Trade-offs between biomass use and soil cover. The case of rice-based cropping systems in the lake Alaotra region of Madagascar

Farmers in the Lake Alaotra region of Madagascar are currently evaluating a range of conservation agriculture (CA) cropping systems. Most of the expected agroecological functions of CA (weed control, erosion control and water retention) are related to the degree of soil cover. Under farmers’ conditions, the grain and biomass productivity of these systems is highly variable and the biomass is used for several purposes. In this study, we measured biomass production of cover crops and crops in farmers’ fields. Further, we derived relationships to predict the soil cover that can be generated for a particular quantity of mulch. We used these relationships to explore the variability of soil cover that can be generated in farmers’ fields, and to estimate howmuch of the biomass can be removed for use as livestock feed, while retaining sufficient soil cover. Three different kinds of cropping systems were investigated in 91 farmers’ fields. The first two cropping sequences were on the hillsides: (i) maize + pulse (Vigna unguiculata or Dolichos lablab) in year 1, followed by upland rice in year 2; (ii) the second crop sequence included several years of Stylosanthes guianensis followed by upland rice; (iii) the third crop sequence was in lowland paddy fields: Vicia villosa or D. lablab, which was followed by rice within the same year and repeated every year. The biomass available prior to rice sowing varied from 3.6 t ha-1 with S. guianensis to 7.3 t ha-1 with V. villosa. The relationship between the mulch quantity (M) and soil cover (C) was measured using digital imaging and was well described by the following equation: C = 1 - exp(-Am × M), where Am is an area-to-mass ratio with R2 > 0.99 in all cases. The calculated average soil cover varied from 56 to 97% for maize + V. unguiculata and V. villosa, respectively. In order to maintain 90% soil cover at rice sowing, the average amount of biomass of V. villosa that could be removed was at least 3 t ha-1 for three quarters of the fields. This quantity was less for other annual or biennial cropping systems. On average the V. villosa aboveground biomass contained 236 kg N ha-1. The study showed that for the conditions of farmers of Malagasy, the production and conservation of biomass is not always sufficient to fulfil all the above-cited agroecological functions of mulch. Inventory of the soil cover capacity for different types of mulch may help farmers to decide how much biomass they can remove from the fiel

Data, Metrics and Monitoring in CGIAR - a strategic study

This document contains the final report of the Panel together with the ISPC commentary. The Panel Report presents an analysis of the current activities within CGIAR concerning data, metrics and indicators, and offers a series of recommendations to address the key issues and challenges identified

Non-equilibrium hydrogen exchange for determination of H-bond strength and water accessibility in solid proteins.

We demonstrate measurement of non-equilibrium backbone amide hydrogen-deuterium exchange rates (HDX) for solid proteins. The target of this study are the slowly exchanging residues in solid samples, which are associated with stable secondary-structural elements of proteins. These hydrogen exchange processes escape methods measuring equilibrium exchange rates of faster processes. The method was applied to a micro-crystalline preparation of the SH3 domain of chicken α-spectrin. Therefore, from a 100% back-exchanged micro-crystalline protein preparation, the supernatant buffer was exchanged by a partially deuterated buffer to reach a final protonation level of approximately 20% before packing the sample in a 1.3 mm rotor. Tracking of the HN peak intensities for 2 weeks reports on site-specific hydrogen bond strength and also likely reflects water accessibility in a qualitative manner. H/D exchange can be directly determined for hydrogen-bonded amides using 1H detection under fast magic angle spinning. This approach complements existing methods and provides the means to elucidate interesting site-specific characteristics for protein functionality in the solid state

The role of legumes in the sustainable intensification of African smallholder agriculture: Lessons learnt and challenges for the future.

Grain legumes play a key role in smallholder farming systems in sub-Saharan Africa (SSA), in relation to food and nutrition security and income generation. Moreover, because of their N2-fixation capacity, such legumes can also have a positive influence on soil fertility. Notwithstanding many decades of research on the agronomy of grain legumes, their N2-fixation capacity, and their contribution to overall system productivity, several issues remain to be resolved to realize fully the benefits of grain legumes. In this paper we highlight major lessons learnt and expose key knowledge gaps in relation to grain legumes and their contributions to farming system productivity. The symbiosis between legumes and rhizobia forms the basis for its benefits and biological N2-fixation (BNF) relies as much on the legume genotype as on the rhizobial strains. As such, breeding grain legumes for BNF deserves considerably more attention. Even promiscuous varieties usually respond to inoculation, and as African soils contain a huge pool of unexploited biodiversity with potential to contribute elite rhizobial strains, strain selection should go hand-in-hand with legume breeding for N2-fixation. Although inoculated strains can outcompete indigenous strains, our understanding of what constitutes a good competitor is rudimentary, as well as which factors affect the persistence of inoculated rhizobia, which in its turn determines whether a farmer needs to re-inoculate each and every season. Although it is commonly assumed that indigenous rhizobia are better adapted to local conditions than elite strains used in inoculants, there is little evidence that this is the case. The problems of delivering inoculants to smallholders through poorly-developed supply chains in Africa necessitates inoculants based on sterile carriers with long shelf life. Other factors critical for a well-functioning symbiosis are also central to the overall productivity of grain legumes. Good agronomic practices, including the use of phosphorus (P)-containing fertilizer, improve legume yields though responses to inputs are usually very variable. In some situations, a considerable proportion of soils show no response of legumes to applied inputs, often referred to as non-responsive soils. Understanding the causes underlying this phenomenon is limited and hinders the uptake of legume agronomy practices. Grain legumes also contribute to the productivity of farming systems, although such effects are commonly greater in rotational than in intercropping systems. While most cropping systems allow for the integration of legumes, intercropped legumes provide only marginal benefits to associated crops. Important rotational benefits have been shown for most grain legumes though those with the highest N accumulation and lowest N harvest index appear to demonstrate higher residual benefits. N balance estimates often results in contradictory observations, mostly caused by the lack of understanding of belowground contributions of legumes to the N balance. Lastly, the ultimate condition for increased uptake of grain legumes by smallholder farmers lies in the understanding of how legume technologies and management practices can be tailored to the enormous diversity of agroecologies, farming systems, and smallholder farms in SSA. In conclusion, while research on grain legumes has revealed a number of important insights that will guide realization of the full potential of such legumes to the sustainable intensification of smallholder farming systems in SSA, many research challenges remain to be addressed to realize the full potential of BNF in these systems.</p

Structural characterization of supramolecular assemblies by 13C spin dilution and 3D solid-state NMR.

13C spin diluted protein samples can be produced using [1-13C] and [2-13C]-glucose (Glc) carbon sources in the bacterial growth medium. The 13C spin dilution results in favorable 13C spectral resolution and polarization transfer behavior. We recently reported the combined use of [1-13C]- and [2-13C]-Glc labeling to facilitate the structural analysis of insoluble and non-crystalline biological systems by solid-state NMR (ssNMR), including sequential assignment, detection of long-range contacts and structure determination of macromolecular assemblies. In solution NMR the beneficial properties of sparsely labeled samples using [2-13C]-glycerol (13C labeled Cα sites on a 12C diluted background) have recently been exploited to provide a bi-directional assignment method (Takeuchi et al. in J Biomol NMR 49(1):17–26, 2011 ). Inspired by this approach and our own recent results using [2-13C]-Glc as carbon sources for the simplification of ssNMR spectra, we present a strategy for a bi-directional sequential assignment of solid-state NMR resonances and additionally the detection of long-range contacts using the combination of 13C spin dilution and 3D NMR spectroscopy. We illustrate our results with the sequential assignment and the collection of distance restraints on an insoluble and non-crystalline supramolecular assembly, the Salmonella typhimurium type III secretion system needle

Projective representation of k-Galilei group

The projective representations of k-Galilei group G_k are found by contracting the relevant representations of k-Poincare group. The projective multiplier is found. It is shown that it is not possible to replace the projective representations of G_k by vector representations of some its extension.Comment: 15 pages Latex fil

Structure and gating behavior of the human integral membrane protein VDAC1 in a lipid bilayer

The voltage-dependent anion channel (VDAC), the most abundant protein in the outer mitochondrial membrane, is responsible for the transport of all ions and metabolites into and out of mitochondria. Larger than any of the beta-barrel structures determined to date by magic-angle spinning (MAS) NMR, but smaller than the size limit of cryo-electron microscopy (cryo-EM), VDAC1's 31 kDa size has long been a bottleneck in determining its structure in a near-native lipid bilayer environment. Using a single two-dimensional (2D) crystalline sample of human VDAC1 in lipids, we applied proton-detected fast magic-angle spinning NMR spectroscopy to determine the arrangement of beta strands. Combining these data with long-range restraints from a spin-labeled sample, chemical shift-based secondary structure prediction, and previous MAS NMR and atomic force microscopy (AFM) data, we determined the channel's structure at a 2.2 angstrom root-mean-square deviation (RMSD). The structure, a 19-stranded beta-barrel, with an N-terminal alpha-helix in the pore is in agreement with previous data in detergent, which was questioned due to the potential for the detergent to perturb the protein's functional structure. Using a quintuple mutant implementing the channel's closed state, we found that dynamics are a key element in the protein's gating behavior, as channel closure leads to the destabilization of not only the C-terminal barrel residues but also the alpha 2 helix. We showed that cholesterol, previously shown to reduce the frequency of channel closure, stabilizes the barrel relative to the N-terminal helix. Furthermore, we observed channel closure through steric blockage by a drug shown to selectively bind to the channel, the Bcl2-antisense oligonucleotide G3139