Reconstruction of earth fissures 3-D from videos

Earth fissures are pervasive cracks that develop on valley floors as a consequence of land subsidence associated with extensive groundwater withdrawal. To capture geometrical, geological and geotechnical information of ground fissures is of paramount importance for their characterization. Recent advances in remote sensing techniques and the accessibility to remotely piloted aircraft systems (RPAS) as well as the evolution of onboard digital cameras enable the capture of digital photos and videos. Using digital photos along with the Structure from Motion (SfM) technique and following certain strategies, we can reconstruct a 3-D model of the earth fissures under study. This technique requires digital photos, but when a digital video is available, we can convert it into a set of frames and equally apply the procedure. Besides, the extraction of frames from a video assures a key condition for the SfM technique: the overlap between photos. The resulting 3-D model should be scaled and oriented using a rigid transformation matrix or even better including ground control points (GCP) into the captured photos or frames. The latter enables the geo-referencing of the point cloud and the correction of linear and non-linear deformations. In this work, the proposed methodology is illustrated through the application of SfM technique to a high-resolution video downloaded from YouTube (i.e. https://youtu.be/9xdAnftBKvY, last access: 20 February 2020). The video shows a mile-long earth fissure that appeared sometime between March 2014 and December 2014 near the Tator Hills (Arizona, USA) over Quaternary sediments. The Arizona Geological Survey captured these videos using an RPAS. The frames of the video were downloaded and extracted using a simple Matlab code. Then, we sub-sampled the frames and processed them using the software Agisoft Metashape Professional. Finally, we got metric data from Google Earth and generated a 3-D model. The quality of the 3-D model strongly depends on the quality of the photos and the GCP. However, this study shows the potential of this technique, instrumentation and data available on Internet for the development of 3-D point clouds and 3-D models for the detailed analysis of earth fissures.This research has been supported by the Spanish Ministry of Economy and Competitiveness (MINECO) and the European Funds for Regional Development (FEDER) (grant no. TEC2017-85244-C2-1-P), the UNESCO (grant no. ICGP641 project), the Universidad de Alicante (grant no. GRE17-11), the Universidad de Alicante (grant no. GRE18-15), and the Universidad de Alicante (grant no. vigrob-157)

Fracturas del macizo trocantéreo. Estudio comparativo Ender-DHS: revision de 114 casos

Se presenta un estudio retrospectivo de 114 fracturas pertrocantéreas tratadas con enclavado elástico de Ender (71) y tornillo placa deslizante, DHS (43). Se efectuó un estudio estadístico descriptivo-comparativo entre los 2 grupos de pacientes según la técnica quirúrgica empleada. Se constató un mayor índice de estabilidad usando el DHS (81%), frente al 6 1 % del otro grupo. La tasa de complicaciones fue del 16% y 55% respectivamente. Los resultados clínicos fueron mejores en los enfermos tratados con DHS, fundamentalmente en cuanto a la deambulación que se consiguió en el 98% (Ender 75%), ausencia de dolor y movilidad conservada. Los autores piensan que la estabilidad preoperatoria no influye en la solidez del montaje usando el DHS, pero con la técnica de Ender ésta disminuye en las fracturas inestables; por ello, la técnica de Ender estaría solamente indicada en el tratamiento de fracturas estables en pacientes de edad avanzada o con mal estado general, aunque en clara competencia con el DHS.A retrospective study of 114 intertrochanteric fractures operated on either with Ender's rods (71) or dynamic hip screws, DHS (43) is presented. A statistical descriptive-comparative study between the 2 groups was attempted. There was a greater index of stability using the DHS (82%) than Ender's rods (61%). The rate of complications was 16% and 55% respectively. The clinical outcome was better in cases treated with DHS, specially for walking ability, which was regained in the 98% of cases (Ender 75%), painless and preserved mobility. The authors think that the stability before operation do not influence the solidity of the assembly using the DHS device. On the contrary, with the Ender's technique the fixation is no satisfactory in unstables fractures. Ender's rods would only be suitable for treatment of stable fractures in older patient or with serious associated diseases, although in clear competition with the DHS

Resequencing the Vrs1 gene in Spanish barley landraces revealed reversion of six-rowed to two-rowed spike

Six-rowed spike 1 (Vrs1) is a gene of major importance for barley breeding and germplasm management as it is the main gene determining spike row-type (2-rowed vs. 6-rowed). This is a widely used DUS trait, and has been often associated to phenotypic traits beyond spike type. Comprehensive re-sequencing Vrs1 revealed three two-rowed alleles (Vrs1.b2; Vrs1.b3; Vrs1.t1) and four six-rowed (vrs1.a1; vrs1.a2; vrs1.a3; vrs1.a4) in the natural population. However, the current knowledge about Vrs1 alleles and its distribution among Spanish barley subpopulations is still underexploited. We analyzed the gene in a panel of 215 genotypes, made of Spanish landraces and European cultivars. Among 143 six-rowed accessions, 57 had the vrs1.a1 allele, 83 were vrs1.a2, and three showed the vrs1.a3 allele. Vrs1.b3 was found in most two-rowed accessions, and a new allele was observed in 7 out of 50 two-rowed Spanish landraces. This allele, named Vrs1.b5, contains a ‘T’ insertion in exon 2, originally proposed as the causal mutation giving rise to the six-row vrs1.a2 allele, but has an additional upstream deletion that results in the change of 15 amino acids and a potentially functional protein. We conclude that eight Vrs1 alleles (Vrs1.b2, Vrs1.b3, Vrs1.b5, Vrs1.t1, vrs1.a1, vrs1.a2, vrs1.a3, vrs1.a4) discriminate two and six-rowed barleys. The markers described will be useful for DUS identification, plant breeders, and other crop scientists.This work was supported by the Spanish Ministry of Economy, Industry and Competitiveness grants AGL2010-21929, AGL2013-48756-R, RFP2012-00015-00-00, RTA2012-00033-C03-02, and EUI2009-04075 (national code for Plant-KBBE project ExpResBar). CPC was funded by the Spanish Ministry of Economy, Industry and Competitiveness grant no. BES-2011-045905 (linked to project AGL2010-21929). TK and SS were supported by a research fund by the Ministry of Agriculture, Forestry, and Fisheries of Japan (Genomics for Agricultural Innovation grants no. TRS1002). SS was supported by a Grant-in-Aid from the Japan Society for the Promotion of Science (JSPS) Postdoctoral Fellow for Research Abroad and a Grant-in-Aid for Young Scientists (B) (no. 16 K18635)

Evolutionary history of barley cultivation in Europe revealed by genetic analysis of extant landraces

Background: Understanding the evolution of cultivated barley is important for two reasons. First, the evolutionary relationships between different landraces might provide information on the spread and subsequent development of barley cultivation, including the adaptation of the crop to new environments and its response to human selection. Second, evolutionary information would enable landraces with similar traits but different genetic backgrounds to be identified, providing alternative strategies for the introduction of these traits into modern germplasm. Results: The evolutionary relationships between 651 barley landraces were inferred from the genotypes for 24 microsatellites. The landraces could be divided into nine populations, each with a different geographical distribution. Comparisons with ear row number, caryopsis structure, seasonal growth habit and flowering time revealed a degree of association between population structure and phenotype, and analysis of climate variables indicated that the landraces are adapted, at least to some extent, to their environment. Human selection and/or environmental adaptation may therefore have played a role in the origin and/or maintenance of one or more of the barley landrace populations. There was also evidence that at least some of the population structure derived from geographical partitioning set up during the initial spread of barley cultivation into Europe, or reflected the later introduction of novel varieties. In particular, three closely-related populations were made up almost entirely of plants with the daylength nonresponsive version of the photoperiod response gene PPD-H1, conferring adaptation to the long annual growth season of northern Europe. These three populations probably originated in the eastern Fertile Crescent and entered Europe after the initial spread of agriculture. Conclusions: The discovery of population structure, combined with knowledge of associated phenotypes and environmental adaptations, enables a rational approach to identification of landraces that might be used as sources of germplasm for breeding programs. The population structure also enables hypotheses concerning the prehistoric spread and development of agriculture to be addressed

Researching the use of force: The background to the international project

This article provides the background to an international project on use of force by the police that was carried out in eight countries. Force is often considered to be the defining characteristic of policing and much research has been conducted on the determinants, prevalence and control of the use of force, particularly in the United States. However, little work has looked at police officers’ own views on the use of force, in particular the way in which they justify it. Using a hypothetical encounter developed for this project, researchers in each country conducted focus groups with police officers in which they were encouraged to talk about the use of force. The results show interesting similarities and differences across countries and demonstrate the value of using this kind of research focus and methodology

Candidate genes underlying QTL for flowering time and their interactions in a wide spring barley (Hordeum vulgare L.) cross

Response to vernalization and photoperiod are the main determinants controlling the time to flowering in temperate cereals. While the individual genes that determine a plant's response to these environmental signals are well characterized, the combinatorial effect on flowering time of allelic variants for multiple genes remains unresolved. This study investigated the genetic control of flowering-time in a biparental population of spring barley, derived from a wide cross between a late-flowering European and an early-flowering North-American cultivar. While the major flowering time genes are not segregating in the Beka × Logan cross, large variation in flowering was observed. We identified five QTL, with both parents found to contribute early alleles. The catalog of QTL discovered aligns with several candidate genes affecting flowering time in barley. The combination of particular alleles at HvCEN, HvELF3 and HvFT1 in Logan are responsible for the earliness of this cultivar. Interestingly, earliness for flowering could be further enhanced, with Beka found to contribute three early alleles, including a QTL co-locating with a HvFD-like gene, suggesting that there are diverse aspects of the flowering-time pathway that have been manipulated in these two cultivars. Epistatic interactions between flowering-time QTL or candidate genes were observed in field data and confirmed under controlled conditions. The results of this study link photoperiod-dependent flowering-time genes with earliness per se genes into a single model, thus providing a unique framework that can be used by geneticists and breeders to optimize flowering time in barley.This work was supported by the Spanish Ministry of Economy and Competitiveness (grant numbers AGL2010-21929 and AGL2013-48756-R), the Spanish Ministry of Economy and Competitiveness, the Agencia Estatal de Investigación, and the European Regional Development Fund (grant number AGL2016–80967-R), and Government of Aragon (Research Group A08_20R)

Acceleration of the DNA methylation clock among lynch syndrome-associated mutation carriers.

Background: DNA methylation (DNAm) age metrics have been widely accepted as an epigenetic biomarker for biological aging and disease. The purpose of this study is to assess whether or not individuals carrying Lynch Syndrome-associated mutations are affected in their rate of biological aging, as measured by the epigenetic clock. Methods: Genome-wide bisulfite DNA sequencing data were generated using DNA from CD4 + T-cells obtained from peripheral blood using 27 patient samples from Lynch syndrome families. Horvath’s DNAm age model based on penalized linear regression was applied to estimate DNAm age from patient samples with distinct clinical and genetic characteristics to investigate cancer mutation-related aging effects. Results: Both Lynch mutation carriers and controls exhibited high variability in their estimated DNAm age, but regression analysis showed steeper slope for the Lynch mutation carriers. Remarkably, six Lynch Syndrome-associated mutation carriers showed a strong correlation to the control group, and two sisters carrying Lynch Syndrome-associated mutations, with no significant difference in lifestyle and similar chronological age, were assigned very different DNAm age. Conclusions: Future studies will be required to explore, in larger patient populations, whether specific epigenetic age acceleration is predictive of time-to-cancer development, treatment response, and survival. Epigenetic clock DNAm metrics may be affected by the presence of cancer mutations in the germline, and thus show promise of potential clinical utility for stratified surveillance strategies based on the relative risk for imminent emergence of tumor lesions in otherwise healthy Lynch Syndrome-associated mutation carriers.The research leading to these results has received funding from “la Caixa” Foundation (Ref: CAIXA2017/1) for library preparation, sequencing, and employment of research personnel, from The Fundación Progreso y Salud, Junta de Andalucía, Spain and from DPI2017-84439-R of MINECO, Madrid and FEDER for sequencing and employment of research personnel. Finally, grant ref. A-BIO-470-UGR20 from University of Granada and FEDER has funded article processing charges (APC) and sample processing expenses

Early lung cancer detection using spiral computed tomography and positron emission tomography

RATIONALE: Lung cancer screening using computed tomography (CT) is effective in detecting lung cancer in early stages. Concerns regarding false-positive rates and unnecessary invasive procedures have been raised. OBJECTIVE: To study the efficiency of a lung cancer protocol using spiral CT and F-18-fluorodeoxyglucose positron emission tomography (FDG-PET). METHODS: High-risk individuals underwent screening with annual spiral CTs. Follow-up CTs were done for noncalcified nodules of 5 mm or greater, and FDG-PET was done for nodules 10 mm or larger or smaller (> 7 mm), growing nodules. RESULTS: A total of 911 individuals completed a baseline CT study and 424 had at least one annual follow-up study. Of the former, 14% had noncalcified nodules of 5 mm or larger, and 3.6% had nodules of 10 mm or larger. Eleven non-small cell lung cancers (NSCLC) and one small cell lung cancer (SCLC) were diagnosed in the baseline study (prevalence rate, 1.32%), and two NSCLCs in the annual study (incidence rate, 0.47%). All NSCLCs (92% of prevalence cancers) were diagnosed in stage I (12 stage IA, 1 stage IB). FDG-PET was helpful for the correct diagnosis in 19 of 25 indeterminate nodules. The sensitivity, specificity, positive predictive value, and negative predictive value of FDG-PET for the diagnosis of malignancy were 69, 91, 90, and 71%, respectively. However, the sensitivity and negative predictive value of the screening algorithm, which included a 3-month follow-up CT for nodules with a negative FDG-PET, was 100%. CONCLUSION: A protocol for early lung cancer detection using spiral CT and FDG-PET is useful and may minimize unnecessary invasive procedures for benign lesions

Dinosaur bonebed amber from an original swamp forest soil

Dinosaur bonebeds with amber content, yet scarce, offer a superior wealth and quality of data on ancient terrestrial ecosystems. However, the preserved palaeodiversity and/or taphonomic characteristics of these exceptional localities had hitherto limited their palaeobiological potential. Here, we describe the amber from the Lower Cretaceous dinosaur bonebed of Ariño (Teruel, Spain) using a multidisciplinary approach. Amber is found in both a root layer with amber strictly in situ and a litter layer mainly composed of aerial pieces unusually rich in bioinclusions, encompassing 11 insect orders, arachnids, and a few plant and vertebrate remains, including a feather. Additional palaeontological data—charophytes, palynomorphs, ostracods— are provided. Ariño arguably represents the most prolific and palaeobiologically diverse locality in which fossiliferous amber and a dinosaur bonebed have been found in association, and the only one known where the vast majority of the palaeontological assemblage suffered no or low-grade pre-burial transport. This has unlocked unprecedentedly complete and reliable palaeoecological data out of two complementary windows of preservation—the bonebed and the amber—from the same site.European Regional Development Fund (FEDER)Ministerio de Ciencia e Innovación (MICINN)/FEDERMinisterio de Economía y Competitividad (MINECO)/FEDERGeneralitat de CatalunyaGeneralitat de Catalunya/FEDERMMinisterio de Ciencia e Innovación (MICINN)Oxford UniversityAustrian Academy of SciencesUniversité de TunisGeneralitat ValencianaDepto. de Geodinámica, Estratigrafía y PaleontologíaFac. de Ciencias GeológicasTRUEpu