Modelling of correlated soil animals count data

Ecological studies naturally result in correlated data. Ignoring these correlations can result in biased estimation of ecological effects jeopardizing the integrity of the scientific inference. Mixed effects models are likely to appeal to ecologists for handling correlated data (e.g. Sileshi, 2008), however careful consideration must be given to the interpretation of the parameter estimates from generalized linear mixed effects models with non-identity link functions. The objective of this study was to compare the generalized estimating equations (GEE) under different correlation structures and suggest appropriate models to describe the relationship between soil animal counts and covariates. The GEE with independence, exchangeable and AR1 correlation structures were compared using count data set of ants from soils under the agroforestry systems in eastern Zambia. The GEE model with AR1 correlation structure gave a better description of the data than did the independence and exchangeable correlation structures.http://www.sastat.org.za/journal.htmam201

Soil structural degradation and nutrient limitations across land use categories and climatic zones in Southern Africa

Although soil degradation is a major threat to food security and carbon sequestration, our knowledge of the spatial extent of the problem and its drivers is very limited in Southern Africa. Therefore, this study aimed to quantify the risk of soil structural degradation and determine the variation in soil stoichiometry and nutrient limitations with land use categories (LUCs) and climatic zones. Using data on soil clay, silt, organic carbon (SOC), total nitrogen (N), available phosphorus (P), and sulfur (S) concentrations collected from 4,468 plots on 29 sites across Angola, Botswana, Malawi, Mozambique, Zambia and Zimbabwe, this study presents novel insights into the variations in soil structural degradation and nutrient limitations. The analysis revealed strikingly consistent stoichiometric coupling of total N, P, and S concentrations with SOC across LUCs. The only exception was on crop land where available P was decoupled from SOC. Across sample plots, the probability (φ) of severe soil structural degradation was 0.52. The probability of SOC concentrations falling below the critical value of 1.5% was 0.49. The probabilities of soil total N, available P, and S concentrations falling below their critical values were 0.95, 0.70, and 0.83, respectively. N limitation occurred with greater probability in woodland (φ = .99) and forestland (φ = .97) than in cropland (φ = .92) and grassland (φ = .90) soils. It is concluded that soil structural degradation, low SOC concentrations, and N and S limitations are widespread across Southern Africa. Therefore, significant changes in policies and practices in land management are needed to reverse the rate of soil structural degradation and increase soil carbon storage

Seed germination and in vitro regeneration of the African medicinal and pesticidal plant, Bobgunnia madagascariensis

Propagation of the medicinal and pesticidal tree, Bobgunnia madagascarensis is difficult due to poor and erratic germination of its seeds and slow growth of its seedlings. This study involved two separate experiments. The first evaluated the effect of pre-sowing treatments and growing medium on ex vitro seed germination and early seedling development. The second experiment involved in vitro germination, shoot initiation and rooting of shoots. Pre-sowing seed treatments involved soaking seeds in cold and hot water for 12 and 24 h and soaking in different concentrations (0, 100, 200, 400 and 800 mg/l) of gibberellic acid for 24 h. Soaking of seeds in cold or hot water for up to 24 h did not achieve more than 45% germination, while seeds treated with gibberellic acid achieved 76%) when seeds were sown in a growing medium without compost compared with a medium with compost (<43%). All shoot-tips isolated from the in vitro germinated seedlings on B5 media without plant growth regulators continued to grow as a single shoot, while shoot-tips cultured on B5 supplemented with 0.1 mg/l of naphthaleneacetic acid (NAA) and thidiazuron (TDZ) produced two shoots each after four weeks. It was concluded that B. madagascariensis seeds had very low ex vitro germination percentages. Although, in vitro cultures improved seed germination, axillary shoot multiplication and rooting were not satisfactory. Therefore, further studies are needed to develop an optimal in vitro multiplication protocol for B. madagascariensis

Aboveground and belowground tree biomass and carbon stocks in the miombo woodlands of the Copperbelt in Zambia

Please read abstract in the article.The National Science and Technology Council (NSTC), African Forest Forum (AFF) and the University of Pretoria.https://www.tandfonline.com/loi/tcmt202022-06-14hj2022Plant Production and Soil Scienc

Spatial Variation in Tree Density and Estimated Aboveground Carbon Stocks in Southern Africa

Variability in woody plant species, vegetation assemblages and anthropogenic activities derails the efforts to have common approaches for estimating biomass and carbon stocks in Africa. In order to suggest management options, it is important to understand the vegetation dynamics and the major drivers governing the observed conditions. This study uses data from 29 sentinel landscapes (4640 plots) across the southern Africa. We used T-Square distance method to sample trees. Allometric models were used to estimate aboveground tree biomass from which aboveground biomass carbon stock (AGBCS) was derived for each site. Results show average tree density of 502 trees·ha−1 with semi-arid areas having the highest (682 trees·ha−1) and arid regions the lowest (393 trees·ha−1). The overall AGBCS was 56.4 Mg·ha−1. However, significant site to site variability existed across the region. Over 60 fold differences were noted between the lowest AGBCS (2.2 Mg·ha−1) in the Musungwa plains of Zambia and the highest (138.1 Mg·ha−1) in the scrublands of Kenilworth in Zimbabwe. Semi-arid and humid sites had higher carbon stocks than sites in sub-humid and arid regions. Anthropogenic activities also influenced the observed carbon stocks. Repeated measurements would reveal future trends in tree cover and carbon stocks across different systems

Cassava response to the integrated use of manure and NPK fertilizer in Zambia

Open Access JournalCassava is Africa's second most important food source in terms of calories consumed per capita. However, farmers use little or no fertilizer on cassava and scant information is available regarding the cassava yield response to mineral and organic fertilizer inputs in Zambia. This study was undertaken to determine the response of cassava to the integrated use of organic and inorganic nutrient sources in two contrasting agroecological zones of Zambia; Mansa located in Zone III and Kabangwe located in Zone II. The treatments consisted of a factorial combination of four NPK rates (unfertilized control, 50N-11P-41.5K, 100N-22P-83K, and 150N-33P-124.5K kg/ha) with four rates of chicken manure (0, 1.4, 2.8, and 4.2 t/ha). The treatments were laid out in a randomized complete block design with three replications. Cassava height, stem girth, canopy diameter, leaf area index, and chlorophyll index were monitored over time and roots were harvested at 12 months after planting (MAP). Growth parameters and yield varied significantly (p < 0.01) both with NPK, manure application, and their interaction effects at 12 MAP. The combined application of 4.2 t/ha of chicken manure and 100N-22P-83 K kg/ha of mineral fertilizer resulted in the highest yields of 35.2 t/ha at Kabangwe. But, the highest average yield of 34.4 t/ha was recorded with the application of 2.8 t/ha manure and 100N-22P-83 K kg/ha mineral fertilizer at Mansa. This increased treatment yield by 24 and 29% over the sole NPK fertilizer application at Mansa and Kabangwe sites, respectively. Harvest index (HI) was higher when 2.8 t/ha chicken manure was applied in combination with 50N-11P-41.5K kg/ha at Kabangwe. But, the highest HI at Mansa site was achieved with the combination of 2.8 t/ha manure and 100N-22P-83 K kg/ha. This combination also resulted in the highest agronomic efficiency of N, P and K at both sites. It is concluded that cassava productivity and nutrient use efficiency can be improved through the integrated use of NPK and manure in Zambia

Farmers’ ethno-ecological knowledge of vegetable pests and pesticidal plant use in Malawi and Zambia

While pests are a major constraint in vegetable production in many parts of Southern Africa, little is known about farmers’ knowledge and management practices. A survey was conducted among 168 and 91 vegetable farmers in Northern Malawi and Eastern Zambia, respectively, to evaluate their knowledge, attitudes and traditional management practices in tomato and crucifers (brassica). All respondents in Malawi and Zambia reported pest damage on tomato and crucifers, and 75% had used synthetic pesticides. The use of pesticidal plants, cultural practices and resistant varieties constituted a smaller portion of the pest control options in both crucifers and tomato. Over 70% of the respondents were aware of pesticidal plants, and more female (75%) than male (55%) respondents reported using them. While over 20 different plant species were mentioned by respondents, Tephrosia vogelii accounted for 61 and 53% of the pesticidal species known to respondents in Malawi and Zambia, respectively. Farmers with small landholdings were more inclined to use pesticidal plants than those with medium and large landholding highlighting the importance of this management alternative for poor farmers. Most respondents were willing to cultivate pesticidal plants, which indicate that farmers understand the potential value of these plants in pest management

Accurate crop yield predictions from modelling tree-crop interactions in gliricidia-maize agroforestry

Agroforestry systems, containing mixtures of trees and crops, are often promoted because the net effect of interactions between woody and herbaceous components is thought to be positive if evaluated over the long term. From a modelling perspective, agroforestry has received much less attention than monocultures. However, for the potential of agroforestry to impact food security in Africa to be fully evaluated, models are required that accurately predict crop yields in the presence of trees. The positive effects of the fertiliser tree gliricidia (Gliricidia sepium) on maize (Zea mays) are well documented and use of this tree-crop combination to increase crop production is expanding in several African countries. Simulation of gliricidia-maize interactions can complement field trials by predicting crop response across a broader range of contexts than can be achieved by experimentation alone. We tested a model developed within the APSIM framework. APSIM models are widely used for one dimensional (1D), process-based simulation of crops such as maize and wheat in monoculture. The Next Generation version of APSIM was used here to test a 2D agroforestry model where maize growth and yield varied spatially in response to interactions with gliricidia. The simulations were done using data for gliricidia-maize interactions over two years (short-term) in Kenya and 11 years (long-term) in Malawi, with differing proportions of trees and crops and contrasting management. Predictions were compared with observations for maize grain yield, and soil water content. Simulations in Kenya were in agreement with observed yields reflecting lower observed maize germination in rows close to gliricidia. Soil water content was also adequately simulated, except for a tendency for slower simulated drying of the soil profile each season. Simulated maize yields in Malawi were also in agreement with observations. Trends in soil carbon over a decade were similar to those measured, but could not be statistically evaluated. These results show that the agroforestry model in APSIM Next Generation adequately represented tree-crop interactions in these two contrasting agro-ecological conditions and agroforestry practices. Further testing of the model is warranted to explore tree-crop interactions under a wider range of environmental conditions

Agroforestry boosts soil-mediated ecosystem services in the humid and sub-humid tropics: a meta-analysis

Agroforestry has been increasingly recognized as a key example of agroecological praxis contributing to the sustainable intensification of food production while providing a number of additional benefits to society. However, a quantitative synthesis of the impact of agroforestry on soil health and associated ecosystem services in the humid and sub-humid tropics is still lacking. The objective of this study was to quantify the contribution of agroforestry practices to soil-mediated ecosystem services, specifically, regulation of soil erosion, storage of soil organic carbon (SOC) and nitrogen (N), availability of soil N and phosphorus (P) to crops, and alleviation of soil acidity across the humid and sub-humid tropics. The analysis demonstrated that agroforestry can reduce soil erosion rates by 50 % compared to crop monocultures. This finding is supported by higher infiltration rates, lower runoff, higher proportion of soil macroggregates, and greater stability of soil structure under agroforestry. SOC increased by 21 %, N storage increased by 13 %, available N by 46 % and available P by 11 % while soil pH increased by 2% under agroforestry compared to crop monocultures. We conclude that agroforestry can make significant contributions to provision of soil-mediated ecosystem services in the humid and sub-humid tropics

Agronomic biofortification: Uncovering the evidence. A seminar organized by the Excellence in Agronomy Agronomic Initiative

Human Zn and Fe deficiencies can be reduced through agronomic biofortification, but information on factors influencing maize grain-Zn and -Fe levels remains scant