Ammonia emissions from cattle urine and dung excreted on pasture

Twelve cattle were kept for three days in a circular area of 16 m radius on short pasture and fed with freshly-cut pasture. Ammonia (NH<sub>3</sub>) emissions from the urine and dung excreted by the cattle were measured with a micrometeorological mass-balance method, during the cattle presence and for 10 subsequent days. Daily-integrated emission rates peaked on Day 3 of the experiment (last day of cattle presence) and declined steadily for five days thereafter. Urine patches were the dominant sources for these emissions. On Day 9, a secondary emissions peak occurred, with dung pats likely to be the main sources. This interpretation is based on simultaneous observations of the pH evolution in urine patches and dung pats created next to the circular plot. Feed and dung samples were analysed to estimate the amounts of nitrogen (N) ingested and excreted. Total N volatilised as NH<sub>3</sub> was 19.8 (± 0.9)% of N intake and 22.4 (± 1.3)% of N excreted. The bimodal shape of the emissions time series allowed to infer separate estimates for volatilisation from urine and dung, respectively, with the result that urine accounted for 88.6 (± 2.6)% of the total NH<sub>3</sub> emissions. The emissions from urine represented 25.5 (± 2.0)% of the excreted urine-N, while the emissions from dung amounted to 11.6 (± 2.7)% of the deposited dung-N. Emissions from dung may have continued after Day 13 but were not resolved by the measurement technique. A simple resistance model shows that the magnitude of the emissions from dung is controlled by the resistance of the dung crust

Occult hepatitis C virus infection in candidates for liver transplant with cryptogenic cirrhosis

Background: Occult hepatitis C virus (HCV) infection is a new entity described by the presence of HCV-RNA in liver biopsy and/or peripheral blood mononuclear cell (PBMC) specimens, and undetectable levels or absence of HCV-RNA and in the absence or presence of anti HCV antibodies in plasma by current laboratory methods. Objectives: To evaluate the detection of HCV-RNA in PBMC specimens of the liver transplant candidates with cryptogenic cirrhosis by reverse transcriptase-nested polymerase chain reaction (RT-nested PCR). Patients and Methods: From November 2007 to March 2013, 45 patients from Liver Transplant Center of Imam Khomeini Hospital, Tehran, were enrolled in this cross sectional study. PBMC specimens were separated from the peripheral blood sample. After extraction of RNA from plasma and PBMC specimens, HCV-RNA status was tested by RT-nested PCR. The 5�-untranslated region (5�-UTR) genotyping of HCV-RNA amplified from PBMC specimens was performed by a standard methodology with the INNO-LiPATM HCV II kit. The PCR products of 5�-UTR were sequenced after cloning into the pJET1.2 / blunt cloning vector. Results: Of 45 patients, 4 (8.9 95% CI: 4.4-15.6) had detectable genomic HCV-RNA in their PBMC specimens. HCV genotypes were determined in the PBMCs of these subjects showed that 2 (50.0%) subjects with occult HCV infection had HCV subtype 3a, and 2 (50.0%) had HCV subtype 1b. Conclusions: This study found that 8.9 % of the Iranian candidates for liver transplant with cryptogenic cirrhosis had occult HCV infection. Therefore, designing prospective studies focusing on the diagnosis of occult HCV infection in these subjects prior to liver transplantation could be valuable. © 2013, Kowsar Corp.; Licensee Kowsar Ltd

ThermoSim: Deep Learning based Framework for Modeling and Simulation of Thermal-aware Resource Management for Cloud Computing Environments

Current cloud computing frameworks host millions of physical servers that utilize cloud computing resources in the form of different virtual machines. Cloud Data Center (CDC) infrastructures require significant amounts of energy to deliver large scale computational services. Moreover, computing nodes generate large volumes of heat, requiring cooling units in turn to eliminate the effect of this heat. Thus, overall energy consumption of the CDC increases tremendously for servers as well as for cooling units. However, current workload allocation policies do not take into account effect on temperature and it is challenging to simulate the thermal behavior of CDCs. There is a need for a thermal-aware framework to simulate and model the behavior of nodes and measure the important performance parameters which can be affected by its temperature. In this paper, we propose a lightweight framework, ThermoSim, for modeling and simulation of thermal-aware resource management for cloud computing environments. This work presents a Recurrent Neural Network based deep learning temperature predictor for CDCs which is utilized by ThermoSim for lightweight resource management in constrained cloud environments. ThermoSim extends the CloudSim toolkit helping to analyze the performance of various key parameters such as energy consumption, service level agreement violation rate, number of virtual machine migrations and temperature during the management of cloud resources for execution of workloads. Further, different energy-aware and thermal-aware resource management techniques are tested using the proposed ThermoSim framework in order to validate it against the existing framework (Thas). The experimental results demonstrate the proposed framework is capable of modeling and simulating the thermal behavior of a CDC and ThermoSim framework is better than Thas in terms of energy consumption, cost, time, memory usage and prediction accuracy

Biallelic MFSD2A variants associated with congenital microcephaly, developmental delay, and recognizable neuroimaging features

Major Facilitator Superfamily Domain containing 2a (MFSD2A) is an essential endothelial lipid transporter at the blood-brain barrier. Biallelic variants affecting function in MFSD2A cause autosomal recessive primary microcephaly 15 (MCPH15, OMIM# 616486). We sought to expand our knowledge of the phenotypic spectrum of MCPH15 and demonstrate the underlying mechanism of inactivation of the MFSD2A transporter. We carried out detailed analysis of the clinical and neuroradiological features of a series of 27 MCPH15 cases, including eight new individuals from seven unrelated families. Genetic investigation was performed through exome sequencing (ES). Structural insights on the human Mfsd2a model and in-vitro biochemical assays were used to investigate the functional impact of the identified variants. All patients had primary microcephaly and severe developmental delay. Brain MRI showed variable degrees of white matter reduction, ventricular enlargement, callosal hypodysgenesis, and pontine and vermian hypoplasia. ES led to the identification of six novel biallelic MFSD2A variants (NG_053084.1, NM_032793.5: c.556+1G>A, c.748G>T; p.(Val250Phe), c.750_753del; p.(Cys251SerfsTer3), c.977G>A; p.(Arg326His), c.1386_1435del; p.(Gln462HisfsTer17), and c.1478C>T; p.(Pro493Leu)) and two recurrent variants (NM_032793.5: c.593C>T; p.(Thr198Met) and c.476C>T; p.(Thr159Met)). All these variants and the previously reported NM_032793.5: c.490C>A; p.(Pro164Thr) resulted in either reduced MFSD2A expression and/or transport activity. Our study further delineates the phenotypic spectrum of MCPH15, refining its clinical and neuroradiological characterization and supporting that MFSD2A deficiency causes early prenatal brain developmental disruption. We also show that poor MFSD2A expression despite normal transporter activity is a relevant pathomechanism in MCPH15

Challenges of accounting nitrous oxide emissions from agricultural crop residues

Crop residues are important inputs of carbon (C) and nitrogen (N) to soils and thus directly and indirectly affect nitrous oxide (N2O) emissions. As the current inventory methodology considers N inputs by crop residues as the sole determining factor for N2O emissions, it fails to consider other underlying factors and processes. There is compelling evidence that emissions vary greatly between residues with different biochemical and physical characteristics, with the concentrations of mineralizable N and decomposable C in the residue biomass both enhancing the soil N2O production potential. High concentrations of these components are associated with immature residues (e.g., cover crops, grass, legumes, and vegetables) as opposed to mature residues (e.g., straw). A more accurate estimation of the short-term (months) effects of the crop residues on N2O could involve distinguishing mature and immature crop residues with distinctly different emission factors. The medium-term (years) and long-term (decades) effects relate to the effects of residue management on soil N fertility and soil physical and chemical properties, considering that these are affected by local climatic and soil conditions as well as land use and management. More targeted mitigation efforts for N2O emissions, after addition of crop residues to the soil, are urgently needed and require an improved methodology for emission accounting. This work needs to be underpinned by research to (1) develop and validate N2O emission factors for mature and immature crop residues, (2) assess emissions from belowground residues of terminated crops, (3) improve activity data on management of different residue types, in particular immature residues, and (4) evaluate long-term effects of residue addition on N2O emissions

Challenges of accounting nitrous oxide emissions from agricultural crop residues

Crop residues are important inputs of carbon (C) and nitrogen (N) to soils and thus directly and indirectly affect nitrous oxide (N2O) emissions. As the current inventory methodology considers N inputs by crop residues as the sole determining factor for N2O emissions, it fails to consider other underlying factors and processes. There is compelling evidence that emissions vary greatly between residues with different biochemical and physical characteristics, with the concentrations of mineralizable N and decomposable C in the residue biomass both enhancing the soil N2O production potential. High concentrations of these components are associated with immature residues (e.g., cover crops, grass, legumes, and vegetables) as opposed to mature residues (e.g., straw). A more accurate estimation of the short-term (months) effects of the crop residues on N2O could involve distinguishing mature and immature crop residues with distinctly different emission factors. The medium-term (years) and long-term (decades) effects relate to the effects of residue management on soil N fertility and soil physical and chemical properties, considering that these are affected by local climatic and soil conditions as well as land use and management. More targeted mitigation efforts for N2O emissions, after addition of crop residues to the soil, are urgently needed and require an improved methodology for emission accounting. This work needs to be underpinned by research to (1) develop and validate N2O emission factors for mature and immature crop residues, (2) assess emissions from belowground residues of terminated crops, (3) improve activity data on management of different residue types, in particular immature residues, and (4) evaluate long-term effects of residue addition on N2O emissions

Cell-based analysis of CAD variants identifies individuals likely to benefit from uridine therapy.

PURPOSE: Pathogenic autosomal recessive variants in CAD, encoding the multienzymatic protein initiating pyrimidine de novo biosynthesis, cause a severe inborn metabolic disorder treatable with a dietary supplement of uridine. This condition is difficult to diagnose given the large size of CAD with over 1000 missense variants and the nonspecific clinical presentation. We aimed to develop a reliable and discerning assay to assess the pathogenicity of CAD variants and to select affected individuals that might benefit from uridine therapy. METHODS: Using CRISPR/Cas9, we generated a human CAD-knockout cell line that requires uridine supplements for survival. Transient transfection of the knockout cells with recombinant CAD restores growth in absence of uridine. This system determines missense variants that inactivate CAD and do not rescue the growth phenotype. RESULTS: We identified 25 individuals with biallelic variants in CAD and a phenotype consistent with a CAD deficit. We used the CAD-knockout complementation assay to test a total of 34 variants, identifying 16 as deleterious for CAD activity. Combination of these pathogenic variants confirmed 11 subjects with a CAD deficit, for whom we describe the clinical phenotype. CONCLUSIONS: We designed a cell-based assay to test the pathogenicity of CAD variants, identifying 11 CAD-deficient individuals who could benefit from uridine therapy

Challenges of accounting nitrous oxide emissions from agricultural crop residues

Crop residues are important inputs of carbon (C) and nitrogen (N) to soils and thus directly and indirectly affect nitrous oxide (N$_2$O) emissions. As the current inventory methodology considers N inputs by crop residues as the sole determining factor for N$_2$O emissions, it fails to consider other underlying factors and processes. There is compelling evidence that emissions vary greatly between residues with different biochemical and physical characteristics, with the concentrations of mineralizable N and decomposable C in the residue biomass both enhancing the soil N$_2$O production potential. High concentrations of these components are associated with immature residues (e.g., cover crops, grass, legumes, and vegetables) as opposed to mature residues (e.g., straw). A more accurate estimation of the short-term (months) effects of the crop residues on N$_2$O could involve distinguishing mature and immature crop residues with distinctly different emission factors. The medium-term (years) and long-term (decades) effects relate to the effects of residue management on soil N fertility and soil physical and chemical properties, considering that these are affected by local climatic and soil conditions as well as land use and management. More targeted mitigation efforts for N$_2$O emissions, after addition of crop residues to the soil, are urgently needed and require an improved methodology for emission accounting. This work needs to be underpinned by research to (1) develop and validate N$_2$O emission factors for mature and immature crop residues, (2) assess emissions from belowground residues of terminated crops, (3) improve activity data on management of different residue types, in particular immature residues, and (4) evaluate long-term effects of residue addition on N$_2$O emissions

Genetic and phenotypic characterization of NKX6‐2‐related spastic ataxia and hypomyelination

Background and purpose Hypomyelinating leukodystrophies are a heterogeneous group of genetic disorders with a wide spectrum of phenotypes and a high rate of genetically unsolved cases. Bi‐allelic mutations in NKX6‐2 were recently linked to spastic ataxia 8 with hypomyelinating leukodystrophy. Methods Using a combination of homozygosity mapping, exome sequencing, and detailed clinical and neuroimaging assessment a series of new NKX6‐2 mutations in a multicentre setting is described. Then, all reported NKX6‐2 mutations and those identified in this study were combined and an in‐depth analysis of NKX6‐2‐related disease spectrum was provided. Results Eleven new cases from eight families of different ethnic backgrounds carrying compound heterozygous and homozygous pathogenic variants in NKX6‐2 were identified, evidencing a high NKX6‐2 mutation burden in the hypomyelinating leukodystrophy disease spectrum. Our data reveal a phenotype spectrum with neonatal onset, global psychomotor delay and worse prognosis at the severe end and a childhood onset with mainly motor phenotype at the milder end. The phenotypic and neuroimaging expression in NKX6‐2 is described and it is shown that phenotypes with epilepsy in the absence of overt hypomyelination and diffuse hypomyelination without seizures can occur. Conclusions NKX6‐2 mutations should be considered in patients with autosomal recessive, very early onset of nystagmus, cerebellar ataxia with hypotonia that rapidly progresses to spasticity, particularly when associated with neuroimaging signs of hypomyelination. Therefore, it is recommended that NXK6‐2 should be included in hypomyelinating leukodystrophy and spastic ataxia diagnostic panels

Enhanced wheat yield by biochar addition under different mineral fertilization levels

Climate change and global warming have worldwide adverse consequences. Biochar production and its use in agriculture can play a key role in climate change mitigation and help improve the quality and management of waste materials coming from agriculture and forestry. Biochar is a carbonaceous material obtained from thermal decomposition of residual biomass at relatively low temperature and under oxygen limited conditions (pyrolysis). Biochar is currently a subject of active research worldwide because it can constitute a viable option for sustainable agriculture due to its potential as a long-term sink for carbon in soil and benefits for crops. However, to date, the results of research studies on biochar effects on crop production show great variability, depending on the biochar type and experimental conditions. Therefore, it is important to identify the beneficial aspects of biochar addition to soil on crop yield in order to promote the adoption of this practice in agriculture. In this study, the effects of two types of biochar from agricultural wastes typical of Southern Spain: wheat straw and olive tree pruning, combined with different mineral fertilization levels on the growth and yield of wheat (Triticum durum L. cv. Vitron) were evaluated. Durum wheat was pot-grown for 2 months in a growth chamber on a soil collected from an agricultural field near Córdoba, Southern Spain. Soil properties and plant growth variables were studied in order to assess the agronomic efficiency of biochar. Our results show that biochar addition to a nutrientpoor, slightly acidic loamy sand soil had little effect on wheat yield in the absence of mineral fertilization. However, at the highest mineral fertilizer rate, addition of biochar led to about 20–30 % increase in grain yield compared with the use of the mineral fertilizer alone. Both biochars acted as a source of available P, which led to beneficial effects on crop production. In contrast, the addition of biochar resulted in decreases in available N and Mn. A maximum reduction in plant nutrient concentration of 25 and 80% compared to nonbiochar-treated soils for N and Mn, respectively, was detected. This fact was related to the own nature of biochar: low available nitrogen content, high adsorption capacity, and low mineralization rate for N; and alkaline pH and high carbonate content for Mn. Our results indicate that biochar-based soil management strategies can enhance wheat production with the environmental benefits of global warming mitigation. This can contribute positively to the viability and benefits of agricultural production systems. However, the nutrient–biochar interactions should receive special attention due to the great variability in the properties of biochar-type materials