Contrasting Effects of Farmyard Manure (FYM) and Compost for Remediation of Metal Contaminated Soil

We investigated effect of farm yard manure (FYM) and compost applied to metal contaminated soil at rate of 1% (FYM-1, compost-1), 2% (FYM-2, compost-2), and 3% (FYM-3, compost-3). FYM significantly (P < 0.001) increased dry weights of shoots and roots while compost increased root dry weight compared to control. Amendments significantly increased nickel (Ni) in shoots and roots of maize except compost applied at 1%. FYM-3 and -1 caused maximum Ni in shoots (11.42 mg kg^?1) and roots (80.92 mg kg^?1), respectively while compost-2 caused maximum Ni (14.08 mg kg^?1) and (163.87 mg kg^?1) in shoots and roots, respectively. Plants grown in pots amended with FYM-2 and compost-1 contained minimum Cu (30.12 and 30.11 mg kg^?1) in shoots, respectively. FYM-2 and compost-2 caused minimum zinc (Zn) (59.08 and 66.0 mg kg^?1) in maize shoots, respectively. FYM-2 caused minimum Mn in maize shoots while compost increased Mn in shoots and roots compared to control. FYM and compost increased the ammonium bicarbonate diethylene triamine penta acetic acid (AB-DTPA) extractable Ni and Mn in the soil and decreased Cu and Zn. Lower remediation factors for all metals with compost indicated that compost was effective to stabilize the metals in soil compared to FYM.     

Effect of Vegetation Rehabilitation on Soil Carbon and Its Fractions in Mu Us Desert,Northwest China

Although vegetation rehabilitation on semi-arid and arid regions may enhance soil carbon sequestration, its effects on soil carbon fractions remain uncertain. We carried out a study after planting Artemisia ordosica (AO, 17 years), Astragalus mongolicum (AM, 5 years), and Salix psammophila (SP, 16 years) on shifting sand land (SL) in the Mu Us Desert, northwest China. We measured total soil carbon (TSC) and its components, soil inorganic carbon (SIC) and soil organic carbon (SOC), as well as the light and heavy fractions within soil organic carbon (LF-SOC and HF-SOC), under the SL and shrublands at depths of 100 cm. TSC stock under SL was 27.6 Mg ha^?1, and vegetation rehabilitation remarkably elevated it by 40.6 Mgha^?1, 4.5 Mgha^?1, and 14.1 Mgha^?1 under AO, AM and SP land, respectively. Among the newly formed TSC under the three shrublands, SIC, LF-SOC and HF-SOC accounted for 75.0%, 10.7% and 13.1% for AO, respectively; they made up 37.0%, 50.7% and 10.6% for AM, respectively; they occupied 68.6%, 18.8% and 10.0% for SP, respectively. The accumulation rates of TSC within 0–100 cm reached 238.6 g m^?2y^?1, 89.9 g m^?2y^?1 and 87.9 g m^?2y^?1 under AO, AM and SP land, respectively. The present study proved that the accumulation of SIC considerably contributed to soil carbon sequestration, and vegetation rehabilitation on shifting sand land has a great potential for soil carbon sequestration.     

The preparation of ethylenediamine‐modified fluorescent carbon dots and their use in imaging of cells

In this work, fluorescent carbon dots (CDs) were synthesized using a hydrothermal method with glucose as the carbon source and were surface‐modified with ethylenediamine. The properties of as‐prepared CDs were analyzed by transmission electron microscopy (TEM), Fourier transform infrared (FTIR), ultraviolet–visible light (UV/vis) absorption and fluorescent spectra. Furthermore, CDs conjugated with mouse anti‐(human carcinoembryonic antigen) (CEA) monoclonal antibody were successful employed in the biolabeling and fluorescent imaging of human gastric carcinoma cells. In addition, the cytotoxicity of CDs was also tested using human gastric carcinoma cells. There was no apparent cytotoxicity on human gastric carcinoma cells. These results suggest the potential application of the as‐prepared CDs in bioimaging and related fields. Copyright © 2015 John Wiley & Sons, Ltd.     

A New Organic Dye-Based Staining for The Detection of Plant DNA in Agarose Gels

Ethidium bromide (EtBr) is used to stain DNA in agarose gel electrophoresis, but this dye is mutagenic and carcinogenic. We investigated N-719, which is a visible, reliable and organic Ruthenium-based dye, and five fluorescent alternatives for staining plant DNA. For prestaining and poststaining, N-719, GelRed, and SYBR Safe stained both DNA and PCR product bands as clearly as EtBr. SYBR Green I, methylene blue, and crystal violet were effective for poststaining only. The organic dye N-719 stained DNA bands as sensitively and as clearly as EtBr. Consequently, organic dyes can be used as alternatives to EtBr in plant biotechnology studies.     

Assessing the Mutagenic Potential of Surface Sediments from Beijing Guanting Reservoir to Salmonella typhimurium

Mutagenicity of organic extracts from Beijing Guanting Reservoir sediments was investigated with TA98 and TA100 of Salmonella typhimurium. TA98 and TA100 were employed to detect frameshift mutation and base-pair substitution mutation, respectively. For TA100, no positive result was found, while TA98 was more sensitive and pro-mutagenic frameshift mutagens were mainly detected in sediments. Sediments from northern and southern Guanting Reservoir were at potential mutagenic risk. No mutagenicity was found in the sediments from the entrance of the tributaries, but strong mutagenicity was observed in the sediments from the outlet of the reservoir. Chemical analysis was also performed, and poor correlation was found between mutagenicity and organochlorine pesticides (OCPs). However, significant positive correlation was found for polycyclic aromatic hydrocarbons (PAHs) (r = 0.603–0.946), which showed that PAHs were dominated for the tested mutagenicity in the sediments. Polychlorinated biphenyls (PCBs) might induce mutagenicity or promote the mutagenicity of other substances.     

Plant Volatilome in Greece: a Review on the Properties,Prospects, and Chemogeography

Knowing plant volatile chemodiversity and its distribution is essential in order to study biological processes, to estimate the plants' value in use, and to establish sustainable exploitation practices. Yet, attempts to collect and assess data on scent diversity and properties in well‐defined geographical areas are rare. Here, we developed a geo‐referenced database of the plant volatilome in Greece by consolidating the results included in 116 research articles published in the last 25 years. The data set compiled includes 999 volatile organic compounds distributed into 178 plant taxa, 59 genera, and 19 families. Distillation is the acquisition method almost exclusively used, whereas headspace techniques that would allow the study of subtle ecological processes are generally lacking. Sesquiterpenes show the greatest richness of compounds, followed by monoterpenes and aliphatics. We assess the volatility of the compounds using the normal boiling point (nBP) as its reverse indicator, and we present the volatility spectra of the blends of the genera studied. Mean nBPs vary among genera, with maximal differences as wide as 118.4°. Finally, we feature basic chemodiversity maps for three aromatic plants, and discuss their importance and prospects as a special case of natural resources maps.     

Regulation of microglial migration,phagocytosis, and neurite outgrowth by HO‐1/CO signaling

Clearance of infected and apoptotic neuronal corpses during inflammatory conditions is a fundamental process to create a favorable environment for neuronal recovery. Microglia are the resident immune cells and the predominant phagocytic cells of the CNS, showing a multitude of cellular responses upon activation. Here, we investigated in functional assays how the CO generating enzyme heme oxygenase 1 (HO‐1) influences BV‐2 microglial migration, clearance of debris, and neurite outgrowth of human NT2 neurons. Stimulation of HO‐1 activity attenuated microglial migration in a scratch wound assay, and phagocytosis in a cell culture model of acute inflammation comprising lipopolysaccharide (LPS)‐activated microglia and apoptosis‐induced neurons. Application of a CO donor prevented the production of NO during LPS stimulation, and reduced microglial migration and engulfment of neuronal debris. LPS‐activated microglia inhibited neurite elongation of human neurons without requiring direct cell–cell surface contact. The inhibition of neurite outgrowth was totally reversed by application of exogenous CO or increased internal CO production through supply of the substrate hemin to HO. Our results point towards a vital cytoprotective role of HO‐1/CO signaling after microglial activation. In addition, they support a therapeutic potential of CO releasing chemical agents in the treatment of excessive inflammatory conditions in the CNS. © 2014 Wiley Periodicals, Inc. Develop Neurobiol 75: 854–876, 2015     

Kupffer Cell Isolation for Nanoparticle Toxicity Testing

The large majority of in vitro nanotoxicological studies have used immortalized cell lines for their practicality. However, results from nanoparticle toxicity testing in immortalized cell lines or primary cells have shown discrepancies, highlighting the need to extend the use of primary cells for in vitro assays. This protocol describes the isolation of mouse liver macrophages, named Kupffer cells, and their use to study nanoparticle toxicity. Kupffer cells are the most abundant macrophage population in the body and constitute part of the reticulo-endothelial system (RES), responsible for the capture of circulating nanoparticles. The Kupffer cell isolation method reported here is based on a 2-step perfusion method followed by purification on density gradient. The method, based on collagenase digestion and density centrifugation, is adapted from the original protocol developed by Smedsrød et al. designed for rat liver cell isolation and provides high yield (up to 14 x 10⁶ cells per mouse) and high purity (>95%) of Kupffer cells. This isolation method does not require sophisticated or expensive equipment and therefore represents an ideal compromise between complexity and cell yield. The use of heavier mice (35-45 g) improves the yield of the isolation method but also facilitates remarkably the procedure of portal vein cannulation. The toxicity of functionalized carbon nanotubes f-CNTs was measured in this model by the modified LDH assay. This method assesses cell viability by measuring the lack of structural integrity of Kupffer cell membrane after incubation with f-CNTs. Toxicity induced by f-CNTs can be measured consistently using this assay, highlighting that isolated Kupffer cells are useful for nanoparticle toxicity testing. The overall understanding of nanotoxicology could benefit from such models, making the nanoparticle selection for clinical translation more efficient.     

Dynamics and regulations of ecosystem light use efficiency in a broad-leaved Korean pine mixed forest,Changbai Mountain

Aims Ecosystem light use efficiency (LUE) reflects the ability of CO₂ uptake and light utilization via photosynthesis, which is a key parameter in ecosystem models to evaluate ecosystem productivity. The objectives of this study were to: (1) compare the differences of LUE derived from different methods; (2) elucidate the seasonal dynamics of LUE and its regulatory factors; and (3) evaluate the maximum LUE (LUE_max) and its variability based on eddy-covariance (EC) flux.Methods Using the flux data from an EC tower during 2003-2005 at a broad-leaved Korean pine (Pinus koraiensis) mixed forest, Changbai Mountain, two types of LUE indicators were generated from: 1) the apparent quantum yield (ε) estimated with rectangular hyperbolic curve, and 2) the ecological light use efficiency (LUE_eco) calculated as the ratio between gross ecosystem productivity (GEP) and photosynthetically-active radiation (Q).Important findings The seasonal variation of ε and LUE_eco appeared a unimodal pattern within a year, with the variations significantly dominated by soil surface temperature and Normalized Difference Vegetation Index (NDVI). A positive correlation between GEP and LUE was found for both ε and LUE_eco, with the effect of Q on LUE relatively weak. The increase in diffusion radiation appeared favorable for enhanced LUE. Generally, there was a significant positive relationship between ε and LUE_eco, while ε was higher than LUE_eco, especially during the mid-season. The annual maximum value of ε and LUE_eco was (0.087 ± 0.003) and (0.040 ± 0.002) μmol CO₂·μmol photon^-1 over the three years, respectively. The interannual variability of LUE_max for ε and LUE_eco was 4.17% and 4.25%, respectively, with a maximum difference of >8%, likely resulted from considerable uncertainty in model simulations. Our results indicated that the inversion and optimization of maximum LUE should be taken seriously in the application of LUE models.     

The unique Phe–His dyad of 2-ketopropyl coenzyme M oxidoreductase/carboxylase selectively promotes carboxylation and S–C bond cleavage

The 2-ketopropyl-coenzyme M oxidoreductase/carboxylase (2-KPCC) enzyme is the only member of the disulfide oxidoreductase (DSOR) family of enzymes, which are important for reductively cleaving S–S bonds, to have carboxylation activity. 2-KPCC catalyzes the conversion of 2-ketopropyl-coenzyme M to acetoacetate, which is used as a carbon source, in a controlled reaction to exclude protons. A conserved His–Glu motif present in DSORs is key in the protonation step; however, in 2-KPCC, the dyad is substituted by Phe–His. Here, we propose that this difference is important for coupling carboxylation with C–S bond cleavage. We substituted the Phe–His dyad in 2-KPCC to be more DSOR like, replacing the phenylalanine with histidine (F501H) and the histidine with glutamate (H506E), and solved crystal structures of F501H and the double variant F501H_H506E. We found that F501 protects the enolacetone intermediate from protons and that the F501H variant strongly promotes protonation. We also provided evidence for the involvement of the H506 residue in stabilizing the developing charge during the formation of acetoacetate, which acts as a product inhibitor in the WT but not the H506E variant enzymes. Finally, we determined that the F501H substitution promotes a DSOR-like charge transfer interaction with flavin adenine dinucleotide, eliminating the need for cysteine as an internal base. Taken together, these results indicate that the 2-KPCC dyad is responsible for selectively promoting carboxylation and inhibiting protonation in the formation of acetoacetate.