Towards an ecological index for tropical soil quality based on soil macrofauna

The objective of this work was to construct a simple index based on the presence/absence of different groups of soil macrofauna to determine the ecological quality of soils. The index was tested with data from 20 sites in South and Central Tabasco, Mexico, and a positive relation between the model and the field observations was detected. The index showed that diverse agroforestry systems had the highest soil quality index (1.00), and monocrops without trees, such as pineapple, showed the lowest soil quality index (0.08). Further research is required to improve this model for natural systems that have very low earthworm biomass

Agronomic, economic and ecological aspects of the papaya (Carica papaya) production in Tabasco, Mexico

The cultivation of papaya is important in the tropic because it provides source of income to the farmer within a short time. Statistical data were obtained from farmers located in the Chontalpa, Rios and Centro-Sierra regions; the size of the survey was 67 farmers. The study shows the results of the farmers’ problem in a drastic reduction of their productivity because of the virosis and low prices in commercialization. The farmers were classified into three levels of technology, “low”, “middle” and “high”. The first one covers 88% of the farmers in seasonal conditions in contrast with the high technology that concentrates 4.5% in irrigation conditions. According to the technology used, the fertilizer shows more yields. Economically, the high technology had an internal tax return of 0.43 in comparison with the low technology of 0.25, which means that the investment is recovered with different yields. However, the use of high technology makes the system more competitive. Key words

Depletion of the non-coding regulatory 6S RNA in E. coli causes a surprising reduction in the expression of the translation machinery

<p>Abstract</p> <p>Background</p> <p>6S RNA from <it>E. coli </it>is known to bind to RNA polymerase interfering with transcription initiation. Because 6S RNA concentrations are maximal at stationary phase and binding occurs preferentially to the holoenzyme associated with σ⁷⁰(Eσ⁷⁰) it is believed that 6S RNA supports adjustment to stationary phase transcription. Previous studies have also suggested that inhibition is specific for σ⁷⁰-dependent promoters characterized by a weak -35 recognition motif or extended -10 promoters. There are many exceptions to this precept, showing that other types of promoters, including stationary phase-specific (σ³⁸-dependent) promoters are inhibited.</p> <p>Results</p> <p>To solve this apparent ambiguity and to better understand the role of 6S RNA in stationary phase transition we have performed a genome-wide transcriptional analysis of wild-type and 6S RNA deficient cells growing to mid-log or early stationary phase. We found 245 genes at the exponential growth phase and 273 genes at the early stationary phase to be ≥ 1.5-fold differentially expressed. Up- and down-regulated genes include many transcriptional regulators, stress-related proteins, transporters and several enzymes involved in purine metabolism. As the most striking result during stationary phase, however, we obtained in the 6S RNA deficient strain a concerted expression reduction of genes constituting the translational apparatus. In accordance, primer extension analysis showed that transcription of ribosomal RNAs, representing the key molecules for ribosome biogenesis, is also significantly reduced under the same conditions. Consistent with this finding biochemical analysis of the 6S RNA deficient strain indicates that the lack of 6S RNA is apparently compensated by an increase of the basal ppGpp concentration, known to affect growth adaptation and ribosome biogenesis.</p> <p>Conclusions</p> <p>The analysis demonstrated that the effect of 6S RNA on transcription is not strictly confined to σ⁷⁰-dependent promoters. Moreover, the results indicate that 6S RNA is embedded in stationary phase adaptation, which is governed by the capacity of the translational machinery.</p

Soil and water pollution in a banana production region in tropical Mexico

The effects of abundant Mancozeb (Mn, Zn— bisdithiocarbamate) applications (2.5 kg ha-1week-1 for 10 years) on soil and surface-, subsurface- and groundwater pollution were monitored in a banana production region of tropical Mexico. In soils, severe manganese accumulation was observed, wheras the main metabolite ethylenethiourea was near the detection limit. Surface and subsurface water was highly polluted with ethylenethiourea, the main metabolite of Mancozeb (22.5 and 4.3 lg L-1, respectively), but not with manganese. In deep ground water, no ethylenethiourea was detected. The level of pollution in the region presents a worrisome risk for aquatic life and for human health

Improving rainwater-use in Cabo Verde drylands by reducing runoff

Dryland agriculture in Cabo Verde copes with steep slopes, inadequate practices, irregular intense rain, recurrent droughts, high runoff rates, severe soil erosion and declining fertility, leading to the inefficient use of rainwater. Maize and beans occupy N80% of the arable land in low-input, low-yielding subsistence farming. Three collaborative field trialswere conducted in different agroecological zones to evaluate the effects ofwater-conservation techniques (mulching of crop residue, a soil surfactant and pigeon-pea hedges) combinedwith organic amendments (compost and animal or green manure) on runoff and soil loss. During the 2011 and 2012 rainy seasons, three treatments and one control (traditional practice) were applied to 44- and 24-m2 field plots. A local maize variety and two types of beanswere planted. Runoff and suspended sedimentswere collected and quantified after each daily erosive rainfall. Runoff occurred for rainfalls≥50mm(slope b10%, loamy Kastanozem),≥60mm(slope≤23%, silt–clay–loam Regosol) and≥40mm(slope≤37%, sandy loam Cambisol). Runoffwas significantly reduced only with themulch treatment on the slope N10% and in the treatment of surfactant with organic amendment on the slope b10%. Soil loss reached 16.6, 5.1, 6.6 and 0.4 Mg ha−1 on the Regosol (≤23% slope) for the control, surfactant, pigeon-pea and mulch/pigeon-pea (with organic amendment) treatments, respectively; 3.2, 0.9, 1.3 and 0.1 Mg ha−1 on the Cambisol (≤37% slope) and b0. 2Mg ha−1 for all treatments and control on the Kastanozem(b10% slope). Erosion was highly positively correlated with runoff. Mulch with pigeon-pea combinedwith an organic amendment significantly reduced runoff and erosion fromagricultural fields on steep slopes, contributing to improved use of rainwater at the plot level. Sustainable land management techniques, such as mulching with pigeon-pea hedges and an organic amendment, should be advocated and promoted for the semiarid hillsides of Cabo Verde prone to erosion to increase rainwater-use and to prevent further soil degradation

A laboratory comparison of the interactions between three plastic mulch types and 38 active substances found in pesticides

Background: In semi-arid regions, the use of plastic mulch and pesticides in conventional agriculture is nearly ubiquitous. Although the sorption of pesticides on Low Density Polyethylene (LDPE) has been previously studied, no data are available for other plastics such as Pro-oxidant Additive Containing (PAC) plastics or “biodegradable” (Bio) plastics. The aim of this research was to measure the sorption pattern of active substances from pesticides on LDPE, PAC and Bio plastic mulches and to compare the decay of the active substances in the presence and absence of plastic debris. Methods: For this purpose, 38 active substances from 17 insecticides, 15 fungicides and six herbicides commonly applied with plastic mulching in South-east Spain were incubated with a 3 × 3 cm2 piece of plastic mulch (LDPE, PAC and Bio). The incubation was done in a solution of 10% acetonitrile and 90% distilled water at 35 _C for 15 days in the dark. The Quick Easy Cheap Effective Rugged Safe approach was adapted to extract the pesticides. Results: The sorption behavior depended on both the pesticide and the plastic mulch type. On average, the sorption percentage was ~23% on LDPE and PAC and ~50% on Bio. The decay of active substances in the presence of plastic was ~30% lesser than the decay of active substances in solution alone. This study is the first attempt at assessing the behavior of a diversity of plastic mulches and pesticides to further define research needs.This work was supported by the European Commission Horizon 2020 project Diverfarming (grant agreement 728003). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript

Protein-Peptide Turnover Profiling reveals the order of PTM addition and removal during protein maturation

Post-translational modifications (PTMs) regulate various aspects of protein function, including degradation. Mass spectrometric methods relying on pulsed metabolic labeling are popular to quantify turnover rates on a proteome-wide scale. Such data have traditionally been interpreted in the context of protein proteolytic stability. Here, we combine theoretical kinetic modeling with experimental pulsed stable isotope labeling of amino acids in cell culture (pSILAC) for the study of protein phosphorylation. We demonstrate that metabolic labeling combined with PTM-specific enrichment does not measure effects of PTMs on protein stability. Rather, it reveals the relative order of PTM addition and removal along a protein's lifetime-a fundamentally different metric. This is due to interconversion of the measured proteoform species. Using this framework, we identify temporal phosphorylation sites on cell cycle-specific factors and protein complex assembly intermediates. Our results thus allow tying PTMs to the age of the modified proteins

Sewage sludge application as a vehicle for microplastics in eastern Spanish agricultural soils

Microplastic pollution is becoming a major challenge with the growing use of plastic. In recent years, research about microplastic pollution in the environment has become a field of study with increased interest, with ever expanding findings on sources, sinks and pathways of microplastics. Wastewater treatment plants effectively remove microplastics from wastewater and concentrate them in sewage sludge which is often used to fertilise agricultural fields. Despite this, quantification of microplastic pollution in agricultural fields through the application of sewage sludge is largely unknown. In light of this issue, four wastewater treatment plants and 16 agricultural fields (0–8 sewage sludge applications of 20–22 tons ha−1 per application), located in the east of Spain, were sampled. Microplastics were extracted using a floatation and filtration method, making a distinction between light density microplastics (ρ −3) and heavy density microplastics (ρ > 1 g cm−3). Sewage sludge, on average, had a light density plastic load of 18,000 ± 15,940 microplastics kg−1 and a heavy density plastic load of 32,070 ± 19,080 microplastics kg−1. Soils without addition of sewage sludge had an average light density plastic load of 930 ± 740 microplastics kg−1 and a heavy density plastic load of 1100 ± 570 microplastics kg−1. Soils with addition of sewage sludge had an average light density plastic load of 2130 ± 950 microplastics kg−1 and a heavy density plastic load of 3060 ± 1680 microplastics kg−1. On average, soils’ plastic loads increased by 280 light density microplastics kg−1 and 430 heavy density microplastics kg−1 with each successive application of sewage sludge, indicating that sewage sludge application results in accumulation of microplastics in agricultural soils. Microplastics concentrations in soils are highly proportional to the number of sludge applications.</p