Degradation of carboxin and oxycarboxin in different soils

Summary Five different soils varying in physico-chemical properties were used for studying the persistence and degradation of carboxin and oxycarboxin. In one soil only both fungicides were degraded with accumulation of ammonium and nitrite. Under the conditions of forced circulation of air and continuous perfusion, oxycarboxin was found to be more susceptible to degradation than carboxin. Under simulated conditions of rice fields, conversion of carboxin to its sulphoxide and to a non-toxic derivative of oxycarboxin could only be seen in all the soils.The role of clay, humus and organic matter as protectants of fungicides against degradation indicated that the intermediary compound carboxin sulphoxide was strongly adsorbed probably on organic and inorganic colloids of most of the soils. Organic matter free soils delayed the degradation. Carboxin was rapidly converted to its sulphoxide on three forms of monoionic clays whereas oxycarboxin was transformed to an unidentified derivative.Part of Ph.D. thesis submitted to UAS, Bangalore-65.     

Interaction between lindane and microbes in soils

Three lindane (-1,2,3,4,5,6-hexachlorocyclohexane) treated soils were studied under laboratory conditions to determine the interaction between lindane and the soil microorganisms. Microbial populations and respiration were monitored to study insecticide effects. Formation of lindane degradation products and chloride content were examined to determine effects of the microorganisms. Some populations in lindane treated soils showed temporary declines but all ultimately recovered to at least the level of the controls in 16 weeks. Respiration was stimulated over a 9-week period especially in the sandy and clay loams, suggesting the possibility of microbial degradation of the insecticide. Lindane degradation products separated and identified by TLC included -2,3,4,5,6-pentachloro-1-cyclohexene (-PCCH), -3,4,5,6-tetrachloro-1-cyclohexene (-TCCH), -3,4,5,6-tetrachloro-1-cyclohexene (-TCCH), and pentachlorobenzene (PCB). Chloride production increased in soils treated with higher levels of lindane.Contribution No. 609, Research Institute, Agriculture Canada, University Sub Post Office, London, Ontario N6A 5B7.     

Trees,soils, and food security

Trees have a different impact on soil properties than annual crops, because of their longer residence time, larger biomass accumulation, and longer-lasting, more extensive root systems. In natural forests nutrients are efficiently cycled with very small inputs and outputs from the system. In most agricultural systems the opposite happens. Agroforestry encompasses the continuum between these extremes, and emerging hard data is showing that successful agroforestry systems increase nutrient inputs, enhance internal flows, decrease nutrient losses and provide environmental benefits: when the competition for growth resources between the tree and the crop component is well managed. The three main determinants for overcoming rural poverty in Africa are (i) reversing soil fertility depletion, (ii) intensifying and diversifying land use with high-value products, and (iii) providing an enabling policy environment for the smallholder farming sector. Agroforestry practices can improve food production in a sustainable way through their contribution to soil fertility replenishment. The use of organic inputs as a source of biologically-fixed nitrogen, together with deep nitrate that is captured by trees, plays a major role in nitrogen replenishment. The combination of commercial phosphorus fertilizers with available organic resources may be the key to increasing and sustaining phosphorus capital. High-value trees, ''Cinderella'' species, can fit in specific niches on farms, thereby making the system ecologically stable and more rewarding economically, in addition to diversifying and increasing rural incomes and improving food security. In the most heavily populated areas of East Africa, where farm size is extremely small, the number of trees on farms is increasing as farmers seek to reduce labour demands, compatible with the drift of some members of the family into the towns to earn off-farm income. Contrary to the concept that population pressure promotes deforestation, there is evidence that demonstrates that there are conditions under which increasing tree planting is occurring on farms in the tropics through successful agroforestry as human population density increases. <br>     

Decoupling the Role of Ubiquitination for the Dislocation Versus Degradation of Major Histocompatibility Complex (MHC) Class I Proteins during Endoplasmic Reticulum-associated Degradation (ERAD)

Aberrantly or excessively expressed proteins in the endoplasmic reticulum are identified by quality control mechanisms and dislocated to the cytosol for proteasome-mediated, ubiquitin-dependent degradation by a process termed endoplasmic reticulum-associated degradation (ERAD). In addition to its role in degradation, ubiquitination has also been implicated in substrate dislocation, although whether direct ubiquitin conjugation of ERAD substrates is required for dislocation has been difficult to ascertain. An obstacle in probing the mechanism of quality control-induced ERAD is the paucity of ERAD substrates being dislocated and detected at any given time. To obviate this problem, we report here the use of a sensitive biotinylation system to probe the dislocation of major histocompatibility complex I (MHCI) heavy chain substrates in the absence of immune evasion proteins. Using this assay system the dislocation of MHCI heavy chains was found not to require potential ubiquitin conjugation sites in the cytoplasmic tail or Lys residues in the ectodomain. By contrast, dislocation of MHCI heavy chains did require deubiquitinating enzyme activity and rapid proteasome-mediated degradation required Lys residues in MHCI heavy chain ectodomain. These combined findings support the model that the endoplasmic reticulum quality control-induced dislocation of MHCI heavy chains may not require direct ubiquitination/deubiquitination as is required for proteasome-mediated degradation post dislocation.     

污泥土地利用对农作物及土壤的影响研究

以沈阳北部污水处理厂污泥为研究对象 ,开展了污泥土地利用对农作物及土壤环境影响的研究 .结果表明 ,污泥土地利用可提高土壤中N、P及有机质含量 .污泥用量为 2 2 .5t·hm-2 和 45t·hm-2 时有利于作物生长发育 ,使水稻生物量与对照相比分别增加了 11.48%、11.83%.污泥施用量只要控制在 45t·hm-2以内 ,污泥中的重金属不会对土壤、农产品质量及地下水产生不良的影响 .     

Remediation of depleted soils by addition of ion exchange resins

Parallel investigations with fertility were carried out in standard garden soil with ion exchange substrate BIONA 111 as well with mixtures in different proportions. The ion exchange substrate was a mixture of ion exchange resins saturated in certain proportions with a complete set of biogenic ions. Plant productivity in the ion exchange substrate in a 6-week vegetation period was 950 g/kg of the green biomass compared with 29 g/kg in soil. Productivity linearly depended on the mass fraction of the ion exchange substrate in the mixtures with the garden soil. Addition of 1% of the ion exchange substrate is sufficient for starting vegetation in completely depleted soil and barren sand. Addition of different ionic forms of ion exchange resins (K⁺, Ca²⁺+Mg²⁺+K⁺, NO₃⁻, NO₃⁻+H₂PO₄²⁻+SO₄²⁻) caused pronounced positive effects on soil productivity though these effects were less significant than those of ion exchange substrate. Addition of ion exchange substrates can be an efficient means for remediation of destroyed soils and fruitless rocks.     

RNF185 Is a Novel E3 Ligase of Endoplasmic Reticulum-associated Degradation (ERAD) That Targets Cystic Fibrosis Transmembrane Conductance Regulator (CFTR)

In the endoplasmic reticulum (ER), misfolded or improperly assembled proteins are exported to the cytoplasm and degraded by the ubiquitin-proteasome pathway through a process called ER-associated degradation (ERAD). ER-associated E3 ligases, which coordinate substrate recognition, export, and proteasome targeting, are key components of ERAD. Cystic fibrosis transmembrane conductance regulator (CFTR) is one ERAD substrate targeted to co-translational degradation by the E3 ligase RNF5/RMA1. RNF185 is a RING domain-containing polypeptide homologous to RNF5. We show that RNF185 controls the stability of CFTR and of the CFTRΔF508 mutant in a RING- and proteasome-dependent manner but does not control that of other classical ERAD model substrates. Reciprocally, its silencing stabilizes CFTR proteins. Turnover analyses indicate that, as RNF5, RNF185 targets CFTR to co-translational degradation. Importantly, however, simultaneous depletion of RNF5 and RNF185 profoundly blocks CFTRΔF508 degradation not only during translation but also after synthesis is complete. Our data thus identify RNF185 and RNF5 as a novel E3 ligase module that is central to the control of CFTR degradation.     

DGGE fingerprinting of bacteria in soils from eight ecologically different sites around Casey Station,Antarctica

Bacterial community structures in soils collected from eight sites around Casey Station, Antarctica, were investigated using denaturing gradient gel electrophoresis (DGGE) of amplified 16S rRNA gene fragments. Higher bacterial diversity was found in soils from protected or relatively low human-impacted sites in comparison to highly impacted sites. However, the highest diversity was detected in samples from Wilkes Tip, a former waste disposal site that has been undisturbed for the last 50 years. Comparison of community structure based on non-metric multidimensional scaling plots revealed that all sites, except the hydrocarbon-contaminated (oil spill) site, were clustered with a 45% similarity. A total of 23 partial 16S rRNA gene sequences were obtained from the excised DGGE bands, with the majority of the sequences closely related to those of the Cytophaga–Flexibacter–Bacteroides group. No significant correlation was established between environmental variables, including soil pH, electrical conductivity, carbon, nitrogen, water content and heavy metals, with bacterial diversity across the eight study sites.     

Role of HERP and a HERP-related Protein in HRD1-dependent Protein Degradation at the Endoplasmic Reticulum

Misfolded proteins of the endoplasmic reticulum (ER) are retrotranslocated to the cytosol and degraded by the proteasome via a process termed ER-associated degradation (ERAD). The precise mechanism of retrotranslocation is unclear. Here, we use several lumenal ERAD substrates targeted for degradation by the ubiquitin ligase HRD1 including SHH (sonic hedgehog) and NHK (null Hong Kong α1-antitrypsin) to study the geometry, organization, and regulation of the HRD1-containing ERAD machinery. We report a new HRD1-associated membrane protein named HERP2, which is homologous to the previously identified HRD1 partner HERP1. Despite sequence homology, HERP2 is constitutively expressed in cells, whereas HERP1 is highly induced by ER stress. We find that these proteins are required for efficient degradation of both glycosylated and nonglycosylated SHH proteins as well as NHK. In cells depleted of HERPs, SHH proteins are largely trapped inside the ER with a fraction of the stabilized SHH protein bound to the HRD1-SEL1L ligase complex. Ubiquitination of SHH is significantly attenuated in the absence of HERPs, suggesting a defect in retrotranslocation. Both HERP proteins interact with HRD1 through a region located in the cytosol. However, unlike its homolog in Saccharomyces cerevisiae, HERPs do not regulate HRD1 stability or oligomerization status. Instead, they help recruit DERL2 to the HRD1-SEL1L complex. Additionally, the UBL domain of HERP1 also seems to have a function independent of DERL2 recruitment in ERAD. Our studies have revealed a critical scaffolding function for mammalian HERP proteins that is required for forming an active retrotranslocation complex containing HRD1, SEL1L, and DERL2.     

Responses of wasp communities to urbanization: effects on community resilience and species diversity

Urbanization is one of the most extreme and rapidly growing anthropogenic pressures on the natural world. It is linked to significant impacts on biodiversity and disruptions to ecological processes in remnant vegetation. We investigated the richness and abundance of wasps in a highly fragmented urban landscape in Sydney, Australia, comparing assemblages in small urban remnants to edges and interiors of continuous areas of vegetation. We detected no difference in wasp abundance or species richness between remnant types indicating that communities are highly resilient to the effects of urbanization at this scale. However, Chao 2 estimates of predicted species richness indicate that edge sites would support a greater richness and abundance of species compared to small and interior sites. Although families were represented evenly across the sites, interior and edge sites supported more species within families. Wasp composition was significantly affected by the temporal variation and trap location (arboreal or ground), particularly at the family level demonstrating high species turnover and discrimination in vertical space. These sampling effects and temporal inconsistencies highlight the hazards of relying on one-off snapshot surveys and uncorrected datasets for assessments of diversity and responses to urban landscapes. The strong resilience of wasp communities to urbanization when assessed at coarse scales indicates that responses at finer spatial and taxonomic scales are critical to understanding the maintenance of ecosystem function in highly modified landscapes.     

Mechanisms of recovery and resilience of different components of mosaics of habitats on shallow rocky reefs

Understanding the mechanisms producing and maintaining discontinuities between patches in mosaics of habitats is necessary to predict changes in patterns of abundance and distribution of species. On temperate rocky reefs, physical and biological disturbance can result in a mosaic of patches of encrusting coralline, turf- or canopy-forming algae. We experimentally investigated the effects of disturbance within and at the boundary between these patches, in order to identify mechanisms accounting for re-colonisation of space and to assess whether the response of boundaries can alter the relative size of contrasting habitats. Also, we tested whether the resilience of the different types of assemblages depends on species richness (i.e. number of taxa present) of habitats or, alternatively, on other properties of systems like differences in life-history traits of dominating species. Although the nature of the mechanisms generating differences among habitats changed among different stages of the colonisation, local processes (within patches) prevailed over larger scale processes (among patches) in determining early patterns of colonisation of space in mosaics. By the end of the experiment, assemblages in clearings at boundaries had recovered to the undisturbed reference condition, in contrast to clearings within barren patches or algal turfs. Boundaries represent, therefore, relatively more stable components of the mosaic, with greater resilience than adjacent habitats. Although sea urchins are often indicated as the main force regulating the proportion of contrasting habitats on shallow rocky reefs, determining the nature of variation in the interaction between species dominating each type of habitat is crucial to understand dynamics of mosaics. Finally, our study provides evidence that resilience could not be entirely controlled by initial species diversity, suggesting that different proportions of dominant taxa could influence the stability of natural systems.     

Stability of complex food webs: resilience, resistance and the average interaction strength

In the face of stochastic climatic perturbations, the overall stability of an ecosystem will be determined by the balance between its resilience and its resistance, but their relative importance is still unknown. Using aquatic food web models we study ecosystem stability as a function of food web complexity. We measured three dynamical stability properties: resilience, resistance, and variability. Specifically, we evaluate how a decrease in the strength of predator-prey interactions with food web complexity, reflecting a decrease in predation efficiency with the number of prey per predator, affects the overall stability of the ecosystem. We find that in mass conservative ecosystems, a lower interaction strength slows down the mass cycling rate in the system and this increases its resistance to perturbations of the growth rate of primary producers. Furthermore, we show that the overall stability of the food webs is mostly given by their resistance, and not by their resilience. Resilience and resistance display opposite trends, although they are shown not to be simply opposite concepts but rather independent properties. The ecological implication is that weaker predator-prey interactions in closed ecosystems can stabilize food web dynamics by increasing its resistance to climatic perturbations.     

Occurrence of Clostridium perfringens from different cultivated soils

The occurrence of Clostridium perfringens was estimated in 750 samples originated from a variety of soils bearing various bulb crops: Brawnica oderacea (vegetable), Olea europaea, Daucus carota (carote), Solanum tuberosum (potato), Phaseolus vulgaris (green haricot), Beta vulgaris var. rapaceum (beetroot), Cucurbita pepo (squash), Allium cepa (onion), Cucumis sativus (cucumber) and Capsicum annum (pepper). All isolated strains were tested for their antimicrobial activities to amoxicillin, penicillin G, kanamycin, tetracycline, streptomycin, erythromycin, chloramphenicol and metronidazole.When considering the type of the bulb production, it was observed increased number of C. perfringens spore densities in the most undersurface bulb soils. Moreover, C. perfringens spore are likely to occur in particularly large numbers in soil contaminated by fecal matter. Additionally, there is a close relationship between the spore amount and nature of organic content. Presence of C. perfringens was associated with acidic soil. Most of our strains showed resistance to the studied antibiotics applied usually for human and veterinary care. A systematic monitoring of the cultivated soil ecosystems must include bacteriological parameters together with chemical indices of organic pollution in order to obtain information adequate for assessing their overall quality.     

Degradation of 2,4-DB in Argentinean agricultural soils with high humic matter content

The dissipation of 4-(2,4-dichlorophenoxy) butyric acid (2,4-DB) in high-humic-matter-containing soils from agricultural fields of the Argentinean Humid Pampa region was studied, employing soil microcosms under different experimental conditions. The added herbicide was dissipated almost completely by soils with and without history of herbicide use by day 28. At 500 ppm, both soils showed the same degradation rates; but at 5-ppm concentration, the chronically exposed soil demonstrated a faster degradation of the herbicide. 2,4-DB addition produced increases in herbicide-degrading bacteria of three and 1.5 orders of magnitude in soils with and without history of herbicide use, respectively, in microcosms with 5 ppm. At 500-ppm concentration, the increase in 2,4-DB degraders was five orders of magnitude after 14 days, independent of the history of herbicide use. No differences were observed in either 2,4-DB degradation rates or in degrader bacteria numbers in the presence and absence of alfalfa plants, in spite of some differential characteristics in patterns of 2,4-DB metabolite accumulation. The main factor affecting 2,4-DB degradation rate would be the history of herbicide use, as a consequence of the adaptation of the indigenous microflora to the presence of herbicides in the field.     

Degradation and metabolism of tetraethyllead in soils

Summary The objective of this study was to determine the disappearance of the leaded gasoline enhancer tetraethyllead (TEL), formation of degradation products, and mass balance in nonsterile and autoclaved Leon and Madison soils. Ethyl-1-¹⁴C-labeled TEL was used so that mineralization rates of TEL and mass balance could be determined.¹⁴C-TEL in nonsterile and autoclaved surface and subsurface samples of the two soils disappeared rapidly, and ionic ethyllead products, water soluble nonlead organic products and bound residues were rapidly formed. A small fraction (7.74%) of¹⁴C-TEL in nonsterile soil samples was mineralized to¹⁴CO₂ in 28 days. Triethyllead (TREL) was the major ionic ethyllead product detected in both nonsterile and autoclaved soils; diethyllead (DEL) was occasionally detected. Recovery of¹⁴C from mass balance studies for all nonsterile and autoclaved soil samples after 28 days of incubation was poor, less than 50% of the¹⁴C applied. It appears that unknown volatile and/or gaseous organic products were the major degradation products of TEL in soils. Based on the observations of more rapid initial disappearance of¹⁴C-TEL, more rapid formation and more rapid disappearance of¹⁴C-DEL, and occurrence of¹⁴CO₂ production in nonsterile soils, it was concluded that both biological and chemical degradation contributed to the degradation of TEL in soils, with chemical degradation being the major factor.     

Effects of agriculture and wetland restoration on hydrology, soils, and water quality of a Carolina bay complex

We compared hydrology, soils, and water quality of an agricultural field (AG), a two-year-old restored wetland (RW), and two reference ecosystems (a non-riverine swamp forest (NRSF) and a high pocosin forest (POC)) located at the Barra Farms Regional Wetland Mitigation Bank, a Carolina bay complex in Cumberland County, North Carolina. Our main objectives were to: 1) determine if the RW exhibited hydrology comparable to a reference ecosystem, 2) characterize the soils of the AG, RW, and reference ecosystems, and 3) assess differences in water quality in the surface outflow from the AG, RW, and reference ecosystems. Water table data indicated that the hydrology of the RW has been successfully reestablished as the hydroperiod of the RW closely matched that of the NRSF in 1998 and 1999. Jurisdictional hydrologic success criterion was also met by the RW in both years. To characterize soil properties, soil cores from each ecosystem were analyzed for bulk density (D_b), total carbon (C_t), nitrogen (N_t), and phosphorus (P_t), extractable phosphate (PO_4w), nitrogen (N_ex), and cations (Ca_ex, Mg_ex, K_ex, Na_ex), as well as pH. Bulk density, P_t, Ca_ex, Mg_ex, and pH were greatly elevated in the AG and RW compared to the reference ecosystems. Water quality monitoring consisted of measuring soluble reactive phosphorus (SRP), total phosphorus (TP), nitrate + nitrite (NOX), and total nitrogen (TN) concentrations in surface water from the AG, RW, and reference outflows. Outflow concentrations of SRP, TP, and NOX were highest and most variable in the AG, while TN was highest in the reference. This study suggested that while restoration of wetland hydrology has been successful in the short term, alteration of wetland soil properties by agriculture was so intense, that changes due to restoration were not apparent for most soil parameters. Restoration also appeared to provide water quality benefits, as outflow concentrations of SRP, TP, NOX, and TN were lower in the RW than the AG.     

Recurrent disturbances, recovery trajectories, and resilience of coral assemblages on a South Central Pacific reef

Coral reefs are increasingly threatened by various disturbances, and a critical challenge is to determine their ability for resistance and resilience. Coral assemblages in Moorea, French Polynesia, have been impacted by multiple disturbances (one cyclone and four bleaching events between 1991 and 2006). The 1991 disturbances caused large declines in coral cover (~51% to ~22%), and subsequent colonization by turf algae (~16% to ~49%), but this phase-shift from coral to algal dominance has not persisted. Instead, the composition of the coral community changed following the disturbances, notably favoring an increased cover of Porites, reduced cover of Montipora and Pocillopora, and a full return of Acropora; in this form, the reef returned to pre-disturbance coral cover within a decade. Thus, this coral assemblage is characterized by resilience in terms of coral cover, but plasticity in terms of community composition.     

Hsp40 Chaperones Promote Degradation of the hERG Potassium Channel

Loss of function mutations in the hERG (human ether-a-go-go related gene or KCNH2) potassium channel underlie the proarrhythmic cardiac long QT syndrome type 2. Most often this is a consequence of defective trafficking of hERG mutants to the cell surface, with channel retention and degradation at the endoplasmic reticulum. Here, we identify the Hsp40 type 1 chaperones DJA1 (DNAJA1/Hdj2) and DJA2 (DNAJA2) as key modulators of hERG degradation. Overexpression of the DJAs reduces hERG trafficking efficiency, an effect eliminated by the proteasomal inhibitor lactacystin or with DJA mutants lacking their J domains essential for Hsc70/Hsp70 activation. Both DJA1 and DJA2 cause a decrease in the amount of hERG complexed with Hsc70, indicating a preferential degradation of the complex. Similar effects were observed with the E3 ubiquitin ligase CHIP. Both the DJAs and CHIP reduce hERG stability and act differentially on folding intermediates of hERG and the disease-related trafficking mutant G601S. We propose a novel role for the DJA proteins in regulating degradation and suggest that they act at a critical point in secretory pathway quality control.     

Solution Stability and Degradation Pathway of Deoxyribonucleoside Phosphoramidites in Acetonitrile

The impuritiy profiles of acetonitrile solutions of the four standard O‐cyanoethyl‐N,N‐diisopropyl‐phosphoramidites of 5′‐O‐dimethoxytrityl (DMT) protected deoxyribonucleosides (dG^ib, dA^bz, dC^bz, T) were analyzed by HPLC‐MS. The solution stability of the phosphoramidites decreases in the order T, dC>dA>dG. After five weeks storage under inert gas atmosphere the amidite purity was reduced by 2% (T, dC), 6% (dA), and 39% (dG), respectively. The main degradation pathways involve hydrolysis, elimination of acrylonitrile and autocatalytic acrylonitrile‐induced formation of cyanoethyl phosphonoamidates. Consequently, the rate of degradation is reduced by reducing the water concentration in solution with molecular sieves and by lowering the amidite concentration. Acid‐catalyzed hydrolysis could also be reduced by addition of small amounts of base.