Prediction of diagenesis and reservoir quality using wireline logs: evidence from the Upper Triassic (Raethian) fluvial reservoir tags - Toual field, Gassi Touil Area, SE Algeria

Reservoir quality is mainly controlled by environment deposit type and diagenesis processes. To investigate such subject we usually proceed to microscopic techniques. Absence of outcrops and missing of core samples let us use conventional wireline logs and core lab measurements as primary data. Direct lecture of well logs calibrated by core photos and wellsite description, well logs correlation and cross plots were our main methodology axis. Target of this study is the fluvial Shaly Sandstones of Upper Triassic (Rhaetian) reservoir (abreviated in French; TAGS) located in Toual field – SE of Algeria. The present investigation confirms the absence of clean sandstone levels in the studied reservoir. It detects also the presence of halite and clays (Illite) as cements in sandstone. The influence of illite on permeability was confirmed whereas porosity is less affected.Keywords: Diagenesis; Reservoir Quality; Well logs; Fluvial System; Triassic; Toua

A generalized quantum nonlinear oscillator

We examine various generalizations, e.g. exactly solvable, quasi-exactly solvable and non-Hermitian variants, of a quantum nonlinear oscillator. For all these cases, the same mass function has been used and it has also been shown that the new exactly solvable potentials possess shape invariance symmetry. The solutions are obtained in terms of classical orthogonal polynomials

Forced oscillations dynamic tribometer with real-time insights of lubricated interfaces

This paper presents an innovative forced oscillations dynamic tribometer, the CHRONOS tribometer, with a lubricated ball-on-flat contact configuration fitted out with an in situ optical visualization system and a triggered high-speed camera. The CHRONOS tribometer generates controlled oscillating kinematics by means of a shaker with a range of strokes from 5 μm to 2.5 mm and an oscillation frequency which can be adjusted from 5 Hz to 250 Hz. Displacement and velocity are measured using a vibrometer. The ball-on-flat mean contact pressure is set between 200 MPa and 600 MPa. During motion, the instantaneous normal and friction forces and the interfacial film thickness distribution (in the nanometer scale) are simultaneously measured. In addition to this instantaneous approach, a more macroscopic approach is developed in terms of moving averages of friction and velocity. Another parameter, the friction-velocity tilt angle, is also introduced. This last parameter may give information on the friction-velocity dependence. Eventually, the experiments performed on the CHRONOS device lead to the representation of synchronized temporal signals of displacement/velocity, friction, and lubricant central film thickness. This superimposition of key parameters reveals time effects introduced by the periodical fluid squeeze and flow in the contact

Genetic differentiation and geographical Relationship of Asian barley landraces using SSRs

Genetic diversity in 403 morphologically distinct landraces of barley (Hordeum vulgare L. subsp. vulgare) originating from seven geographical zones of Asia was studied using simple sequence repeat (SSR) markers from regions of medium to high recombination in the barley genome. The seven polymorphic SSR markers representing each of the chromosomes chosen for the study revealed a high level of allelic diversity among the landraces. Genetic richness was highest in those from India, followed by Pakistan while it was lowest for Uzbekistan and Turkmenistan. Out of the 50 alleles detected, 15 were unique to a geographic region. Genetic diversity was highest for landraces from Pakistan (0.70 ± 0.06) and lowest for those from Uzbekistan (0.18 ± 0.17). Likewise, polymorphic information content (PIC) was highest for Pakistan (0.67 ± 0.06) and lowest for Uzbekistan (0.15 ± 0.17). Diversity among groups was 40% compared to 60% within groups. Principal component analysis clustered the barley landraces into three groups to predict their domestication patterns. In total 51.58% of the variation was explained by the first two principal components of the barley germplasm. Pakistan landraces were clustered separately from those of India, Iran, Nepal and Iraq, whereas those from Turkmenistan and Uzbekistan were clustered together into a separate group

A hybrid method for accurate iris segmentation on at-a-distance visible-wavelength images

[EN] This work describes a new hybrid method for accurate iris segmentation from full-face images independently of the ethnicity of the subject. It is based on a combination of three methods: facial key-point detection, integro-differential operator (IDO) and mathematical morphology. First, facial landmarks are extracted by means of the Chehra algorithm in order to obtain the eye location. Then, the IDO is applied to the extracted sub-image containing only the eye in order to locate the iris. Once the iris is located, a series of mathematical morphological operations is performed in order to accurately segment it. Results are obtained and compared among four different ethnicities (Asian, Black, Latino and White) as well as with two other iris segmentation algorithms. In addition, robustness against rotation, blurring and noise is also assessed. Our method obtains state-of-the-art performance and shows itself robust with small amounts of blur, noise and/or rotation. Furthermore, it is fast, accurate, and its code is publicly available.Fuentes-Hurtado, FJ.; Naranjo Ornedo, V.; Diego-Mas, JA.; Alcañiz Raya, ML. (2019). A hybrid method for accurate iris segmentation on at-a-distance visible-wavelength images. EURASIP Journal on Image and Video Processing (Online). 2019(1):1-14. https://doi.org/10.1186/s13640-019-0473-0S11420191A. Radman, K. Jumari, N. Zainal, Fast and reliable iris segmentation algorithm. IET Image Process.7(1), 42–49 (2013).M. Erbilek, M. Fairhurst, M. C. D. C Abreu, in 5th International Conference on Imaging for Crime Detection and Prevention (ICDP 2013). Age prediction from iris biometrics (London, 2013), pp. 1–5. http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&arnumber=6913712&isnumber=6867223 .A. Abbasi, M. Khan, Iris-pupil thickness based method for determining age group of a person. Int. Arab J. Inf. Technol. (IAJIT). 13(6) (2016).G. Mabuza-Hocquet, F. Nelwamondo, T. 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Wildes, Iris recognition: an emerging biometric technology. Proc. IEEE. 85(9), 1348–1363 (1997).M. Kass, A. Witkin, D. Terzopoulos, Snakes: Active contour models. Int. J. Comput. Vision. 1(4), 321–331 (1988).S. J. Pundlik, D. L. Woodard, S. T. Birchfield, in 2008 IEEE Computer Society Conference on Computer Vision and Pattern Recognition Workshops. Non-ideal iris segmentation using graph cuts (IEEEAnchorage, 2008). p. 1–6. http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&arnumber=4563108&isnumber=4562948 .H. Proença, Iris recognition: On the segmentation of degraded images acquired in the visible wavelength. IEEE Trans. Pattern Anal. Mach. Intell.32(8), 1502–1516 (2010). http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&arnumber=5156505&isnumber=5487331 .T. Tan, Z. He, Z. Sun, Efficient and robust segmentation of noisy iris images for non-cooperative iris recognition. Image Vision Comput.28(2), 223–230 (2010).C. -W. Tan, A. Kumar, in CVPR 2011 WORKSHOPS. Automated segmentation of iris images using visible wavelength face images (Colorado Springs, 2011). p. 9–14. http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&arnumber=5981682&isnumber=5981671 .Y. -H. Li, M. Savvides, An automatic iris occlusion estimation method based on high-dimensional density estimation. IEEE Trans. Pattern Anal. Mach. Intell.35(4), 784–796 (2013).M. Yahiaoui, E. Monfrini, B. Dorizzi, Markov chains for unsupervised segmentation of degraded nir iris images for person recognition. Pattern Recogn. Lett.82:, 116–123 (2016).A. Radman, N. Zainal, S. A. Suandi, Automated segmentation of iris images acquired in an unconstrained environment using hog-svm and growcut. Digit. Signal Proc.64:, 60–70 (2017).N. Liu, H. Li, M. Zhang, J. Liu, Z. Sun, T. Tan, in 2016 International Conference on Biometrics (ICB). Accurate iris segmentation in non-cooperative environments using fully convolutional networks (Halmstad, 2016). p. 1–8. http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&arnumber=7550055&isnumber=7550036 .Z. Zhao, A. Kumar, in 2017 IEEE International Conference on Computer Vision (ICCV). Towards more accurate iris recognition using deeply learned spatially corresponding features (Venice, 2017). p. 3829–3838. http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&arnumber=8237673&isnumber=8237262 .P. Li, X. Liu, L. Xiao, Q. Song, Robust and accurate iris segmentation in very noisy iris images. Image Vision Comput.28(2), 246–253 (2010).D. S. Jeong, J. W. Hwang, B. J. Kang, K. R. Park, C. S. Won, D. -K. Park, J. Kim, A new iris segmentation method for non-ideal iris images. Image Vision Comput.28(2), 254–260 (2010).Y. Chen, M. Adjouadi, C. Han, J. Wang, A. Barreto, N. Rishe, J. Andrian, A highly accurate and computationally efficient approach for unconstrained iris segmentation. Image Vision Comput. 28(2), 261–269 (2010).Z. Zhao, A. Kumar, in 2015 IEEE International Conference on Computer Vision (ICCV). An accurate iris segmentation framework under relaxed imaging constraints using total variation model (Santiago, 2015). p. 3828–3836. http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&arnumber=7410793&isnumber=7410356 .Y. Hu, K. Sirlantzis, G. Howells, Improving colour iris segmentation using a model selection technique. Pattern Recogn. Lett.57:, 24–32 (2015).E. Ouabida, A. Essadique, A. Bouzid, Vander lugt correlator based active contours for iris segmentation and tracking. Expert Systems Appl.71:, 383–395 (2017).C. -W. Tan, A. Kumar, Unified framework for automated iris segmentation using distantly acquired face images. IEEE Trans. Image Proc.21(9), 4068–4079 (2012).C. -W. Tan, A. Kumar, in Proceedings of the 21st International Conference on Pattern Recognition (ICPR2012). Human identification from at-a-distance images by simultaneously exploiting iris and periocular features (Tsukuba, 2012). p. 553–556. http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&arnumber=6460194&isnumber=6460043 .C. -W. Tan, A. Kumar, Towards online iris and periocular recognition under relaxed imaging constraints. IEEE Trans. Image Proc.22(10), 3751–3765 (2013).K. Y. Shin, Y. G. Kim, K. R. Park, Enhanced iris recognition method based on multi-unit iris images. Opt. Eng.52(4), 047201–047201 (2013).CASIA iris databases. http://biometrics.idealtest.org/ . Accessed 06 Sept 2017.WVU iris databases. hhttp://biic.wvu.edu/data-sets/synthetic-iris-dataset . Accessed 06 Sept 2017.UBIRIS iris database. http://iris.di.ubi.pt . Accessed 06 Sept 2017.MICHE iris database. http://biplab.unisa.it/MICHE/ . Accessed 06 Sept 2017.P. J. Phillips, et al, in 2005 IEEE Computer Society Conference on Computer Vision and Pattern Recognition (CVPR’05), 1. Overview of the face recognition grand challenge (San Diego, 2005). p. 947–954. http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&arnumber=1467368&isnumber=31472 .D. S. Ma, J. Correll, B. Wittenbrink, The chicago face database: A free stimulus set of faces and norming data. Behav. Res. Methods. 47(4), 1122–1135 (2015).P. Soille, Morphological Image Analysis: Principles and Applications (Springer, 2013).A. K. Jain, Fundamentals of Digital Image Processing (Prentice-Hall, Inc., Englewood Cliffs, 1989).J. Daugman, How iris recognition works. IEEE Trans. Circ. Syst. Video Technol.14(1), 21–30 (2004).A. Asthana, S. Zafeiriou, S. Cheng, M. Pantic, in 2014 IEEE Conference on Computer Vision and Pattern Recognition. Incremental face alignment in the wild (Columbus, 2014). p. 1859–1866. http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&arnumber=6909636&isnumber=6909393 .T. Baltrusaitis, P. Robinson, L. -P. Morency, in 2013 IEEE International Conference on Computer Vision Workshops. Constrained local neural fields for robust facial landmark detection in the wild (Sydney, 2013). p. 354–361. http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&arnumber=6755919&isnumber=6755862 .X. Zhu, D. Ramanan, in Computer Vision and Pattern Recognition (CVPR), 2012 IEEE Conference On. Face detection, pose estimation, and landmark localization in the wild (IEEEBerlin Heidelberg, 2012), pp. 2879–2886.G. Tzimiropoulos, in 2015 IEEE Conference on Computer Vision and Pattern Recognition (CVPR). Project-out cascaded regression with an application to face alignment (Boston, 2015). p. 3659–3667. http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&arnumber=7298989&isnumber=7298593 .H. Hofbauer, F. Alonso-Fernandez, P. Wild, J. Bigun, A. Uhl, in 2014 22nd International Conference on Pattern Recognition. A ground truth for iris segmentation (Stockholm, 2014). p. 527–532. http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&arnumber=6976811&isnumber=6976709 .H. Proença, L. A. Alexandre, in 2007 First IEEE International Conference on Biometrics: Theory, Applications, and Systems. The NICE.I: Noisy Iris Challenge Evaluation - Part I (Crystal City, 2007). p. 1–4. http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&arnumber=4401910&isnumber=4401902 .J. Daugman, in European Convention on Security and Detection. High confidence recognition of persons by rapid video analysis of iris texture, (1995). p. 244–251. http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&arnumber=491729&isnumber=10615 .Code of Matlab implementation of Daugman’s integro-differential operator (IDO). https://es.mathworks.com/matlabcentral/fileexchange/15652-iris-segmentation-using-daugman-s-integrodifferential-operator/ . Accessed 06 Sept 2017.Code of Matlab implementation of Zhao and Kumar’s iris segmentation framework under relaxed imaging constraints using total variation model. http://www4.comp.polyu.edu.hk/~csajaykr/tvmiris.htm/ . Accessed 06 Sept 2017.Code of Matlab implementation of presented work. https://gitlab.com/ffuentes/hybrid_iris_segmentation/ . Accessed 06 Sept 2017.Face and eye detection with OpenCV. https://docs.opencv.org/trunk/d7/d8b/tutorial_py_face_detection.html . Accessed 07 Sept 2018.A. K. Boyat, B. K. Joshi, 6. A review paper:noise models in digital image processing signal & image processing. An International Journal (SIPIJ), (2015), pp. 63–75. https://doi.org/10.5121/sipij.2015.6206 .A. Buades, Y. Lou, J. M. Morel, Z. Tang, Multi image noise estimation and denoising (2010). Available: https://hal.archives-ouvertes.fr/hal-00510866/

Reticulated origin of domesticated emmer wheat supports a dynamic model for the emergence of agriculture in the fertile crescent

We used supernetworks with datasets of nuclear gene sequences and novel markers detecting retrotransposon insertions in ribosomal DNA loci to reassess the evolutionary relationships among tetraploid wheats. We show that domesticated emmer has a reticulated genetic ancestry, sharing phylogenetic signals with wild populations from all parts of the wild range. The extent of the genetic reticulation cannot be explained by post-domestication gene flow between cultivated emmer and wild plants, and the phylogenetic relationships among tetraploid wheats are incompatible with simple linear descent of the domesticates from a single wild population. A more parsimonious explanation of the data is that domesticated emmer originates from a hybridized population of different wild lineages. The observed diversity and reticulation patterns indicate that wild emmer evolved in the southern Levant, and that the wild emmer populations in south-eastern Turkey and the Zagros Mountains are relatively recent reticulate descendants of a subset of the Levantine wild populations. Based on our results we propose a new model for the emergence of domesticated emmer. During a pre-domestication period, diverse wild populations were collected from a large area west of the Euphrates and cultivated in mixed stands. Within these cultivated stands, hybridization gave rise to lineages displaying reticulated genealogical relationships with their ancestral populations. Gradual movement of early farmers out of the Levant introduced the pre-domesticated reticulated lineages to the northern and eastern parts of the Fertile Crescent, giving rise to the local wild populations but also facilitating fixation of domestication traits. Our model is consistent with the protracted and dispersed transition to agriculture indicated by the archaeobotanical evidence, and also with previous genetic data affiliating domesticated emmer with the wild populations in southeast Turkey. Unlike other protracted models, we assume that humans played an intuitive role throughout the process.Natural Environment Research Council [NE/E015948/1]; Slovak Research and Development Agency [APVV-0661-10, APVV-0197-10]info:eu-repo/semantics/publishedVersio

Transgene × Environment Interactions in Genetically Modified Wheat

BACKGROUND: The introduction of transgenes into plants may cause unintended phenotypic effects which could have an impact on the plant itself and the environment. Little is published in the scientific literature about the interrelation of environmental factors and possible unintended effects in genetically modified (GM) plants. METHODS AND FINDINGS: We studied transgenic bread wheat Triticum aestivum lines expressing the wheat Pm3b gene against the fungus powdery mildew Blumeria graminis f.sp. tritici. Four independent offspring pairs, each consisting of a GM line and its corresponding non-GM control line, were grown under different soil nutrient conditions and with and without fungicide treatment in the glasshouse. Furthermore, we performed a field experiment with a similar design to validate our glasshouse results. The transgene increased the resistance to powdery mildew in all environments. However, GM plants reacted sensitive to fungicide spraying in the glasshouse. Without fungicide treatment, in the glasshouse GM lines had increased vegetative biomass and seed number and a twofold yield compared with control lines. In the field these results were reversed. Fertilization generally increased GM/control differences in the glasshouse but not in the field. Two of four GM lines showed up to 56% yield reduction and a 40-fold increase of infection with ergot disease Claviceps purpurea compared with their control lines in the field experiment; one GM line was very similar to its control. CONCLUSIONS: Our results demonstrate that, depending on the insertion event, a particular transgene can have large effects on the entire phenotype of a plant and that these effects can sometimes be reversed when plants are moved from the glasshouse to the field. However, it remains unclear which mechanisms underlie these effects and how they may affect concepts in molecular plant breeding and plant evolutionary ecology

A systematic review of the effects of exercise interventions on body composition in HIV+ adults

Over the years, physical activity and exercise have been used to positively impact the health and quality of life of persons infected with HIV and, more recently, has been associated with a spectrum of body composition changes. The aim of this review was to examine the effects of various exercise interventions on body composition in HIV positive adults, using a search strategy of randomized, controlled trials (RCTs). A systematic review was performed by five independent reviewers using a predetermined protocol adapted from previous research for assessing the articles for inclusion, the extracted data, and methodological quality. Eight RCTs involving 430 (26% female) HIV positive adults performing exercise a minimum of thrice weekly for at least six weeks were finally selected: Four were progressive resistance training (PRT) studies, three were aerobic training (AT) studies, and one involved yoga. In the PRT studies, there were significant increases in three anthropometric measures, namely, body mass, sum of skinfolds and sum of limb girths. In the AT studies, significant decreases were found in seven anthropometric measures, namely, body mass index, waist-hip ratio, body mass, triceps skinfold, waist circumference and sum of skinfolds. With yoga, the changes were nonsignificant. Exercise contributes to improved body composition and, when applied safely, appears to be beneficial for adults living with HIV/AIDS. However, these findings should be interpreted cautiously due to the relatively few RCTs published to date. Future studies would benefit from increased attention to sample size, female participants, participant follow-up, complete statistical analysis and intention-to-treat analysis.Scopu

Epidemiology of and prenatal molecular distinction between invasive and colonizing group B streptococci in The Netherlands and Taiwan

The identification of markers for virulent group B streptococci (GBS) could guide prenatal prevention and intervention strategies. We compared the distribution of serotypes and potential pathogenicity islands (PPIs) between invasive and colonizing GBS. Colonizing and invasive strains from The Netherlands and Taiwan were serotyped. We used polymerase chain reaction (PCR) for the amplification of several new PPI markers. Several combinations of PPI-specific markers and serotypes were associated with invasiveness. For Dutch neonatal strains, a receiver operating characteristic (ROC) curve with serotype and five PPI markers showed an area under the curve (AUC) of 0.963 (95% confidence interval [CI] 0.935–0.99). For Taiwanese neonatal strains, serotype and four different PPI markers resulted in an ROC curve with an AUC of 0.894 (95% CI 0.826–0.963). PPI-specific and serological markers can distinguish local neonatal invasive GBS strains from colonizing ones. Apparently, there are clear regional differences in the GBS epidemiology and infection potential of clones

The CC-NB-LRR-Type Rdg2a Resistance Gene Confers Immunity to the Seed-Borne Barley Leaf Stripe Pathogen in the Absence of Hypersensitive Cell Death

BACKGROUND: Leaf stripe disease on barley (Hordeum vulgare) is caused by the seed-transmitted hemi-biotrophic fungus Pyrenophora graminea. Race-specific resistance to leaf stripe is controlled by two known Rdg (Resistance to Drechslera graminea) genes: the H. spontaneum-derived Rdg1a and Rdg2a, identified in H. vulgare. The aim of the present work was to isolate the Rdg2a leaf stripe resistance gene, to characterize the Rdg2a locus organization and evolution and to elucidate the histological bases of Rdg2a-based leaf stripe resistance. PRINCIPLE FINDINGS: We describe here the positional cloning and functional characterization of the leaf stripe resistance gene Rdg2a. At the Rdg2a locus, three sequence-related coiled-coil, nucleotide-binding site, and leucine-rich repeat (CC-NB-LRR) encoding genes were identified. Sequence comparisons suggested that paralogs of this resistance locus evolved through recent gene duplication, and were subjected to frequent sequence exchange. Transformation of the leaf stripe susceptible cv. Golden Promise with two Rdg2a-candidates under the control of their native 5′ regulatory sequences identified a member of the CC-NB-LRR gene family that conferred resistance against the Dg2 leaf stripe isolate, against which the Rdg2a-gene is effective. Histological analysis demonstrated that Rdg2a-mediated leaf stripe resistance involves autofluorescing cells and prevents pathogen colonization in the embryos without any detectable hypersensitive cell death response, supporting a cell wall reinforcement-based resistance mechanism. CONCLUSIONS: This work reports about the cloning of a resistance gene effective against a seed borne disease. We observed that Rdg2a was subjected to diversifying selection which is consistent with a model in which the R gene co-evolves with a pathogen effector(s) gene. We propose that inducible responses giving rise to physical and chemical barriers to infection in the cell walls and intercellular spaces of the barley embryo tissues represent mechanisms by which the CC-NB-LRR-encoding Rdg2a gene mediates resistance to leaf stripe in the absence of hypersensitive cell death.Davide Bulgarelli, Chiara Biselli, Nicholas C. Collins, Gabriella Consonni, Antonio M. Stanca, Paul Schulze-Lefert and Giampiero Val