Yield and chemical composition of plant parts of silage maize (Zea mays L) hybrids and their interest for biogas production

Silage maize (Zea mays L) hybrids bred in Martonvásár were tested for morphological traits, yield and chemical composition of the whole plant and the plant parts in three years (2010-2012). Biogas production of the hybrids was investigated in 2009 and 2010. The dry matter, protein, starch, water soluble carbohydrates, neutral detergent fibre, acid detergent fibre, lignin and in vitro digestible organic matter contents were measured by NIR spectroscopy. The ratio of ear attachment height to plant height was smaller, the leaf number above the ear and the proportion of the leaves in the total plant dry matter was greater for leafy hybrids. It was concluded that the differences in the chemical composition of the parts of the same genotype were greater than between the same parts of different genotypes. The leaves had the greatest protein content. The starch and WSC content in the ear was significantly higher than in the other plant parts. The ear had the lowest lignin content and the highest IVDOM content compared to other plant parts. NDF and ADF contents were greatest in the stalk below the ear. Significant differences were found for WSC content of the plant parts of leafy and non-leafy hybrids. Digestible dry matter yield (DDMY) was calculated from individual dry matter production, plant number per hectare and digestible organic matter content. The highest DDMY value was recorded for Siloking (19.18 t ha-1). Biogas yield was highest for Mv Massil (659 l kg-1 DM) with 61.38% methane concentration. Leafy hybrids produced significantly more biogas than conventional hybrids. Biogas yield proved to have significant positive correlations with starch and WSC content, and negative correlations with protein and lignin content

Peripheral gene interactions define interpretable clusters of core ASD genes in a network-based investigation of the omnigenic theory

According to the recently proposed omnigenic theory, all expressed genes in a relevant tissue are contributing directly or indirectly to the manifestation of complex disorders such as autism. Thus, holistic approaches can be complementary in studying genetics of these complex disorders to focusing on a limited number of candidate genes. Gene interaction networks can be used for holistic studies of the omnigenic nature of autism. We used Louvain clustering on tissue-specific gene interaction networks and their subgraphs exclusively containing autism-related genes to study the effects of peripheral gene interactions. We observed that the autism gene clusters are significantly weaker connected to each other and the peripheral genes in non-neuronal tissues than in brain-related tissues. The biological functions of the brain clusters correlated well with previous findings on autism, such as synaptic signaling, regulation of DNA methylation, or regulation of lymphocyte activation, however, on the other tissues they did not enrich as significantly. Furthermore, ASD subjects with disruptive mutations in specific gene clusters show phenotypical differences compared to other disruptive variants carrying ASD individuals. Our results strengthen the omnigenic theory and can advance our understanding of the genetic background of autism

Utilizing Leafy genes as resources in quality silage maize breeding

The primary goal of silage maize production is to obtain the greatest possible amount of digestible nutrients. Although it is not of the highest value in terms of starch, leaves provide ruminants with sufficient amount of green mass and facilitate nutrient uptake. The nutrient and fibre content of leaves at harvest affect the quality of silage. In cooperation with Glenn Seed Ltd, the Agricultural Research Institute of HAS had an opportunity to use an inbred line carrying the dominant allele Leafy1 (Lfy1). The number and surface area of leaves were measured in various hybrid combinations, and the hybrids and parents were compared morphologically. The combinations causing the highest heterosis were identified. Compared to lines without Lfy1 gene and hybrids in the same maturity group, these lines had an additional 3-4 leaves above the ear on average, resulting in an extra 30-40% leaf area. The hybrid Siloking (Lfy) produced 50% more leaves above the ear than the standard, leading to an extra 40% leaf area. The results demonstrate that the increased total leaf area of Lfy silage hybrids and the number of leaves above the ear, ensure that new leaves with high sugar content capable of photosynthesizing can develop until the end of grain filling. The increased leaf-mass produced by Lfy hybrids may be utilized, bearing in mind the relevant guidelines by the European Union, also as biogas raw material in sustainable energy management

Galactic foreground of gamma-ray bursts from AKARI Far-Infrared Surveyor

We demonstrate the use of the AKARI FIS All-Sky Survey maps in the study of extragalactic objects. A quick but reliable estimate of the Galactic foreground is essential for extragalactic research in general. We explored the galactic foreground and calculated hydrogen column densities using AKARI FIS and other recent all-sky survey data, and compared our results to former estimates. Our AKARI-FIS-based foreground values were then used toward gamma-ray burst (GRB) sources as input for X-ray afterglow spectrum fitting. From those fits the intrinsic column densities at the GRB sources were derived. The high-angular-resolution AKARI-FIS-based Galactic foreground hydrogen column densities are statistically very similar, but for most of the tested directions somewhat lower than previous estimates based on low-resolution data. This is due to the low filling factor of high-density enhancements in all galactic latitudes. Accordingly, our AKARI-FIS-based new intrinsic hydrogen column densities are usually higher or similar compared to the values calculated based, e.g., on the low-resolution Leiden/Argentine/Bonn survey data and listed in the Leicester database. The variation, however, is typically smaller than the error of the estimate from the fits of the X-ray afterglow spectra. There are a number of directions where the improvement of the foreground estimates resulted in an overestimate of magnitude or higher increment of the derived intrinsic hydrogen column densities. We concluded that most of the GRBs with formerly extremely low intrinsic hydrogen column densities are in fact normal, but we confirmed that GRB050233 is indeed a non- enveloped long GRB

Automated intraoperative calibration for prostate cancer brachytherapy

Purpose: Prostate cancer brachytherapy relies on an accurate spatial registration between the implant needles and the TRUS image, called "calibration". The authors propose a new device and a fast, automatic method to calibrate the brachytherapy system in the operating room, with instant error feedback. Methods: A device was CAD-designed and precision-engineered, which mechanically couples a calibration phantom with an exact replica of the standard brachytherapy template. From real-time TRUS images acquired from the calibration device and processed by the calibration system, the coordinate transformation between the brachytherapy template and the TRUS images was computed automatically. The system instantly generated a report of the target reconstruction accuracy based on the current calibration outcome. Results: Four types of validation tests were conducted. First, 50 independent, real-time calibration trials yielded an average of 0.57 6 0.13 mm line reconstruction error (LRE) relative to ground truth. Second, the averaged LRE was 0.37 6 0.25 mm relative to ground truth in tests with six different commercial TRUS scanners operating at similar imaging settings. Furthermore, testing with five different commercial stepper systems yielded an average of 0.29 6 0.16 mm LRE relative to ground truth. Finally, the system achieved an average of 0.56 6 0.27 mm target registration error (TRE) relative to ground truth in needle insertion tests through the template in a water tank. Conclusions: The proposed automatic, intraoperative calibration system for prostate cancer brachytherapy has achieved high accuracy, precision, and robustness

Májáttétes betegek sztereotaxiás ablatív sugárkezelésével (SABRT) elért első eredményeink

Recently the prevalence of oligometastatic patients is increasing. A common site of distant spread is the liver. The standard of care is curative surgical resection, however, the resecability rate is only 10-20%. Alternatively, radiofrequency ablation (RFA) or transarterial chemoembolization (TACE) may be used. Stereotactic ablative body radiotherapy (SABRT) makes it possible to deliver curative radiation dose without radiation injury to the healthy liver tissue. We delivered SABRT to three patients with inoperable hepatic metastases. The primary tumors were rectal (2) and lung (1). The dose was 3x20 Gy every other day. We observed one grade 1 side effect. All the metastases showed complete remission and no local recurrence or late side effect occurred during the one year of follow-up. One patient is tumor-free, one has stable disease, in one patient two new hepatic metastases appeared and receives chemo-biological therapy. SABRT of liver metastases is safe and highly effective. It can be expected that in the near future it will become one of the standard treatments of hepatic tumors

DCMQI: An open source library for standardized communication of quantitative image analysis results using DICOM

Quantitative analysis of clinical image data is an active area of research that holds promise for precision medicine, early assessment of treatment response, and objective characterization of the disease. Interoperability, data sharing, and the ability to mine the resulting data are of increasing importance, given the explosive growth in the number of quantitative analysis methods being proposed. The Digital Imaging and Communications in Medicine (DICOM) standard is widely adopted for image and metadata in radiology. dcmqi (DICOM for Quantitative Imaging) is a free, open source library that implements conversion of the data stored in commonly used research formats into the standard DICOM representation. dcmqi source code is distributed under BSD-style license. It is freely available as a precompiled binary package for every major operating system, as a Docker image, and as an extension to 3D Slicer. Installation and usage instructions are provided in the GitHub repository at https://github.com/qiicr/dcmqi

Chronic Activation of γ2 AMPK Induces Obesity and Reduces β Cell Function.

Despite significant advances in our understanding of the biology determining systemic energy homeostasis, the treatment of obesity remains a medical challenge. Activation of AMP-activated protein kinase (AMPK) has been proposed as an attractive strategy for the treatment of obesity and its complications. AMPK is a conserved, ubiquitously expressed, heterotrimeric serine/threonine kinase whose short-term activation has multiple beneficial metabolic effects. Whether these translate into long-term benefits for obesity and its complications is unknown. Here, we observe that mice with chronic AMPK activation, resulting from mutation of the AMPK γ2 subunit, exhibit ghrelin signaling-dependent hyperphagia, obesity, and impaired pancreatic islet insulin secretion. Humans bearing the homologous mutation manifest a congruent phenotype. Our studies highlight that long-term AMPK activation throughout all tissues can have adverse metabolic consequences, with implications for pharmacological strategies seeking to chronically activate AMPK systemically to treat metabolic disease

Reconstruction of surfaces from planar contours through contour interpolation

ABSTRACT PURPOSE: Segmented structures such as targets or organs at risk are typically stored as 2D contours contained on evenly spaced cross sectional images (slices). Contour interpolation algorithms are implemented in radiation oncology treatment planning software to turn 2D contours into a 3D surface, however the results differ between algorithms, causing discrepancies in analysis. Our goal was to create an accurate and consistent contour interpolation algorithm that can handle issues such as keyhole contours, rapid changes, and branching. This was primarily motivated by radiation therapy research using the open source SlicerRT extension for the 3D Slicer platform. METHODS: The implemented algorithm triangulates the mesh by minimizing the length of edges spanning the contours with dynamic programming. The first step in the algorithm is removing keyholes from contours. Correspondence is then found between contour layers and branching patterns are determined. The final step is triangulating the contours and sealing the external contours. RESULTS: The algorithm was tested on contours segmented on computed tomography (CT) images. Some cases such as inner contours, rapid changes in contour size, and branching were handled well by the algorithm when encountered individually. There were some special cases in which the simultaneous occurrence of several of these problems in the same location could cause the algorithm to produce suboptimal mesh. CONCLUSION: An open source contour interpolation algorithm was implemented in SlicerRT for reconstructing surfaces from planar contours. The implemented algorithm was able to generate qualitatively good 3D mesh from the set of 2D contours for most tested structures