The Arabidopsis NLP7 gene regulates nitrate signaling via NRT1.1-dependent pathway in the presence of ammonium.

Nitrate is not only an important nutrient but also a signaling molecule for plants. A few of key molecular components involved in primary nitrate responses have been identified mainly by forward and reverse genetics as well as systems biology, however, many underlining mechanisms of nitrate regulation remain unclear. In this study, we show that the expression of NRT1.1, which encodes a nitrate sensor and transporter (also known as CHL1 and NPF6.3), is modulated by NIN-like protein 7 (NLP7). Genetic and molecular analyses indicate that NLP7 works upstream of NRT1.1 in nitrate regulation when NH4+ is present, while in absence of NH4+, it functions in nitrate signaling independently of NRT1.1. Ectopic expression of NRT1.1 in nlp7 resulted in partial or complete restoration of nitrate signaling (expression from nitrate-regulated promoter NRP), nitrate content and nitrate reductase activity in the transgenic lines. Transcriptome analysis revealed that four nitrogen-related clusters including amino acid synthesis-related genes and members of NRT1/PTR family were modulated by both NLP7 and NRT1.1. In addition, ChIP and EMSA assays results indicated that NLP7 may bind to specific regions of the NRT1.1 promoter. Thus, NLP7 acts as an important factor in nitrate signaling via regulating NRT1.1 under NH4+ conditions

Transcriptome Analysis in Spleen Reveals Differential Regulation of Response to Newcastle Disease Virus in Two Chicken Lines.

Enhancing genetic resistance of chickens to Newcastle Disease Virus (NDV) provides a promising way to improve poultry health, and to alleviate poverty and food insecurity in developing countries. In this study, two inbred chicken lines with different responses to NDV, Fayoumi and Leghorn, were challenged with LaSota NDV strain at 21 days of age. Through transcriptome analysis, gene expression in spleen at 2 and 6 days post-inoculation was compared between NDV-infected and control groups, as well as between chicken lines. At a false discovery rate <0.05, Fayoumi chickens, which are relatively more resistant to NDV, showed fewer differentially expressed genes (DEGs) than Leghorn chickens. Several interferon-stimulated genes were identified as important DEGs regulating immune response to NDV in chicken. Pathways predicted by IPA analysis, such as "EIF-signaling", "actin cytoskeleton organization nitric oxide production" and "coagulation system" may contribute to resistance to NDV in Fayoumi chickens. The identified DEGs and predicted pathways may contribute to differential responses to NDV between the two chicken lines and provide potential targets for breeding chickens that are more resistant to NDV

Impact of aeration on the removal of organic matter and nitrogen compounds in constructed wetlands treating the liquid fraction of piggery manure

The increasing demand for sustainable, robust and cost-efficient wastewater treatment techniques strengthen the implementation of constructed wetlands (CWs) in the agricultural sector. In countries like Belgium (Flanders), the compliance of strict water quality standards and surface area requirements have hindered considerably their application. New wetland designs such as aerated CWs, could help to overcome these challenges. This study evaluated the capacity of artificially aerated mesocosm systems to decrease chemical oxygen demand (COD) concentrations below the 125 mgO(2)/L limit imposed on installations treating animal manure. The treatment of this high-strength wastewater has been slightly studied via aerated CWs. A three-stage experiment investigated the effect of constant, intermittent and non-aeration regimes on: ammonium volatilisation, the evolution of organic and nitrogen compounds concentrations, and denitrification. The results were assessed through a mixed modelling procedure using SAS 9.4 software. A COD removal between 65% and 58% in constantly and intermittent aerated systems, versus 27% COD removal in the non-aerated system indicated the effectiveness of aeration. However, a dissimilarity was encountered in the removal of nitrogen compounds, resulting in an 82% decrease of nitrate concentrations in the non-aerated system, versus 0.5% and 11% in the aerated ones. Based on the results, this experimental set-up adjusted to field operational conditions can prove that aerated CWs can treat the liquid fraction of piggery manure

Biological control networks suggest the use of biomimetic sets for combinatorial therapies

Cells are regulated by networks of controllers having many targets, and targets affected by many controllers, but these "many-to-many" combinatorial control systems are poorly understood. Here we analyze distinct cellular networks (transcription factors, microRNAs, and protein kinases) and a drug-target network. Certain network properties seem universal across systems and species, suggesting the existence of common control strategies in biology. The number of controllers is ~8% of targets and the density of links is 2.5% \pm 1.2%. Links per node are predominantly exponentially distributed, implying conservation of the average, which we explain using a mathematical model of robustness in control networks. These findings suggest that optimal pharmacological strategies may benefit from a similar, many-to-many combinatorial structure, and molecular tools are available to test this approach.Comment: 33 page

Hyperspectral monitoring of green roof vegetation health state in sub-mediterranean climate: preliminary results

In urban and industrial environments, the constant increase of impermeable surfaces has produced drastic changes in the natural hydrological cycle. Decreasing green areas not only produce negative effects from a hydrological-hydraulic perspective, but also from an energy point of view, modifying the urban microclimate and generating, as shown in the literature, heat islands in our cities. In this context, green infrastructures may represent an environmental compensation action that can be used to re-equilibrate the hydrological and energy balance and reduce the impact of pollutant load on receiving water bodies. To ensure that a green infrastructure will work properly, vegetated areas have to be continuously monitored to verify their health state. This paper presents a ground spectroscopy monitoring survey of a green roof installed at the University of Calabria fulfilled via the acquisition and analysis of hyperspectral data. This study is part of a larger research project financed by European Structural funds aimed at understanding the influence of green roofs on rainwater management and energy consumption for air conditioning in the Mediterranean area. Reflectance values were acquired with a field-portable spectroradiometer that operates in the range of wavelengths 350–2500 nm. The survey was carried out during the time period November 2014–June 2015 and data were acquired weekly. Climatic, thermo-physical, hydrological and hydraulic quantities were acquired as well and related to spectral data. Broadband and narrowband spectral indices, related to chlorophyll content and to chlorophyll–carotenoid ratio, were computed. The two narrowband indices NDVI705 and SIPI turned out to be the most representative indices to detect the plant health status

Hierarchical information clustering by means of topologically embedded graphs

We introduce a graph-theoretic approach to extract clusters and hierarchies in complex data-sets in an unsupervised and deterministic manner, without the use of any prior information. This is achieved by building topologically embedded networks containing the subset of most significant links and analyzing the network structure. For a planar embedding, this method provides both the intra-cluster hierarchy, which describes the way clusters are composed, and the inter-cluster hierarchy which describes how clusters gather together. We discuss performance, robustness and reliability of this method by first investigating several artificial data-sets, finding that it can outperform significantly other established approaches. Then we show that our method can successfully differentiate meaningful clusters and hierarchies in a variety of real data-sets. In particular, we find that the application to gene expression patterns of lymphoma samples uncovers biologically significant groups of genes which play key-roles in diagnosis, prognosis and treatment of some of the most relevant human lymphoid malignancies.Comment: 33 Pages, 18 Figures, 5 Table

Nitrous oxide production in soil isolates of nitrate-ammonifying bacteria

Here we provide the first demonstration of the potential for N2O production by soil-isolated nitrate-ammonifying bacteria under different C and N availabilities, building on characterizations informed from model strains. The potential for soil-isolated Bacillus sp. and Citrobacter sp. to reduce NO3-, and produce NH4+, NO2- and N2O was examined in batch and continuous (chemostat) cultures under different C-to-NO3- ratios, NO3--limiting (5 mM) and NO3--sufficient (22 mM) conditions. C-to-NO3- ratio had a major influence on the products of nitrate ammonification, with NO2-, rather than NH4+, being the major product at low C-to-NO3- ratios in batch cultures. N2O production was maximum and accompanied by high NO2- production under C-limitation/NO3-sufficiency conditions in chemostat cultures. In media with lower C-to-NO3-N ratios (5- and 10-to-1) up to 2.7% or 5.0% of NO3- was reduced to N2O by Bacillus sp. and Citrobacter sp., respectively, but these reduction efficiencies were only 0.1% or 0.7% at higher C-to-NO3- ratios (25- and 50-to-1). As the highest N2O production did not occur under the same C-to-NO3- conditions as highest NH4+ production we suggest that a re-evaluation may be necessary of the environmental conditions under which nitrate ammonification contributes to N2O emission from soil

Cyanate is a low abundance but actively cycled nitrogen compound in soil

Biotic processes drive rapid cyanate turnover and dominate cyanate consumption in soils, according to an extensive soil survey and stable isotope tracer experiments

Physiological function and catalytic versatility of bacterial multihaem cytochromescinvolved in nitrogen and sulfur cycling

Bacterial MCCs (multihaem cytochromes c) represent widespread respiratory electron-transfer proteins. In addition, some of them convert substrates such as nitrite, hydroxylamine, nitric oxide, hydrazine, sulfite, thiosulfate or hydrogen peroxide. In many cases, only a single function is assigned to a specific MCC in database entries despite the fact that an MCC may accept various substrates, thus making it a multifunctional catalyst that can play diverse physiological roles in bacterial respiration, detoxification and stress defence mechanisms. The present article briefly reviews the structure, function and biogenesis of selected MCCs that catalyse key reactions in the biogeochemical nitrogen and sulfur cycles

Accumulation of heavy metals in agricultural soil irrigated by sewage sludge and industrial effluent (case study: Agh ghallah industrial estate)

Background and purpose: Industrial effluent and sewage sludge are used as fertilizer since they contain high levels of nutrient. The main pollutant in industrial effluent is heavy metals. In this study an assessment was made on the impact of industrial wastewater effluent and sewage sludge on accumulation of heavy metals in agricultural soil at Agh ghallah industrial Estate. Materials and methods: In a descriptive-analytic study, 72 samples (sewage sludge, effluent and soil) were collected from the Industrial state. All sampling and tests were performed according to standard methods and concentration of heavy metals was determined using polarography method. To analyze the data, SPSS was used and 95 confidence intervals (P 0.05). Conclusion: The concentrations of heavy metal were found lower than the maximum allowable level. Therefore, in this area, wastewater and sewage sludge could be used to irrigate agricultural lands and greenspaces in shortage of water, however, environmental regulations should be taken into account. © 2015 Mazandaran University of Medical Sciences. All rights reserved