Laurelin: Java-native ROOT I/O for Apache Spark

Apache Spark[1] is one of the predominant frameworks in the big data space, providing a fully-functional query processing engine, vendor support for hardware accelerators, and performant integrations with scientific computing libraries. One difficulty in adopting conventional big data frameworks to HEP workflows is the lack of support for the ROOT file format in these frameworks. Laurelin[6] implements ROOT I/O with a pure Java library, with no bindings to the C++ ROOT[2] implementation, and is readily installable via standard Java packaging tools. It provides a performant interface enabling Spark to read (and soon write) ROOT TTrees, enabling users to process these data without a pre-processing phase converting to an intermediate format.

Comprehensive Ex Vivo Comparison of 5 Clinically Used Conduit Configurations for Valve-Sparing Aortic Root Replacement Using a 3-Dimensional–Printed Heart Simulator

Background: Many graft configurations are clinically used for valve-sparing aortic root replacement, some specifically focused on recapitulating neosinus geometry. However, the specific impact of such neosinuses on valvular and root biomechanics and the potential influence on long-term durability are unknown. Methods: Using a custom 3-dimenstional–printed heart simulator with porcine aortic roots (n=5), the anticommissural plication, Stanford modification, straight graft (SG), Uni-Graft, and Valsalva graft configurations were tested in series using an incomplete counterbalanced measures design, with the native root as a control, to mitigate ordering effects. Hemodynamic and videometric data were analyzed using linear models with conduit as the fixed effect of interest and valve as a fixed nuisance effect with post hoc pairwise testing using Tukey’s correction. Results: Hemodynamics were clinically similar between grafts and control aortic roots. Regurgitant fraction varied between grafts, with SG and Uni-Graft groups having the lowest regurgitant fractions and anticommissural plication having the highest. Root distensibility was significantly lower in SG versus both control roots and all other grafts aside from the Stanford modification ( P ≤0.01 for each). All grafts except SG had significantly higher cusp opening velocities versus native roots ( P <0.01 for each). Relative cusp opening forces were similar between SG, Uni-Graft, and control groups, whereas anticommissural plication, Stanford modification, and Valsalva grafts had significantly higher opening forces versus controls ( P <0.01). Cusp closing velocities were similar between native roots and the SG group, and were significantly lower than observed in the other conduits ( P ≤0.01 for each). Only SG and Uni-Graft groups experienced relative cusp closing forces approaching that of the native root, whereas relative forces were >5-fold higher in the anticommissural plication, Stanford modification, and Valsalva graft groups. Conclusions: In this ex vivo modeling system, clinically used valve-sparing aortic root replacement conduit configurations have comparable hemodynamics but differ in biomechanical performance, with the straight graft most closely recapitulating native aortic root biomechanics.

Fully Data-Driven Pseudohealthy Synthesis for Planning Valve-Sparing Aortic Root Reconstruction using Conditional Variational Autoencoders

Aortic root aneurysm is treated by replacing the dilated root by a grafted prosthesis which mimics the native root morphology of the individual patient. The challenge in predicting the optimal prosthesis size rises from the highly patient-specific geometry as well as the absence of the original information on the healthy root. Therefore, the estimation is only possible based on the available pathological data. In this paper, we show that representation learning with Conditional Variational Autoencoders is capable of turning the distorted geometry of the aortic root into smoother shapes while the information on the individual anatomy is preserved. We evaluated this method using ultrasound images of the porcine aortic root alongside their labels. The observed results show highly realistic resemblance in shape and size to the ground truth images. Furthermore, the similarity index has noticeably improved compared to the pathological images. This provides a promising technique in planning individual aortic root replacement.

Mythology of object world in Maxim Garetsky’s works

A hypothetical proposition is stated that mythologization of objects in M. Garetsky’s works is a way to harmonize the surrounding world and man in it, and also a precise picture of the reality, a sign of changes and calamities.In accordance with M. Garetsky’s mythopoetical concept, the tragic spirit of human life is vivid in simultaneous personi­ fication of objects and objectivation of people; it is revealed in such moments as hiding face (“Winter”), or partial identification of man with clothes (“Guiet current”). Complete and irrevocable objectivation of man is presented by the author in the story “Winter” and the novel “Guiet current”.In the story “Winter” the central place, or a scene where objects attack man is a mythological image of a house, which fulfills various content and conceptual functions in the author’s mythmaking. On the one hand, the house is a protective hearth, which gives man complete protection, like in the stories “In a Sauna”, “Native Root”. On the other hand, it is a place of uncomfortable and constrained human life.It is stressed that in M. Garetsky’s descriptions we see a transition from life precision to dethronement of social myth. There is a similar fine line between life plane and myth in the story “In a Sauna”, but this work, unlike the story “Tar”, depicts not destruction of myth, but its growth and reinforcement, which is symbolically revealed in sentences and in magical charms (the story “Winter”).

The Agronomy of Mauka (Mirabilis expansa (Ruíz & Pav.) Standl.) - A Review

The Andean region is the centre of origin and domestication of at least 9 species of native root and tuber crops in addition to several species of native potatoes. Within this group, Mauka – also known as Miso or Taso ‒ (Mirabilis expansa Ruíz & Pav.) Standl. ‒ Nyctaginaceae) is one of the least well known, despite having much potential. It is cultivated at high altitudes (2300 to 3500 m a.s.l.) in Ecuador, Peru and Bolivia and is thought to be of pre-Inca origin. Mauka is characterized by its high nutritional value due to substantial levels of protein, calcium and phosphorus, as well as secondary metabolites with nutraceutical properties of varied application. It also has good potential as a forage plant. Based on ethnobotanical knowledge and scientific investigations, this review presents advances in the agronomic understanding of Mauka since its discovery five decades ago in several isolated rural Bolivian communities. The information presented covers both Andean and non-Andean countries. It includes results from journals on natural resources, botany, agronomy, and the congress minutes from botanical, agronomic and phytogenetic resources conferences. Theses on Mauka specifically and on phytogenetic resources in general were also reviewed. Books and manuals were reviewed in the libraries of the International Potato Center, INIAP-Ecuador, INIA-Peru and universities. The plant is described with emphasis on its agronomic traits and according to its propagation forms (seed or vegetative); in terms of its agroecology, phenology, growth dynamics and their indices, crop management, harvest and post-harvest processes. It is concluded that important advances in the understanding of the agronomy of Mauka have been accomplished. Furthermore, the review highlights aspects requiring further research, in order to develop improved production technologies to ensure its future use and conservation.

Pantoea ananatis Converts MBOA to 6-Methoxy-4-nitro-benzoxazolin-2(3H)-one (NMBOA) for Cooperative Degradation with its Native Root Colonizing Microbial Consortium

6-Methoxy-benzoxazolin-2(3 H)-one (MBOA) is a degradation product derived from 2,4-Dihydroxy-7-methoxy-2 H-1,4-benzoxazin-3(4 H)-one (DIMBOA), one of the bioactive compounds found e.g., in maize. Here we present hitherto unknown 6-methoxy-4-nitro-benzoxazolin-2(3 H)-one (NMBOA) produced in Czapek medium by Pantoea ananatis (Enterobacteriaceae). P. ananatis is a member of a microbial consortium dominated by the zygomycete Actinomucor elegans, which was isolated from roots of Abutilon theophrasti. NMBOA was identified by NMR spectra and HR-ESI-MS analyses, revealing an unusual position of the nitro group at C-4. Nitration of MBOA initiates the degradation of the compound that is almost completed within three days by the entire consortium and isolated P. ananatis. The yeast Papiliotrema baii, another member of the consortium, is unable to degrade NMBOA but stored it at the surface of its polysacchararide capsule. NMBOA has negative effects on microbial growth in liquid medium whereas seedlings of Brassica oleracea var. gongylodes L. (kohlrabi) or Lepidium sativum (cress) are not impaired up to 500 μM. Degradation via nitration may be important to understand the behavior of microbial species and effects of microbiomes when exposed to MBOA.