Using NDVI and soil quality analysis to assess influence of agronomic management on within-plot spatial variability and factors limiting production

Crop growth and yield are the result of the efficiency of the chosen agricultural management system within the boundaries of the agro-ecological environment. Linking spatial variability in crop performance to differences in soil attributes could identify the limiting factors driving the system, since patterns of crop performance will follow the spatial variability of the underlying limiting soil attributes. The Greenseeker handheld NDVI sensor was used to determine the within-plot spatial variability of crop performance in the different management treatments of a long-term (started 1991) tillage and residue management trial. Soil quality was measured spatially in the same plots. Under zero tillage with residue removal, soil quality and crop performance followed micro-topography with higher values where elevation was lower. Under zero tillage with residue retention soil quality was high throughout the field, ensuring uniform crop growth and under conventional tillage, soil quality was intermediate. Crop performance followed the same pattern as soil moisture and the related attributes infiltration, soil structure and organic matter. Thus soil moisture is the main limiting factor of the system and it is essential for the sustainability of any management practice developed for the subtropical highlands that soil water capture and storage are optimal. Zero tillage with residue retention is therefore the practice that will result in the most sustainable management and the most stable yields for this target area.     

Changes in methane oxidation activity and methanotrophic community composition in saline alkaline soils

The soil of the former Lake Texcoco is a saline alkaline environment where anthropogenic drainage in some areas has reduced salt content and pH. Potential methane (CH₄) consumption rates were measured in three soils of the former Lake Texcoco with different electrolytic conductivity (EC) and pH, i.e. Tex-S1 a >18 years drained soil (EC 0.7 dS m^?1, pH 8.5), Tex-S2 drained for ~10 years (EC 9.0 dS m^?1, pH 10.3) and the undrained Tex-S3 (EC 84.8 dS m^?1, pH 10.3). An arable soil from Alcholoya (EC 0.7 dS m^?1, pH 6.7), located nearby Lake Texcoco was used as control. Methane oxidation in the soil Tex-S1 (lowest EC and pH) was similar to that in the arable soil from Alcholoya (32.5 and 34.7 mg CH₄ kg^?1 dry soil day^?1, respectively). Meanwhile, in soils Tex-S2 and Tex-S3, the potential CH₄ oxidation rates were only 15.0 and 12.8 mg CH₄ kg^?1 dry soil day^?1, respectively. Differences in CH₄ oxidation were also related to changes in the methane-oxidizing communities in these soils. Sequence analysis of pmoA gene showed that soils differed in the identity and number of methanotrophic phylotypes. The Alcholoya soil and Tex-S1 contained phylotypes grouped within the upland soil cluster gamma and the Jasper Ridge, California JR-2 clade. In soil Tex-S3, a phylotype related to Methylomicrobium alcaliphilum was detected.     

Changes in the bacterial populations of the highly alkaline saline soil of the former lake Texcoco (Mexico) following flooding

Flooding an extreme alkaline-saline soil decreased alkalinity and salinity, which will change the bacterial populations. Bacterial 16S rDNA libraries were generated of three soils with different electrolytic conductivity (EC), i.e. soil with EC 1.7 dS m⁻¹ and pH 7.80 (LOW soil), with EC 56 dS m⁻¹ and pH 10.11 (MEDIUM soil) and with EC 159 dS m⁻¹ and pH 10.02 (HIGH soil), using universal bacterial oligonucleotide primers, and 463 clone 16S rDNA sequences were analyzed phylogenetically. Library proportions and clone identification of the phyla Proteobacteria, Actinobacteria, Acidobacteria, Cyanobacteria, Bacteroidetes, Firmicutes and Cloroflexi showed that the bacterial communities were different. Species and genera of the Rhizobiales, Rhodobacterales and Xanthomonadales orders of the α- and γ-subdivision of Proteobacteria were found at the three sites. Species and genera of the Rhodospirillales, Sphingobacteriales, Clostridiales, Oscillatoriales and Caldilineales were found only in the HIGH soil, Sphingomonadales, Burkholderiales and Pseudomonadales in the MEDIUM soil, Myxococcales in the LOW soil, and Actinomycetales in the MEDIUM and LOW soils. It was found that the largest diversity at the order and species level was found in the MEDIUM soil as bacteria of both the HIGH and LOW soils were found in it.     

Poultry slaughter wastewater treatment with an up-flow anaerobic sludge blanket (UASB) reactor

Removal of organic material from poultry slaughter wastewater as determined by changes in biological oxygen demand (BOD5) was investigated by adding three different types of inoculum combining cow manure, yeast extract or hydraulic residence time as variables with response vector of reduction of BOD5. In a 3-l reactors, a 95% removal of BOD5 from poultry slaughter wastewater was obtained with organic loading rates up to 31 kg BOD5 m(-3) d(-1) without loss of stability. This 95% removal was obtained between 25 and 39 degrees C with a hydraulic residence time between 3.5 and 4.5 h. The growth of the consortium of micro-organisms in the reactor followed a first-order kinetic with a constant specific growth rate of 0.054 h(-1). It was concluded that an inoculum from cow manure added with nutrients and yeast extract allowed a 95% removal of BOD5 from poultry slaughter wastewater at ambient temperatures within a hydraulic residence time of 4 h, sharply reducing possible environmental hazards.     

Pyrosequencing Analysis of the Bacterial Community in Drinking Water Wells

Wells used for drinking water often have a large biomass and a high bacterial diversity. Current technologies are not always able to reduce the bacterial population, and the threat of pathogen proliferation in drinking water sources is omnipresent. The environmental conditions that shape the microbial communities in drinking water sources have to be elucidated, so that pathogen proliferation can be foreseen. In this work, the bacterial community in nine water wells of a groundwater aquifer in Northern Mexico were characterized and correlated to environmental characteristics that might control them. Although a large variation was observed between the water samples, temperature and iron concentration were the characteristics that affected the bacterial community structure and composition in groundwater wells. Small increases in the concentration of iron in water modified the bacterial communities and promoted the growth of the iron-oxidizing bacteria Acidovorax. The abundance of the genera Flavobacterium and Duganella was correlated positively with temperature and the Acidobacteria Gp4 and Gp1, and the genus Acidovorax with iron concentrations in the well water. Large percentages of Flavobacterium and Pseudomonas bacteria were found, and this is of special concern as bacteria belonging to both genera are often biofilm developers, where pathogens survival increases.     

Limitations of a calculated N mineralization potential in studies of the N mineralization process

Soil is often incubated under controlled conditions to assess its capacity to mineralize nitrogen and to define the N mineralization potential (N_o) by fitting a negative exponential curve to N mineralization data. The specificity of N_o for a given soil and its relevance in N mineralization studies was examined as part of an overall study of the N mineralization process. Soil mixed with an equal amount of sand was aerobically incubated at 35 °C and leached at specific time intervals. Upon leaching, ammonium and nitrate were measured in the extract.It was found that N mineralization data did not always follow first-order kinetics making it difficult to calculate N_o. The computed N_o value was influenced by the shape of the curve, the duration of the incubation experiment and was reciprocally related to the N mineralization constant (k_exp). N_o did not always give an adequate indication of the amount of N mineralized and was not soil specific as the time of sampling largely affected its size. The usefulness of N_o in the simulation of the N mineralization process with a k_exp value valid for all soils was limited and a k_exp value specific for each soil was required. A value combining the soil specific N_o and k_exp values and reflecting the amount of N mineralized over one year was proposed as a suitable alternative to the use of N_o in comparative studies of the N mineralization process. It was concluded that a calculated N_o could not be used in studies comparing the N mineralization of different soils. In addition, the simulation of the N mineralization required the use of the soil specific k_exp and could not be carried out with a k_exp valid for all soils.     

Residue fractionation and decomposition: The significance of the active fraction

This paper describes an incubation experiment with homogeneously ¹⁴C labeled maize-straw and its insoluble fraction. The role of the soluble fraction in the decomposition process was assessed, using three independently measured characteristics: (1) fractionation of the maize-straw, resulting in kinetically different fractions; (2) microbial biomass C and its ¹⁴C activity determined by a fumigation extraction method, and (3) the ¹⁴C activity of the released CO₂-C. The fumigation extraction method was proved to be useful from 9 days after the application of the maize-straw onwards. The fractionation method yielded a soluble (48%), a (hemi) cellulosic (47%), and a lignin fraction (1%). Nine days after addition of either the complete residue or its insoluble fraction, the microbial biomass C increased from 53 to 337 and 217 mg C kg^-1 dry soil, respectively. Similar values were maintained up to day 40. The large increase in microbial activity was accompanied by a N-immobilization of 65 and 29 mg N Kg^-1 dry soil for the maize-straw treatment and its insoluble fraction, respectively, resulting in biomass C/N values of 5.5 and 5.6 A genuine priming effect (10 and 7% of the total CO₂-C production) on the mineralization of native soil organic C was caused by an increase in decomposition of the native C rather than by an increase in turnover of the microbial biomass in the soil amended with maize straw. The soluble fraction caused a priming effect on the decomposition of the less decomposable cell-wall fraction. Calculations by nonlinear regression confirmed this observation.     

Relationship between sucrose accumulation and activities of sucrose-phosphatase, sucrose synthase, neutral invertase and soluble acid invertase in micropropagated sugarcane plants

The activities of sucrose-phosphate synthase (SPS), sucrose synthase (SUSY), neutral invertase (NI) and soluble acid invertase (SAI) regulates sucrose activity in sugarcane were studied. Micropropagated sugarcane plants were obtained from callus cultures of four Mexican commercially available sugarcane varieties characterized by differences in sugar production, and activities of SPS, SUSY, NI, SAI and concentrations of sucrose were monitored in the sugarcane stem. The results indicated that sucrose accumulation was positively and significantly related to an increase in activity of SPS and SUSY and negatively to a reduction in activity of SAI and NI (P<0.05). SPS explained most of the variations found for sucrose accumulation and least for NI. The relationship between activity of SPS, SUSY, NI and SAI in sugarcane stem was similar in each variety.     

CD4-Positive T Cells and M2 Macrophages Dominate the Peritoneal Infiltrate of Patients with Encapsulating Peritoneal Sclerosis

Background

Encapsulating peritoneal sclerosis (EPS) is a severe complication of peritoneal dialysis (PD). Previously, it has been shown that infiltrating CD4-positive T cells and M2 macrophages are associated with several fibrotic conditions. Therefore, the characteristics of the peritoneal cell infiltrate in EPS may be of interest to understand EPS pathogenesis. In this study, we aim to elucidate the composition of the peritoneal cell infiltrate in EPS patients and relate the findings to clinical outcome.

Study Design, Setting, and Participants

We studied peritoneal membrane biopsies of 23 EPS patients and compared them to biopsies of 15 PD patients without EPS. The cellular infiltrate was characterized by immunohistochemistry to detect T cells(CD3-positive), CD4-positive (CD4+) and CD8-positive T cell subsets, B cells(CD20-positive), granulocytes(CD15-positive), macrophages(CD68-positive), M1(CD80-positive), and M2(CD163-positive) macrophages. Tissues were analysed using digital image analysis. Kaplan-Meier survival analysis was performed to investigate the survival in the different staining groups.

Results

The cellular infiltrate in EPS biopsies was dominated by mononuclear cells. For both CD3 and CD68, the median percentage of area stained was higher in biopsies of EPS as opposed to non-EPS patients (p<0.001). EPS biopsies showed a higher percentage of area stained for CD4 (1.29%(0.61-3.20)) compared to CD8 (0.71%(0.46-1.01), p = 0.04), while in the non-EPS group these cells were almost equally represented (respectively 0.28%(0.05-0.83) versus 0.22%(0.17-0.43), p = 0.97). The percentage of area stained for both CD80 and CD163 was higher in EPS than in non-EPS biopsies (p<0.001), with CD163+ cells being the most abundant phenotype. Virtually no CD20-positive and CD15-positive cells were present in biopsies of a subgroup of EPS patients. No relation was found between the composition of the mononuclear cell infiltrate and clinical outcome.

Conclusions

A characteristic mononuclear cell infiltrate consisting of CD4+ and CD163+ cells dominates the peritoneum of EPS patients. These findings suggest a role for both CD4+ T cells and M2 macrophages in the pathogenesis of EPS.