Farmer preferences for milpa diversity and genetically modified maize in Mexico: a latent class approach

Maize, the second most globally important staple crop after wheat, originated in Mexico, where it is typically grown as part of a set of associated crops and practices called the milpa system. This ancient mode of production is practiced today in ways that vary by cultural context and agro-environment. Milpas generate private economic value, in terms of food security, diet quality and livelihoods, for the twomillion farm households who manage them. Furthermore, milpas generate public economic value by conserving agrobiodiversity, especially that of maize landraces, which have the potential to contribute unique traits needed by plant breeders for future crop improvement. In this way, milpas contribute to global food security in maize. However, the sustainability of the milpa system has been threatened by offfarm employment opportunities, long-distance migration, the increasing commercialization and intensification of maize production. Most recently, the milpa system has been negatively impacted by the contamination of maize landraces by genetically modified (GM) maize, cultivation of which is currently prohibited in Mexico. Here, we employ a choice experiment to estimate Mexican farmers’ valuation of three components of agrobiodiversity (crop species richness, maize variety richness and maize landraces), and examine their interest in cultivating GM maize. Choice experiment data, household level social, economic and demographic data, community level economic development data, and information on milpa production characteristics, and farmers’ attitudes and perceptions with regards to GM food and crops were collected from 420 farm households across 17 communities in three states of Mexico. Using these data, we analyzed the heterogeneity of farmer preferences using a latent class model, which can be used to simultaneously identify sample segments having homogenous preferences for milpa attributes, as well as farmer characteristics affecting preferences. We further identified the characteristics of farmers who are most likely to continue growing maize landraces and managing milpa systems, as well as those least likely to accept GM maize. Specifically, we identified three distinct segments of farmers: (i) Landrace Conservationists derive the highest private economic value from continued management of landraces and the highest economic loss from the possible adoption of GM maize. These farmers are young, dislike GM foods and crops, and are mainly located at the Oaxaca site, where transgenic constructs have been found in maize landraces. (ii) Milpa Diversity Managers derive the highest economic value from managing all of the agrobiodiversity components of the milpa, and suffer fewer losses from management of GM maize. These are older farmers, who are curious and like to experiment with maize varieties. (iii) Marginalized Maize Producers derive little value from crop species and maize variety richness, receive minimal value from maize landraces, and also experience the smallest negative impact from the adoption of GM maize. These farmers are located in the most isolated communities, have the lowest level of productivity, and oversee the largest milpa areas. They are also the most tightly integrated into the maize output markets. These novel findings have implications for debates concerning the adoption of GM maize in Mexico and its associated costs and benefits, as well as for the design of targeted, cost-effective conservation programs on farms

De novo Transcriptome Assemblies of Rana (Lithobates) catesbeiana and Xenopus laevis Tadpole Livers for Comparative Genomics without Reference Genomes

In this work we studied the liver transcriptomes of two frog species, the American bullfrog (Rana (Lithobates) catesbeiana) and the African clawed frog (Xenopus laevis). We used high throughput RNA sequencing (RNA-seq) data to assemble and annotate these transcriptomes, and compared how their baseline expression profiles change when tadpoles of the two species are exposed to thyroid hormone. We generated more than 1.5 billion RNA-seq reads in total for the two species under two conditions as treatment/control pairs. We de novo assembled these reads using Trans-ABySS to reconstruct reference transcriptomes, obtaining over 350,000 and 130,000 putative transcripts for R. catesbeiana and X. laevis, respectively. Using available genomics resources for X. laevis, we annotated over 97% of our X. laevis transcriptome contigs, demonstrating the utility and efficacy of our methodology. Leveraging this validated analysis pipeline, we also annotated the assembled R. catesbeiana transcriptome. We used the expression profiles of the annotated genes of the two species to examine the similarities and differences between the tadpole liver transcriptomes. We also compared the gene ontology terms of expressed genes to measure how the animals react to a challenge by thyroid hormone. Our study reports three main conclusions. First, de novo assembly of RNA-seq data is a powerful method for annotating and establishing transcriptomes of non-model organisms. Second, the liver transcriptomes of the two frog species, R. catesbeiana and X. laevis, show many common features, and the distribution of their gene ontology profiles are statistically indistinguishable. Third, although they broadly respond the same way to the presence of thyroid hormone in their environment, their receptor/signal transduction pathways display marked differences

Linear to Circular Polarisation Conversion using Birefringent Properties of Aligned Crystals for Multi-GeV Photons

We present the first experimental results on the use of a thick aligned Si crystal acting as a quarter wave plate to induce a degree of circular polarisation in a high energy linearly polarised photon beam. The linearly polarised photon beam is produced from coherent bremsstrahlung radiation by 178 GeV unpolarised electrons incident on an aligned Si crystal, acting as a radiator. The linear polarisation of the photon beam is characterised by measuring the asymmetry in electron-positron pair production in a Ge crystal, for different crystal orientations. The Ge crystal therefore acts as an analyser. The birefringence phenomenon, which converts the linear polarisation to circular polarisation, is observed by letting the linearly polarised photons beam pass through a thick Si quarter wave plate crystal, and then measuring the asymmetry in electron-positron pair production again for a selection of relative angles between the crystallographic planes of the radiator, analyser and quarter wave plate. The systematics of the difference between the measured asymmetries with and without the quarter wave plate are predicted by theory to reveal an evolution in the Stokes parameters from which the appearance of a circularly polarised component in the photon beam can be demonstrated. The measured magnitude of the circularly polarised component was consistent with the theoretical predictions, and therefore is in indication of the existence of the birefringence effect.Comment: 12 pages, 12 figures, 1 table, REVTeX4 two column, Version for publicatio

Coherence lifetimes of excitations in an atomic condensate due to the thin spectrum

We study the quantum coherence properties of a finite sized atomic condensate using a toy-model and the thin spectrum model formalism. The decoherence time for a condensate in the ground state, nominally taken as a variational symmetry breaking state, is investigated for both zero and finite temperatures. We also consider the lifetimes for Bogoliubov quasi-particle excitations, and contrast them to the observability window determined by the ground state coherence time. The lifetimes are shown to exhibit a general characteristic dependence on the temperature, determined by the thin spectrum accompanying the spontaneous symmetry breaking ground state

Modes of the southern extension of the East Madagascar Current

Data sets from satellite observations and a nested high-resolution model are used to study a source region of the Agulhas Current. Altimeter-derived geostrophic surface currents are averaged over varying periods, providing evidence of the persistence of flow patterns in the extension of the southern branch of the East Madagascar Current (SEMC). South of Madagascar, the SEMC separates into one branch toward the Agulhas Current and into a second branch retroflecting and connecting to the Subtropical Indian Ocean Countercurrent (SICC). Good agreement is found between long-term mean patterns of observational and model dynamic heights. Two basic modes are identified in the SEMC extension, with anticyclonic motion favoring retroflection in the northern Mozambique Basin when the extension is in a southwestward direction and cyclonic motion occurring in the case of the SEMC flowing westward along the southern Madagascar slope. A cross-correlation sequence between model SEMC transports and the modal changes in the extension region displays a correlation at about 1-month lag which agrees with eddy propagation time from the SEMC to the outflow region. Mean model SEMC transports are determined using floats released at 21 degrees S, and the contribution of the SEMC to the SICC is obtained using floats injected at 55 degrees E with the model running backward. Almost half of the SEMC volume transport contributes to the Agulhas system, and about 40% of SICC water originates from the SEMC

Coherent bremsstrahlung, boherent pair production, birefringence and polarimetry in the 20-170 GeV energy range using aligned crystals

The processes of coherent bremsstrahlung (CB) and coherent pair production (CPP) based on aligned crystal targets have been studied in the energy range 20-170 GeV. The experimental arrangement allowed for measurements of single photon properties of these phenomena including their polarization dependences. This is significant as the theoretical description of CB and CPP is an area of active theoretical debate and development. With the theoretical approach used in this paper both the measured cross sections and polarization observables are predicted very well. This indicates a proper understanding of CB and CPP up to energies of 170 GeV. Birefringence in CPP on aligned crystals is applied to determine the polarization parameters in our measurements. New technologies for high energy photon beam optics including phase plates and polarimeters for linear and circular polarization are demonstrated in this experiment. Coherent bremsstrahlung for the strings-on-strings (SOS) orientation yields a larger enhancement for hard photons than CB for the channeling orientations of the crystal. Our measurements and our calculations indicate low photon polarizations for the high energy SOS photons.Comment: 23 pages, 27 figures, 2 tables, REVTeX4 two column

Coherent Pair Production by Photons in the 20-170 GeV Energy Range Incident on Crystals and Birefringence

The cross section for coherent pair production by linearly polarised photons in the 20-170 GeV energy range was measured for photon aligned incidence on ultra-high quality diamond and germanium crystals. The theoretical description of coherent bremsstrahlung and coherent pair production phenomena is an area of active theoretical debate and development. However, under our experimental conditions, the theory predicted the combined cross section and polarisation experimental observables very well indeed. In macroscopic terms, our experiment measured a birefringence effect in pair production in a crystal. This study of this effect also constituted a measurement of the energy dependent linear polarisation of photons produced by coherent bremsstrahlung in aligned crystals. New technologies for manipulating high energy photon beams can be realised based on an improved understanding of QED phenomena at these energies. In particular, this experiment demonstrates an efficient new polarimetry technique. The pair production measurements were done using two independent methods simultaneously. The more complex method using a magnet spectrometer showed that the simpler method using a multiplicity detector was also viable.Comment: 10 pages, 13 figures, 1 table, REVTeX4 two column, Version for publicatio

Results on the Coherent Interaction of High Energy Electrons and Photons in Oriented Single Crystals

The CERN-NA-59 experiment examined a wide range of electromagnetic processes for multi-GeV electrons and photons interacting with oriented single crystals. The various types of crystals and their orientations were used for producing photon beams and for converting and measuring their polarisation. The radiation emitted by 178 GeV unpolarised electrons incident on a 1.5 cm thick Si crystal oriented in the Coherent Bremsstrahlung (CB) and the String-of-Strings (SOS) modes was used to obtain multi-GeV linearly polarised photon beams. A new crystal polarimetry technique was established for measuring the linear polarisation of the photon beam. The polarimeter is based on the dependence of the Coherent Pair Production (CPP) cross section in oriented single crystals on the direction of the photon polarisation with respect to the crystal plane. Both a 1 mm thick single crystal of Germanium and a 4 mm thick multi-tile set of synthetic Diamond crystals were used as analyzers of the linear polarisation. A birefringence phenomenon, the conversion of the linear polarisation of the photon beam into circular polarisation, was observed. This was achieved by letting the linearly polarised photon beam pass through a 10 cm thick Silicon single crystal that acted as a "quarter wave plate" (QWP) as suggested by N. Cabibbo et al.Comment: Presented at International workshop "Relativistic Channeling and Related Coherent Phenomena", Frascati (Rome) 23-26 March 200

Building the case for biofortification: measuring and maximizing impact in the HarvestPlus program

This paper describes the research and related activities that HarvestPlus undertook at each stage of the research process—discovery, proof of concept, delivery at scale—to establish and continuously strengthen the evidence base for program impact. Structured around the program’s theory of change, the evidence base includes estimates of the magnitude of potential impacts on key development outcomes as well as support for key assumptions that underlie outcomes along the impact pathway from release of biofortified varieties through adoption by farmers, consumption by consumers, and ultimately, to improved nutritional status. The HarvestPlus experience has important lessons for research for development (R4D) programs, many of which struggle to demonstrate progress towards outcomes and impacts throughout the research process.Keywords: Research for Development (R4D), Impact Assessment, Theory of Change, Micronutrient Deficiencies, Crop Varietal Improvemen