Ken E. Giller

Toxicity of heavy metals to microorganisms and microbial processes in agricultural soils: A review

Abstract An increasing body of evidence suggests that microorganisms are far more sensitive to heavy metal stress than soil animals or plants growing on the same soils. Not surprisingly, most studies of heavy metal toxicity to soil microorganisms have concentrated on effects where loss of microbial function can be observed and yet such studies may mask underlying effects on biodiversity within microbial populations and communities. The types of evidence which are available for determining critical metal concentrations or loadings for microbial processes and populations in agricultural soil are assessed, particularly in relation to the agricultural use of sewage sludge. Much of the confusion in deriving critical toxic concentrations of heavy metals in soils arises from comparison of experimental results based on short-term laboratory ecotoxicological studies with results from monitoring of long-term exposures of microbial populations to heavy metals in field experiments. The laboratory studies in effect measure responses to immediate, acute toxicity (disturbance) whereas the monitoring of field experiments measures responses to long-term chronic toxicity (stress) which accumulates gradually. Laboratory ecotoxicological studies are the most easily conducted and by far the most numerous, but are difficult to extrapolate meaningfully to toxic effects likely to occur in the field. Using evidence primarily derived from long-term field experiments, a hypothesis is formulated to explain how microorganisms may become affected by gradually increasing soil metal concentrations and this is discussed in relation to defining “safe” or “critical” soil metal loadings for soil protection.

Driven by nature : plant litter quality and decomposition

Pathways and processes in decomposition foraging, feeding and feedback manipulation of plant litter quality synchrony and soil organic matter - theory into practice? building soil organic matter modelling - providing the framework.

Nitrogen fixation in tropical cropping systems

Tropical environments - climates, soils and cropping systems nitrogen fixing organisms in the tropics nitrogen fixation process and its role in the tropics tropical crops and cropping systems - cereal crops and grasses, wetland rice, grain legumes, legumes as animal fodder, plantation crops, agroforestry optimizing contributions from nitrogen fixation - mixed farming systems, environmental constraints, past approaches, realizing potential benefits.

Organic inputs for soil fertility management in tropical agroecosystems: application of an organic resource database

Organic resources play a critical role in both short-term nutrient availability and longer-term maintenance of soil organic matter in most smaller holder farming systems in the tropics. Despite this importance, there is little predictive understanding for the management of organic inputs in tropical agroecosystems. In this paper, an organic resource database (ORD) is introduced that contains information on organic resource quality parameters including macronutrient, lignin and polyphenol contents of fresh leaves, litter, stems and/or roots from almost 300 species found in tropical agroecosystems. Data on the soil and climate from where the material was collected are also included, as are decomposition and nutrient release rates of many of the organic inputs. Examples of uses of ORD are provided in the paper: (1) nutrient contents (including median values and ranges) and other resource quality parameters of farmyard manure and crop residues are compared to that of alternative nutrient sources such as different plant parts and plant types; (2) nutrient stocks found in farm boundary hedges are estimated and evaluated as a source of nutrients for soil fertility management; (3) hypotheses regarding the indices and critical values of N, lignin, and polyphenol contents for predicting N release rates are tested; (4) organic materials for soil fertility management experiments are selected. This database, when coupled with models and decision support tools, will help advance organic matter management for soil fertility improvement from an empirical to a predictive practice.

Agricultural intensification, soil biodiversity and agroecosystem function

Abstract Soil is the habitat of plant roots and of a diverse array of organisms—bacteria, fungi, protozoa and invertebrate animals —which contribute to the maintenance and productivity of agroecosystems. As intensification occurs, the regulation of functions through soil biodiversity is progressively replaced by regulation through chemical and mechanical inputs. However, the causal relationships between (l) composition, diversity and abundance of soil organisms and (2) sustained soil fertility are unclear. Furthermore, in tropical agricultural systems undergoing intensification, large numbers of farmers have limited access to inputs, and therefore the maintenance and enhancement of soil biodiversity may be particularly relevant to such farmers. In this paper we propose a number of hypotheses which could be tested to explore the relationships between agricultural intensification, biodiversity in tropical soils and ecosystem functions. We also provide a conceptual framework within which such hypotheses can be tested.

Long-term effects of metals in sewage sludge on soils, microorganisms and plants

SummaryThis paper reviews the evidence for impacts of metals on the growth of selected plants and on the effects of metals on soil microbial activity and soil fertility in the long-term. Less is known about adverse long-term effects of metals on soil microorganisms than on crop yields and metal uptake. This is not surprising, since the effects of metals added to soils in sewage sludge are difficult to assess, and few long-term experiments exist. Controlled field experiments with sewage sludges exist in the UK, Sweden, Germany and the USA and the data presented here are from these long-term field experiments only. Microbial activity and populations of cyanobacteria,Rhizobium leguminosarum bv.trifolii, mycorrhizae and the total microbial biomass have been adversely affected by metal concentrations which, in some cases, are below the European Communitys maximum allowable concentration limits for metals in sludge-treated soils. For example, N2-fixation by free living heterotrophic bacteria was found to be inhibited at soil metal concentrations of (mg kg−1): 127 Zn, 37 Cu, 21 Ni, 3.4 Cd, 52 Cr and 71 Pb. N2-fixation by free-living cyanobacteria was reduced by 50% at metal concentrations of (mg kg−1): 114 Zn, 33 Cu, 17 Ni, 2.9 Cd, 80 Cr and 40 Pb.Rhizobium leguminosarum bv.trifolii numbers decreased by several orders of magnitude at soil metal concentrations of (mg kg−1): 130–200 Zn, 27–48 Cu, 11–15 Ni, and 0.8–1.0 Cd. Soil texture and pH were found to influence the concentrations at which toxicity occurred to both microorganisms and plants. Higher pH, and increased contents of clay and organic carbon reduced metal toxicity considerably. The evidence suggests that adverse effects on soil microbial parameters were generally found at surpringly modest concentrations of metals in soils. It is concluded that prevention of adverse effects on soil microbial processes and ultimately soil fertility, should be a factor which influences soil protection legislation.

Future benefits from biological nitrogen fixation: An ecological approach to agriculture

Strategies for the enhancement and exploitation of biological nitrogen fixation are assessed with attention to the likely timescales for realization of benefits in agriculture. Benefits arising from breeding of legumes for N2-fixation and rhizobial strain selection have less potential to increase inputs of fixed N than alleviation of environmental stresses or changes in farming systems to include more legumes. Genetic engineering may result in substantial enhancement of N2-fixation, particularly if the ability to fix N2 is transferred to other crops but these are long-term goals. Immediate dramatic enhancements in inputs from N2-fixation are possible simply by implementation of existing technical knowledge. Apart from the unfortunate political and economic barriers to the use of agricultural inputs, better communication between researchers and farmers is required to ensure proper focus of research and development of appropriate technologies. Legumes must be considered within the context of the farming systems within which they are grown and not in isolation. Proper integration of legumes requires a good understanding of the role of the legume within the system and a better understanding of the relative contributions of N sources and of the fates of fixed N.

ß-Glucuronidase (GUS) transposons for ecological and genetic studies of rhizobia and other Gram-negative bacteria.

Summary: A series of transposons are described which contain the gusA gene, encoding β-glucuronidase (GUS), expressed from a variety of promoters, both regulated and constitutive. The regulated promoters include the tac promoter which can be induced by IPTG, and nifH promoters which are symbiotically activated in legume nodules. One transposon contains gusA with a strong Shine-Dalgarno translation initiation context, but no promoter, and thus acts as a promoter-probe transposon. In addition, a gus operon deletion strain of Escherichia coli, and a transposon designed for use in chromosomal mapping using PFGE, are described. The GUS transposons are constructed in a mini-Tn5 system which can be transferred to Gram-negative bacteria by conjugation, and will form stable genomic insertions. Due to the absence of GUS activity in plants and many bacteria of economic importance, these transposons constitute powerful new tools for studying the ecology and population biology of bacteria in the environment and in association with plants, as well as for studies of the fundamental molecular basis of such interactions. The variety of assays available for GUS enable both quantitative assays and spatial localization of marked bacteria to be carried out.

Integrated Soil Fertility Management: Operational Definition and Consequences for Implementation and Dissemination

Traditional farming systems in Sub-Saharan Africa depend primarily on mining soil nutrients. The African green revolution aims to intensify agriculture through the dissemination of integrated soil fertility management (ISFM). This paper develops a robust and operational definition of ISFM based on detailed knowledge of African farming systems and their inherent variability and of the optimal use of nutrients. The authors define ISFM as a set of soil fertility management practices that necessarily include the use of fertilizer, organic inputs and improved germplasm, combined with the knowledge on how to adapt these practices to local conditions, aimed at maximizing agronomic use efficiency of the applied nutrients and improving crop productivity. All inputs need to be managed in accordance with sound agronomic principles. The integration of ISFM practices into farming systems is illustrated with the dual-purpose grain legume–maize rotations in the savannas and fertilizer micro-dosing in the Sahel. Finally, the dissemination of ISFM practices is discussed.

Residual soil phosphorus as the missing piece in the global phosphorus crisis puzzle

Phosphorus (P) is a finite and dwindling resource. Debate focuses on current production and use of phosphate rock rather than on the amounts of P required in the future to feed the world. We applied a two-pool soil P model to reproduce historical continental crop P uptake as a function of P inputs from fertilizer and manure and to estimate P requirements for crop production in 2050. The key feature is the consideration of the role of residual soil P in crop production. Model simulations closely fit historical P uptake for all continents. Cumulative inputs of P fertilizer and manure for the period 1965–2007 in Europe (1,115 kg⋅ha−1 of cropland) grossly exceeded the cumulative P uptake by crops (360 kg⋅ha−1). Since the 1980s in much of Europe, P application rates have been reduced, and uptake continues to increase due to the supply of plant-available P from residual soil P pool. We estimate that between 2008 and 2050 a global cumulative P application of 700–790 kg⋅ha−1 of cropland (in total 1,070–1,200 teragrams P) is required to achieve crop production according to the various Millennium Ecosystem Assessment scenarios [Alcamo J, Van Vuuren D, Cramer W (2006) Ecosystems and Human Well-Being: Scenarios, Vol 2, pp 279–354]. We estimate that average global P fertilizer use must change from the current 17.8 to 16.8–20.8 teragrams per year in 2050, which is up to 50% less than other estimates in the literature that ignore the role of residual soil P.