Event timing in human vision : Modulating factors and independent functions

Essential for successful interaction with the environment is the human capacity to resolve events in time. Typical event timing paradigms are judgements of simultaneity (SJ) and of temporal order (TOJ). It remains unclear whether SJ and TOJ are based on the same underlying mechanism and whether there are fixed thresholds for resolution. The current study employed four visual event timing task versions: horizontal and vertical SJ and TOJ. Binary responses were analysed using multilevel binary regression modelling. Modulatory effects of potential explanatory variables on event timing perception were investigated: (1) Individual factors (sex and age), (2) temporal factors (SOA, trial number, order of experiment, order of stimuli orientation, time of day) and (3) spatial factors (left or right stimulus first, top or bottom stimulus first, horizontal vs. vertical orientation). The current study directly compares for the first time, performance on SJ and TOJ tasks using the same paradigm and presents evidence that a variety of factors and their interactions selectively modulate event timing functions in humans, explaining the variance found in previous studies. We conclude that SJ and TOJ are partially independent functions, because they are modulated differently by individual and contextual variables.Peer reviewe

Adults with autism spectrum condition have atypical perception of ambiguous figures when bottom-up and top-down interactions are incongruous.

We examined the perception of an ambiguous squares stimulus evoking bistable perception in a sample of 31 individuals with autistic spectrum condition and 22 matched typical adults. The perception of the ambiguous figure was manipulated by adaptation to unambiguous figures and/or by placing the ambiguous figure into a context of unambiguous figures. This resulted in four conditions testing the independent and combined (congruent and incongruent) manipulations of adaptation (bottom-up) and spatial context (top-down) effects. The strength of perception, as measured by perception of the first reported orientation of the ambiguous stimulus, was affected comparably between groups. Nevertheless, the strength of perception, as measured by perceptual durations, was affected differently between groups: the perceptual effect was strongest for the autistic spectrum condition group when combined bottom-up and top-down conditions were congruent. In contrast, the strength of the perceptual effect in response to the same condition in the typical adults group was comparable to the adaptation, but stronger than both the context and the incongruent combined bottom-up and top-down conditions. Furthermore, the context condition was stronger than the incongruent combined bottom-up and top-down conditions for the typical adults group. Thus, our findings support the view of stimulus-specific top-down modulation in autistic spectrum condition

Laser Microdissection of the Alveolar Duct Enables Single-Cell Genomic Analysis

Complex tissues such as the lung are composed of structural hierarchies such as alveoli, alveolar ducts, and lobules. Some structural units, such as the alveolar duct, appear to participate in tissue repair as well as the development of bronchioalveolar carcinoma. Here, we demonstrate an approach to conduct laser microdissection of the lung alveolar duct for single-cell PCR analysis. Our approach involved three steps. (1) The initial preparation used mechanical sectioning of the lung tissue with sufficient thickness to encompass the structure of interest. In the case of the alveolar duct, the precision-cut lung slices were 200 μm thick; the slices were processed using near-physiologic conditions to preserve the state of viable cells. (2) The lung slices were examined by transmission light microscopy to target the alveolar duct. The air-filled lung was sufficiently accessible by light microscopy that counterstains or fluorescent labels were unnecessary to identify the alveolar duct. (3) The enzymatic and microfluidic isolation of single cells allowed for the harvest of as few as several thousand cells for PCR analysis. Microfluidics based arrays were used to measure the expression of selected marker genes in individual cells to characterize different cell populations. Preliminary work suggests the unique value of this approach to understand the intra- and intercellular interactions within the regenerating alveolar duct

Stretch-induced intussuceptive and sprouting angiogenesis in the chick chorioallantoic membrane

Vascular systems grow and remodel in response to not only metabolic needs, but also mechanical influences as well. Here, we investigated the influence of tissue-level mechanical forces on the patterning and structure of the chick chorioallantoic membrane (CAM) microcirculation. A dipole stretch field was applied to the CAM using custom computer-controlled servomotors. The topography of the stretch field was mapped using finite element models. After 3 days of stretch, Sholl analysis of the CAM demonstrated a 7-fold increase in conducting vessel intersections within the stretch field (p 0.05). In contrast, corrosion casting and SEM of the stretch field capillary meshwork demonstrated intense sprouting and intussusceptive angiogenesis. Both planar surface area (p < 0.05) and pillar density (p < 0.01) were significantly increased relative to control regions of the CAM. We conclude that a uniaxial stretch field stimulates the axial growth and realignment of conducting vessels as well as intussusceptive and sprouting angiogenesis within the gas exchange capillaries of the ex ovo CAM.National Institutes of Health (U.S.) (NIH grant HL95678

Social representations of HIV/AIDS in five Central European and Eastern European countries: A multidimensional analysis

Cognitive processing models of risky sexual behaviour have proliferated in the two decades since the first reporting of HIV/AIDS, but far less attention has been paid to individual and group representations of the epidemic and the relationship between these representations and reported sexual behaviours. In this study, 494 business people and medics from Estonia, Georgia, Hungary, Poland and Russia sorted free associations around HIV/AIDS in a matrix completion task. Exploratory factor and multidimensional scaling analyses revealed two main dimensions (labelled ‘Sex’ and ‘Deadly disease’), with significant cultural and gender variations along both dimension scores. Possible explanations for these results are discussed in the light of growing concerns over the spread of the epidemic in this region

Stepwise Conformational Stabilization of a HIV-1 Clade C Consensus Envelope Trimer Immunogen Impacts the Profile of Vaccine-Induced Antibody Responses.

Stabilization of the HIV-1 Envelope glycoprotein trimer (Env) in its native pre-fusion closed conformation is regarded as one of several requirements for the induction of neutralizing antibody (nAb) responses, which, in turn, will most likely be a prerequisite for the development of an efficacious preventive vaccine. Here, we systematically analyzed how the stepwise stabilization of a clade C consensus (ConC) Env immunogen impacts biochemical and biophysical protein traits such as antigenicity, thermal stability, structural integrity, and particle size distribution. The increasing degree of conformational rigidification positively correlates with favorable protein characteristics, leading to optimized homogeneity of the protein preparations, increased thermal stability, and an overall favorable binding profile of structure-dependent broadly neutralizing antibodies (bnAbs) and non-neutralizing antibodies (non-nAbs). We confirmed that increasing the structural integrity and stability of the Env trimers positively correlates with the quality of induced antibody responses by the immunogens. These and other data contribute to the selection of ConCv5 KIKO as novel Env immunogens for use within the European Union's H2020 Research Consortium EHVA (European HIV Alliance) for further preclinical analysis and phase 1 clinical development

The mitochondrial NAD+ transporter (NDT1) plays important roles in cellular NAD+ homeostasis in \u3ci\u3eArabidopsis thaliana\u3c/i\u3e

Nicotinamide adenine dinucleotide (NAD+) is an essential coenzyme required for all living organisms. In eukaryotic cells, the final step of NAD+ biosynthesis is exclusively cytosolic. Hence, NAD+ must be imported into organelles to support their metabolic functions. Three NAD+ transporters belonging to the mitochondrial carrier family (MCF) have been biochemically characterized in plants. AtNDT1 (At2g47490), focus of the current study, AtNDT2 (At1g25380), targeted to the inner mitochondrial membrane, and AtPXN (At2g39970), located in the peroxisomal membrane. Although AtNDT1 was presumed to reside in the chloroplast membrane, subcellular localization experiments with green fluorescent protein (GFP) fusions revealed that AtNDT1 locates exclusively in the mitochondrial membrane in stably transformed Arabidopsis plants. To understand the biological function of AtNDT1 in Arabidopsis, three transgenic lines containing an antisense construct of AtNDT1 under the control of the 35S promoter alongside a T-DNA insertional line were evaluated. Plants with reduced AtNDT1 expression displayed lower pollen viability, silique length, and higher rate of seed abortion. Furthermore, these plants also exhibited an increased leaf number and leaf area concomitant with higher photosynthetic rates and higher levels of sucrose and starch. Therefore, lower expression of AtNDT1 was associated with enhanced vegetative growth but severe impairment of the reproductive stage. These results are discussed in the context of the mitochondrial localization of AtNDT1 and its important role in the cellular NAD+ homeostasis for both metabolic and developmental processes in plants

Estimation of forest structure and canopy fuel parameters from small-footprint full-waveform LiDAR data

Precise knowledge of fuel conditions is important for predicting fire hazards and simulating fire growth and intensity across the landscape. We present a methodology to retrieve and map forest canopy fuel and other forest structural parameters using small-footprint full-waveform airborne light detection and ranging (LiDAR) data. Full-waveform LiDAR sensors register the complete returned backscattered signal through time and can describe physical properties of the intercepted objects. This study was undertaken in a mixed forest dominated by Douglas-fir, occasionally mixed with other conifers, in north-west Oregon (United States). We extracted two sets of LiDAR metrics using pulse detection and waveform modelling and then constructed several predictive models using forward stepwise multiple linear regression. The resulting models explained ~80% of the variability for many of the canopy fuel and forest structure parameters: aboveground biomass (R2 = 0.84), quadratic mean diameter (R2 = 0.82), canopy height (R2 = 0.79), canopy base height (R2 = 0.78) and canopy fuel load (R2 = 0.79). The lowest performing models included basal area (R2 = 0.76), stand volume (R2 = 0.73), canopy bulk density (R2 = 0.67) and stand density index (R2 = 0.66). Our results indicate that full-waveform LiDAR systems show promise in systematically characterising the structure and canopy fuel loads of forests, which may enable accurate fire behaviour forecasting that in turn supports the development of prevention and planning policies.This paper was developed as a result of two mobility grants funded by the Erasmus Mundus Programme of the European Commission under the Transatlantic Partnership for Excellence in Engineering (TEE Project) and the Generalitat Valenciana (BEST/2012/235). The authors appreciate the financial support provided by the Spanish Ministry of Science and Innovation in the framework of the project CGL2010-19591/BTE. In addition, the authors thank the Panther Creek Remote Sensing and Research cooperative program for the data provided for this research, Jim Flewelling (Seattle Biometrics) and George McFadden (Bureau of Land Management) for their help in data availability and preparation.Hermosilla Gómez, T.; Ruiz Fernández, LÁ.; Kazakova, AN.; Coops, N.; Moskal, LM. (2014). Estimation of forest structure and canopy fuel parameters from small-footprint full-waveform LiDAR data. International Journal of Wildland Fire. 23(2):224-233. https://doi.org/10.1071/WF13086S224233232Akaike, H. (1974). A new look at the statistical model identification. IEEE Transactions on Automatic Control, 19(6), 716-723. doi:10.1109/tac.1974.1100705Andersen, H.-E., McGaughey, R. J., & Reutebuch, S. E. (2005). Estimating forest canopy fuel parameters using LIDAR data. Remote Sensing of Environment, 94(4), 441-449. doi:10.1016/j.rse.2004.10.013Arroyo, L. A., Pascual, C., & Manzanera, J. A. (2008). Fire models and methods to map fuel types: The role of remote sensing. Forest Ecology and Management, 256(6), 1239-1252. doi:10.1016/j.foreco.2008.06.048Ashworth, A., Evans, D. L., Cooke, W. H., Londo, A., Collins, C., & Neuenschwander, A. (2010). Predicting Southeastern Forest Canopy Heights and Fire Fuel Models using GLAS Data. Photogrammetric Engineering & Remote Sensing, 76(8), 915-922. doi:10.14358/pers.76.8.915Buddenbaum, H., Seeling, S., & Hill, J. (2013). Fusion of full-waveform lidar and imaging spectroscopy remote sensing data for the characterization of forest stands. International Journal of Remote Sensing, 34(13), 4511-4524. doi:10.1080/01431161.2013.776721Chuvieco, E., & Congalton, R. G. (1989). Application of remote sensing and geographic information systems to forest fire hazard mapping. Remote Sensing of Environment, 29(2), 147-159. doi:10.1016/0034-4257(89)90023-0CHUVIECO, E., & SALAS, J. (1996). Mapping the spatial distribution of forest fire danger using GIS. International journal of geographical information systems, 10(3), 333-345. doi:10.1080/02693799608902082Chuvieco, E., Riaño, D., Aguado, I., & Cocero, D. (2002). Estimation of fuel moisture content from multitemporal analysis of Landsat Thematic Mapper reflectance data: Applications in fire danger assessment. International Journal of Remote Sensing, 23(11), 2145-2162. doi:10.1080/01431160110069818Chuvieco, E., Cocero, D., Riaño, D., Martin, P., Martı́nez-Vega, J., de la Riva, J., & Pérez, F. (2004). Combining NDVI and surface temperature for the estimation of live fuel moisture content in forest fire danger rating. Remote Sensing of Environment, 92(3), 322-331. doi:10.1016/j.rse.2004.01.019Cruz, M. G., Alexander, M. E., & Wakimoto, R. H. (2003). Assessing canopy fuel stratum characteristics in crown fire prone fuel types of western North America. International Journal of Wildland Fire, 12(1), 39. doi:10.1071/wf02024Drake, J. B., Dubayah, R. O., Clark, D. B., Knox, R. G., Blair, J. B., Hofton, M. A., … Prince, S. (2002). Estimation of tropical forest structural characteristics using large-footprint lidar. Remote Sensing of Environment, 79(2-3), 305-319. doi:10.1016/s0034-4257(01)00281-4Erdody, T. L., & Moskal, L. M. (2010). Fusion of LiDAR and imagery for estimating forest canopy fuels. Remote Sensing of Environment, 114(4), 725-737. doi:10.1016/j.rse.2009.11.002Falkowski, M. J., Gessler, P. E., Morgan, P., Hudak, A. T., & Smith, A. M. S. (2005). Characterizing and mapping forest fire fuels using ASTER imagery and gradient modeling. Forest Ecology and Management, 217(2-3), 129-146. doi:10.1016/j.foreco.2005.06.013Flannigan, M. ., Stocks, B. ., & Wotton, B. . (2000). Climate change and forest fires. Science of The Total Environment, 262(3), 221-229. doi:10.1016/s0048-9697(00)00524-6García, M., Popescu, S., Riaño, D., Zhao, K., Neuenschwander, A., Agca, M., & Chuvieco, E. (2012). Characterization of canopy fuels using ICESat/GLAS data. Remote Sensing of Environment, 123, 81-89. doi:10.1016/j.rse.2012.03.018González-Olabarria, J.-R., Rodríguez, F., Fernández-Landa, A., & Mola-Yudego, B. (2012). Mapping fire risk in the Model Forest of Urbión (Spain) based on airborne LiDAR measurements. Forest Ecology and Management, 282, 149-156. doi:10.1016/j.foreco.2012.06.056Hall, S. A., Burke, I. C., Box, D. O., Kaufmann, M. R., & Stoker, J. M. (2005). Estimating stand structure using discrete-return lidar: an example from low density, fire prone ponderosa pine forests. Forest Ecology and Management, 208(1-3), 189-209. doi:10.1016/j.foreco.2004.12.001Harding, D. J. (2005). ICESat waveform measurements of within-footprint topographic relief and vegetation vertical structure. Geophysical Research Letters, 32(21). doi:10.1029/2005gl023471Heinzel, J., & Koch, B. (2011). Exploring full-waveform LiDAR parameters for tree species classification. International Journal of Applied Earth Observation and Geoinformation, 13(1), 152-160. doi:10.1016/j.jag.2010.09.010Höfle, B., Hollaus, M., & Hagenauer, J. (2012). Urban vegetation detection using radiometrically calibrated small-footprint full-waveform airborne LiDAR data. ISPRS Journal of Photogrammetry and Remote Sensing, 67, 134-147. doi:10.1016/j.isprsjprs.2011.12.003HYDE, P., DUBAYAH, R., PETERSON, B., BLAIR, J., HOFTON, M., HUNSAKER, C., … WALKER, W. (2005). Mapping forest structure for wildlife habitat analysis using waveform lidar: Validation of montane ecosystems. Remote Sensing of Environment, 96(3-4), 427-437. doi:10.1016/j.rse.2005.03.005Keane, R. E., Burgan, R., & van Wagtendonk, J. (2001). Mapping wildland fuels for fire management across multiple scales: Integrating remote sensing, GIS, and biophysical modeling. International Journal of Wildland Fire, 10(4), 301. doi:10.1071/wf01028Kim, Y., Yang, Z., Cohen, W. B., Pflugmacher, D., Lauver, C. L., & Vankat, J. L. (2009). Distinguishing between live and dead standing tree biomass on the North Rim of Grand Canyon National Park, USA using small-footprint lidar data. Remote Sensing of Environment, 113(11), 2499-2510. doi:10.1016/j.rse.2009.07.010Koetz, B., Morsdorf, F., Sun, G., Ranson, K. J., Itten, K., & Allgower, B. (2006). Inversion of a Lidar Waveform Model for Forest Biophysical Parameter Estimation. IEEE Geoscience and Remote Sensing Letters, 3(1), 49-53. doi:10.1109/lgrs.2005.856706Lefsky, M. A., Cohen, W. B., Acker, S. A., Parker, G. G., Spies, T. A., & Harding, D. (1999). Lidar Remote Sensing of the Canopy Structure and Biophysical Properties of Douglas-Fir Western Hemlock Forests. Remote Sensing of Environment, 70(3), 339-361. doi:10.1016/s0034-4257(99)00052-8Listopad, C. M. C. S., Drake, J. B., Masters, R. E., & Weishampel, J. F. (2011). Portable and Airborne Small Footprint LiDAR: Forest Canopy Structure Estimation of Fire Managed Plots. Remote Sensing, 3(7), 1284-1307. doi:10.3390/rs3071284Mallet, C., & Bretar, F. (2009). Full-waveform topographic lidar: State-of-the-art. ISPRS Journal of Photogrammetry and Remote Sensing, 64(1), 1-16. doi:10.1016/j.isprsjprs.2008.09.007Morsdorf, F., Meier, E., Kötz, B., Itten, K. I., Dobbertin, M., & Allgöwer, B. (2004). LIDAR-based geometric reconstruction of boreal type forest stands at single tree level for forest and wildland fire management. Remote Sensing of Environment, 92(3), 353-362. doi:10.1016/j.rse.2004.05.013Neuenschwander, A. L. (2009). Landcover classification of small-footprint, full-waveform lidar data. Journal of Applied Remote Sensing, 3(1), 033544. doi:10.1117/1.3229944Reich, R. M., Lundquist, J. E., & Bravo, V. A. (2004). Spatial models for estimating fuel loads in the Black Hills, South Dakota, USA. International Journal of Wildland Fire, 13(1), 119. doi:10.1071/wf02049Reitberger, J., Krzystek, P., & Stilla, U. (2008). Analysis of full waveform LIDAR data for the classification of deciduous and coniferous trees. International Journal of Remote Sensing, 29(5), 1407-1431. doi:10.1080/01431160701736448Riaño, D., Chuvieco, E., Salas, J., Palacios-Orueta, A., & Bastarrika, A. (2002). Generation of fuel type maps from Landsat TM images and ancillary data in Mediterranean ecosystems. Canadian Journal of Forest Research, 32(8), 1301-1315. doi:10.1139/x02-052Riaño, D. (2003). Modeling airborne laser scanning data for the spatial generation of critical forest parameters in fire behavior modeling. Remote Sensing of Environment, 86(2), 177-186. doi:10.1016/s0034-4257(03)00098-1Riaño, D., Chuvieco, E., Condés, S., González-Matesanz, J., & Ustin, S. L. (2004). Generation of crown bulk density for Pinus sylvestris L. from lidar. Remote Sensing of Environment, 92(3), 345-352. doi:10.1016/j.rse.2003.12.014Riaño, D., Chuvieco, E., Ustin, S. L., Salas, J., Rodríguez-Pérez, J. R., Ribeiro, L. M., … Fernández, H. (2007). Estimation of shrub height for fuel-type mapping combining airborne LiDAR and simultaneous color infrared ortho imaging. International Journal of Wildland Fire, 16(3), 341. doi:10.1071/wf06003SKOWRONSKI, N., CLARK, K., NELSON, R., HOM, J., & PATTERSON, M. (2007). Remotely sensed measurements of forest structure and fuel loads in the Pinelands of New Jersey. Remote Sensing of Environment, 108(2), 123-129. doi:10.1016/j.rse.2006.09.032Skowronski, N. S., Clark, K. L., Duveneck, M., & Hom, J. (2011). Three-dimensional canopy fuel loading predicted using upward and downward sensing LiDAR systems. Remote Sensing of Environment, 115(2), 703-714. doi:10.1016/j.rse.2010.10.012Van Leeuwen, M., & Nieuwenhuis, M. (2010). Retrieval of forest structural parameters using LiDAR remote sensing. European Journal of Forest Research, 129(4), 749-770. doi:10.1007/s10342-010-0381-4Vaughn, N. R., Moskal, L. M., & Turnblom, E. C. (2012). Tree Species Detection Accuracies Using Discrete Point Lidar and Airborne Waveform Lidar. Remote Sensing, 4(2), 377-403. doi:10.3390/rs4020377Wagner, W., Hollaus, M., Briese, C., & Ducic, V. (2008). 3D vegetation mapping using small‐footprint full‐waveform airborne laser scanners. International Journal of Remote Sensing, 29(5), 1433-1452. doi:10.1080/01431160701736398Wilson, B. A., Ow, C. F. Y., Heathcott, M., Milne, D., McCaffrey, T. M., Ghitter, G., & Franklin, S. E. (1994). Landsat MSS Classification of Fire Fuel Types in Wood Buffalo National Park, Northern Canada. Global Ecology and Biogeography Letters, 4(2), 33. doi:10.2307/2997751Zhao, K., Popescu, S., Meng, X., Pang, Y., & Agca, M. (2011). Characterizing forest canopy structure with lidar composite metrics and machine learning. Remote Sensing of Environment, 115(8), 1978-1996. doi:10.1016/j.rse.2011.04.00

Genome of the Avirulent Human-Infective Trypanosome—Trypanosoma rangeli

Background: Trypanosoma rangeli is a hemoflagellate protozoan parasite infecting humans and other wild and domestic mammals across Central and South America. It does not cause human disease, but it can be mistaken for the etiologic agent of Chagas disease, Trypanosoma cruzi. We have sequenced the T. rangeli genome to provide new tools for elucidating the distinct and intriguing biology of this species and the key pathways related to interaction with its arthropod and mammalian hosts.  Methodology/Principal Findings: The T. rangeli haploid genome is ,24 Mb in length, and is the smallest and least repetitive trypanosomatid genome sequenced thus far. This parasite genome has shorter subtelomeric sequences compared to those of T. cruzi and T. brucei; displays intraspecific karyotype variability and lacks minichromosomes. Of the predicted 7,613 protein coding sequences, functional annotations could be determined for 2,415, while 5,043 are hypothetical proteins, some with evidence of protein expression. 7,101 genes (93%) are shared with other trypanosomatids that infect humans. An ortholog of the dcl2 gene involved in the T. brucei RNAi pathway was found in T. rangeli, but the RNAi machinery is non-functional since the other genes in this pathway are pseudogenized. T. rangeli is highly susceptible to oxidative stress, a phenotype that may be explained by a smaller number of anti-oxidant defense enzymes and heatshock proteins.  Conclusions/Significance: Phylogenetic comparison of nuclear and mitochondrial genes indicates that T. rangeli and T. cruzi are equidistant from T. brucei. In addition to revealing new aspects of trypanosome co-evolution within the vertebrate and invertebrate hosts, comparative genomic analysis with pathogenic trypanosomatids provides valuable new information that can be further explored with the aim of developing better diagnostic tools and/or therapeutic targets