantly from the Mali branch and left-bank tributaries sourced in the northern Shan Plateau. CITED REFERENCES Garzanti E., Resentini A., Vezzoli G., Andò S., Malusà M., Padoan M. 2012. Forward compositional modelling of Alpine orogenic sediments. Sedimentary Geology 280:149-164. Garzanti E., Limonta M., Resentini A., Bandopadhyay P. C., Najman Y., Andò S., Vezzoli G. 2013. Sediment recycling at convergent plate margins (Indo-Burman Ranges and Andaman-Nicobar Ridge). Earth-Science Reviews 123:113-132. Limonta M., Resentini A., Carter A., Bandopadhyay P.C., Garzanti E. 2016. Provenance of Oligocene Andaman Sandstones (Andaman-Nicobar islands): Ganga-Brahmaputra or Irrawaddy derived? In: Bandyopadhyay P., Carter A. (Eds.). The Andaman-Nicobar accretionary ridge geology, tectonics and hazards, Geological Society of London Memoir, in review. Robinson R.A.J., Bird M.I., Oo N.W., Hoey T.B., Aye M.M., Higgitt D.L., Lu X.X., Swe A., Tun T., Win S. L. 2007. The Irrawaddy River sediment flux to the Indian Ocean: the original nineteenth-century data revisited. The Journal of Geology 115:629-640. Wang J.G., Wu F.Y., Tan X.C., Liu C.Z. 2014. Magmatic evolution of the Western Myanmar Arc documented by U-Pb and Hf isotopes in detrital zircon. Tectonophysics 612:97-105.

  7. The Evolution of a Contextual Approach to Therapy: From Comprehensive Distancing to ACT

    ERIC Educational Resources Information Center

    Zettle, Robert D.

    2005-01-01

    This paper traces the developmental history of acceptance and commitment therapy (ACT) from its beginning as comprehensive distancing to its current form and status. It is maintained that technical differences between the two approaches are overshadowed by ones of conceptualization. Comprehensive distancing emerged from efforts to extend Skinner's…

  8. The Evolution of a Contextual Approach to Therapy: From Comprehensive Distancing to ACT

    ERIC Educational Resources Information Center

    Zettle, Robert D.

    2011-01-01

    This paper traces the developmental history of acceptance and commitment therapy (ACT) from its beginning as comprehensive distancing to its current form and status. It is maintained that technical differences between the two approaches are overshadowed by ones of conceptualization. Comprehensive distancing emerged from efforts to extend Skinner's…

  9. Comparative embryology without a microscope: using genomic approaches to understand the evolution of development

    PubMed Central

    Garfield, David A; Wray, Gregory A

    2009-01-01

    Until recently, understanding developmental conservation and change has relied on embryological comparisons and analyses of single genes. Several studies, including one recently published in BMC Biology, have now taken a genomic approach to this classical problem, providing insights into how selection operates differentially across the life cycle. PMID:19664180

  10. From Microactions to Macrostructure and Back: A Structurational Approach to the Evolution of Organizational Networks

    ERIC Educational Resources Information Center

    Whitbred, Robert; Fonti, Fabio; Steglich, Christian; Contractor, Noshir

    2011-01-01

    Structuration theory (ST) and network analysis are promising approaches for studying the emergence of communication networks. We offer a model that integrates the conceptual richness of structuration with the precision of relevant concepts and mechanisms offered from communication network research. We leverage methodological advancements (i.e.,…

  11. A continuum approach to the modeling of microstructural evolution in polycrystalline solids

    NASA Astrophysics Data System (ADS)

    Mourad, Hashem M.

    Interest in microstructural evolution of polycrystalline materials stems from the multiplicity of interrelated phenomena that contribute to this evolution, and from the impact that such phenomena have on the performance and reliability of these materials, especially in applications such as microelectronic devices. In this work, a continuum field formulation developed to study this type of phenomena is presented. The formulation accounts fully for the coupling between mechanical behavior, self diffusion, electric effects and interface migration. Each phenomenon being modeled is treated as a coupled initial and boundary value problem, consisting of these four component problems. Atomic-level mechanisms are taken into consideration while developing the thermodynamic basis of the formulation, from which the constitutive relations are derived. The computational framework used to solve the resulting coupled field equations is described in detail. This framework is built around a staggered solution scheme in which the finite element method is used to solve each governing differential equation individually. Additional computational techniques utilized in the implementation are also discussed. Examples of these include the level set method, a least-squares projection/smoothing technique and a modified form of the Galerkin/least-squares stabilization method. To study the problem of void nucleation in polycrystals, the stability of the atom-vacancy system is examined closely. A thermodynamic instability which could lead to spinodal decomposition of this system is identified. The amplications of this result in the context of void nucleation are explored and its relation to classical nucleation theory is realized. All quantities needed to calculate void formation rates are obtained from the coupled field calculations in a consistent mannen As expected, the results indicate that a high tensile stress can lead to void nucleation in the presence of impurities. The problem of grain

  12. Biogeomorphic evolution of new Missouri River wetlands: A remote sensing approach

    NASA Astrophysics Data System (ADS)

    Niebur, Curt Stanley

    The Great Flood of 1993 damaged the floodplain of the Lower Missouri River when over 500 levees failed. These levee failures created large scours and deposited massive amounts of sediment on the agricultural floodplain. The U.S. Fish and Wildlife Service acquired areas heavily damaged by the 1993 floods and incorporated them into the Big Muddy Fish and Wildlife Refuge. One purpose of this refuge system is to restore the Missouri River system within the refuge from its highly engineered state to a more natural form. Analysis of a combination of remote sensing data, fieldwork, and finite element flow models was used to investigate the biogeomorphic evolution of one of these new wetlands refuges, the Lisbon Bottoms/Jameson Island Refuge. Four landcover mapping techniques were used to track changes with time: (1) geomorphic mapping, (2) maximum likelihood classification of Landsat TM data, (3) a linear spectral unmixing model using Landsat TM data, and (4) polarimetric and minimum distance classification of AIRSAR radar scattering data. Research showed that a biogeomorphic feedback loop in which the flow field, geomorphology, sediment, and vegetation interactions controlled the rapid evolution of the refuge after 1993. The 1993 flood first entered the area through levee breaks, forming scour zones, sweeping away most non-woody vegetation, and leaving behind a largely uniform, sand-covered floodplain. Field and remote sensing data showed that xeric sparse vegetation species encroached on high, dry sands, whereas mesic species populated lower, wetter scours. Smaller floods after 1993 entered the levee breaks, extended the scours into chutes, and draped silt and clay over the sand, allowing vegetation to spread rapidly. Remnant levees protected most of the area from fast flows, allowing cottonwood and willow saplings to spread across the study area and dominate the landscape, except in floodplain chutes. Expansion of saplings and the absence of flooding in 1999

  13. Tracing the evolution within nearby galaxy groups: a multi-wavelength approach

    NASA Astrophysics Data System (ADS)

    Bettoni, Daniela; Marino, Antonina; Rampazzo, Roberto; Plana, Henri; Rosado, Margarita; Galletta, Giuseppe; Mazzei, Paola; Bianchi, Luciana; Buson, Lucio M.; Ambrocio-Cruz, Patricia; Gabbasov, Ruslan

    2015-03-01

    Evolutionary scenarios suggest that several mechanisms (from inner secular evolution to accretion/merging) may transform galaxy members, driving groups from an active star forming phase to a more passive, typical of dense environments. We are investigating this transition in a nearby group sample, designed to cover a wide range of properties (see also Marino et al. (2010), Bettoni et al. (2011) and Marino et al. (2012)). We study two groups, USGC U268 and USGC U376 located in different regions of the Leo cloud, through a photometric and kinematic characterization of their member galaxies. We revisit the group membership, using results from recent red-shift surveys, and we investigate their substructures. U268, composed of 10 catalogued members and 11 new added members, has a small fraction (~24%) of early-type galaxies (ETGs). U376 has 16 plus 8 new added members, with ~38% of ETGs. We find the significant substructuring in both groups suggesting that they are likely accreting galaxies. U268 is located in a more loose environment than U376. For each member galaxy, broad band integrated and surface photometry have been obtained in far-UV (FUV) and near-UV (NUV) with GALEX, and in u, g, r, i, z (SDSS) bands. Hα imaging and 2D high resolution kinematical data have been obtained using PUMA Scanning Fabry-Perot interferometer at the 2.12 m telescope in San Pedro Mártir (Baja California, México). We improved the galaxy classification and we detected morphological and kinematical distortions that may be connected to either on-going and/or past interaction/accretion events or environmental induced secular evolution. U268 appears more active than U376, with a large fraction of galaxies showing interaction signatures (60% vs. 13%). The presence of bars among late-type galaxies is ~10% in U268 and 29% in U376. The cumulative distribution of (FUV - NUV) colors of galaxies in U268 is significantly different (bluer) than that of U376's galaxies. Most (80%) of the early

  14. An Analytical Approach to the Evolution and Death of AGB Stars

    NASA Astrophysics Data System (ADS)

    Prager, Henry Alexander; Willson, Lee Anne M.; Marengo, Massimo; Creech-Eakman, Michelle J.

    2017-01-01

    Pop. I and II stars have a significant amount of metals throughout their structure, In the final stages of their evolution, intermediate mass stars (between 0.7 and 2 solar masses) ascend the Asymptotic Giant Branch (AGB). During their last few hundred thousand years on the AGB, these stars quickly lose their envelopes, recycling their metals as dust into the interstellar medium. The rate at which this happens consequently impacts the formation rate of stars, stellar systems, and the wider distribution of s-process isotopes.At the end of their life cycles, AGB stars experience a steep increase in mass loss rate. We can define the death line in two steps. First we define the critical mass loss rate to be where the mass loss rate equals the initial mass divided by the evolution time. Then the death line is where the rate of change of logMdot equals the rate of change of logL. Most of the stars we observe to be rapidly losing mass appear in the death zone between 0.1 and 10 times the critical mass loss rate.Assuming the mass loss rate increases exponentially with time, or, equivalently, the luminosity increases as a power of a characteristic exponent b, then the width of the death zone is the change in logL. This directly implies time is inversely proportional to b. This can be found for any mass-loss rate formula near the death line. By combining this with what we know about the initial-final mass relation and the core mass-luminosity relation, we can test for b with three observables — duration (width) of the death zone, the amplitude of mass loss variations (when L varies on an observable time scale such as a shell flash), and distributions of luminosity and pulsation period.By applying the initial mass function (IMF) and star formation rate (SFR) of an observed region, we can relate these observables to the characteristic exponent. We will need to look at nearby regions where we can see large numbers of AGB stars, such as the Magellanic clouds. We will show that

  15. Annotating and embedding provenance in science data repositories to enable next generation science applications

    NASA Astrophysics Data System (ADS)

    McGuinness, D. L.; Fox, P.; Pinheiro da Silva, P.; Zednik, S.; Del Rio, N.; Ding, L.; West, P.; Chang, C.

    2008-12-01

    Recognizing the increased need for knowledge provenance in interdisciplinary eScience efforts, we have begun an effort to enhance a real-world data production pipeline and the resulting data services with semantic provenance. This work designing and implementing in an existing fielded virtual observatory setting has allowed us to collect key provenance requirements for a broad variety of end users. We have documented several image data pipelines for solar physics instruments at the Mauna Loa Solar Observatory and have documented almost 20 use cases covering usage from instrument scientists, observers, data analysts and managers, and end-user scientists. These use cases have guided our work developing an initial infrastructure that can be searched, queried, or browsed by these users. We use a multi-stage approach to provenance as data and information artifacts progress along processing pipelines. Our motivation, is that both the qualitative and quantitative measures of uncertainty may be vastly improved when treated in an end-to-end manner. This also reduces the likelihood that critical information is left behind or obscurely represented, making the later use of the data and information difficult or impossible. Another motivation is that provenance captured consistently at ingest time supports transparency of sources and propagation of credit for data generation, thereby increasing the likelihood of contribution and reuse. We present the current stages of implementation of our provenance infrastructure, tools and impact on what users are able to learn from the annotated information streams. The Semantic Provenance Capture in Data Ingest Systems (SPCDIS) project is an NSF/OCI/SDCI funded effort involving the High Altitude Observatory at NCAR, McGuinness Associates and the University of Michigan.

  16. Organization and evolution of Gorilla centromeric DNA from old strategies to new approaches

    PubMed Central

    Catacchio, C. R.; Ragone, R.; Chiatante, G.; Ventura, M.

    2015-01-01

    The centromere/kinetochore interaction is responsible for the pairing and segregation of replicated chromosomes in eukaryotes. Centromere DNA is portrayed as scarcely conserved, repetitive in nature, quickly evolving and protein-binding competent. Among primates, the major class of centromeric DNA is the pancentromeric α-satellite, made of arrays of 171 bp monomers, repeated in a head-to-tail pattern. α-satellite sequences can either form tandem heterogeneous monomeric arrays or assemble in higher-order repeats (HORs). Gorilla centromere DNA has barely been characterized, and data are mainly based on hybridizations of human alphoid sequences. We isolated and finely characterized gorilla α-satellite sequences and revealed relevant structure and chromosomal distribution similarities with other great apes as well as gorilla-specific features, such as the uniquely octameric structure of the suprachromosomal family-2 (SF2). We demonstrated for the first time the orthologous localization of alphoid suprachromosomal families-1 and −2 (SF1 and SF2) between human and gorilla in contrast to chimpanzee centromeres. Finally, the discovery of a new 189 bp monomer type in gorilla centromeres unravels clues to the role of the centromere protein B, paving the way to solve the significance of the centromere DNA’s essential repetitive nature in association with its function and the peculiar evolution of the α-satellite sequence. PMID:26387916

  17. The Evolution of Force Distributions in Granular Materials Approaching the Jamming Transition

    NASA Astrophysics Data System (ADS)

    Corwin, Eric; Jaeger, Heinrich; Nagel, Sidney

    2004-03-01

    Jammed bead packs are capable of supporting a yield stress. Simulational studies [1,2] disagree about the behavior of the probability distribution of forces P(F) in bead packs near this yield stress. Using a photoelastic force measurement system we have investigated the force distribution in three-dimensional bead packs experiencing a range of shear stresses. We present data describing the evolution of P(F) as the shear stress is cycled from zero to values up to yield and back. We find a monotonic increase in the low force region (below the mean force) of P(F) with increasing shear stress below yield. We present additional data above yield in the flowing state and for packs cycled above yield and back. We discuss the implications of our results in the light of recent theoretical and simulational findings. [1] C.S. O'Hern, S.A. Langer, A.J. Liu, and S.R. Nagel, Phys. Rev. Lett. ,86 , 111 (2001). [2] A. Ferguson, B. Fisher, and B. Chakraborty, arXiv:cond-mat/0301201 (2003).

  18. A game theoretical approach to the evolution of structured communication codes.

    PubMed

    Fontanari, José F; Perlovsky, Leonid I

    2008-08-01

    Structured meaning-signal mappings, i.e., mappings that preserve neighborhood relationships by associating similar signals with similar meanings, are advantageous in an environment where signals are corrupted by noise and sub-optimal meaning inferences are rewarded as well. The evolution of these mappings, however, cannot be explained within a traditional language evolutionary game scenario in which individuals meet randomly because the evolutionary dynamics is trapped in local maxima that do not reflect the structure of the meaning and signal spaces. Here we use a simple game theoretical model to show analytically that when individuals adopting the same communication code meet more frequently than individuals using different codes-a result of the spatial organization of the population-then advantageous linguistic innovations can spread and take over the population. In addition, we report results of simulations in which an individual can communicate only with its K nearest neighbors and show that the probability that the lineage of a mutant that uses a more efficient communication code becomes fixed decreases exponentially with increasing K. These findings support the mother tongue hypothesis that human language evolved as a communication system used among kin, especially between mothers and offspring.

  19. A New Approach to Chromosomal Evolution in the Giant Water Bug (Heteroptera: Belostomatidae).

    PubMed

    Gallo, Raquel Bozini; Aguiar, Rachel Colauto Milanezi; Ricietto, Ana Paula Scaramal; Vilas-Bôas, Laurival Antônio; da Silva, Carlos Roberto Maximiano; Ribeiro, José Ricardo Inacio; Da Rosa, Renata

    2017-03-01

    The genus Belostoma, known colloquially as “giant water bugs,” presents striking cytogenetic diversity and extensive chromosome variability. Notwithstanding, its karyotype evolution is not well understood. We analyzed 8 species of Belostoma (77 samples). The meiotic analysis revealed 2n = 14 + XY for Belostoma horvathi and Belostoma candidulum; 2n = 22 + XY for Belostoma cummings; 2n = 26 + X1X2Y for Belostoma dentatum, Belostoma elongatum, and Belostoma discretum; and 2n = 26 + X1X2X3Y for Belostoma testacopallidum and Belostoma dilatatum. All species showed holokinetic chromosomes. Based on heterochromatin distribution patterns and 18S rDNA, the species of the genus Belostoma were separated into four groups. The analysis of C0t-1 DNA showed that the repetitive DNA, partly composed of microsatellite DNA, was absent on the Y chromosome. Fluorescent in situ hybridization (FISH) using a microdissected X chromosome in species with simple sex system presents uniform hybridization in the nuclear region corresponding to the X chromosome. Species with multiple systems revealed discrete markings. The present data in conjunction with the existing literature led us to propose a new evolutionary hypothesis for the group, with an ancestral karyotype with a low diploid number, simple sex determination system, and nucleolus organizer regions (NORs) on the sex chromosomes. That karyotype would have originated other karyotypes through agmatoploidy, simploidy, heterochromatinization, and movement of the 18S rDNA.

  20. Organization and evolution of Gorilla centromeric DNA from old strategies to new approaches.

    PubMed

    Catacchio, C R; Ragone, R; Chiatante, G; Ventura, M

    2015-09-21

    The centromere/kinetochore interaction is responsible for the pairing and segregation of replicated chromosomes in eukaryotes. Centromere DNA is portrayed as scarcely conserved, repetitive in nature, quickly evolving and protein-binding competent. Among primates, the major class of centromeric DNA is the pancentromeric α-satellite, made of arrays of 171 bp monomers, repeated in a head-to-tail pattern. α-satellite sequences can either form tandem heterogeneous monomeric arrays or assemble in higher-order repeats (HORs). Gorilla centromere DNA has barely been characterized, and data are mainly based on hybridizations of human alphoid sequences. We isolated and finely characterized gorilla α-satellite sequences and revealed relevant structure and chromosomal distribution similarities with other great apes as well as gorilla-specific features, such as the uniquely octameric structure of the suprachromosomal family-2 (SF2). We demonstrated for the first time the orthologous localization of alphoid suprachromosomal families-1 and -2 (SF1 and SF2) between human and gorilla in contrast to chimpanzee centromeres. Finally, the discovery of a new 189 bp monomer type in gorilla centromeres unravels clues to the role of the centromere protein B, paving the way to solve the significance of the centromere DNA's essential repetitive nature in association with its function and the peculiar evolution of the α-satellite sequence.

  1. Origin of the cilium: novel approaches to examine a centriolar evolution hypothesis.

    PubMed

    Alliegro, Mark C; Satir, Peter

    2009-01-01

    Recently, a new hypothesis was proposed regarding the evolution of the cilium from an enveloped RNA virus (Satir et al., 2007, Cell Motil. Cytoskeleton 64, 906). The hypothesis predicts that there may be specific centriolar or basal body RNAs with sequences reminiscent of retroviruses, and/or that the nuclear genes for certain centriole-specific proteins would have viral origins. Four independent laboratories have reported the existence of centrosomal RNA (cnRNA). Methods for studying cnRNA are described. We analyzed evidence of relatedness of known full-length cnRNAs to extant viral molecules. Out of 14 cnRNAs studied, 12 have similarity to entries in viral databases, all but one of these with E-values of < or = 1e(-4). Some centrosomal, and possibly uniquely centriolar, proteins also have relatives in viral databases that meet the criteria accepted to indicate a relationship by descent. Nine general cytoskeleton proteins exhibited no significant similarity to viral proteins. The speculation that centrioles are invaders of RNA viral origin in the evolving eukaryotic cell is strengthened by these findings. 2009 Elsevier Inc. All rights reserved.

  2. A new approach to chromosomal evolution in the giant water bug (Heteroptera: Belostomatidae).

    PubMed

    Gallo, Raquel Bozini; Aguiar, Rachel Colauto Milanezi; Ricietto, Ana Paula Scaramal; Vilas-Boas, Laurival; da Silva, Carlos Roberto Maximiano; Ribeiro, José Ricardo Inacio; Da Rosa, Renata

    2016-12-06

    The genus Belostoma, known colloquially as 'giant water bugs', presents striking cytogenetic diversity and extensive chromosome variability. Notwithstanding, its karyotype evolution is not well understood. We analyzed eight species of Belostoma (77 samples). The meiotic analysis revealed 2n=14+XY for B. horvathi and B. candidulum; 2n=22+XY for B. cummings; 2n=26+X1X2Y for B. dentatum, B. elongatum, and B. discretum; and 2n=26+X1X2X3Y for B. testacopallidum and B. dilatatum. All species showed holokinetic chromosomes. Based on heterochromatin distribution patterns and 18S rDNA, the species of the genus Belostoma were separated into four groups. The analysis of C0t-1 DNA showed that the repetitive DNA, partly composed of microsatellite DNA, was absent on the Y chromosome. FISH using a microdissected X chromosome in species with simple sex system presents uniform hybridization in the nuclear region corresponding to the X chromosome. Species with multiple systems revealed discrete markings. The present data in conjunction with the existing literature led us to propose a new evolutionary hypothesis for the group, with an ancestral karyotype with a low diploid number, simple sex determination system, and Nucleolus Organizer Regions (NORs) on the sex chromosomes. That karyotype would have originated other karyotypes through agmatoploidy, simploidy, heterochromatinization, and movement of the 18S rDNA.

  3. A geochronological approach for cave evolution in the Cantabrian Coast (Pindal Cave, NW Spain)

    USGS Publications Warehouse

    Jimenez-Sanchez, M.; Bischoff, J.L.; Stoll, H.; Aranburu, A.

    2006-01-01

    Some of the oldest speleothems in the North Cantabrian Coast (Spain) are reported for the first time in this work. Pindal Cave is developed at 24 m above sea level, in a karstic massif reaching its highest surface in a marine terrace (rasa) located at 50-64 m above the present sea level. Several phases of evolution were previously recognized into the cave, including block collapse of the roof, episodic flooding and detrital sedimentation, and chemical precipitation of at least four speleothem generations over both alluvial and collapse deposits. Three of these speleothem generations have been dated by U/Th. The first generation yielded ages from 124,2 ?? 1, 5 ka BP to 73,1 ?? 0,9 ka BP, giving a minimum age for the main detritic sediments in the cave. The second one is not dated. The third generation gives an age of 3,71 ?? 0,4 ka BP (mathematically corrected to 2.7 ?? 0.5 ka BP), while for the youngest generation, with actively growing stalagmites in the cave, basal ages of 200 years BP are estimated by counting annual laminae. The data suggest a tentative maximum elevation rate close to 0, 2 mm/yr for the Cantabrian Margin in this area, although further chronological studies will be needed to check this hypothesis. ?? 2006 Gebru??der Borntraeger.

  4. The evolution of the DGR approach to model electron density profiles

    NASA Astrophysics Data System (ADS)

    Radicella, S. M.; Leitinger, R.

    The paper describes the evolution of the "profiler" proposed by Di Giovanni and Radicella (1990) to calculate the electron density distribution with height up to the F2 peak based on the Epstein layer introduced originally by Rawer. Such model uses ionospheric characteristics routinely scaled from ionograms or models of such characteristics. Radicella and Zhang (1995) presented an improved version of the profiler able to give the electron density distribution on both the bottom and topside of the ionosphere and the ionospheric total electron content (TEC) by introducing a constant shape factor for the semi-Epstein layer above the F2 peak. This version of the DGR model was adopted by the European COST 238 action as the basis for its regional model of the ionosphere. Further efforts were made to improve the topside part of the profiler by taking into account the contribution of the plasmaspherie electron density. The three separate solutions that have been implemented are described. One of them was adopted by the European COST 251 as basis for its regional ionospheric model. Another one developed partially with European Space Agency (ESA) support has been adopted in the ESA European Geostationary Navigation Overlay System project ionospheric specifications. A modified version of this profiler has been implemented to forecast TEC values over Europe as a joint effort with the CLRC Rutherford Appleton Laboratory in the United Kingdom and the Geophysical Institute, Sofia, Bulgaria.

  5. Provenance variation in Eucalyptus camaldulensis Dehnh. in California

    Treesearch

    B.M. Emery; F. Thomas Ledig

    1987-01-01

    In California, the Lake Albacutya provenance of river red gum was clearly superior in volume growth to 22 other provenances collected throughout the range of the species in Australia. It had at least 2.5 times the volume of the plantation mean at 5.5 years, consistent with its performance in other countries with Mediterranean climates like California's. Other...

  6. Twenty-year performance in a white oak provenance test

    Treesearch

    Philip A. O' Connor

    2005-01-01

    In 1983 a limited-range provenance test for white oak (Quercus alba L.) was established at the Starve Hollow SRA in cooperation with the North Central Forest Experiment Station. The planting was made up of half-sib progeny of nine families/provenances representing six states from Mississippi through Minnesota.

  7. The problem of site variation within red pine provenance experiments

    Treesearch

    Mark J. Holst

    1966-01-01

    In spite of care taken in the selection of site and experimental design of provenance experiments, site heterogenity within the experimental area may be more complex than was anticipated when the experiment was established. The present paper describes a problem of this nature encountered in a red pine (Pinus resinosa Ait.) provenance experiment at...

  8. Sugar maple provenance study: West Virginia outplanting - 10-year results

    Treesearch

    G. W. Wendel; W. J. Gabriel

    1980-01-01

    After 10 years, survival of sugar maple (Acer saccharum Marsh.) provenances outplanted in West Virginia did not differ significantly. Total height, height growth and dbh measurements were significantly different among provenances. Fifty percent of the trees had major forks below 9.0 feet. Thirty-eight percent of the trees had no forks but 71 percent...

  9. Adaptation of eastern whitepine provenances to planting sites

    Treesearch

    Maurice E., Jr. Demeritt; Peter W. Garrett

    1996-01-01

    Eastern white pine provenances from the extreme limits of the natural range of this species are changing from above- and below-average stability to average stability for height growth with increasing age. The regression method is useful for evaluating the stability of provenance to planting sites. The same general conclusions are reached for the performance at...

  10. Transport properties evolution of cement model system under degradation - Incorporation of a pore-scale approach into reactive transport modelling

    NASA Astrophysics Data System (ADS)

    Seigneur, N.; L'Hôpital, E.; Dauzères, A.; Sammaljärvi, J.; Voutilainen, M.; Labeau, P. E.; Dubus, A.; Detilleux, V.

    2017-06-01

    This paper describes a multi-scale approach for the modelling of the degradation of model cement pastes using reactive transport. It specifically aims at incorporating chemistry-transport feedback results from a pore-scale approach into a continuum description. Starting from a numerical representative elementary volume of the model cement paste, which was built according to extensive experimental dedicated chacarterizations, this paper provides three separate descriptions of two different degradations: leaching and carbonation. First, 2D pore-scale simulations are performed and predict degradation depths in very good agreement with experiments. Second, 3D pore scale descriptions of how the microstructre evolves provides accurate description of the evolution of transport properties through degradation. Finally, those latter results are incorporated as a feedback law between porosity and effective diffusion coefficient into a 1D continuum approach of reactive transport. This paper provides pore-scale explanations of why reactive transport modelling has encountered mitigated success when applied to cementitious materials, especially during carbonation or degradations consisting of precipitation reactions. In addition to that, different degradation modellings are in very good agreement with experimental observations.

  11. Metal Accretion onto White Dwarfs. III. A Still Better Approach Based on the Coupling of Diffusion with Evolution

    NASA Astrophysics Data System (ADS)

    Brassard, Pierre; Fontaine, Gilles

    2015-06-01

    The accretion-diffusion picture is the model par excellence for describing the presence of planetary debris polluting the atmospheres of relatively cool white dwarfs. In the time-dependent approach used in Paper II of this series (Fontaine et al. 2014), the basic assumption is that the accreted metals are trace elements and do not influence the background structure, which may be considered static in time. Furthermore, the usual assumption of instantaneous mixing in the convection zone is made. As part of the continuing development of our local evolutionary code, diffusion in presence of stellar winds or accretion is now fully coupled to evolution. Convection is treated as a diffusion process, i.e., the assumption of instantaneous mixing is relaxed, and, furthermore, overshooting is included. This allows feedback on the evolving structure from the accreting metals. For instance, depending of its abundance, a given metal may contribute enough to the overall opacity (especially in a He background) to change the size of the convection zone as a function of time. Our better approach also allows to include in a natural way the mechanism of thermohaline convection, which we discuss at some length. Also, it is easy to consider sophisticated time-dependent models of accretion from circumstellar disks, such as those developed by Roman Rafikov at Princeton for instance. The current limitations of our approach are 1) the calculations are extremely computer-intensive, and 2) we have not yet developed detailed EOS megatables for metals beyond oxygen.

  12. Evolutions in fragment-based drug design: the deconstruction–reconstruction approach

    PubMed Central

    Chen, Haijun; Zhou, Xiaobin; Wang, Ailan; Zheng, Yunquan; Gao, Yu; Zhou, Jia

    2014-01-01

    Recent advances in the understanding of molecular recognition and protein–ligand interactions have facilitated rapid development of potent and selective ligands for therapeutically relevant targets. Over the past two decades, a variety of useful approaches and emerging techniques have been developed to promote the identification and optimization of leads that have high potential for generating new therapeutic agents. Intriguingly, the innovation of a fragment-based drug design (FBDD) approach has enabled rapid and efficient progress in drug discovery. In this critical review, we focus on the construction of fragment libraries and the advantages and disadvantages of various fragment-based screening (FBS) for constructing such libraries. We also highlight the deconstruction–reconstruction strategy by utilizing privileged fragments of reported ligands. PMID:25263697

  13. Evolution of a Unified, Stereodivergent Approach to the Synthesis of Communesin F and Perophoramidine

    PubMed Central

    2015-01-01

    Expedient synthetic approaches to the highly functionalized polycyclic alkaloids communesin F and perophoramidine are described using a unified approach featuring a key decarboxylative allylic alkylation to access a crucial and highly congested 3,3-disubstituted oxindole. Described are two distinct, stereoselective alkylations that produce structures in divergent diastereomeric series possessing the critical vicinal all-carbon quaternary centers needed for each synthesis. Synthetic studies toward these challenging core structures have revealed a number of unanticipated modes of reactivity inherent to these complex alkaloid scaffolds. Additionally, several novel and interesting intermediates en route to the target natural products, such as an intriguing propellane hexacyclic oxindole encountered in the communesin F sequence, are disclosed. Indeed, such unanticipated structures may prove to be convenient strategic intermediates in future syntheses. PMID:25402459

  14. A new approach predicting the evolution of laminated nanostructures—martensite in NiTi as an example

    NASA Astrophysics Data System (ADS)

    Petersmann, M.; Antretter, T.; Waitz, T.; Fischer, F. D.

    2017-04-01

    A model for laminated nanostructures, combining classical energy minimization with full-field finite element calculations in a computationally fully automated manner, is set up and used to quantitatively analyse the interaction of grains via self-accommodation of their transformation strains. The well known Koistinenwell established B2-B19’ martensitic phase transformation in nanocrystalline NiTi is treated as an exemplary case to demonstrate our new framework. A systematic search for an optimal energy minimizing transformation path is employed within a full-field model, including crystallographic transformation strains and fully anisotropic elastic constants, by using the Python scripting language. The microstructure is updated based on previous calculation results. The underlying incremental free energy minimization criterion naturally reproduces the transformation kinetics. The sequence of grains subjected to transformation as well as the selection of martensitic variants within the grains are obtained yielding the evolution of the total interface energy as well as the strain energy, dominating our approach.

  15. Classifying personality disorders: an evolution-based alternative to an evidence-based approach.

    PubMed

    Millon, Theodore

    2011-06-01

    The study of personality disorders, no less psychology as a wole, remains divorced from broader spheres of scientific knowledge. Development of a conceptual schema for classifying personality disorders should include the examination of research limitations and inductive inconsistences that undermine the likely achievements of the evidential approach. An alternative course of action is outlined here, one that looks to evolutionary theory rather than evidence-based methods for classification guidance.

  16. A Lean Approach to Improving SE Visibility in Large Operational Systems Evolution

    DTIC Science & Technology

    2013-06-01

    engineering activities in such instances. An initial generalization of pull concepts using a standard kanban approach was developed. During the development... Kanban -based Scheduling System (KSS) (Turner, Lane, et al. 2012). The second phase of this research is describing an implementation of the KSS concept...software and systems engineering tasks and the required capabilities. Because kanban concepts have been primarily used with single level value streams

  17. A Bayesian approach to constrain the time evolution of tropospheric parameters in GNSS data processing : implications for meteorology

    NASA Astrophysics Data System (ADS)

    Nahmani, S.; Rebischung, P.; Bock, O.

    2016-12-01

    The atmospheric water vapor induces a delay in the propagation time of GNSS signals when they cross the troposphere. Zenithal Wet Delays (ZWD) are thus estimated during GNSS data processing and used to retrieve Integrated Water Vapor (IWV) with a usual precision of around 1-2 kg.m-2. These GNSS-derived IWV are now routinely assimilated into numerical weather prediction models and are also used to validate satellite measurements and evaluate climate models. However, their accuracy remains to be precisely evaluated especially during intense weather events. Developing and evaluating advanced tropospheric products for monitoring severe weather events and climate is one of the main objectives of the COST Action ES1206 supported by the EU.In this study, we focus on a particular limitation of GNSS-derived IWV: in GNSS data processing, the temporal evolution of ZWD is usually modelled as a random walk (ZWD(t+dt) = ZWD(t) + ɛ(t)), where the variance of the white noise ɛ(t) is usually chosen arbitrarily, regardless of the location of the station and the local weather conditions. This approach is clearly not optimal, for instance in case of severe weather events, where an inappropriate variance choice for ɛ(t) can induce biases over 5 kg.m-2 on GNSS-derived IWV. We therefore use a Bayesian approach to determine optimal random walk variances for both ZWD and tropospheric gradients in PPP processing of GNSS data. We first present the methodology and validate it with simulated data. Then, we apply our method on real GNSS data and compare the obtained ZWD with those from a usual PPP processing. Finally, we plan to use data from microwave radiometers to get an external characterization of the temporal evolution of ZWD and to verify that the random walk variances obtained with our method adequately describe the variability of atmospheric water vapor.

  18. A comparative approach to testing hypotheses for the evolution of sex-biased dispersal in bean beetles.

    PubMed

    Downey, Michelle H; Searle, Rebecca; Bellur, Sunil; Geiger, Adam; Maitner, Brian S; Ohm, Johanna R; Tuda, Midori; Miller, Tom E X

    2015-11-01

    Understanding the selective forces that shape dispersal strategies is a fundamental goal of evolutionary ecology and is increasingly important in changing, human-altered environments. Sex-biased dispersal (SBD) is common in dioecious taxa, and understanding variation in the direction and magnitude of SBD across taxa has been a persistent challenge. We took a comparative, laboratory-based approach using 16 groups (species or strains) of bean beetles (genera Acanthoscelides, Callosobruchus, and Zabrotes, including 10 strains of one species) to test two predictions that emerge from dominant hypotheses for the evolution of SBD: (1) groups that suffer greater costs of inbreeding should exhibit greater SBD in favor of either sex (inbreeding avoidance hypothesis) and (2) groups with stronger local mate competition should exhibit greater male bias in dispersal (kin competition avoidance hypothesis). We used laboratory experiments to quantify SBD in crawling dispersal, the fitness effects of inbreeding, and the degree of polygyny (number of female mates per male), a proxy for local mate competition. While we found that both polygyny and male-biased dispersal were common across bean beetle groups, consistent with the kin competition avoidance hypothesis, quantitative relationships between trait values did not support the predictions. Across groups, there was no significant association between SBD and effects of inbreeding nor SBD and degree of polygyny, using either raw values or phylogenetically independent contrasts. We discuss possible limitations of our experimental approach for detecting the predicted relationships, as well as reasons why single-factor hypotheses may be too simplistic to explain the evolution of SBD.

  19. Analysis of Antarctic glacigenic sediment provenance through geochemical and petrologic applications

    NASA Astrophysics Data System (ADS)

    Licht, Kathy J.; Hemming, Sidney R.

    2017-05-01

    The number of provenance studies of glacigenic sediments in Antarctica has increased dramatically over the past decade, providing an enhanced understanding of ice sheet history and dynamics, along with the broader geologic history. Such data have been used to assess glacial erosion patterns at the catchment scale, flow path reconstructions over a wide range of scales, and ice sheet fluctuations indicated by iceberg rafted debris in circumantarctic glacial marine sediments. It is notable that even though most of the bedrock of the continent is ice covered and inaccessible, provenance data can provide such valuable information about Antarctic ice and can even be used to infer buried rock types along with their geo- and thermochronologic history. Glacigenic sediments provide a broader array of provenance analysis opportunities than any other sediment type because of their wide range of grain sizes, and in this paper we review methods and examples from all size fractions that have been applied to the Antarctic glacigenic sedimentary record. Interpretations of these records must take careful consideration of the choice of analytical methods, uneven patterns of erosion, and spatial variability in sediment transport and rock types, which all may lead to a preferential identification of different elements of sources in the provenance analyses. Because of this, we advocate a multi-proxy approach and highlight studies that demonstrate the value of selecting complementary provenance methods.

  20. Evolution of the human hand: approaches to acquiring, analysing and interpreting the anatomical evidence

    PubMed Central

    MARZKE, MARY W.; MARZKE, R. F.

    2000-01-01

    The discovery of fossil hand bones from an early human ancestor at Olduvai Gorge in 1960, at the same level as primitive stone tools, generated a debate about the role of tools in the evolution of the human hand that has raged to the present day. Could the Olduvai hand have made the tools? Did the human hand evolve as an adaptation to tool making and tool use? The debate has been fueled by anatomical studies comparing living and fossil human and nonhuman primate hands, and by experimental observations. These have assessed the relative abilities of apes and humans to manufacture the Oldowan tools, but consensus has been hampered by disagreements about how to translate experimental data from living species into quantitative models for predicting the performance of fossil hands. Such models are now beginning to take shape as new techniques are applied to the capture, management and analysis of data on kinetic and kinematic variables ranging from hand joint structure, muscle mechanics, and the distribution and density of bone to joint movements and muscle recruitment during manipulative behaviour. The systematic comparative studies are highlighting a functional complex of features in the human hand facilitating a distinctive repertoire of grips that are apparently more effective for stone tool making than grips characterising various nonhuman primate species. The new techniques are identifying skeletal variables whose form may provide clues to the potential of fossil hominid hands for one-handed firm precision grips and fine precision manoeuvering movements, both of which are essential for habitual and effective tool making and tool use. PMID:10999274

  1. Modern comprehensive approach to monitor the morphodynamic evolution of restored river corridors

    NASA Astrophysics Data System (ADS)

    Pasquale, N.; Perona, P.; Schneider, P.; Shrestha, J.; Wombacher, A.; Burlando, P.

    2010-11-01

    River restoration has become a common measure to repair anthropogenically-induced alteration of fluvial ecosystems. The inherent complexity of ecohydrologic systems, leads to limitations in understanding the response of such systems to restoration over time. Up to now a lot of effort has therefore been dedicated worldwide to document the efficiency of restoration actions and to produce new effective guidelines that may help overcoming our deficiencies. At the same time very few attentions focused on illustrating the reasons and the use of certain monitoring and experimental techniques in spite of others, or in relation to the specific ecohydrologic process being investigated. The purpose of this paper is to enrich efforts in this direction by discussing the experimental setup that we designed and installed in order to accomplish some of the research tasks of the multidisciplinary scientific project RECORD (Restored Corridor Dynamics). Therein, we study the morphodynamic evolution of the restored reaches of River Thur near Niederneunforn (Switzerland), also in relation to the role of pioneer vegetation roots in stabilizing the alluvial sediment. In this work we describe and motivate the methodology chosen for monitoring the river morphodynamics, the dynamics of riparian and of in-bed vegetation and their mutual interactions, as well as the need of complementing such observations with experiments and with the hydraulic modeling of the site. We also discuss how the designed installation and the experiments integrate with the needs of other research groups within the project, in particular providing data for a number of investigations ranging from surface water to groundwater, soil moisture and vegetation dynamics.

  2. Modern comprehensive approach to monitor the morphodynamic evolution of a restored river corridor

    NASA Astrophysics Data System (ADS)

    Pasquale, N.; Perona, P.; Schneider, P.; Shrestha, J.; Wombacher, A.; Burlando, P.

    2011-04-01

    River restoration has become a common measure to repair anthropogenically-induced alteration of fluvial ecosystems. The inherent complexity of ecohydrologic systems leads to limitations in understanding the response of such systems to restoration over time. Therefore, a significant effort has been dedicated in the recent years worldwide to document the efficiency of restoration actions and to produce new effective guidelines that may help overcoming existing deficiencies. At the same time little attention was paid to illustrate the reasons and the use of certain monitoring and experimental techniques in spite of others, or in relation to the specific ecohydrologic process being investigated. The purpose of this paper is to enrich efforts in this direction by presenting the framework of experimental activities and the related experimental setup that we designed and installed in order to accomplish some of the research tasks of the multidisciplinary scientific project RECORD (Restored Corridor Dynamics). Therein, we studied the morphodynamic evolution of the restored reach of the River Thur near Niederneunforn (Switzerland), also in relation to the role of pioneer vegetation roots in stabilizing the alluvial sediment. In this work we describe the methodology chosen for monitoring the river morphodynamics, the dynamics of riparian and of in-bed vegetation and their mutual interactions, as well as the need of complementing such observations with experiments and with the hydraulic modeling of the site. We also discuss how the designed installation and the experiments integrate with the needs of other research groups within the project, in particular providing data for a number of investigations thereby including surface water and groundwater interactions, soil moisture and vegetation dynamics.

  3. An Evolution-Based Approach to De Novo Protein Design and Case Study on Mycobacterium tuberculosis

    PubMed Central

    Brender, Jeffrey R.; Czajka, Jeff; Marsh, David; Gray, Felicia; Cierpicki, Tomasz; Zhang, Yang

    2013-01-01

    Computational protein design is a reverse procedure of protein folding and structure prediction, where constructing structures from evolutionarily related proteins has been demonstrated to be the most reliable method for protein 3-dimensional structure prediction. Following this spirit, we developed a novel method to design new protein sequences based on evolutionarily related protein families. For a given target structure, a set of proteins having similar fold are identified from the PDB library by structural alignments. A structural profile is then constructed from the protein templates and used to guide the conformational search of amino acid sequence space, where physicochemical packing is accommodated by single-sequence based solvation, torsion angle, and secondary structure predictions. The method was tested on a computational folding experiment based on a large set of 87 protein structures covering different fold classes, which showed that the evolution-based design significantly enhances the foldability and biological functionality of the designed sequences compared to the traditional physics-based force field methods. Without using homologous proteins, the designed sequences can be folded with an average root-mean-square-deviation of 2.1 Å to the target. As a case study, the method is extended to redesign all 243 structurally resolved proteins in the pathogenic bacteria Mycobacterium tuberculosis, which is the second leading cause of death from infectious disease. On a smaller scale, five sequences were randomly selected from the design pool and subjected to experimental validation. The results showed that all the designed proteins are soluble with distinct secondary structure and three have well ordered tertiary structure, as demonstrated by circular dichroism and NMR spectroscopy. Together, these results demonstrate a new avenue in computational protein design that uses knowledge of evolutionary conservation from protein structural families to engineer

  4. Evolution of a Lowland Karst Landscape; A Mass-Balance Approach

    NASA Astrophysics Data System (ADS)

    Chamberlin, C.; Heffernan, J. B.; Cohen, M. J.; Quintero, C.; Pain, A.

    2016-12-01

    Karst landscapes are highly soluble, and are vulnerable to biological acid production as a major driving factor in their evolution. Big Cypress National Park (BICY) is a low-lying karst landscape in southern Florida displaying a distinctive morphology of isolated depressions likely influenced by biology. The goal of this study is to constrain timescales of landform development in BICY. This question was addressed through the construction of landscape-scale elemental budgets for both calcium and phosphorus. Precipitation and export fluxes were calculated using available chemistry and hydrology data, and stocks were calculated from a combination of existing data, field measurements, and laboratory chemical analysis. Estimates of expected mass export given no biological acid production and given an equivalent production of 100% of GPP were compared with observed rates. Current standing stocks of phosphorus are dominated by a large soil pool, and contain 500 Gg P. Inputs are largely dominated by precipitation, and 8000 years are necessary to accumulate standing stocks of phosphorus given modern fluxes. Calcium flux is vastly dominated by dissolution of the limestone bedrock, and though some calcium is retained in the soil, most is exported. Using LiDAR generated estimates of volume loss across the landscape and current export rates, an estimated 15,000 years would be necessary to create the modern landscape. Both of these estimates indicate that the BICY landscape is geologically very young. The different behaviors of these elements (calcium is largely exported, while phosphorus is largely retained) lend additional confidence to estimates of denudation rates of the landscape. These estimates can be even closer reconciled if calcium redistribution over the landscape is allowed for. This estimate is compared to the two bounding conditions for biological weathering to indicate a likely level of biological importance to landscape development in this system.

  5. Borderline resectable pancreatic cancer: conceptual evolution and current approach to image-based classification.

    PubMed

    Gilbert, J W; Wolpin, B; Clancy, T; Wang, J; Mamon, H; Shinagare, A B; Jagannathan, J; Rosenthal, M

    2017-09-01

    Diagnostic imaging plays a critical role in the initial diagnosis and therapeutic monitoring of pancreatic adenocarcinoma. Over the past decade, the concept of 'borderline resectable' pancreatic cancer has emerged to describe a distinct subset of patients existing along the spectrum from resectable to locally advanced disease for whom a microscopically margin-positive (R1) resection is considered relatively more likely, primarily due to the relationship of the primary tumor with surrounding vasculature. This review traces the conceptual evolution of borderline resectability from a radiological perspective, including the debates over the key imaging criteria that define the thresholds between resectable, borderline resectable, and locally advanced or metastatic disease. This review also addresses the data supporting neoadjuvant therapy in this population and discusses current imaging practices before and during treatment. A growing body of evidence suggests that the borderline resectable group of patients may particularly benefit from neoadjuvant therapy to increase the likelihood of an ultimately margin-negative (R0) resection. Unfortunately, anatomic and imaging criteria to define borderline resectability are not yet universally agreed upon, with several classification systems proposed in the literature and considerable variance in institution-by-institution practice. As a result of this lack of consensus, as well as overall small patient numbers and lack of established clinical trials dedicated to borderline resectable patients, accurate evidence-based diagnostic categorization and treatment selection for this subset of patients remains a significant challenge. Clinicians and radiologists alike should be cognizant of evolving imaging criteria for borderline resectability given their profound implications for treatment strategy, follow-up recommendations, and prognosis.

  6. Long term evolution of the subglacial water pressure on Russell glacier, a modelling approach.

    NASA Astrophysics Data System (ADS)

    de Fleurian, Basile; Mouginot, Jeremie; Nisancioglu, Kerim H.

    2017-04-01

    Basal sliding is the main control on land terminating outlet glaciers velocity. This sliding is mainly driven by the water pressure at the base of the glaciers. The ongoing increase in surface melt of the Greenland Ice Sheet warrants an examination of its impact on basal water pressure and in turn on basal sliding. Here, we examine the case of Russell glacier, West Greenland, where a remarkably extensive set of observations have been gathered. Our recently published study (de Fleurian et. al. 2016) is pointing to the fact that two different hydrological regimes exist under this glacier. Near the front of the glacier, the development of an efficient drainage system allows the water pressure to drop quickly at the end of summer and yields a stagnation of its annual-mean value. Conversely, further upglacier, the lack of an efficient drainage system leads to an increase of the mean annual water pressure throughout the years. This study left the question of the long term evolution of the subglacial hydrological system under a warmer climate. To answer this question we present here the results of longer simulations where runoff forcing is derived from a simple Positive Degree Day scheme scaled on the IPCC climatic scenarios. To get further insight from our subglacial hydrological model, we investigate the impact of the varying water pressure on modelled surface velocities. Reference: de Fleurian, B., M. Morlighem, H. Seroussi, E. Rignot, M. R. van den Broecke, P. Kuipers Munneke, J. Mouginot, C. J. P. P. Smeets, and A. J. Tedstone (2016), A modeling study of the effect of runoff variability on the effective pressure beneath Russell Glacier, West Greenland, J. Geophys. Res. Earth Surf., 121, 1834-1848, doi:10.1002/2016JF003842.

  7. SensePath: Understanding the Sensemaking Process Through Analytic Provenance.

    PubMed

    Nguyen, Phong H; Xu, Kai; Wheat, Ashley; Wong, B L William; Attfield, Simon; Fields, Bob

    2016-01-01

    Sensemaking is described as the process of comprehension, finding meaning and gaining insight from information, producing new knowledge and informing further action. Understanding the sensemaking process allows building effective visual analytics tools to make sense of large and complex datasets. Currently, it is often a manual and time-consuming undertaking to comprehend this: researchers collect observation data, transcribe screen capture videos and think-aloud recordings, identify recurring patterns, and eventually abstract the sensemaking process into a general model. In this paper, we propose a general approach to facilitate such a qualitative analysis process, and introduce a prototype, SensePath, to demonstrate the application of this approach with a focus on browser-based online sensemaking. The approach is based on a study of a number of qualitative research sessions including observations of users performing sensemaking tasks and post hoc analyses to uncover their sensemaking processes. Based on the study results and a follow-up participatory design session with HCI researchers, we decided to focus on the transcription and coding stages of thematic analysis. SensePath automatically captures user's sensemaking actions, i.e., analytic provenance, and provides multi-linked views to support their further analysis. A number of other requirements elicited from the design session are also implemented in SensePath, such as easy integration with existing qualitative analysis workflow and non-intrusive for participants. The tool was used by an experienced HCI researcher to analyze two sensemaking sessions. The researcher found the tool intuitive and considerably reduced analysis time, allowing better understanding of the sensemaking process.

  8. Repair of blunt thoracic outlet arterial injuries: an evolution from open to endovascular approach.

    PubMed

    Shalhub, Sherene; Starnes, Benjamin W; Hatsukami, Thomas S; Karmy-Jones, Riyad; Tran, Nam T

    2011-11-01

    Thoracic outlet artery injuries due to blunt trauma are uncommon. Exposure of these arteries is associated with significant morbidity and mortality. An endovascular approach is a less invasive alternative approach for these technically challenging injuries. A retrospective review of patients who presented with blunt traumatic injuries to the innominate, subclavian, and axillary arteries between 1998 and 2009 was performed. Demographic data, concomitant injuries, preoperative workup, treatment, and outcomes were recorded. During the study period, 34 patients (80% men) meeting selection criteria were admitted (11 innominate, 16 subclavian, and 7 axillary). Management was nonoperative in 6, open in 16, and endovascular in 12 patients. In the latter group, eight patients had successful stent-graft insertions. These were approached in an antegrade femoral or retrograde brachial fashion. In three cases of complete artery transaction, both methods were used. Shorter operative time (149 minutes vs. 230 minutes; p = 0.03) and less blood loss (50 mL vs. 1,225 mL; p = 0.03) were seen in the endovascular group compared with the open repair group. There was a trend for less blood transfusion, but it was not significant (0 median units vs. 4.5 median units; p = 0.3). Hospital length of stay was shorter (19 days vs. 29 days; p = 0.4). Covered stents are a feasible alternative to open repair in the multiply injured blunt trauma patients with thoracic outlet arterial injuries. This can be used in the damage control setting as it offers shorter operative time, less blood loss, and overall less morbidity to the patient. Long-term follow-up is needed.

  9. a Statistical Dynamic Approach to Structural Evolution of Complex Capital Market Systems

    NASA Astrophysics Data System (ADS)

    Shao, Xiao; Chai, Li H.

    As an important part of modern financial systems, capital market has played a crucial role on diverse social resource allocations and economical exchanges. Beyond traditional models and/or theories based on neoclassical economics, considering capital markets as typical complex open systems, this paper attempts to develop a new approach to overcome some shortcomings of the available researches. By defining the generalized entropy of capital market systems, a theoretical model and nonlinear dynamic equation on the operations of capital market are proposed from statistical dynamic perspectives. The US security market from 1995 to 2001 is then simulated and analyzed as a typical case. Some instructive results are discussed and summarized.

  10. A systems biology approach to the evolution of plant-virus interactions.

    PubMed

    Elena, Santiago F; Carrera, Javier; Rodrigo, Guillermo

    2011-08-01

    Omic approaches to the analysis of plant-virus interactions are becoming increasingly popular. These types of data, in combination with models of interaction networks, will aid in revealing not only host components that are important for the virus life cycle, but also general patterns about the way in which different viruses manipulate host regulation of gene expression for their own benefit and possible mechanisms by which viruses evade host defenses. Here, we review studies identifying host genes regulated by viruses and discuss how these genes integrate in host regulatory and interaction networks, with a particular focus on the physical properties of these networks.

  11. The Evolution of a More Rigorous Approach to Benefit Transfer: Benefit Function Transfer

    NASA Astrophysics Data System (ADS)

    Loomis, John B.

    1992-03-01

    The desire for economic values of recreation for unstudied recreation resources dates back to the water resource development benefit-cost analyses of the early 1960s. Rather than simply applying existing estimates of benefits per trip to the study site, a fairly rigorous approach was developed by a number of economists. This approach involves application of travel cost demand equations and contingent valuation benefit functions from existing sites to the new site. In this way the spatial market of the new site (i.e., its differing own price, substitute prices and population distribution) is accounted for in the new estimate of total recreation benefits. The assumptions of benefit transfer from recreation sites in one state to another state for the same recreation activity is empirically tested. The equality of demand coefficients for ocean sport salmon fishing in Oregon versus Washington and for freshwater steelhead fishing in Oregon versus Idaho is rejected. Thus transfer of either demand equations or average benefits per trip are likely to be in error. Using the Oregon steelhead equation, benefit transfers to rivers within the state are shown to be accurate to within 5-15%.

  12. A reduced representation approach to population genetic analyses and applications to human evolution

    PubMed Central

    Luca, Francesca; Hudson, Richard R.; Witonsky, David B.; Di Rienzo, Anna

    2011-01-01

    Second-generation sequencing technologies allow surveys of sequence variation on an unprecedented scale. However, despite the rapid decrease in sequencing costs, collecting whole-genome sequence data on a population scale is still prohibitive for many laboratories. We have implemented an inexpensive, reduced representation protocol for preparing resequencing targets, and we have developed the analytical tools necessary for making population genetic inferences. This approach can be applied to any species for which a draft or complete reference genome sequence is available. The new tools we have developed include methods for aligning reads, calling genotypes, and incorporating sample-specific sequencing error rates in the estimate of evolutionary parameters. When applied to 19 individuals from a total of 18 human populations, our approach allowed sampling regions that are largely overlapping across individuals and that are representative of the entire genome. The resequencing data were used to test the serial founder model of human dispersal and to estimate the time of the Out of Africa migration. Our results also represent the first attempt to provide a time frame for the colonization of Australia based on large-scale resequencing data. PMID:21628451

  13. Geodynamic evolution of eastern Dronning Maud Land: research highlights from an international geological-geophysical approach

    NASA Astrophysics Data System (ADS)

    Jacobs, Joachim; Ehlburg, Marlina; Laeufer, Andreas; Clark, Chris; Kleinhanns, Ilka; Andersen, Tom; Mieth, Matthias; Ruppel, Antonia; Damaske, Detlef; Lucka, Nicole; Estrada, Solveig; Jokat, Wilfried

    2014-05-01

    East Antarctica formed by amalgamation of a number of cratons along distinct Ediacaran mobile belts, including the ca. 600-500 Ma East African-Antarctic Orogen (EAAO) and the Kuunga Orogen that apparently converge in Dronning Maud Land (DML). In central DML, the major Forster Magnetic Anomaly separates rocks with Grenville-age protolith ages of ca. 1130-1000 Ma to the W, from rocks with Early Neoproterozic protolith ages, c. 1000-930 Ma, to the East. The Forster Magnetic Anomaly is therefore interpreted as a suture. New field-work during two recent international expeditions, Geodynamic Evolution of East Antarctica (GEA) I + II, and first geoscientic results reveal a complex tectonic architecture between Sør Rondane and central DML. East of the Forster anomaly, the magnetic anomaly pattern changes significantly and typical Maud type crust is not present any longer. GEA II targeted a range of nunataks between Sør Rondane and central DML that had never been visited previously (from Blåklettane and Bergekongen in the E to Urna and Sørsteinen in the W). These nunataks are dominated by medium- to high-grade metasedimentary and metavolcanic rocks of possibly Neoproterozoic age, including abundant marble and graphite schists. Sør Rondane in eastern DML, is dominated by two distinct blocks separated by the dextral Main Shear Zone. The northwestern block appears as part of the EAAO or the Kuunga Orogen, where new SHRIMP zircon data from metamorphic rims provide ages of ca. 560 Ma. The southeastern block is made up of a TTG terrane, which provides 12 new zircon crystallistation ages ranging from 1000-930 Ma. The TTG terrane has predominantly oceanic affinities and the wide range of ages might indicate long-lasting accretionary tectonics. The TTG terrane shows in part limited tectonic overprint and could be the southeastern foreland of the EAAO or the Kuunga Orogen. Close to the contact of the two blocks, grey geisses and augen-gneisses gave zircon crystallization ages of

  14. Computerized identification of airway wall in CT examinations using a 3D active surface evolution approach.

    PubMed

    Gu, Suicheng; Fuhrman, Carl; Meng, Xin; Siegfried, Jill M; Gur, David; Leader, Joseph K; Sciurba, Frank C; Pu, Jiantao

    2013-04-01

    Airway diseases (e.g., asthma, emphysema, and chronic bronchitis) are extremely common worldwide. Any morphological variations (abnormalities) of airways may physically change airflow and ultimately affect the ability of the lungs in gas exchange. In this study, we describe a novel algorithm aimed to automatically identify airway walls depicted on CT images. The underlying idea is to place a three-dimensional (3D) surface model within airway regions and thereafter allow this model to evolve (deform) under predefined external and internal forces automatically to the location where these forces reach a state of balance. By taking advantage of the geometric and the density characteristics of airway walls, the evolution procedure is performed in a distance gradient field and ultimately stops at regions with the highest contrast. The performance of this scheme was quantitatively evaluated from several perspectives. First, we assessed the accuracy of the developed scheme using a dedicated lung phantom in airway wall estimation and compared it with the traditional full-width at half maximum (FWHM) method. The phantom study shows that the developed scheme has an error ranging from 0.04 mm to 0.36 mm, which is much smaller than the FWHM method with an error ranging from 0.16 mm to 0.84 mm. Second, we compared the results obtained by the developed scheme with those manually delineated by an experienced (>30 years) radiologist on clinical chest CT examinations, showing a mean difference of 0.084 mm. In particular, the sensitivity of the scheme to different reconstruction kernels was evaluated on real chest CT examinations. For the 'lung', 'bone' and 'standard' kernels, the average airway wall thicknesses computed by the developed scheme were 1.302 mm, 1.333 mm and 1.339 mm, respectively. Our preliminary experiments showed that the scheme had a reasonable accuracy in airway wall estimation. For a clinical chest CT examination, it took around 4 min for this scheme to identify

  15. Antimicrobial Stewardship Initiatives Throughout Europe: Proven Value for Money

    PubMed Central

    Oberjé, Edwin J.M.; Tanke, Marit A.C.; Jeurissen, Patrick P.T.

    2017-01-01

    Antimicrobial stewardship is recognized as a key component to stop the current European spread of antimicrobial resistance. It has also become evident that antimicrobial resistance is a problem that cannot be tackled by single institutions or physicians. Prevention of antimicrobial resistance needs rigorous actions at ward level, institution level, national level and at supra-national levels. Countries can learn from each other and possibly transplant best practices across borders to prevent antimicrobial resistance. The aim of this study is to highlight some of the success stories of proven cost-effective interventions, and to describe the actions that have been taken, the outcomes that have been found, and the difficulties that have been met. In some cases we came across substantial scope for real-life cost savings. Although the best approach to effectively hinder the spread of antimicrobial resistance remains unclear and may vary significantly among settings, several EU-wide examples demonstrate that cost-effective antimicrobial stewardship is possible. Such examples can encourage others to implement (the most cost-effective) elements in their system. PMID:28458794

  16. Diversity and Evolution of Mycobacterium tuberculosis: Moving to Whole-Genome-Based Approaches

    PubMed Central

    Niemann, Stefan; Supply, Philip

    2014-01-01

    Genotyping of clinical Mycobacterium tuberculosis complex (MTBC) strains has become a standard tool for epidemiological tracing and for the investigation of the local and global strain population structure. Of special importance is the analysis of the expansion of multidrug (MDR) and extensively drug-resistant (XDR) strains. Classical genotyping and, more recently, whole-genome sequencing have revealed that the strains of the MTBC are more diverse than previously anticipated. Globally, several phylogenetic lineages can be distinguished whose geographical distribution is markedly variable. Strains of particular (sub)lineages, such as Beijing, seem to be more virulent and associated with enhanced resistance levels and fitness, likely fueling their spread in certain world regions. The upcoming generalization of whole-genome sequencing approaches will expectedly provide more comprehensive insights into the molecular and epidemiological mechanisms involved and lead to better diagnostic and therapeutic tools. PMID:25190252

  17. Understanding the formation and evolution of interstellar ices: a Bayesian approach

    SciTech Connect

    Makrymallis, Antonios; Viti, Serena

    2014-10-10

    Understanding the physical conditions of dark molecular clouds and star-forming regions is an inverse problem subject to complicated chemistry that varies nonlinearly with both time and the physical environment. In this paper, we apply a Bayesian approach based on a Markov chain Monte Carlo (MCMC) method for solving the nonlinear inverse problems encountered in astrochemical modeling. We use observations for ice and gas species in dark molecular clouds and a time-dependent, gas-grain chemical model to infer the values of the physical and chemical parameters that characterize quiescent regions of molecular clouds. We show evidence that in high-dimensional problems, MCMC algorithms provide a more efficient and complete solution than more classical strategies. The results of our MCMC method enable us to derive statistical estimates and uncertainties for the physical parameters of interest as a result of the Bayesian treatment.

  18. Symmetry Based Automatic Evolution of Clusters: A New Approach to Data Clustering

    PubMed Central

    Vijendra, Singh; Laxman, Sahoo

    2015-01-01

    We present a multiobjective genetic clustering approach, in which data points are assigned to clusters based on new line symmetry distance. The proposed algorithm is called multiobjective line symmetry based genetic clustering (MOLGC). Two objective functions, first the Davies-Bouldin (DB) index and second the line symmetry distance based objective functions, are used. The proposed algorithm evolves near-optimal clustering solutions using multiple clustering criteria, without a priori knowledge of the actual number of clusters. The multiple randomized K dimensional (Kd) trees based nearest neighbor search is used to reduce the complexity of finding the closest symmetric points. Experimental results based on several artificial and real data sets show that proposed clustering algorithm can obtain optimal clustering solutions in terms of different cluster quality measures in comparison to existing SBKM and MOCK clustering algorithms. PMID:26339233

  19. Symmetry Based Automatic Evolution of Clusters: A New Approach to Data Clustering.

    PubMed

    Vijendra, Singh; Laxman, Sahoo

    2015-01-01

    We present a multiobjective genetic clustering approach, in which data points are assigned to clusters based on new line symmetry distance. The proposed algorithm is called multiobjective line symmetry based genetic clustering (MOLGC). Two objective functions, first the Davies-Bouldin (DB) index and second the line symmetry distance based objective functions, are used. The proposed algorithm evolves near-optimal clustering solutions using multiple clustering criteria, without a priori knowledge of the actual number of clusters. The multiple randomized K dimensional (Kd) trees based nearest neighbor search is used to reduce the complexity of finding the closest symmetric points. Experimental results based on several artificial and real data sets show that proposed clustering algorithm can obtain optimal clustering solutions in terms of different cluster quality measures in comparison to existing SBKM and MOCK clustering algorithms.

  20. FINDSITE: a combined evolution/structure-based approach to protein function prediction

    PubMed Central

    Brylinski, Michal

    2009-01-01

    A key challenge of the post-genomic era is the identification of the function(s) of all the molecules in a given organism. Here, we review the status of sequence and structure-based approaches to protein function inference and ligand screening that can provide functional insights for a significant fraction of the ∼50% of ORFs of unassigned function in an average proteome. We then describe FINDSITE, a recently developed algorithm for ligand binding site prediction, ligand screening and molecular function prediction, which is based on binding site conservation across evolutionary distant proteins identified by threading. Importantly, FINDSITE gives comparable results when high-resolution experimental structures as well as predicted protein models are used. PMID:19324930

  1. Engineering the properties of D-amino acid oxidases by a rational and a directed evolution approach.

    PubMed

    Pollegioni, Loredano; Sacchi, Silvia; Caldinelli, Laura; Boselli, Angelo; Pilone, Mirella S; Piubelli, Luciano; Molla, Gianluca

    2007-12-01

    D-amino acid oxidase (DAAO) is a FAD-containing flavoprotein that dehydrogenates the D-isomer of amino acids to the corresponding imino acids, coupled with the reduction of FAD. The cofactor then reoxidizes on molecular oxygen and the imino acid hydrolyzes spontaneously to the alpha-keto acid and ammonia. In vitro DAAO displays broad substrate specificity, acting on several neutral and basic D-amino acids: the most efficient substrates are amino acids with hydrophobic side chains. D-aspartic acid and D-glutamic acid are not substrates for DAAO. Through the years, it has been the subject of a number of structural, functional and kinetic investigations. The most recent advances are represented by site-directed mutagenesis studies and resolution of the 3D-structure of the enzymes from pig, human and yeast. The two approaches have given us a deeper understanding of the structure-function relationships and promoted a number of investigations aimed at the modulating the protein properties. By a rational and/or a directed evolution approach, DAAO variants with altered substrate specificity (e.g., active on acidic or on all D-amino acids), increased stability (e.g., stable up to 60 degrees C), modified interaction with the flavin cofactor, and altered oligomeric state were produced. The aim of this paper is to provide an overview of the most recent research on the engineering of DAAOs to illustrate their new intriguing properties, which also have enabled us to pursue new biotechnological applications.

  2. Characterization of the Greenland Ice Sheet evolution in a changing climate using a multi-model approach

    NASA Astrophysics Data System (ADS)

    Seroussi, H. L.; Morlighem, M.; Larour, E. Y.; Rignot, E. J.; Aubry, D.; Ben Dhia, H.

    2011-12-01

    Hybrid models that combine several ice flow approximations of varying order of complexity have the potential to improve continental-scale projections of ice sheet dynamics in a changing climate. Indeed, this approach allows the use of higher-order or full-Stokes models in critical areas, such as the vicinity of the grounding line, while being compatible with available computational resources as simpler models are employed in non-critical areas. Here, we use this approach to model the Greenland Ice Sheet and project its evolution for the next 500 years under different climate scenarios set up by the SeaRISE assessment. The model is initialized using data assimilation to constrain basal friction under the ice sheet and therefore starts from a configuration close to the present-day conditions. A set of experiments is then performed to assess the influence of changes in: 1) atmospheric conditions (air temperature and precipitation), 2) basal conditions (increase in basal lubrication due to enhanced melting) and 3) oceanic conditions (melting under ice shelves and at marine-terminated fronts). We employ the Ice Sheet System Model (ISSM, http://issm.jpl.nasa.gov), a thermo-dynamic finite element model developed at JPL/UCI to perform these simulations. This work was performed at the California Institute of Technology's Jet Propulsion Laboratory, University of California Irvine and Ecole Centrale Paris under a contract with the National Aeronautics and Space Administration's Modeling, Analysis and Prediction (MAP) Program.

  3. The metallic contamination of the Loire River Basin (France): Spatial and temporal evolution with a multi-scale approach

    NASA Astrophysics Data System (ADS)

    Dhivert, Elie; Grosbois, Cécile; Desmet, Marc; Curie, Florence; Moatar, Florentina; Meybeck, Michel; Bourrain, Xavier

    2013-04-01

    Since the early 19th century, important agricultural, mining and industrial development has been active in Western Europe. The Loire River Basin (117,800 km2, total population of 8.4 Mp) presents a long history of human pressures, reflecting temporal evolution of technological and urban activities (Grosbois et al, 2012). Hence, sediments of the Loire River and its tributaries have recorded partially and/or totally organic, nutrients and trace element contamination. Nowadays, can we determine history of metallic emissions in sediment records and what is the part of these past inputs relative to the actual contamination? Can we point out historical sources of contamination? To answer these questions, two approaches were used in this study. Firstly, in four coring sites in the Loire River Basin, a temporal re-enacting of metallic contamination trapped in sediments was carried out. Based on age-model and inter-element correlations in each core, trace element signals were deconvoluted and compared to actual and specific chemical signatures of anthropogenic inputs (300 bed sediment samples collected downstream of former and current industrial sites like mines, smelters, planting/coating plants, glassware and car industries, metal recycling plants and waste water treatment plants). The second approach was at a larger basin scale, comparing location of these former and actual contamination sources with explanatory factors such as geology, evolution of population density, of industrial activities and of land use. This was done in the main stream of the Loire River and its major tributaries and locally at a smaller scale (0-500 km²). All these approaches emphasized three temporal periods of metallic contamination: (i) the first period begins with the 20th century until 1950, it corresponds to the first increase of major contaminants like Ag, As, Cd, Cr, Hg, Pb, Sb, Sn and Zn; some trace elements like Hg and Sn seem to be present in the Loire sediments much earlier as they

  4. Aging as Evolution-Facilitating Program and a Biochemical Approach to Switch It Off

    NASA Astrophysics Data System (ADS)

    Skulachev, Vladimir P.

    A concept is presented considering aging of living organisms as a final step of their ontogenetic program. It is assumed that such an aging program was invented by biological evolution to facilitate the evolutionary process. Indications are summarized suggesting that controlled production of toxic forms of oxygen (so called reactive oxygen species) by respiring intracellular organelles (mitochondria) is an obligatory component of the aging program. First results of a research project devoted to an attempt to interrupt aging program by antioxidants specifically addressed to mitochondria have been described. Within the framework of the project, antioxidants of a new type (SkQ) were synthesized. SkQs are composed of (i) plastoquinone (an antioxidant moiety), (ii) a penetrating cation, and (iii) a decane or pentane linker. Using planar bilayer phospholipid membranes, we selected SkQ derivatives of the highest penetrability, namely plastoquinonyl decyl triphenylphosphonium (SkQ1), plastoquinonyl decyl rhodamine 19 (SkQR1), and methylplastoquinonyl decyl triphenylphosphonium (SkQ3). Anti- and prooxidant properties of these substances and also of ubiquinonyl-decyl-triphenylphosphonium (MitoQ) were tested in isolated mitochondria. Micromolar concentrations of cationic quinones are found to be very strong prooxidants, but in the lower (sub-micromolar) concentrations they display antioxidant activity which decreases in the series SkQ1 = SkQR1 > SkQ3 > MitoQ. Thus, the window between the anti- and prooxidant effects is the smallest for MitoQ and the largest for SkQ1 and SkQR1. SkQ1 is rapidly reduced by complex III of the mitochondrial respiratory chain, i.e. it is a rechargeable antioxidant. Extremely low concentrations of SkQ1 and SkQR1 completely arrest the H2O2-induced apoptosis in human fibroblasts and HeLa cells (for SkQ1, C 1/2 = 8 · 10-9M). Higher concentrations of SkQ1 are required to block necrosis initiated by reactive oxygen species (ROS). In mice, SkQ1

  5. Proven Force--Proof of Concept for the Composite Wing

    DTIC Science & Technology

    1992-02-13

    AD- A24 9 881 NAVAL WAR COLLEGE Newport, Rhode Island PROVEN FORCE - PROOF OF CONCEPT FOR THE COMPOSITE WING by J . Scott Norwood 4 Major, USAF M 3A 1...TITLE *Ki* secWAY C1=VkfcW4 Proven Force -- Proof of Concept (-z) 12. P1SIONAL AUTNOR3 Major J . Scott Norwood, USAF 13& TYPE OF REPORT 113b. TI*h...offum 1"-436.412 0102-LF-014-6602 1 PROVEN FORCE -- PROOF OF CONCEPT FOR THE COMPOSITE WING J . Scott Norwood Major, USAF IN BRIEF The lion’s share of

  6. Sediment transport process and East Asian monsoon evolution during the last 410 kyr in the northern South China Sea: a multi-proxy approach

    NASA Astrophysics Data System (ADS)

    Chen, Quan; Liu, Zhifei; Kissel, Catherine

    2015-04-01

    change either in the direction or in the intensity of the bottom current. The clay mineral assemblage is dominated by smectite (23-59%) and illite (22-43%), with minor contribution of chlorite (13-27%) and kaolinite (4-13%). The provenance analysis suggests three end-member sources: smectite derives from Luzon, kaolinite originates from the Pearl River, and illite and chlorite are coming from both the Pearl River and Taiwan. Using the linear separation method of illite crystallinity, a time series of the clay mineral contribution from the three major provenances to the northern South China Sea was reconstructed. By synthesizing all these proxies, we find that the clay minerals and element ratios contain information about provenance supply and transport process. The provenance supply could be a proxy to reconstruct the East Asian Monsoon evolution. To achieve detailed provenance supply information, the terrigenous flux and the analyses of magnetic minerals and grain-size will be also presented.

  7. Integrated provenance analysis of a convergent retroarc foreland system: U-Pb ages, heavy minerals, Nd isotopes, and sandstone compositions of the Middle Magdalena Valley basin, northern Andes, Colombia

    NASA Astrophysics Data System (ADS)

    Nie, Junsheng; Horton, Brian K.; Saylor, Joel E.; Mora, Andrés; Mange, Maria; Garzione, Carmala N.; Basu, Asish; Moreno, Christopher J.; Caballero, Victor; Parra, Mauricio

    2012-01-01

    Sediment provenance analysis remains a powerful method for testing hypotheses on the temporal and spatial evolution of uplifted source regions, but issues such as recycling, nonunique sources, and pre- and post-depositional modifications may complicate interpretation of results from individual provenance techniques. Convergent retroarc systems commonly contain sediment sources that are sufficiently diverse (continental magmatic arc, fold-thrust belt, and stable craton) to enable explicit provenance assessments. In this paper, we combine detrital zircon U-Pb geochronology, heavy mineral identification, Nd isotopic analyses, conventional sandstone petrography, and paleocurrent measurements to reconstruct the clastic provenance history of a long-lived sedimentary basin now exposed in an intermontane zone of the northern Andean hinterland of Colombia. The Middle Magdalena Valley basin, situated between the Central Cordillera and Eastern Cordillera, contains a 5-10 km-thick succession of Upper Cretaceous to Quaternary fill. The integrated techniques show a pronounced change in provenance during the Paleocene transition from the lower to upper Lisama Formation. We interpret this as a shift from an eastern cratonic source to a western Andean source composed of magmatic-arc rocks uplifted during initial shortening of the Central Cordillera. The appearance of detrital chloritoid and a shift to more negative ɛ Nd(t=0) values in middle Eocene strata of the middle La Paz Formation are attributed to shortening-related exhumation of a continental basement block (La Cira-Infantas paleohigh), now buried, along the axis of the Magdalena Valley. The diverse provenance proxies also show distinct changes during middle to late Eocene deposition of the Esmeraldas Formation that likely reflect initial rock uplift and exhumation of the fold-thrust belt defining the Eastern Cordillera. Upsection, detrital zircon U-Pb ages and heavy mineral assemblages for Oligocene and younger clastic

  8. A linear mixed model approach to compare the evolution of multiple biological rhythms.

    PubMed

    Fontana, Andrea; Copetti, Massimiliano; Mazzoccoli, Gianluigi; Kypraios, Theodore; Pellegrini, Fabio

    2013-03-30

    The assessment and comparison of multiple biological rhythms represent an important challenge in chronobiology. They allow the investigation of whether a well-defined time-qualified relationship between biorhythms of the same frequency range is maintained in the presence of functional alterations, which may lead to chronodisruption or internal desynchronization. We propose a multivariate linear mixed model approach where functions of several biorhythms are jointly modeled in a multivariate longitudinal fashion, handling both the correlation between biorhythms of multiple outcomes and the correlation between measurements collected over time within the same biological entity. Furthermore, between-subject heterogeneity is also taken into account with the inclusion of random effects. Pairwise comparisons between biorhythms are performed by means of proper contrasts. As an example, we define contrasts which allow us testing whether or not two biorhythms are identical or opposing, providing additional support in clinical practice. Moreover, we illustrate the proposed method using both simulated and biological real data, concerning the comparison of three specific lymphocytes profiles which modulate the function of immune system between healthy subjects and non-small lung cancer patients. Finally, the corresponding SAS syntax is provided. Copyright © 2012 John Wiley & Sons, Ltd.

  9. A Modern Approach to Disinfection, as Old as the Evolution of Vertebrates.

    PubMed

    Migliarina, Franco; Ferro, Sergio

    2014-12-19

    The immune system of vertebrates "naturally" produces hypochlorous acid (HOCl) to fight against bacteria and pathogens. A patented electrochemical technology mirrors the above defense system, allowing the synthesis of HOCl solutions through the electrolysis of water enriched in salts, at the level of a few grams per liter. The system allows for the careful control of the pH of produced solutions, with consequent optimization of their activity. Once the HOCl is introduced into the water system; it is able to remove the biofilm from pipe network; significantly decreasing the level of Legionella colonization; within 8-10 weeks from the beginning of the disinfection approach. The technology has been applied in a variety of healthcare facilities, both in Italy and in neighboring European countries. In the present paper, two successful case studies are briefly presented: Data were obtained from experiences in two different healthcare facilities, one in Italy and the other in Germany. Destruction of biofilm was indirectly testified by an increase of total organic carbon content of water; as a consequence, and because of the dosing of the disinfecting agent, some μg/L of total halomethanes were also formed. However, both compositional features were only observed during the initial stages of the disinfection treatment.

  10. The treatment of cavernous sinus meningiomas: evolution of a modern approach.

    PubMed

    Klinger, Daniel R; Flores, Bruno C; Lewis, Jeremy J; Barnett, Samuel L

    2013-12-01

    Cavernous sinus meningiomas (CSMs) are challenging lesions for the skull base neurosurgeon to manage given their close association with cranial nerves II-VI and the internal carotid artery. In the 1980s and early 1990s, with advancements in microsurgical techniques, increasing knowledge of the relevant microsurgical neuroanatomy, and the advent of advanced skull base surgical approaches, the treatment of CSMs involved attempts at gross-total resection (GTR). Initial fervor for a surgical cure waned, however, as skull base neurosurgeons demonstrated the limits of complete resection in this region, the ongoing issue of potential tumor recurrences, and the unacceptably high cranial nerve and vascular morbidity associated with this strategy. The advent of radiosurgery and its documented success for tumor growth control and limited morbidity in cavernous lesions has helped to shift the treatment goals for CSMs from GTR to tumor control and symptom relief while minimizing treatment- and lesion-associated morbidity. The authors review the relevant microanatomy of the cavernous sinus with anatomical and radiographic correlates, as well as the various treatment options. A modernized, multimodality treatment algorithm to guide management of these lesions is proposed.

  11. A neurophylogenetic approach provides new insight to the evolution of Scaphopoda.

    PubMed

    Sumner-Rooney, Lauren H; Schrödl, Michael; Lodde-Bensch, Eva; Lindberg, David R; Heß, Martin; Brennan, Gerard P; Sigwart, Julia D

    2015-01-01

    The position of scaphopods in molluscan phylogeny remains singularly contentious, with several sister relationships supported by morphological and phylogenomic data: Scaphopoda + Bivalvia (Diasoma), Scaphopoda + Cephalopoda (Variopoda), and Scaphopoda + Gastropoda. Nervous system architecture has contributed significant insights to reconstructing phylogeny in the Mollusca and other invertebrate groups, but a modern neurophylogenetic approach has not been applied to molluscs, hampered by a lack of clearly defined homologous characters that can be unequivocally compared across the radical body plan disparity among the living clades. We present the first three-dimensional reconstruction of the anterior nervous system of a scaphopod, Rhabdus rectius, using histological tomography. We also describe a new putative sensory organ, a paired and pigmented sensory mantle slit. This structure is restricted to our study species and not a general feature of scaphopods, but it forms an integral part of the description of the nervous system in R. rectius. It also highlights the potential utility of neuro-anatomical characters for multiple levels of phylogenetic inference beyond this study. This potential has not previously been exploited for the thorny problem of molluscan phylogeny. The neuroanatomy of scaphopods demonstrates a highly derived architecture that shares a number of key characters with the cephalopod nervous system, and supports a Scaphopoda + Cephalopoda grouping.

  12. Approaching Equilibrium: The Evolution of CO2 in a Porous Medium

    NASA Astrophysics Data System (ADS)

    Cohen, Y.; Rothman, D.

    2012-12-01

    Understanding the microscopic mechanisms of mineral weathering rates has motivated studies of dissolution and precipitation for decades. Many applications, including the global carbon cycle and sub- surface carbon dioxide sequestration justify the importance of a full comprehension of the mechanism. The injection of carbon dioxide into a porous medium drives the system into far-from-equilibrium conditions where forces, surface phenomena, and other processes become crucial for the long-term stability of the system. A complete physical picture able to predict the pattern formation and the structure developing within the porous medium is lacking and cannot be associated only with empirical kinetic laws. Here we propose a theoretical model that couples transport, reaction, and the intricate geometry of the rock. The model concerns the different time scales when the system is far from equilibrium and when approaching a steady state. We use analytical theory and numerical simulations to study the short and the long term behavior of the carbon dioxide as it dissolves and precipitates in a fluid-rock system.

  13. A Modern Approach to Disinfection, as Old as the Evolution of Vertebrates

    PubMed Central

    Migliarina, Franco; Ferro, Sergio

    2014-01-01

    The immune system of vertebrates “naturally” produces hypochlorous acid (HOCl) to fight against bacteria and pathogens. A patented electrochemical technology mirrors the above defense system, allowing the synthesis of HOCl solutions through the electrolysis of water enriched in salts, at the level of a few grams per liter. The system allows for the careful control of the pH of produced solutions, with consequent optimization of their activity. Once the HOCl is introduced into the water system; it is able to remove the biofilm from pipe network; significantly decreasing the level of Legionella colonization; within 8–10 weeks from the beginning of the disinfection approach. The technology has been applied in a variety of healthcare facilities, both in Italy and in neighboring European countries. In the present paper, two successful case studies are briefly presented: Data were obtained from experiences in two different healthcare facilities, one in Italy and the other in Germany. Destruction of biofilm was indirectly testified by an increase of total organic carbon content of water; as a consequence, and because of the dosing of the disinfecting agent, some μg/L of total halomethanes were also formed. However, both compositional features were only observed during the initial stages of the disinfection treatment. PMID:27429291

  14. Siderophore production and the evolution of investment in a public good: An adaptive dynamics approach to kin selection.

    PubMed

    Lee, William; van Baalen, Minus; Jansen, Vincent A A

    2016-01-07

    Like many other bacteria, Pseudomonas aeruginosa sequesters iron from the environment through the secretion, and subsequent uptake, of iron-binding molecules. As these molecules can be taken up by other bacteria in the population than those who secreted them, this is a form of cooperation through a public good. Traditionally, this problem has been studied by comparing the relative fitnesses of siderophore-producing and non-producing strains, but this gives no information about the fate of strains that do produce intermediate amounts of siderophores. Here, we investigate theoretically how the amount invested in this form of cooperation evolves. We use a mechanistic description of the laboratory protocols used in experimental evolution studies to describe the competition and cooperation of the bacteria. From this dynamical model we derive the fitness following the adaptive dynamics method. The results show how selection is driven by local siderophore production and local competition. Because siderophore production reduces the growth rate, local competition decreases with the degree of relatedness (which is a dynamical variable in our model). Our model is not restricted to the analysis of small phenotypic differences and allows for theoretical exploration of the effects of large phenotypic differences between cooperators and cheats. We predict that an intermediate ESS level of cooperation (molecule production) should exist. The adaptive dynamics approach allows us to assess evolutionary stability, which is often not possible in other kin-selection models. We found that selection can lead to an intermediate strategy which in our model is always evolutionarily stable, yet can allow invasion of strategies that are much more cooperative. Our model describes the evolution of a public good in the context of the ecology of the microorganism, which allows us to relate the extent of production of the public good to the details of the interactions. Copyright © 2015 Elsevier

  15. An integrated approach to taphonomy and faunal change in the Shungura formation (Ethiopia) and its implication for hominid evolution.

    PubMed

    Alemseged, Zeresenay

    2003-04-01

    Environmental and faunal changes through time have been recorded for many African Plio-Pleistocene sites. Fossil evidence suggests that there is a continuous, if not uniform, transformation of the fauna and flora from the Pliocene through the end of Pleistocene. However, discerning major biotic turnovers and linking them to global and regional climatic changes have been complicated by many factors, notably taphonomy and discontinuity of the fossil evidence, notwithstanding the considerable work of some researchers (e.g., Vrba, E.S., 1988. Late Pliocene climatic events and hominid evolution, in: Grine, F. (Ed.), Evolutionary History of the "Robust" Australopithecines. De Gruyter, New York, pp. 405-426, Vrba, E.S., 1995. The fossil record of African (Mammalia, Bovidae) in relation to human evolution and paleoclimate, in: Vrba, E.S., Denton, G.H., Partridge, T.C., Burkle, L.H. (Eds.), Paleoclimate and Evolution, with Emphasis on Human Origins. Yale University Press, New Haven, pp. 385-424). A sample of over 22,000 fossils collected by the French Omo Expedition, from the Shungura Formation of Ethiopia, was analyzed using an integrated approach to investigate taphonomic and faunal change patterns. The following results are obtained: (1) Univariate and multivariate studies support continuous faunal change from Member A through Member G of the Shungura sequence; (2) Correspondence analysis (CA) on extant bovids in African game parks shows that bovid tribes and genera are generally characterized by habitat specificity; (3) Taphonomic studies demonstrate that the relative abundance of different skeletal elements varies according to depositional environment; (4) CA on 73 localities of the Shungura Formation and 19 mammalian taxa points to a major faunal change around the base of Member G dated to ca. 2.3 Ma. This transformation is characterized by a change to open and edaphic grassland as a dominant type of environment; (5) This major faunal change correlates in time with

  16. A NeuroEvolution Approach to Reconstructing Missing Daily Precipitation Data

    NASA Astrophysics Data System (ADS)

    Payne, K. A.; Boyce, S. A.; Farrell, D. A.

    2009-05-01

    The Caribbean region consists of several Small Island Developing States (SIDS). Many of these islands are extremely vulnerable to the impacts of climate change including sea level rise, changes in rainfall regimes and increasing day and night-time temperatures. In addition, the region is extremely susceptible to natural disasters, the most frequent of which is flooding. As part of its disaster management and mitigation strategy several Caribbean SIDS are developing a parametric insurance policy for flooding. The insurance mechanism is contingent on an adequate precipitation data set. However, missing data within the precipitation time series is one of the issues that is ubiquitous within the region, presenting a challenge to the implementation of such a rainfall-triggered insurance policy. The purpose of this study is to investigate the plausibility of using a class of Evolutionary Computation (EC) algorithms known as a Genetic Algorithms (GAs) for evolving a near-optimal Artificial Neural Network (ANN) to reconstruct missing daily precipitation data. The structure of the artificial neural network used for rainfall imputation in this study has a feedforward Multi-layer Perceptron (MLP) architecture. The predictive capability of this novel hybrid ANN-GA precipitation data infilling technique is tested by degrading 10%, 20% and 30% of a daily precipitation data set, from the period 1997-2000, in a stochastic manner and estimating the missing observations. Tests performed using the proposed approach show the method predicts the randomly selected missing precipitation data with reasonable reliability for a rain gauge in Region 3, Guyana. Research is currently on going to assess the efficacy of the artificial neural network technique for longer time series, which is required to support climate change impact on the Caribbean region.

  17. Adaptive evolution of chloroplast genome structure inferred using a parametric bootstrap approach

    PubMed Central

    Cui, Liying; Leebens-Mack, Jim; Wang, Li-San; Tang, Jijun; Rymarquis, Linda; Stern, David B; dePamphilis, Claude W

    2006-01-01

    Background Genome rearrangements influence gene order and configuration of gene clusters in all genomes. Most land plant chloroplast DNAs (cpDNAs) share a highly conserved gene content and with notable exceptions, a largely co-linear gene order. Conserved gene orders may reflect a slow intrinsic rate of neutral chromosomal rearrangements, or selective constraint. It is unknown to what extent observed changes in gene order are random or adaptive. We investigate the influence of natural selection on gene order in association with increased rate of chromosomal rearrangement. We use a novel parametric bootstrap approach to test if directional selection is responsible for the clustering of functionally related genes observed in the highly rearranged chloroplast genome of the unicellular green alga Chlamydomonas reinhardtii, relative to ancestral chloroplast genomes. Results Ancestral gene orders were inferred and then subjected to simulated rearrangement events under the random breakage model with varying ratios of inversions and transpositions. We found that adjacent chloroplast genes in C. reinhardtii were located on the same strand much more frequently than in simulated genomes that were generated under a random rearrangement processes (increased sidedness; p < 0.0001). In addition, functionally related genes were found to be more clustered than those evolved under random rearrangements (p < 0.0001). We report evidence of co-transcription of neighboring genes, which may be responsible for the observed gene clusters in C. reinhardtii cpDNA. Conclusion Simulations and experimental evidence suggest that both selective maintenance and directional selection for gene clusters are determinants of chloroplast gene order. PMID:16469102

  18. The Evolution of Cooperation in Managed Groundwater Systems: An Agent-Based Modelling Approach

    NASA Astrophysics Data System (ADS)

    Castilla Rho, J. C.; Mariethoz, G.; Rojas, R. F.; Andersen, M. S.; Kelly, B. F.; Holley, C.

    2014-12-01

    Human interactions with groundwater systems often exhibit complex features that hinder the sustainable management of the resource. This leads to costly and persistent conflicts over groundwater at the catchment scale. One possible way to address these conflicts is by gaining a better understanding of how social and groundwater dynamics coevolve using agent-based models (ABM). Such models allow exploring 'bottom-up' solutions (i.e., self-organised governance systems), where the behaviour of individual agents (e.g., farmers) results in the emergence of mutual cooperation among groundwater users. There is significant empirical evidence indicating that this kind of 'bottom-up' approach may lead to more enduring and sustainable outcomes, compared to conventional 'top-down' strategies such as centralized control and water right schemes (Ostrom 1990). New modelling tools are needed to study these concepts systematically and efficiently. Our model uses a conceptual framework to study cooperation and the emergence of social norms as initially proposed by Axelrod (1986), which we adapted to groundwater management. We developed an ABM that integrates social mechanisms and the physics of subsurface flow. The model explicitly represents feedback between groundwater conditions and social dynamics, capturing the spatial structure of these interactions and the potential effects on cooperation levels in an agricultural setting. Using this model, we investigate a series of mechanisms that may trigger norms supporting cooperative strategies, which can be sustained and become stable over time. For example, farmers in a self-monitoring community can be more efficient at achieving the objective of sustainable groundwater use than government-imposed regulation. Our coupled model thus offers a platform for testing new schemes promoting cooperation and improved resource use, which can be used as a basis for policy design. Importantly, we hope to raise awareness of agent-based modelling as

  19. Proven Alternatives for Aboveground Treatment of Arsenic in Groundwater

    EPA Pesticide Factsheets

    This issue paper, developed for EPA's Engineering Forum, identifies and summarizes experiences with proven aboveground treatment alternatives for arsenic in groundwater, and provides information on their relative effectiveness and cost.

  20. The Symbiotic Relationship between Scientific Workflow and Provenance (Invited)

    NASA Astrophysics Data System (ADS)

    Stephan, E.

    2010-12-01

    The purpose of this presentation is to describe the symbiotic nature of scientific workflows and provenance. We will also discuss the current trends and real world challenges facing these two distinct research areas. Although motivated differently, the needs of the international science communities are the glue that binds this relationship together. Understanding and articulating the science drivers to these communities is paramount as these technologies evolve and mature. Originally conceived for managing business processes, workflows are now becoming invaluable assets in both computational and experimental sciences. These reconfigurable, automated systems provide essential technology to perform complex analyses by coupling together geographically distributed disparate data sources and applications. As a result, workflows are capable of higher throughput in a shorter amount of time than performing the steps manually. Today many different workflow products exist; these could include Kepler and Taverna or similar products like MeDICI, developed at PNNL, that are standardized on the Business Process Execution Language (BPEL). Provenance, originating from the French term Provenir “to come from”, is used to describe the curation process of artwork as art is passed from owner to owner. The concept of provenance was adopted by digital libraries as a means to track the lineage of documents while standards such as the DublinCore began to emerge. In recent years the systems science community has increasingly expressed the need to expand the concept of provenance to formally articulate the history of scientific data. Communities such as the International Provenance and Annotation Workshop (IPAW) have formalized a provenance data model. The Open Provenance Model, and the W3C is hosting a provenance incubator group featuring the Proof Markup Language. Although both workflows and provenance have risen from different communities and operate independently, their mutual

  1. DataONE: A Data Federation with Provenance Support

    SciTech Connect

    Cao, Yang; Jones, Christopher; Cuevas-Vicenttin, Victor; Jones, Matthew B.; Ludascher, Bertram; McPhillips, Timothy; Missier, Paolo; Schwalm, Christopher; Slaughter, Peter; Vieglais, Dave; Walker, Lauren

    2016-01-01

    DataONE is a federated data network focusing on earth and environmental science data. We present the provenance and search features of DataONE by means of an example involving three earth scientists who interact through a DataONE Member Node. DataONE provenance systems enable reproducible research and facilitate proper attribution of scientific results transitively across generations of derived data products.

  2. Evolution of an operational hydrological model: from global to semi-distributed approach

    NASA Astrophysics Data System (ADS)

    Garavaglia, Federico; Le Lay, Matthieu; Gottardi, Frédéric; Garçon, Rémy

    2016-04-01

    MORDOR is a conceptual hydrological model extensively used in Électricité de France (EDF, French electric utility company) for operational applications: (i) hydrological forecasting, (ii) flood risk assessment, (iii) water balance and (iv) climate change studies. In its historical version, hereafter called MORDOR1996, this is a lumped, reservoir, elevation based model with hourly or daily areal rainfall and air temperature as the driving input data. The principal hydrological processes represented are evapotranspiration, direct and indirect runoff, ground water, snow and ice accumulation and melt, routing. The model has been intensively used at EDF for more than 25 years, in particular for modeling French mountainous watersheds. In order to consider the spatial heterogeneity of the input data (rainfall and air temperature) and the hydrological characteristics within a basin, the structure of model has been updated. The new version of the model, named MORDOR SD, is a semi-distributed hydrological model driven by elevation. The basin is spitted into several elevation bands on which a simple global MORDOR model is implemented; i.e. only evapotranspiration, direct and indirect runoff, snow and ice accumulation and melt are computed. However ground water and routing processes remain global. The primary purpose of this study is to present MORDOR SD model through a comparison with the historical version. The first result of this comparative study is that the new version provides better calibration-validation performances. Moreover the semi-distributed approach both allows to simplify the model structure (i.e. less degrees of freedom) and to reduce the equifinality problem in the calibration process. The model's parameters are calibrated at daily timestep with a genetic algorithm that uses a composed objective function. This complex function quantifies the good agreement between the simulated and observed runoff focusing on four different runoff samples: (i) time

  3. Evolution of the basal ganglia: new perspectives through a comparative approach.

    PubMed

    Smeets, W J; Marín, O; González, A

    2000-05-01

    processing of the thalamic sensory information relayed to the BG of tetrapods. By using the comparative approach, new insights have been gained with respect to certain features of the BG of vertebrates in general, such as the segmental organisation of the midbrain dopaminergic cell groups, the occurrence of large numbers of dopaminergic cell bodies within the telencephalon itself and the variability in, among others, connectivity and chemoarchitecture. However, the intriguing question whether the basal forebrain organisation of nontetrapods differs essentially from that observed in tetrapods still needs to be answered.

  4. Evolution of the basal ganglia: new perspectives through a comparative approach

    PubMed Central

    SMEETS, WILHELMUS J. A. J.; MARÍN, OSCAR; GONZÁLEZ, AGUSTÍN

    2000-01-01

    processing of the thalamic sensory information relayed to the BG of tetrapods. By using the comparative approach, new insights have been gained with respect to certain features of the BG of vertebrates in general, such as the segmental organisation of the midbrain dopaminergic cell groups, the occurrence of large numbers of dopaminergic cell bodies within the telencephalon itself and the variability in, among others, connectivity and chemoarchitecture. However, the intriguing question whether the basal forebrain organisation of nontetrapods differs essentially from that observed in tetrapods still needs to be answered. PMID:10923983

  5. Using 1-to-3D modeling approach to constrain thermomechanical evolution of the Dead Sea Transform region

    NASA Astrophysics Data System (ADS)

    Petrunin, Alexey G.; Meneses Rioseco, Ernesto; Sobolev, Stephan V.

    2010-05-01

    Dead Sea Transform (DST) fault system is a part of the Syrian-African rift system dividing African and Arabian plates, that accommodated more than 100 km of left-lateral transform displacement. Despite the area of the DST is tectonically active during at least last 17 Myr (Krienitz et al., G3, 2009), heat flow lower than 50mW/m2 is reported for the area. The value of 50mW/m2 is consistent with the thickness of the lithosphere of more than 120 km while observed thickness of the lithosphere at the DST area is 70-80 km, according to seismic data (Mohsen et al., G.J.Int.2005). This discrepancy means that lithosphere around DST was thinned in the past and related high heat flow had not enough time to reach the surface. However, it remains unclear which thickness had the lithosphere before the thinning and when the thinning has occurred. To find the appropriate values for the parameters, we use a gradual complication approach. At the initial stage we solve a number of 1D thermal transient problem. Resulting transient geotherms in combination with additional constraints allow us to constrain magnitude and time of lithospheric reduction to 50-70 km and 15-22 Ma, respectively. At the second stage we use 2.5D thermomechanical modeling technique by Sobolev S.V. et all.( EPSL 2005) to model thermal evolution and deformation at the 1000 km transsection of the lithosphere from Mediterranean to Arabian platform, crossing the DST near the Dead Sea. As an initial setup we use simplified geometry of the lithosphere-asthenosphere boundary and lithospheric structure according to available geophysical data. The lithospheric thickness is reduced within the 300 km -wide domain beneath the DST. The ranges for the time of and magnitude of the lithosphere thinning are given by the 1D model. The 2.5D model allows to use additional constraints for the model such as evolution of a surface topography and rheological patterns beneath the DST fault. In addition we use the brittle brick stretching

  6. Development of a state machine sequencer for the Keck Interferometer: evolution, development, and lessons learned using a CASE tool approach

    NASA Astrophysics Data System (ADS)

    Reder, Leonard J.; Booth, Andrew; Hsieh, Jonathan; Summers, Kellee R.

    2004-09-01

    This paper presents a discussion of the evolution of a sequencer from a simple Experimental Physics and Industrial Control System (EPICS) based sequencer into a complex implementation designed utilizing UML (Unified Modeling Language) methodologies and a Computer Aided Software Engineering (CASE) tool approach. The main purpose of the Interferometer Sequencer (called the IF Sequencer) is to provide overall control of the Keck Interferometer to enable science operations to be carried out by a single operator (and/or observer). The interferometer links the two 10m telescopes of the W. M. Keck Observatory at Mauna Kea, Hawaii. The IF Sequencer is a high-level, multi-threaded, Harel finite state machine software program designed to orchestrate several lower-level hardware and software hard real-time subsystems that must perform their work in a specific and sequential order. The sequencing need not be done in hard real-time. Each state machine thread commands either a high-speed real-time multiple mode embedded controller via CORBA, or slower controllers via EPICS Channel Access interfaces. The overall operation of the system is simplified by the automation. The UML is discussed and our use of it to implement the sequencer is presented. The decision to use the Rhapsody product as our CASE tool is explained and reflected upon. Most importantly, a section on lessons learned is presented and the difficulty of integrating CASE tool automatically generated C++ code into a large control system consisting of multiple infrastructures is presented.

  7. Development of a State Machine Sequencer for the Keck Interferometer: Evolution, Development and Lessons Learned using a CASE Tool Approach

    NASA Technical Reports Server (NTRS)

    Rede, Leonard J.; Booth, Andrew; Hsieh, Jonathon; Summer, Kellee

    2004-01-01

    This paper presents a discussion of the evolution of a sequencer from a simple EPICS (Experimental Physics and Industrial Control System) based sequencer into a complex implementation designed utilizing UML (Unified Modeling Language) methodologies and a CASE (Computer Aided Software Engineering) tool approach. The main purpose of the sequencer (called the IF Sequencer) is to provide overall control of the Keck Interferometer to enable science operations be carried out by a single operator (and/or observer). The interferometer links the two 10m telescopes of the W. M. Keck Observatory at Mauna Kea, Hawaii. The IF Sequencer is a high-level, multi-threaded, Hare1 finite state machine, software program designed to orchestrate several lower-level hardware and software hard real time subsystems that must perform their work in a specific and sequential order. The sequencing need not be done in hard real-time. Each state machine thread commands either a high-speed real-time multiple mode embedded controller via CORB A, or slower controllers via EPICS Channel Access interfaces. The overall operation of the system is simplified by the automation. The UML is discussed and our use of it to implement the sequencer is presented. The decision to use the Rhapsody product as our CASE tool is explained and reflected upon. Most importantly, a section on lessons learned is presented and the difficulty of integrating CASE tool automatically generated C++ code into a large control system consisting of multiple infrastructures is presented.

  8. Development of a State Machine Sequencer for the Keck Interferometer: Evolution, Development and Lessons Learned using a CASE Tool Approach

    NASA Technical Reports Server (NTRS)

    Rede, Leonard J.; Booth, Andrew; Hsieh, Jonathon; Summer, Kellee

    2004-01-01

    This paper presents a discussion of the evolution of a sequencer from a simple EPICS (Experimental Physics and Industrial Control System) based sequencer into a complex implementation designed utilizing UML (Unified Modeling Language) methodologies and a CASE (Computer Aided Software Engineering) tool approach. The main purpose of the sequencer (called the IF Sequencer) is to provide overall control of the Keck Interferometer to enable science operations be carried out by a single operator (and/or observer). The interferometer links the two 10m telescopes of the W. M. Keck Observatory at Mauna Kea, Hawaii. The IF Sequencer is a high-level, multi-threaded, Hare1 finite state machine, software program designed to orchestrate several lower-level hardware and software hard real time subsystems that must perform their work in a specific and sequential order. The sequencing need not be done in hard real-time. Each state machine thread commands either a high-speed real-time multiple mode embedded controller via CORB A, or slower controllers via EPICS Channel Access interfaces. The overall operation of the system is simplified by the automation. The UML is discussed and our use of it to implement the sequencer is presented. The decision to use the Rhapsody product as our CASE tool is explained and reflected upon. Most importantly, a section on lessons learned is presented and the difficulty of integrating CASE tool automatically generated C++ code into a large control system consisting of multiple infrastructures is presented.

  9. A novel combinatorial approach for understanding microstructural evolution and its relationship to mechanical properties in metallic biomaterials.

    PubMed

    Nag, S; Banerjee, R; Fraser, H L

    2007-05-01

    The new generation of metallic biomaterials for prosthesis implantation (orthopedic and dental) typically have a Ti base with fully biocompatible alloying additions such as Nb, Ta, Zr, Mo, Fe and Sn. While the binary Ti-Ta and the ternary Ti-Nb-Ta systems are promising, the large composition space afforded by these systems offers tremendous scope in terms of alloy design via optimization of alloy composition and thermomechanical treatment. In the present paper a novel combinatorial approach has been developed for rapidly exploring the microstructural evolution and microstructure-microhardness (or elastic modulus) relationships in these systems. Using directed laser deposition, compositionally graded alloy samples have been fabricated and subsequently heat-treated to affect different microstructures in terms of the volume fraction and distribution of the alpha phase in the beta matrix as a function of composition. Subsequently, composition-specific indentation-based hardness and modulus information has been obtained from these graded samples, and the resulting data have been used to develop relationships between the composition, microstructure and mechanical properties. Such rapid combinatorial assessments can be very useful in optimizing not only the alloy composition but also the desired microstructure for achieving the best combination of properties for specific orthopedic or dental applications.

  10. Dynamical Evolution of the Inner Heliosphere Approaching Solar Activity Maximum: Interpreting Ulysses Observations Using a Global MHD Model. Appendix 1

    NASA Technical Reports Server (NTRS)

    Riley, Pete; Mikic, Z.; Linker, J. A.

    2003-01-01

    In this study we describe a series of MHD simulations covering the time period from 12 January 1999 to 19 September 2001 (Carrington Rotation 1945 to 1980). This interval coincided with: (1) the Sun s approach toward solar maximum; and (2) Ulysses second descent to the southern polar regions, rapid latitude scan, and arrival into the northern polar regions. We focus on the evolution of several key parameters during this time, including the photospheric magnetic field, the computed coronal hole boundaries, the computed velocity profile near the Sun, and the plasma and magnetic field parameters at the location of Ulysses. The model results provide a global context for interpreting the often complex in situ measurements. We also present a heuristic explanation of stream dynamics to describe the morphology of interaction regions at solar maximum and contrast it with the picture that resulted from Ulysses first orbit, which occurred during more quiescent solar conditions. The simulation results described here are available at: http://sun.saic.com.

  11. Engineering of a target site-specific recombinase by a combined evolution- and structure-guided approach

    PubMed Central

    Abi-Ghanem, Josephine; Chusainow, Janet; Karimova, Madina; Spiegel, Christopher; Hofmann-Sieber, Helga; Hauber, Joachim; Buchholz, Frank; Pisabarro, M. Teresa

    2013-01-01

    Site-specific recombinases (SSRs) can perform DNA rearrangements, including deletions, inversions and translocations when their naive target sequences are placed strategically into the genome of an organism. Hence, in order to employ SSRs in heterologous hosts, their target sites have to be introduced into the genome of an organism before the enzyme can be practically employed. Engineered SSRs hold great promise for biotechnology and advanced biomedical applications, as they promise to extend the usefulness of SSRs to allow efficient and specific recombination of pre-existing, natural genomic sequences. However, the generation of enzymes with desired properties remains challenging. Here, we use substrate-linked directed evolution in combination with molecular modeling to rationally engineer an efficient and specific recombinase (sTre) that readily and specifically recombines a sequence present in the HIV-1 genome. We elucidate the role of key residues implicated in the molecular recognition mechanism and we present a rationale for sTre’s enhanced specificity. Combining evolutionary and rational approaches should help in accelerating the generation of enzymes with desired properties for use in biotechnology and biomedicine. PMID:23275541

  12. Blood vessel tortuosity selects against evolution of aggressive tumor cells in confined tissue environments: A modeling approach.

    PubMed

    Szabó, András; Merks, Roeland M H

    2017-07-01

    Cancer is a disease of cellular regulation, often initiated by genetic mutation within cells, and leading to a heterogeneous cell population within tissues. In the competition for nutrients and growth space within the tumors the phenotype of each cell determines its success. Selection in this process is imposed by both the microenvironment (neighboring cells, extracellular matrix, and diffusing substances), and the whole of the organism through for example the blood supply. In this view, the development of tumor cells is in close interaction with their increasingly changing environment: the more cells can change, the more their environment will change. Furthermore, instabilities are also introduced on the organism level: blood supply can be blocked by increased tissue pressure or the tortuosity of the tumor-neovascular vessels. This coupling between cell, microenvironment, and organism results in behavior that is hard to predict. Here we introduce a cell-based computational model to study the effect of blood flow obstruction on the micro-evolution of cells within a cancerous tissue. We demonstrate that stages of tumor development emerge naturally, without the need for sequential mutation of specific genes. Secondly, we show that instabilities in blood supply can impact the overall development of tumors and lead to the extinction of the dominant aggressive phenotype, showing a clear distinction between the fitness at the cell level and survival of the population. This provides new insights into potential side effects of recent tumor vasculature normalization approaches.

  13. Dynamical Evolution of the Inner Heliosphere Approaching Solar Activity Maximum: Interpreting Ulysses Observations Using a Global MHD Model. Appendix 1

    NASA Technical Reports Server (NTRS)

    Riley, Pete; Mikic, Z.; Linker, J. A.

    2003-01-01

    In this study we describe a series of MHD simulations covering the time period from 12 January 1999 to 19 September 2001 (Carrington Rotation 1945 to 1980). This interval coincided with: (1) the Sun s approach toward solar maximum; and (2) Ulysses second descent to the southern polar regions, rapid latitude scan, and arrival into the northern polar regions. We focus on the evolution of several key parameters during this time, including the photospheric magnetic field, the computed coronal hole boundaries, the computed velocity profile near the Sun, and the plasma and magnetic field parameters at the location of Ulysses. The model results provide a global context for interpreting the often complex in situ measurements. We also present a heuristic explanation of stream dynamics to describe the morphology of interaction regions at solar maximum and contrast it with the picture that resulted from Ulysses first orbit, which occurred during more quiescent solar conditions. The simulation results described here are available at: http://sun.saic.com.

  14. Insight: Semantic Provenance and Analysis Platform for Multi-center Neurology Healthcare Research

    PubMed Central

    Ramesh, Priya; Wei, Annan; Welter, Elisabeth; Bamps, Yvan; Stoll, Shelley; Bukach, Ashley; Sajatovic, Martha; Sahoo, Satya S.

    2016-01-01

    Insight is a Semantic Web technology-based platform to support large-scale secondary analysis of healthcare data for neurology clinical research. Insight features the novel use of: (1) provenance metadata, which describes the history or origin of patient data, in clinical research analysis, and (2) support for patient cohort queries across multiple institutions conducting research in epilepsy, which is the one of the most common neurological disorders affecting 50 million persons worldwide. Insight is being developed as a healthcare informatics infrastructure to support a national network of eight epilepsy research centers across the U.S. funded by the U.S. Centers for Disease Control and Prevention (CDC). This paper describes the use of the World Wide Web Consortium (W3C) PROV recommendation for provenance metadata that allows researchers to create patient cohorts based on the provenance of the research studies. In addition, the paper describes the use of descriptive logic-based OWL2 epilepsy ontology for cohort queries with “expansion of query expression” using ontology reasoning. Finally, the evaluation results for the data integration and query performance are described using data from three research studies with 180 epilepsy patients. The experiment results demonstrate that Insight is a scalable approach to use Semantic provenance metadata for context-based data analysis in healthcare informatics. PMID:27069752

  15. ISO TC211 standards on Provenance for Earth science

    NASA Astrophysics Data System (ADS)

    Di, L.; Deng, M.

    2014-12-01

    Data provenance, also called lineage, records the derivation history of a data product. The history could include the algorithms used, the process steps taken, the computing environment run, data sources input to the processes, the organization/person responsible for the product, etc. Provenance provides important information to data users for them to determine the usability and reliability of the product. In the science domain, the data provenance is especially important since scientists need to use the information to determine the scientific validity of a data product and to decide if such a product can be used as the basis for further scientific analysis. Provenance is a kind of metadata. In Earth science domain, the International Organization for Standardization (ISO) Technical Committee 211 (ISO TC 211) have set geospatial metadata standards for geospatial data, including ISO 19115:2003-Metadata, ISO 19115-2:2009-Metadata-Part 2: Extensions for imagery and gridded data, and ISO 19115-1:2014 - Metadata -- Part 1: Fundamentals. ISO 19115 and ISO 19115-1 define the fundamental metadata for documenting geospatial data products, and ISO 19115-2 provides additional metadata classes for imagery and gridded data. ISO 19115-1:2014 is the revised version of ISO 19115:2003. ISO 19115 and ISO 19115-1 define fundamental lineage information classes and subclasses. They miss some key information classes needed for documenting the provenance in the Web service environment, such as the running environment, the algorithms, and software executables. However, ISO 19115-2 extends the lineage model in ISO 19115 and provides additional metadata classes needed for documenting provenance information. The combination of lineage models in ISO 19115 and ISO 19115-2 provides a comprehensive provenance information model needed for the web service environment. Currently the ISO Provence standard is not compatible with W3C Prov standard. The revision of ISO 19115-2 will be started in

  16. A multi-technique approach for characterizing the geomorphological evolution of a Villerville-Cricqueboeuf coastal landslide (Normandy, France).

    NASA Astrophysics Data System (ADS)

    Lissak Borges, Candide; Maquaire, Olivier; Malet, Jean-Philippe; Gomez, Christopher; Lavigne, Franck

    2010-05-01

    The Villerville and Cricqueboeuf coastal landslides (Calvados, Normandy, North-West France) have occurred in marly, sandy and chalky formations. The slope instability probably started during the last Quaternary period and is still active over the recent historic period. Since 1982, the slope is affected by a permanent activity (following the Varnes classification) with an annual average displacement of 5-10 cm.y-1 depending on the season. Three major events occurred in 1988, 1995 and 2001 and are controlled by the hydro-climatic conditions. These events induced pluri-decimetres to pluri-meters displacements (e.g. 5m horizontal displacements have been observed in 2001 at Cricqueboeuf) and generated economical and physical damage to buildings and roads. The landslide morphology is characterized by multi-metres scarps, reverse slopes caused by the tilting of landslide blocks and evolving cracks. The objective of this paper is to present the methodology used to characterize the recent historical (since 1808) geomorphological evolution of the landslides, and to discuss the spatio-temporal pattern of observed displacements. A multi-technique research approach has been applied and consisted in historical research, geomorphological mapping, geodetic monitoring and engineering geotechnical investigation. Information gained from different documents and techniques has been combined to propose a conceptual model of landslide evolution: - a retrospective study on landslide events inventoried in the historic period (archive investigation, newspapers); - a multi-temporal (1955-2006) analysis of aerial photographs (image processing, traditional stereoscopic techniques and image orthorectification), ancient maps and cadastres; - the creation of a detailed geomorphological map in 2009; - an analysis of recent displacements monitored since 1985 with traditional geodetic techniques (tacheometry, dGPS, micro-levelling) - geophysical investigation by ground-penetrating radar along the

  17. Provenance Usage in the OceanLink Project

    NASA Astrophysics Data System (ADS)

    Narock, T.; Arko, R. A.; Carbotte, S. M.; Chandler, C. L.; Cheatham, M.; Fils, D.; Finin, T.; Hitzler, P.; Janowicz, K.; Jones, M.; Krisnadhi, A.; Lehnert, K. A.; Mickle, A.; Raymond, L. M.; Schildhauer, M.; Shepherd, A.; Wiebe, P. H.

    2014-12-01

    A wide spectrum of maturing methods and tools, collectively characterized as the Semantic Web, is helping to vastly improve thedissemination of scientific research. The OceanLink project, an NSF EarthCube Building Block, is utilizing semantic technologies tointegrate geoscience data repositories, library holdings, conference abstracts, and funded research awards. Provenance is a vital componentin meeting both the scientific and engineering requirements of OceanLink. Provenance plays a key role in justification and understanding when presenting users with results aggregated from multiple sources. In the engineering sense, provenance enables the identification of new data and the ability to determine which data sources to query. Additionally, OceanLink will leverage human and machine computation for crowdsourcing, text mining, and co-reference resolution. The results of these computations, and their associated provenance, will be folded back into the constituent systems to continually enhance precision and utility. We will touch on the various roles provenance is playing in OceanLink as well as present our use of the PROV Ontology and associated Ontology Design Patterns.

  18. Computational provenance in hydrologic science: a snow mapping example.

    PubMed

    Dozier, Jeff; Frew, James

    2009-03-13

    Computational provenance--a record of the antecedents and processing history of digital information--is key to properly documenting computer-based scientific research. To support investigations in hydrologic science, we produce the daily fractional snow-covered area from NASA's moderate-resolution imaging spectroradiometer (MODIS). From the MODIS reflectance data in seven wavelengths, we estimate the fraction of each 500 m pixel that snow covers. The daily products have data gaps and errors because of cloud cover and sensor viewing geometry, so we interpolate and smooth to produce our best estimate of the daily snow cover. To manage the data, we have developed the Earth System Science Server (ES3), a software environment for data-intensive Earth science, with unique capabilities for automatically and transparently capturing and managing the provenance of arbitrary computations. Transparent acquisition avoids the scientists having to express their computations in specific languages or schemas in order for provenance to be acquired and maintained. ES3 models provenance as relationships between processes and their input and output files. It is particularly suited to capturing the provenance of an evolving algorithm whose components span multiple languages and execution environments.

  19. On Improving Efficiency of Differential Evolution for Aerodynamic Shape Optimization Applications